ID:

dmo_1006

 Coordinate:

scaffold_6496:6546651-6546801 -

 Confidence:

Candidate

 Type:

Unknown

 [View on UCSC Genome Browser {Cornell Mirror}]
Legend: mature star mismatch in alignment mismatch in read

Predicted structure

-12.2 -12.1 -12.1

Flybase annnotation

CDS [Dmoj\GI19369-cds]; exon [dmoj_GLEANR_4305:1]; intron [Dmoj\GI19369-in]

No Repeatable elements found

Sense Strand Reads

##################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
CTTGGCCCTAGCCACATTTGCCATTGATTCAAATTATGAATATCGCGATTGTAAGTAACAAATGTATAAGAATATGTTTACATACATAATGCGGATTGGTGCTAATTGTTGAACATTAAAATGCAGATGCCGCCTTTCTTAATATTTTGCGTTGCATGCAGTTGATGGCAACCATTTGGCTGCTCTTTGGCCTGCTGAAGAAGGATGCGATGCATAAGGAAAAATTTATGCTCTTTTGGCTTATTGTGTCA
*************************************************************************************************************************************************.........((.((((((((.((((.((....)).))))..)))).))))))..**************************************************** 		Read size # Mismatch Hit Count Total Norm Total M046
female body
 V110
male body		 V056
head
..................................................................................................................................................................................................CTGAAGATGGATACGATGCTT.................................... 21 3 4 6.50 26 9 14 3
................................................................................................................................................................................................TACTGAAGATGGATACGATGC...................................... 21 3 1 6.00 6 6 0 0
.................................................................................................................................................TTTGCGTTGCATGCAGTTGATGGC.................................................................................. 24 0 1 3.00 3 1 2 0
.............................................................................................................................................ATATTTTGCGTTGCATGCAGTTGAT..................................................................................... 25 0 1 2.00 2 1 1 0
...............................................................................................................................................ATTTTGCGTTGCATGCAGTTGATGGC.................................................................................. 26 0 1 2.00 2 2 0 0
.....................................................................................................................................................................................GCTCTTTGGCCTGCTGAAGAAGGATGC........................................... 27 0 1 2.00 2 2 0 0
.................................................................................................................................................................................................ACTGAAGATGGATACGATGC...................................... 20 3 14 1.29 18 17 1 0
...........................................................................................................................................................ATGCAGTTGATGGCAACCATTTGGCT...................................................................... 26 0 1 1.00 1 1 0 0
............................................................................................................................................................................CATTTGGCTGCTCTTTGG............................................................. 18 0 1 1.00 1 1 0 0
.........................................................................................................................................................................AACCATTTGGCTGCTCTTT............................................................... 19 0 1 1.00 1 1 0 0
..................TGCCATTGATTCAAATTATGA.................................................................................................................................................................................................................... 21 0 1 1.00 1 1 0 0
............................................................................................................................................................................................GGCCTGCTGAAGAAGGATGC........................................... 20 0 1 1.00 1 1 0 0
..................................................................................................................................................TTGCGTTGCATGCAGTTGATGGC.................................................................................. 23 0 1 1.00 1 0 1 0
.........................................................................................................................................................................AACCATTTGGCTGCTCTTTGGC............................................................ 22 0 1 1.00 1 1 0 0
..........................................................................................................................................................CATGCAGTTGATGGCAACCATT........................................................................... 22 0 1 1.00 1 1 0 0
................................................................................................................................................TTTTGCGTTGCATGCAGTTGAT..................................................................................... 22 0 1 1.00 1 1 0 0
.................................................................................................................................................TTTGCGTTGCATGCAGTTGAT..................................................................................... 21 0 1 1.00 1 1 0 0
...................................................................................................................................GCCTTTCTTAATATTTTGCGTTGC................................................................................................ 24 0 1 1.00 1 1 0 0
.TTGGCCCTAGCCACATTTGCCATTGAT............................................................................................................................................................................................................................... 27 0 1 1.00 1 1 0 0
.....................................................................................................................................................................................................AAGAAGGATGCGATGCATAAGGA............................... 23 0 1 1.00 1 1 0 0
.........AGCCACATTTGCCATTGATTC............................................................................................................................................................................................................................. 21 0 1 1.00 1 1 0 0
.........................................................................................................................................................................AACCATTTGGCTGCTCTTTGGCCT.......................................................... 24 0 1 1.00 1 1 0 0
............................................................................................................................................................................CATTTGGCTGCTCTTTGGCCTGCTGAA.................................................... 27 0 1 1.00 1 1 0 0
........................................................................................................................................................................................................................AGGAAAAATTTATGCTCTTTTGGC........... 24 0 1 1.00 1 1 0 0
.............................CAAATTATGAATATCGCGAT.......................................................................................................................................................................................................... 20 0 1 1.00 1 1 0 0
.............................CAAATTATGAATATCGCGATTATGC..................................................................................................................................................................................................... 25 3 1 1.00 1 0 1 0
...................GCCATTGATTCAAATTATGAATATCGCG............................................................................................................................................................................................................ 28 0 1 1.00 1 1 0 0
......................................................................................................................................................................................................AGAAGGATGCGATGCATA................................... 18 0 1 1.00 1 1 0 0
