ID:

dsi_219

 Coordinate:

2L:4312259-4312335 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-27.2 -27.2 -26.9 -26.5

Flybase annnotation

Antisense to intron [Dsim\GD23282-in]

No Repeatable elements found

Sense Strand Reads

GGGGGCCTTTGGTCGGTCGGGCGGGGCTTATCTTTAATGCAAATTGTGGGCTCGAGGATCGAACTGGGTTACTTGGGTTTTTCGGGAGTGCGAAGAATGTGGAAATTCGCCCTGGTCAGGCTTTGGCTTTCCGATTCCGGAGAATTGATAAGCGACGAGCTTACGACTCGATCGATT
***********************************............((((.(((((.((..(((((((...(((.((((((((......)))))))).)))......)))).)))..)))))))))))((((....))))************************************ 		Read size # Mismatch Hit Count Total Norm Total M023
head
 M024
male body
 M053
Female-body		 SRR618934
Ovary
..................................................CTCGAGGATCGAACTGGGTTA.......................................................................................................... 21 0 1 12.00 12 7 5 0 0
...........GTCGGTCGGGCTGGG....................................................................................................................................................... 15 1 6 1.50 9 0 0 0 0
...........................................................................................................CGCCCTGGTCAGGCTTTGG................................................... 19 0 1 1.00 1 0 0 1 0
...GGCCTTTGGTCGGTCGGGCGG......................................................................................................................................................... 21 0 1 1.00 1 0 1 0 0
....................................................CGAGGATCGAACTGGGTTACT........................................................................................................ 21 0 1 1.00 1 0 1 0 0
..........GGTCGGTCGGGCTGGG....................................................................................................................................................... 16 1 3 1.00 3 0 0 0 0
..................................TAATGCAAATTGTGGGCTCGA.......................................................................................................................... 21 0 1 1.00 1 1 0 0 0
....................................................CGAGGATCGAACTGGGTTACTT....................................................................................................... 22 0 1 1.00 1 1 0 0 0
................................................................................TTCGGGAGTGCGAAGAATGTG............................................................................ 21 0 1 1.00 1 0 0 1 0
............................................TGTGGGCTCGAGGATCGAACT................................................................................................................ 21 0 1 1.00 1 1 0 0 0
.....................................................GAGGATCGAACTGGGTTACTT....................................................................................................... 21 0 1 1.00 1 1 0 0 0
...............................CTTTAATGCAAATTGTGGGCG............................................................................................................................. 21 1 1 1.00 1 1 0 0 0
...................................................TCGAGGATCGAACTGGGTTA.......................................................................................................... 20 0 1 1.00 1 1 0 0 0
....................................................CGAGGATCGAACTGGGTTACC........................................................................................................ 21 1 1 1.00 1 1 0 0 0
.....................................................................................................................................ATTACGGAGAACTGATAAGGG....................... 21 3 4 0.75 3 0 0 0 0
......................................................................................................................................TTACGGAGAACTGATAAGGGA...................... 21 3 2 0.50 1 1 0 0 0
.....................................TGCAAATTGTGGGCT............................................................................................................................. 15 0 4 0.50 2 0 0 0 2
.........................................................................................................................................................GAAGAGCTTACGACTC........ 16 1 3 0.33 1 0 0 0 1
........................................................................................................................................CCGGAGAACTGATAAG......................... 16 1 3 0.33 1 0 0 0 0
......................................................................................................................................TGACGGAGAACTGATAAGCGA...................... 21 3 5 0.20 1 1 0 0 0
.....................................TGCAAATTGTGGGCTT............................................................................................................................ 16 1 13 0.08 1 0 0 0 1
............................................................................GTTTATTGGGAGTGCGA.................................................................................... 17 2 18 0.06 1 0 0 0 1
.GGGGGCTTTGGACGCTCGG............................................................................................................................................................. 19 3 19 0.05 1 0 0 1 0
...........GTCGGTCGTGAGGGCCTT.................................................................................................................................................... 18 3 20 0.05 1 0 0 1 0
...............................................................................................................................................CTTGATAACCGACGAG.................. 16 2 20 0.05 1 0 0 0 0
..............................................................................................................................................................GCTTACGACTCGTCCG... 16 2 20 0.05 1 0 0 0 0

