ID:

dps_3107

 Coordinate:

XR_group6:9059163-9059313 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-10.6 -10.4 -9.9

Flybase annnotation

CDS [Dpse\GA23457-cds]; exon [dpse_GLEANR_12285:5]; intron [Dpse\GA23457-in]

No Repeatable elements found

Sense Strand Reads

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##################################################
TCGTTTGTTTTCTGGTCTGGCTGGATGGAGGTAAGGTAGGTGACCGCTTTGTTCTTCAACTTCAAGCCCAAGCTGTGTGTTCTTTAGGCCTAGCGCAACGACGTGATGTTGAAGGCCCACCCATAAGCGTCTTTAGTGGATCACAAGGATCTGACAGGCAGCCTGGATCTATAACTGTAACTGGAAGAAATGGAAGGCCAGGTGCATCTGTTCAATCCCGTTGTCCTTGCTGTGGTGCCCTTGGAGGGAGC
****************************************************************************************************************************************........................(((.....((((..((.........))..))))..)))***************************************************** 		Read size # Mismatch Hit Count Total Norm Total M040
female body
 SRR902011
testis
 GSM444067
head
 V112
male body		 GSM343916
embryo
..............................................................................................................................................................................CTGTAACTGGAAGAAATGGAAGGC..................................................... 24 0 1 2.00 2 0 2 0 0 0
........................................................................................................................................TGGATCACAAGGATCTGACAGGCA........................................................................................... 24 0 1 1.00 1 0 1 0 0 0
.................................................................................................................................................................................................................GTTCAATCCCGTTGTCCTTGC..................... 21 0 1 1.00 1 1 0 0 0 0
..................................................................................................................................................GGATCTGACAGGCAGCCTGGAT................................................................................... 22 0 1 1.00 1 1 0 0 0 0
.......................................................................................................TCATGTTGAAGCCCCACCCA................................................................................................................................ 20 2 1 1.00 1 1 0 0 0 0
...........................................................................................................................................................AGGCAGTGTGGTTCTATAACT........................................................................... 21 3 1 1.00 1 0 0 1 0 0
..............GTCTGGCTGGATGGAGGT........................................................................................................................................................................................................................... 18 0 1 1.00 1 1 0 0 0 0
..................................................................................................................................................GGATCTGACAGGCAGCCTGGATC.................................................................................. 23 0 1 1.00 1 1 0 0 0 0
............................................................................................................................................................................................................CATCGGTTCAATCCCGGT............................. 18 2 4 0.50 2 2 0 0 0 0
...........................GAGCTAAGGAAGGTGACCGGT........................................................................................................................................................................................................... 21 3 4 0.25 1 1 0 0 0 0
.............GGTCTGGCTGGATGGAGGCCT......................................................................................................................................................................................................................... 21 3 4 0.25 1 1 0 0 0 0
............................................................................................................................................................................................AATGGACGGCCGGGGGCATC........................................... 20 3 5 0.20 1 0 0 0 1 0
...........CAGGTCTCGCTGGATGGCGG............................................................................................................................................................................................................................ 20 3 10 0.10 1 1 0 0 0 0
........................ATGTAGGTAAGGGAAGTGAC............................................................................................................................................................................................................... 20 3 10 0.10 1 1 0 0 0 0
.........................................................................................................................CAATAGCTTCTTTAGTGGA............................................................................................................... 19 3 20 0.10 2 0 0 0 0 2
........................AGGGAGGTAAGGTGGGGGAC............................................................................................................................................................................................................... 20 3 14 0.07 1 1 0 0 0 0
................................................................................................................................................AATGATCTGACAGGCGGCAT....................................................................................... 20 3 17 0.06 1 1 0 0 0 0
.......................................................................................................................................................TGACAGGCAGCTTGGTTCA................................................................................. 19 3 20 0.05 1 0 0 0 0 1
.................................................................................................AGGACTCGATGTTGAAGGC....................................................................................................................................... 19 3 20 0.05 1 1 0 0 0 0