.TTGGCCCTAGCCACATTTGCC..................................................................................................................................................................................................................................... 21 0 1 1.00 1 1 0 0
...................................................................................................................................................................................CTGCTCTTTGGCCTGCTGAA.................................................... 20 0 1 1.00 1 1 0 0
.........................................................................................................................................................................AACCATTTGGCTGCTCTTTGGCCTG......................................................... 25 0 1 1.00 1 1 0 0
.........................................................................................................................................CTTAATATTTTGCGTTGCATGCAGTT........................................................................................ 26 0 1 1.00 1 1 0 0
............................TCAAATTATGAATATCGCGATT......................................................................................................................................................................................................... 22 0 1 1.00 1 1 0 0
.............................................................................................................................................................................................................................AAATTTATGCTCTTTTGGCTTATTGTGT.. 28 0 1 1.00 1 1 0 0
.........................................................................................................................................................................AACCATTTGGCTGCTCTTTGG............................................................. 21 0 1 1.00 1 1 0 0
...................GCCATTGATTCAAATTATGAATATCGCGA........................................................................................................................................................................................................... 29 0 1 1.00 1 1 0 0
.........................................................................................................................................................GCATGCAGTTGATGGCAACCATTTGGCT...................................................................... 28 0 1 1.00 1 1 0 0
..........GCCACATTTGCCATTGATTCAAATT........................................................................................................................................................................................................................ 25 0 1 1.00 1 1 0 0
..........................................................................................................................................TTAATATTTTGCGTTGCATGCAGTTGAT..................................................................................... 28 0 1 1.00 1 1 0 0
..............................................................................................................................................................................................CCTGCTGAAGAAGGATGCGAT........................................ 21 0 1 1.00 1 1 0 0
......................................................................................................................................................................................CTCTTTGGCCTGCTGAAGAAG................................................ 21 0 1 1.00 1 1 0 0
.................................................................................................................................................................................................................................TTATGCTCTTTTGGCTTATTGTG... 23 0 1 1.00 1 1 0 0
...........................................................................................................................................................................................................GATGCGATGCATAAGGAAA............................. 19 0 1 1.00 1 0 1 0
..........GCCACATTTGCCATTGATTCAAATTAT...................................................................................................................................................................................................................... 27 0 1 1.00 1 1 0 0
CTTGGCCCTAGCCGCATTTGCC..................................................................................................................................................................................................................................... 22 1 1 1.00 1 1 0 0
.........................................................................................................................................CTTAATATTTTGCGTTGCAT.............................................................................................. 20 0 1 1.00 1 1 0 0
................................................................................................................................................................GTTGATGGCAACCATTTGGCTG..................................................................... 22 0 1 1.00 1 1 0 0
.....................................GAATATCGCGATTGTAAGT................................................................................................................................................................................................... 19 0 1 1.00 1 1 0 0
..................................................................................................................................................................................................CTGAAGATGGATACGATGC...................................... 19 2 5 0.60 3 3 0 0
.......................................................................................................................................................................................TCTTTGGCGTGCTGAAGA.................................................. 18 1 2 0.50 1 0 0 1
..................................................................................................................................................................................................CTGAAGAAGGATTCGTTGC...................................... 19 2 2 0.50 1 0 1 0
..................................................................................................................................CGCCATTCTCAATATTATGC..................................................................................................... 20 3 13 0.31 4 4 0 0
...................................................................................................................................................................................................TGAAGATGGATACGATGC...................................... 18 2 10 0.30 3 3 0 0
...................................................................................................................................................................................................TGAAGATGGATACGATGCTT.................................... 20 3 17 0.29 5 0 5 0
.............................................................................................GATTAGTGCTAAGTGTTGGA.......................................................................................................................................... 20 3 14 0.29 4 0 4 0
..................................................................................................................................................................................................CTGAAGATGGATACGATG....................................... 18 2 11 0.18 2 2 0 0
..................................................................................GACTTAATGCGGATTGGCGC..................................................................................................................................................... 20 3 6 0.17 1 1 0 0
...........................................................................................................................ATTATGCCGCCTTTCTTAAT............................................................................................................ 20 3 8 0.13 1 1 0 0
.............................................................................................GATGAGTGCTAATTGTTGGA.......................................................................................................................................... 20 3 14 0.07 1 1 0 0
..................................................................................................................ATTCAAATGCAGATGACGAC..................................................................................................................... 20 3 20 0.05 1 0 1 0