Anti-sense strand reads

AATCGATCGAGTCGTAAGCTCGTCGCTTATCAATTCTCCGGAATCGGAAAGCCAAAGCCTGACCAGGGCGAATTTCCACATTCTTCGCACTCCCGAAAAACCCAAGTAACCCAGTTCGATCCTCGAGCCCACAATTTGCATTAAAGATAAGCCCCGCCCGACCGACCAAAGGCCCCC
************************************((((....))))(((((((((((..(((.((((......(((.((((((((......)))))))).)))...)))))))..)).))))).))))............*********************************** 		Read size # Mismatch Hit Count Total Norm Total M023
head
 M024
male body
 O001
Testis
 O002
Head
..........GTCGTAAGCTCGTCGCTTATC.................................................................................................................................................. 21 0 1 2.00 2 0 2 0 0
...........................................TCGGAAAGCCAAAGCCTGACC................................................................................................................. 21 0 1 1.00 1 1 0 0 0
........GAGTCGTAAGCTCGTCGCTTA.................................................................................................................................................... 21 0 1 1.00 1 1 0 0 0
...............................................................................ATTCTTCGCACTCCCGAAAAAC............................................................................ 22 0 1 1.00 1 0 0 1 0
...................................................................................TTCGCACTCCCGAAAAACCCA......................................................................... 21 0 1 1.00 1 0 0 0 1
.......................................................................ATTTCCACATTCTTCGCA........................................................................................ 18 0 1 1.00 1 0 0 1 0
.........................................................CCTGAGCAGGGCGAA......................................................................................................... 15 1 5 0.60 3 0 0 0 0
.................................................AGCCAAAGCCTGACCAGGGT............................................................................................................ 20 1 2 0.50 1 0 1 0 0
...............................................AATGACAAAGCCGGACCAGGG............................................................................................................. 21 3 2 0.50 1 0 0 0 0
............CGTAAGCCCGTCGCTA..................................................................................................................................................... 16 2 18 0.17 3 0 0 0 0
.........................................AATCGGAAAGACAAACC....................................................................................................................... 17 2 20 0.15 3 0 0 0 0
................................................................................................................AGTTCGACCCTCGGGACCA.............................................. 19 3 17 0.12 2 0 0 0 0
.................................................................................TCTTCGCAGACCCGAAAA.............................................................................. 18 2 11 0.09 1 0 0 0 0
....................................................................................................CCCAAGTAGCTCAGTTGGAT......................................................... 20 3 13 0.08 1 0 1 0 0
.......................................................TGCCTGAGCAGGGCGAA......................................................................................................... 17 2 19 0.05 1 0 0 0 0
....................................................................................................................................AATGTGCATTAAAGA.............................. 15 1 20 0.05 1 0 0 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droSim3 2L:4312209-4312385 - dsi_219 GGGGGCCTTTGGT----------------------CG------GTCGGGCGGGGCTTATCT----TTAATGCAAATTGTGGGCTCGAGGATCGAACTGGGTTACTTGG-G----------TTTTTCGGGAGTGCGAAGAATGTGGAAATTCGCCCTGGTCAGGCTTTGGCTTTCCGATTCCGGAGAATTGATAAGCGACGAGCTTACG-------------------------ACTCGATC----------GATT