Anti-sense strand reads

AGCAAACAAAAGACCAGACCGACCTACCTCCATTCCATCCACTGGCGAAACAAGAAGTTGAAGTTCGGGTTCGACACACAAGAAATCCGGATCGCGTTGCTGCACTACAACTTCCGGGTGGGTATTCGCAGAAATCACCTAGTGTTCCTAGACTGTCCGTCGGACCTAGATATTGACATTGACCTTCTTTACCTTCCGGTCCACGTAGACAAGTTAGGGCAACAGGAACGACACCACGGGAACCTCCCTCG
*****************************************************........................(((.....((((..((.........))..))))..)))**************************************************************************************************************************************** 		Read size # Mismatch Hit Count Total Norm Total M040
female body
 V112
male body		 SRR902010
ovaries
..................................................................................................................CGGGTGGGTATTCGCAGAAAT.................................................................................................................... 21 0 1 1.00 1 1 0 0
........................................................GTTGAAGTTCGGGTAGAACAC.............................................................................................................................................................................. 21 3 3 1.00 3 2 1 0
..................................................................................................GCTGTAGTACAACTTCCGGGA.................................................................................................................................... 21 3 2 0.50 1 1 0 0
........................................................................................................................................................................................................................GGGCAACAGGAACGATAG................. 18 2 9 0.11 1 1 0 0
.........................................................TTGAAGTTCGGGTAGAACAC.............................................................................................................................................................................. 20 3 11 0.09 1 1 0 0
........................................................GTTGACGTTCGGGTTC................................................................................................................................................................................... 16 1 14 0.07 1 0 0 1
....................................................................................................................................................................................................CGGTCCACTTAGGCAATT..................................... 18 3 20 0.05 1 0 1 0
..................................................................................................................CGGGTAGGTCTTCGCAGGA...................................................................................................................... 19 3 20 0.05 1 1 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
dp5 XR_group6:9059113-9059363 - dps_3107 TCGTTTGTTTTCTGGTCTGGCTGGATGGAGGTAAGGTA-GGTGACCG---CTTTGTTCTTCAAC-TTCAAGCCCAAGCTGTGTGTTCTTTAGGCCTAGCGCA--ACGACGTGATG----TTGAAGGCCCACCCATAAGCGTCTTTAGTGGATCACAAGG--ATCTGACAG-----------------------GCAGCCTGGATCTATAACTGTAACTGGAAGAAATGGA------------------------------------------------------AG--GCCAGGTGCATCTGTTCAATCCCGTTGTCCTTGCTGTGGTGCCCTTGGAGGGAGC
droPer2 scaffold_35:667110-667360 + TCGTTTGTTTTCTGGTCTGGCTGGATGGAGGTAAGGTA-GGTGACCG---CGTTGTTCTTCAAC-TTCAAGCCCAAGCTGTGTGTTCTTTAGGCCTAGCGCA--ACGACGCGATG----TTGAAGGCCCACCCATAAGCGTCTTTAGTGGATCACAAGG--ATCTGACAG-----------------------GCAGCCTGGATCTATAACTGTAACTGGAAGAAATGGA------------------------------------------------------AG--GCCAGGTGCATCTGTTCAATCCCGTTGTCCTTGCTGTGGTGCCCTTGGAGGGAGC
droWil2 scf2_1100000004515:3267944-3267952 + G----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAGGAGGT
droAna3 scaffold_13266:863663-863687 - TCGTG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGGAGCTCCAGGAGGACCT
droKik1 scf7180000302698:794134-794233 + ACACG-------TTGCCCTGTTGTGTAAGGATCA------AA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAGAGTAATGGA------------------------------------------------------AGCATCAAAGTTTATATGCTTTATGTTTTCACTTTTAACGTTTTTCTTTTGGAGGAGGA
droFic1 scf7180000453841:421260-421260 + C------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droEle1 scf7180000490564:1473276-1473507 - TAATCTGCTGCCTTAGCTTGTTGCCCGAAGGTGATATT-TAGGAAAA---CTTTGTTAT---ACATT-AACTTCTAAATTTATTTTCTTTAGAAAAAGCTGA--GGAGGATTT----TCCTGTGGGTCCGCCCATAA-------------GTCAGAGGAGACTCCAAAAGTTTAGCTCCTTTGGCTTGGCAGGGCAGCCT------------------GGCAGACCTGGA------------------------------------------------------AT--GCCTGGCCGACCTGGTCGACCGGGTCAGCCA------GGAACTCCTGGCGG----
droRho1 scf7180000780091:268232-268514 - TAATCTGCTGCCTTGGCTTAATGCACAGAGGTGATAAT-----AAGCAAGTTATGTTAT---ACATT-AACTTTAAGATGTGTTTTCTTTAGGTCAAGCTGTCGAAGAGGAGGTGTTTCCTGTGGGTCCACCAATAA-------------ATCAGAGGAGTATCCGAGAGGTAAGCTCATTTGCCTCGCCAGGACAGCCT------------------GGTAGACCTGGACAAGGAATACCTGGCCGACCTGGTTCGGGAATACCTGGCCGACCTGGTTCGGGAAT--ACCTGGCCGACCTGGTCGACCAGGTC------------------AACCAGGAAGT
droBia1 scf7180000302428:7113497-7113721 + TAGTCTGCTGCCTTGCCCTGATGCAGGAAGGTGCACTTCTAAAAAAA-----CGGTTATTAAAT-TT-AAATCTTAAATATTTTTTCTTTAGCTCAAGCTGACGAGAAGAATGTGCTTCCTGTGGGTCCGCCAGTAA-------------ATCAGAGAAGTCTTCGTGAAGTAGGCTCCTTTGCCAGAGAAGGGAAGCCG------------------GGAAGACCCGGA------------------------------------------------------AG--ACCTGGGTTACCTGGCCGGCGAGGTA------------------------AGGCC
droTak1 scf7180000416006:26633-26649 - GCCCT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGAAGATGGGGA
droSec2 scaffold_1:4724184-4724192 - G----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCGGAGGC
droYak3 3L:4509701-4509723 + GCGGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GGTGGTGGAGGAGGCGGC