Anti-sense strand reads

GAACCGGGATCGGTGTAAACGGTAACTAAGTTTAATACTTATAGCGCTAACATTCATTGTTTACATATTCTTATACAAATGTATGTATTACGCCTAACCACGATTAACAACTTGTAATTTTACGTCTACGGCGGAAAGAATTATAAAACGCAACGTACGTCAACTACCGTTGGTAAACCGACGAGAAACCGGACGACTTCTTCCTACGCTACGTATTCCTTTTTAAATACGAGAAAACCGAATAACACAGT
****************************************************.........((.((((((((.((((.((....)).))))..)))).))))))..************************************************************************************************************************************************* 		Read size # Mismatch Hit Count Total Norm Total M046
female body
 V110
male body		 V049
head
 V056
head
................................................................................................................................................................................................ATGACTTCTACCTATGCTACG...................................... 21 3 1 3.00 3 3 0 0 0
..................................................................................................................................................................................................GACTTCTACCTATGCTACGAA.................................... 21 3 4 2.50 10 7 1 1 1
.................................................................................................................................................................................................TGACTTCTACCTATGCTACG...................................... 20 3 14 1.00 14 8 5 0 1
...................................................................................................................................................................................................ACTTCTACCTATGCTACGAA.................................... 20 3 17 0.47 8 4 4 0 0
..................................................................................................................................GCGGTAAGAGTTATAATACG..................................................................................................... 20 3 13 0.38 5 1 3 1 0
................................................................................................................................................................................................ATGACTTCTACCTATGCTAC....................................... 20 3 6 0.33 2 2 0 0 0
...................................TGCTTATAGCGCTAAGCTTCA................................................................................................................................................................................................... 21 3 4 0.25 1 1 0 0 0
.....................................................................................................................................................................................................................................CGAGAAACCCGAATAAGAC... 19 2 7 0.14 1 1 0 0 0
...................................................................................................................................................................................................ACTTCTACCTATGCTACG...................................... 18 2 10 0.10 1 1 0 0 0
............GTGTAAACGGTAACTCGG............................................................................................................................................................................................................................. 18 2 17 0.06 1 1 0 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droMoj3 scaffold_6496:6546601-6546851 - dmo_1006 CTTGGCCCTAGCCACATTTGCCATTGAT-------------------------------------TCAAATTATGAATATCGCGATTGTAAGTAACAAATGTATAAGAATATGTTTACATACATAATGCGGATTGGTGCTAATTGTTGAACATTAAAATGCAGATGCC--GCCTTTCTTAATATTTTGCGTTGCATGCAGTTGATGGCAACCATTTGGCTGCTCTTTGGCCTGCTGAAGAAGGATGCGATGCATAAGGAAAAATTTATGCTCTTTTGGCTTATTGTGTCA
droVir3 scaffold_12875:19511182-19511395 - AATGTCCCTGGGCACATTTGCCATGGATTATTA---TTGTA----------AGTGAACTTGTAACTCCAATTTGGAA--------------------------------------------------------TTTGGCTAATATTTGATT-------TGTATAGGCCAAGAGTTTCTGGCCATTTTTCGCGCGCTGCAGGTACTGGCAACTATTTCGCTGCTCTTTGGAGTTCTTAAAAAGGAACCGCTGCATAAGGACAAATTTCTGGTCTTCTGGCTGATCATTACA
droGri2 scaffold_15245:18033863-18034086 + CCTGGCACTGGCCACATTTGCAATACCCGACTATGAAGGTATTGAGCTAATGCAAAAATTATGATTCCAGTAAAGAATATATA--------------------------CATGTTT-CTCACGTAGTG---------------------------------------CGAGACTTAATGGACATTGTGCGAGCAGTGCAGCTGTTGGCAACTATTTTGTTGCTCTATGGTATTTACAAGAAGAATCCGCAGCATAAGGATAAGTTCCTTCTAATCTGGCTGGTCATAACA