droSec2 scaffold_5:2487449-2487626 - GGGGGCCTTTGGT----------------------CG------ATCGGGCGGGGCTTATCTT---TTAATGCAAATTGTGGGGTCGAGGATCGAACTGGGTTACTTGG-G----------TTTTTCGGGAGTGCGAAGAACGTGGAAATTCGCCCTGGTCAGGCTTTGGCTTTCCGATTCCGGAGAATTGATAAGCGACGAGCTTACG-------------------------ACTCGATC----------GATT
dm3 chr2L:4389206-4389383 - GGGGGCCTTTGGT----------------------CG------GTCGGGCGGGGCTTATCT----TTAATGCAAATTGTGGGCTCGAGGATCGAACTGGGTTACTTGGAG----------TTTTTCGGGAATGCGGGGAACGTGGAAATTCGCCCTGGTCAAGCTTTGGCTTCCCGATTCCGGAGAATTGATAAGCGATGAGCTTACG-------------------------ACTCGATC----------GATT
droEre2 scaffold_4929:4471465-4471633 - GGGGCC-TTT--------------------------G------GGCGGGCG--GCTTATCT----TCAATGCAAATTGTCGGCACGAGGATCGAACTGGGTTACTTGGTG----------TTTCTCTGCAGTGCAAAGAACATGGAAATTCGGACTGGTCAAGCT--GACTGTCCGATTCCGGAGAATTGATAAGCACCGAGCTTACG-------------------------ACTCGATC----------GATT
droYak3 2L:4422519-4422683 - TT----------------------------------G------GTCGGGCG--GCTTATCT----TCAATGCAAATTGTGGGCTCGAGAATCGAACTGGGTTACTTGTGG----------TTTTTCTGGAGTGCGAAGAACATGGAAATTTGGCCTGGTCAAGCTTTCGCTGTCCAATTCCAGAGAATTGATAAGCGCCGAGCTTACG-------------------------ACCCGATC----------GATT
droEug1 scf7180000409005:261816-261992 - GGTGGC-----G----------------------GCG------GTCAGGCG--GCTTATCT----TCAATGCAAATTGTGGGCTCGAGGATCGAACTGGGTTACTTATGG----------ATTTTCGGGAGTACGAAGAACATGAAAATTTGCCCTAACCAATCTTTGGCTCTTCACGTCCGGAGAATTGATAAGCG---TGCTTACG-------------AA---ATCAT---------CGAA-CATTTCGTAT
droBia1 scf7180000302188:921986-922157 - GGTGGC------------------------------T------GTCGGGCG--GCTTATCT----TCAATGCAAAT-GTGGGCCCGAGGATCGAACTGGGTTACTTGGGG----------ATTTTCGGGAGTGCGAAGAACATGGAAATTGGACTTTTTCGCGCTTTGGGCCCCCAATCCCAGAGAGTTGATAAGCG---CGCTTACG-------------AA---ACCAT---------CGGA-AATTTCGTA-
droTak1 scf7180000415264:445341-445517 - GGTGGCG---------------------------GCT------GTCGGGCG--GCTTATCT----TCAATGCAAATTGTAGGCTCGAGGATCGAACTGGGTTACTTGGGG----------ATTTTCGGGAGTGCGAAGAACATGAAAATTTGCCCTGATCGAGCTTTGGGCCCCCAATTCCGGAGAGGTGATAAGGG---TGCTTACG-------------AA---ATCAT---------AGGA-AATTTCTAAT
droEle1 scf7180000490767:68840-69026 - GGGGTCATTT----------ATTGGGTGGCGTTGGCT------GTCAGGCG--GCTTATCT----TCTATGCAAATTGC--TCTAGAGGATCGAACTGGGTTACTTGGGG----------ATTTTCGGGAGTGCGAAGAACATGGAAATTTGCCTTGG-----------C-TCCCAAATACGGACAATTGATAAGCCGCCTACTTACG-------------ACAGCATCAT---------CGAATAATGCCGTAT
droRho1 scf7180000766469:36927-37112 + GGGGGCTTTTGGAGCTATTTATTGGGAGGCG---GCTGT----GACAGACT--GCTTATCT----TCTATGCAAATTGT----TCGAGGATCGAATTGGGTTACTTGGGG----------ATTTTCGGGAGTGCAAAGAACATGGAAATTTGCTC-------------GGTGCCCGATTTCCGACACTTGATAAGCC---TGCTTACG-------------AA---ACCAT---------TAGA-AATGTGTTAT
droFic1 scf7180000448917:1035-1216 + GGTGGCGATTGGA-------------------------------CCTGCCT--GCTTATCTATCGTCTATGCAAATTGTGGGCTCGAGGATCGAACTGGGTTACTTGG-G----------ATTTTCGGGAGTGCGAAGAACATGAAAATTCGCCCTCGTTCGGCTTTAGCTCACCAGCTCCCGAGAATTGATAAGCG---TGCTTACG-------------AA---ACGAT---------CGGA-AATTTCGAAT
droKik1 scf7180000302473:582768-582985 + CTGTTG--------------CTTGGGTGGCG---GCGGCAACGGCCAGGCGGGGCTTATCT----TCTATGCAAATTGTGGGCTCGAGGATCGAACTGGGTTACTTGGGGATTGGATTCGATTTTTGGGAGTGCGAAGAACACGAAAGTTTGTCCAGGCCGAGCCTAGGCAGCCTAATTCCCGAATATTGATAAGCA---GGCCTACGTATTGTGGAATGGGA---ATCAT---------GGAA-AAGTTCGTAT
dp5 4_group3:9370059-9370232 + GGTGGC------------------------------G------GCCAGGTT--ACTTATCT----TCAATGCAAATTATAGGCCTGCGATCTGAATTGGGTTACTTGGAT----------TCTTTTGGGAGTGCGACGAACATGAAAGTTTGCCTTGACAAAACTTTGAAAGTCGACCTCTTCAATATTGACAAGAA---AAACTATG-------------GA---ACTTTTGAATTAT----------TCGTAT
droPer2 scaffold_8:560711-560884 + GGTGGC------------------------------G------GCCAGGTT--GCTTATCT----TCAATGCAAATTATAGGCCTGCGATCTGAATTGGGTTACTTGGAG----------TCTTTTTGGAGTGCGACGAACATGAAAGTTTGCCTTGACAAAACTTTGAAAGTCGACCTCTTCAATATTGACAATAA---AAACTATG-------------GA---ACTTTTGAATTAT----------TCGTAT