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droMoj3
CTTGGCCCTAGCCACATTTGCCATTGAT-------------------------------------TCAAATTATGAATATCGCGATTGTAAGTAACAAATGTATAAGAATATGTTTACATACATAATGCGGATTGGTGCTAATTGTTGAACATTAAAATGCAGATGCC--GCCTTTCTTAATATTTTGCGTTGCATGCAGTTGATGGCAACCATTTGGCTGCTCTTTGGCCTGCTGAAGAAGGATGCGATGCATAAGGAAAAATTTATGCTCTTTTGGCTTATTGTGTCASizeHit CountTotal NormTotalM046
Female-body		V041
Embryo		V049
Head		V056
Head		M060
Embryo		V110
Male-body
........................................................................................................................................................................................TTTGCGTTGCATGCAGTTGATGGC..................................................................................2413.003100002
....................................................................................................................................................................................ATATTTTGCGTTGCATGCAGTTGAT.....................................................................................2512.002100001
......................................................................................................................................................................................ATTTTGCGTTGCATGCAGTTGATGGC..................................................................................2612.002200000
............................................................................................................................................................................................................................GCTCTTTGGCCTGCTGAAGAAGGATGC...........................................2712.002200000
..................................................................................................................................................................................................ATGCAGTTGATGGCAACCATTTGGCT......................................................................2611.001100000
...................................................................................................................................................................................................................CATTTGGCTGCTCTTTGG.............................................................1811.001100000
................................................................................................................................................................................................................AACCATTTGGCTGCTCTTT...............................................................1911.001100000
..................TGCCATTGAT-------------------------------------TCAAATTATGA......................................................................................................................................................................................................................2111.001100000
...................................................................................................................................................................................................................................GGCCTGCTGAAGAAGGATGC...........................................2011.001100000
.........................................................................................................................................................................................TTGCGTTGCATGCAGTTGATGGC..................................................................................2311.001000001
................................................................................................................................................................................................................AACCATTTGGCTGCTCTTTGGC............................................................2211.001100000
.................................................................................................................................................................................................CATGCAGTTGATGGCAACCATT...........................................................................2211.001100000
.......................................................................................................................................................................................TTTTGCGTTGCATGCAGTTGAT.....................................................................................2211.001100000
........................................................................................................................................................................................TTTGCGTTGCATGCAGTTGAT.....................................................................................2111.001100000
..........................................................................................................................................................................GCCTTTCTTAATATTTTGCGTTGC................................................................................................2411.001100000
.TTGGCCCTAGCCACATTTGCCATTGAT-------------------------------------.................................................................................................................................................................................................................................2711.001100000
............................................................................................................................................................................................................................................AAGAAGGATGCGATGCATAAGGA...............................2311.001100000
.........AGCCACATTTGCCATTGAT-------------------------------------TC...............................................................................................................................................................................................................................2111.001100000
................................................................................................................................................................................................................AACCATTTGGCTGCTCTTTGGCCT..........................................................2411.001100000
...................................................................................................................................................................................................................CATTTGGCTGCTCTTTGGCCTGCTGAA....................................................2711.001100000
...............................................................................................................................................................................................................................................................AGGAAAAATTTATGCTCTTTTGGC...........2411.001100000
..................................................................CAAATTATGAATATCGCGAT............................................................................................................................................................................................................2011.001100000
...................GCCATTGAT-------------------------------------TCAAATTATGAATATCGCG..............................................................................................................................................................................................................2811.001100000
.............................................................................................................................................................................................................................................AGAAGGATGCGATGCATA...................................1811.001100000
.TTGGCCCTAGCCACATTTGCC............................................................................................................................................................................................................................................................................2111.001100000
..........................................................................................................................................................................................................................CTGCTCTTTGGCCTGCTGAA....................................................2011.001100000
................................................................................................................................................................................................................AACCATTTGGCTGCTCTTTGGCCTG.........................................................2511.001100000
................................................................................................................................................................................CTTAATATTTTGCGTTGCATGCAGTT........................................................................................2611.001100000
.................................................................TCAAATTATGAATATCGCGATT...........................................................................................................................................................................................................2211.001100000
....................................................................................................................................................................................................................................................................AAATTTATGCTCTTTTGGCTTATTGTGT..2811.001100000
................................................................................................................................................................................................................AACCATTTGGCTGCTCTTTGG.............................................................2111.001100000
...................GCCATTGAT-------------------------------------TCAAATTATGAATATCGCGA.............................................................................................................................................................................................................2911.001100000
................................................................................................................................................................................................GCATGCAGTTGATGGCAACCATTTGGCT......................................................................2811.001100000
..........GCCACATTTGCCATTGAT-------------------------------------TCAAATT..........................................................................................................................................................................................................................2511.001100000
.................................................................................................................................................................................TTAATATTTTGCGTTGCATGCAGTTGAT.....................................................................................2811.001100000
.....................................................................................................................................................................................................................................CCTGCTGAAGAAGGATGCGAT........................................2111.001100000
.............................................................................................................................................................................................................................CTCTTTGGCCTGCTGAAGAAG................................................2111.001100000
........................................................................................................................................................................................................................................................................TTATGCTCTTTTGGCTTATTGTG...2311.001100000
..................................................................................................................................................................................................................................................GATGCGATGCATAAGGAAA.............................1911.001000001
..........GCCACATTTGCCATTGAT-------------------------------------TCAAATTAT........................................................................................................................................................................................................................2711.001100000
................................................................................................................................................................................CTTAATATTTTGCGTTGCAT..............................................................................................2011.001100000
.......................................................................................................................................................................................................GTTGATGGCAACCATTTGGCTG.....................................................................2211.001100000
..........................................................................GAATATCGCGATTGTAAGT.....................................................................................................................................................................................................1911.001100000
droVir3
AATGTCCCTGGGCACATTTGCCATGGATTATTA---TTGTA----------AGTGAACTTGTAACTCCAATTTGGAA--------------------------------------------------------TTTGGCTAATATTTGATT-------TGTATAGGCCAAGAGTTTCTGGCCATTTTTCGCGCGCTGCAGGTACTGGCAACTATTTCGCTGCTCTTTGGAGTTCTTAAAAAGGAACCGCTGCATAAGGACAAATTTCTGGTCTTCTGGCTGATCATTACASizeHit CountTotal NormTotalM027
Male-body		M028
Head		M047
Female-body		M061
Embryo		SRR060654
Ovary		SRR060655
Testis		SRR060656
Ovary		SRR060657
Testis		SRR060658
Ovary		SRR060659
Testis		SRR060660
Ovary		SRR060661
Embryo		SRR060662
Embryo		SRR060663
Embryo		SRR060664
Male-body		SRR060665
Female-body		SRR060666
Male-body		SRR060667
Female-body		SRR060668
Male-body		SRR060669
Female-body		SRR060670
Testis		SRR060671
Male-body		SRR060672
Female-body		SRR060673
Ovary		SRR060674
Ovary		SRR060675
Ovary		SRR060676