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droSim3
GGGGGCCTTTGGT----------------------CG------GTCGGGCGGGGCTTATCT----TTAATGCAAATTGTGGGCTCGAGGATCGAACTGGGTTACTTGG-G----------TTTTTCGGGAGTGCGAAGAATGTGGAAATTCGCCCTGGTCAGGCTTTGGCTTTCCGATTCCGGAGAATTGATAAGCGACGAGCTTACG-------------------------ACTCGATC----------GATTSizeHit CountTotal NormTotalV044
Embryo		M023
Head		M024
Male-body		M025
Embryo		O001
Testis		O002
Head		M053
Female-body		SRR553485
Ovary		SRR553486
Ovary		SRR553487
Ovary		SRR553488
Ovary		SRR618934
Ovary
..................................................................................CTCGAGGATCGAACTGGGTTA........................................................................................................................................................21112.0012075000000000
......................................................................................................................................................CGCCCTGGTCAGGCTTTGG......................................................................................1911.001000000100000
...GGCCTTTGGT----------------------CG------GTCGGGCGG...........................................................................................................................................................................................................2111.001001000000000
....................................................................................CGAGGATCGAACTGGGTTACT......................................................................................................................................................2111.001001000000000
..................................................................TAATGCAAATTGTGGGCTCGA........................................................................................................................................................................2111.001010000000000
....................................................................................CGAGGATCGAACTGGGTTACTT.....................................................................................................................................................2211.001010000000000
...........................................................................................................................TTCGGGAGTGCGAAGAATGTG...............................................................................................................2111.001000000100000
............................................................................TGTGGGCTCGAGGATCGAACT..............................................................................................................................................................2111.001010000000000
.....................................................................................GAGGATCGAACTGGGTTACTT.....................................................................................................................................................2111.001010000000000
...................................................................................TCGAGGATCGAACTGGGTTA........................................................................................................................................................2011.001010000000000
.....................................................................TGCAAATTGTGGGCT...........................................................................................................................................................................1540.502000000000002
droSec2
GGGGGCCTTTGGT----------------------CG------ATCGGGCGGGGCTTATCTT---TTAATGCAAATTGTGGGGTCGAGGATCGAACTGGGTTACTTGG-G----------TTTTTCGGGAGTGCGAAGAACGTGGAAATTCGCCCTGGTCAGGCTTTGGCTTTCCGATTCCGGAGAATTGATAAGCGACGAGCTTACG-------------------------ACTCGATC----------GATTSizeHit CountTotal NormTotalV113
Male-body		V114
Embryo		V115
Head		M054
Female-body
............................................................................................................................................CGTGGAAATTCGCCCTGGTCA..............................................................................................2111.0011000