Ovary		SRR060677
Ovary		SRR060678
Testis		SRR060679
Testis		SRR060680
Testis		SRR060681
Testis		SRR060682
Embryo		SRR060683
Testis		SRR060684
Embryo		SRR060685
Embryo		SRR060686
Embryo		SRR060687
Embryo		SRR060688
Ovary		SRR060689
Testis		SRR1106712
embryo_0-2h		SRR1106713
embryo_0-2h		SRR1106714
embryo_2-4h		SRR1106715
embryo_4-6h		SRR1106716
embryo_4-6h		SRR1106717
embryo_6-8h		SRR1106718
embryo_6-8h		SRR1106719
embryo_8-10h		SRR1106720
embryo_8-10h		SRR1106721
embryo_10-12h		SRR1106722
embryo_10-12h		SRR1106723
embryo_12-14h		SRR1106724
embryo_12-14h		SRR1106725
embryo_14-16h		SRR1106726
embryo_14-16h		SRR1106727
larvae		SRR1106728
larvae		SRR1106729
mixed whole adult body		SRR1106730
embryo_16-30h		V047
Embryo		V053
Head		V116
Male-body		GSM1528803
follicle cells
..................................................................................................................................................................................................................CTATTTCGCTGCTCTTTGG.............................................................1911.001001000000000000000000000000000000000000000000000000000000000000
........................................................................................................................................................................................................................CGCTGCTCTTTGGAGTTCTTA.....................................................2111.001000000000000000100000000000000000000000000000000000000000000000
....................................................................................................................................................................................................................ATTTCGCTGCTCTTTGGA............................................................1811.001001000000000000000000000000000000000000000000000000000000000000
...GTCCCTGGGCACATTTGCCATG.........................................................................................................................................................................................................................................................................2211.001001000000000000000000000000000000000000000000000000000000000000
..................................................................................................................................................................................................................................TGGAGTTCTTAAAAAGGAA.............................................1911.001000000000000001000000000000000000000000000000000000000000000000
.................................................................................................................................................................................................................................................................GACAAATTTCTGGTCTTCTGGCT..........2311.001000000000000000001000000000000000000000000000000000000000000000
...............................................................................................................................................................................................GCGCTGCAGGTACTGGCAAC...............................................................................2011.001001000000000000000000000000000000000000000000000000000000000000
........................................................................................................................................................................................................................................TCTTAAAAAGGAACCGCTGCATAAG.................................2511.001000000000000000000000000000000000000000000000000000000000000010
AATGTCCCTGGGCACATTTGCCATGGA.......................................................................................................................................................................................................................................................................2711.001001000000000000000000000000000000000000000000000000000000000000
.....................................................................................................................................................................................CATTTTTCGCGCGCTGCAG..........................................................................................1911.001000000000000000000000000000001000000000000000000000000000000000
........................................................................................................................................................................................................................................TCTTAAAAAGGAACCGCTG.......................................1911.001000000000000000100000000000000000000000000000000000000000000000
...........................................................................AA--------------------------------------------------------TTTGGCTAATATTTGATT-------TG..................................................................................................................................2211.001001000000000000000000000000000000000000000000000000000000000000
.........................................................................................................................................................................................TTTCGCGCGCTGCAGGTACT.....................................................................................2011.001000000000000000001000000000000000000000000000000000000000000000
........TGGGCACATTTGCCATGGATT.....................................................................................................................................................................................................................................................................2111.001000000000000001000000000000000000000000000000000000000000000000
.............................................................................................................................................................................................................................................AAAAGGAACCGCTGCATAAGGA...............................2211.001000000000000000000000000000000000000000000000000000000000000010
droGri2
CCTGGCACTGGCCACATTTGCAATACCCGACTATGAAGGTATTGAGCTAATGCAAAAATTATGATTCCAGTAAAGAATATATA--------------------------CATGTTT-CTCACGTAGTG---------------------------------------CGAGACTTAATGGACATTGTGCGAGCAGTGCAGCTGTTGGCAACTATTTTGTTGCTCTATGGTATTTACAAGAAGAATCCGCAGCATAAGGATAAGTTCCTTCTAATCTGGCTGGTCATAACASizeHit CountTotal NormTotalM041
Female-body		V109
Male-body
.......................................................................................................................................................................................................................................................................TTCCTTCTAATCTGGCTGGTCA.....2220.50110
.................................................................................................................................................................................................................................ATGGTATTTACAAGAAGAAT.............................................2020.50101

Generated: 05/17/2015 at 11:31 PM