............................................................................................................................................................GGTCAGGCTTTGGCTTTCCGA..............................................................................2111.0010001
.........................................................................................................................................GAACGTGGAAATTCGCCCTGG.................................................................................................2111.0010001
droEre2
GGGGCC-TTT--------------------------G------GGCGGGCG--GCTTATCT----TCAATGCAAATTGTCGGCACGAGGATCGAACTGGGTTACTTGGTG----------TTTCTCTGCAGTGCAAAGAACATGGAAATTCGGACTGGTCAAGCT--GACTGTCCGATTCCGGAGAATTGATAAGCACCGAGCTTACG-------------------------ACTCGATC----------GATTSizeHit CountTotal NormTotalV040
Embryo		V060
Head		V107
Male-body		V108
Head		M055
Female-body		M057
Embryo
......................................................................................................................................................................................GAGAATTGATAAGCACCGAGC....................................................2111.001001000
......................................................................................AGGATCGAACTGGGTTACTTG....................................................................................................................................................2111.001000010
droYak3
TT----------------------------------G------GTCGGGCG--GCTTATCT----TCAATGCAAATTGTGGGCTCGAGAATCGAACTGGGTTACTTGTGG----------TTTTTCTGGAGTGCGAAGAACATGGAAATTTGGCCTGGTCAAGCTTTCGCTGTCCAATTCCAGAGAATTGATAAGCGCCGAGCTTACG-------------------------ACCCGATC----------GATTSizeHit CountTotal NormTotalV046
Embryo		V052
Head		V120
Male-body		V058
Head		M026
Head		M043
Female-body		M056
Embryo
......................................................................................................................................CGAAGAACATGGAAATTTGGC....................................................................................................2111.0010000010
.........................................................................................................TTGTG----------GTTTTTCTGGAGTGCG.......................................................................................................................2111.0010000100
droEug1
GGTGGC-----G----------------------GCG------GTCAGGCG--GCTTATCT----TCAATGCAAATTGTGGGCTCGAGGATCGAACTGGGTTACTTATGG----------ATTTTCGGGAGTACGAAGAACATGAAAATTTGCCCTAACCAATCTTTGGCTCTTCACGTCCGGAGAATTGATAAGCG---TGCTTACG-------------AA---ATCAT---------CGAA-CATTTCGTATSizeHit CountTotal NormTotal
No Reads
droBia1
GGTGGC------------------------------T------GTCGGGCG--GCTTATCT----TCAATGCAAAT-GTGGGCCCGAGGATCGAACTGGGTTACTTGGGG----------ATTTTCGGGAGTGCGAAGAACATGGAAATTGGACTTTTTCGCGCTTTGGGCCCCCAATCCCAGAGAGTTGATAAGCG---CGCTTACG-------------AA---ACCAT---------CGGA-AATTTCGTA-SizeHit CountTotal NormTotal
No Reads
droTak1
GGTGGCG---------------------------GCT------GTCGGGCG--GCTTATCT----TCAATGCAAATTGTAGGCTCGAGGATCGAACTGGGTTACTTGGGG----------ATTTTCGGGAGTGCGAAGAACATGAAAATTTGCCCTGATCGAGCTTTGGGCCCCCAATTCCGGAGAGGTGATAAGGG---TGCTTACG-------------AA---ATCAT---------AGGA-AATTTCTAATSizeHit CountTotal NormTotal
No Reads
droEle1
GGGGTCATTT----------ATTGGGTGGCGTTGGCT------GTCAGGCG--GCTTATCT----TCTATGCAAATTGC--TCTAGAGGATCGAACTGGGTTACTTGGGG----------ATTTTCGGGAGTGCGAAGAACATGGAAATTTGCCTTGG-----------C-TCCCAAATACGGACAATTGATAAGCCGCCTACTTACG-------------ACAGCATCAT---------CGAATAATGCCGTATSizeHit CountTotal NormTotal
No Reads
droRho1
GGGGGCTTTTGGAGCTATTTATTGGGAGGCG---GCTGT----GACAGACT--GCTTATCT----TCTATGCAAATTGT----TCGAGGATCGAATTGGGTTACTTGGGG----------ATTTTCGGGAGTGCAAAGAACATGGAAATTTGCTC-------------GGTGCCCGATTTCCGACACTTGATAAGCC---TGCTTACG-------------AA---ACCAT---------TAGA-AATGTGTTATSizeHit CountTotal NormTotal
No Reads
droFic1
GGTGGCGATTGGA-------------------------------CCTGCCT--GCTTATCTATCGTCTATGCAAATTGTGGGCTCGAGGATCGAACTGGGTTACTTGG-G----------ATTTTCGGGAGTGCGAAGAACATGAAAATTCGCCCTCGTTCGGCTTTAGCTCACCAGCTCCCGAGAATTGATAAGCG---TGCTTACG-------------AA---ACGAT---------CGGA-AATTTCGAATSizeHit CountTotal NormTotal
No Reads
droKik1
CTGTTG--------------CTTGGGTGGCG---GCGGCAACGGCCAGGCGGGGCTTATCT----TCTATGCAAATTGTGGGCTCGAGGATCGAACTGGGTTACTTGGGGATTGGATTCGATTTTTGGGAGTGCGAAGAACACGAAAGTTTGTCCAGGCCGAGCCTAGGCAGCCTAATTCCCGAATATTGATAAGCA---GGCCTACGTATTGTGGAATGGGA---ATCAT---------GGAA-AAGTTCGTATSizeHit CountTotal NormTotal
No Reads
dp5
GGTGGC------------------------------G------GCCAGGTT--ACTTATCT----TCAATGCAAATTATAGGCCTGCGATCTGAATTGGGTTACTTGGAT----------TCTTTTGGGAGTGCGACGAACATGAAAGTTTGCCTTGACAAAACTTTGAAAGTCGACCTCTTCAATATTGACAAGAA---AAACTATG-------------GA---ACTTTTGAATTAT----------TCGTATSizeHit CountTotal NormTotalV112
Male-body		V043
Embryo		V051
Head		M022
Male-body		M040
Female-body		M059
Embryo		M062
Head
.....................................................................................................................................................TTGCCTTGACAAAACTTTGAA.....................................................................................2112.0020000200
...................................................................................................................................................GTTTGCCTTGACAAAACTTTGAAAGT..................................................................................2611.0010000100
.............................................................................................AATTGGGTTACTTGGAT----------TCT....................................................................................................................................2011.0010000100
........................................................................................................................TCTTTTGGGAGTGCGACGAAC..................................................................................................................2111.0010000100
...........................................................CT----TCAATGCAAATTATAGGCC...........................................................................................................................................................................2111.0010000100
.............................................................................ATAGGCCTGCGATCTGAATTG.............................................................................................................................................................2111.0010000100
..............................................................................TAGGCCTGCGATCTGAATTGG............................................................................................................................................................2111.0010000100
droPer2
GGTGGC------------------------------G------GCCAGGTT--GCTTATCT----TCAATGCAAATTATAGGCCTGCGATCTGAATTGGGTTACTTGGAG----------TCTTTTTGGAGTGCGACGAACATGAAAGTTTGCCTTGACAAAACTTTGAAAGTCGACCTCTTCAATATTGACAATAA---AAACTATG-------------GA---ACTTTTGAATTAT----------TCGTATSizeHit CountTotal NormTotalV111
Male-body		V042
Embryo		V050
Head		V057
Head		M021
Embryo		M042
Female-body
.........................................................................................................................CTTTTTGGAGTGCGACGAACA.................................................................................................................2111.001000010
..................................................................................CCTGCGATCTGAATTGGGTTA........................................................................................................................................................2111.001000001
..........................................................................................................................TTTTTGGAGTGCGACGAACAT................................................................................................................2111.001000001

Generated: 12/06/2013 at 02:35 PM