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
dp5
TCGTTTGTTTTCTGGTCTGGCTGGATGGAGGTAAGGTA-GGTGACCG---CTTTGTTCTTCAAC-TTCAAGCCCAAGCTGTGTGTTCTTTAGGCCTAGCGCA--ACGACGTGATG----TTGAAGGCCCACCCATAAGCGTCTTTAGTGGATCACAAGG--ATCTGACAG-----------------------GCAGCCTGGATCTATAACTGTAACTGGAAGAAATGGA------------------------------------------------------AG--GCCAGGTGCATCTGTTCAATCCCGTTGTCCTTGCTGTGGTGCCCTTGGAGGGAGCSizeHit CountTotal NormTotalM022
Male-body		M040
Female-body		M059
Embryo		M062
Head		V043
Embryo		V051
Head		V112
Male-body		SRR902010
Ovary		SRR902011
Testis		SRR902012
CNS imaginal disc
..................................................................................................................................................................................................................CTGTAACTGGAAGAAATGGA------------------------------------------------------AG--GC.....................................................2412.0020000000020
...................................................................................................................................................TGGATCACAAGG--ATCTGACAG-----------------------GCA...................................................................................................................................................2411.0010000000010
.............................................................................................................................................................................................................................................................................................................GTTCAATCCCGTTGTCCTTGC.....................2111.0010100000000
.............................................................................................................................................................GG--ATCTGACAG-----------------------GCAGCCTGGAT...........................................................................................................................................2211.0010100000000
..............GTCTGGCTGGATGGAGGT.......................................................................................................................................................................................................................................................................................................................1811.0010100000000
.............................................................................................................................................................GG--ATCTGACAG-----------------------GCAGCCTGGATC..........................................................................................................................................2311.0010100000000
.............GGTCTGGCTGGATGGAGGCCT.....................................................................................................................................................................................................................................................................................................................2140.2510100000000
droPer2
TCGTTTGTTTTCTGGTCTGGCTGGATGGAGGTAAGGTA-GGTGACCG---CGTTGTTCTTCAAC-TTCAAGCCCAAGCTGTGTGTTCTTTAGGCCTAGCGCA--ACGACGCGATG----TTGAAGGCCCACCCATAAGCGTCTTTAGTGGATCACAAGG--ATCTGACAG-----------------------GCAGCCTGGATCTATAACTGTAACTGGAAGAAATGGA------------------------------------------------------AG--GCCAGGTGCATCTGTTCAATCCCGTTGTCCTTGCTGTGGTGCCCTTGGAGGGAGCSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
No Reads
droWil2
G----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAGGAGGTSizeHit CountTotal NormTotalM020
Head		M045
Female-body		V117
Male-body		V118
Embryo		V119
Head
No Reads
droAna3
TCGTG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGGAGCTCCAGGAGGACCTSizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
No Reads
droKik1
ACACG-------TTGCCCTGTTGTGTAAGGATCA------AA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAGAGTAATGGA------------------------------------------------------AGCATCAAAGTTTATATGCTTTATGTTTTCACTTTTAACGTTTTTCTTTTGGAGGAGGASizeHit CountTotal NormTotal
No Reads
droFic1
C------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droEle1
TAATCTGCTGCCTTAGCTTGTTGCCCGAAGGTGATATT-TAGGAAAA---CTTTGTTAT---ACATT-AACTTCTAAATTTATTTTCTTTAGAAAAAGCTGA--GGAGGATTT----TCCTGTGGGTCCGCCCATAA-------------GTCAGAGGAGACTCCAAAAGTTTAGCTCCTTTGGCTTGGCAGGGCAGCCT------------------GGCAGACCTGGA------------------------------------------------------AT--GCCTGGCCGACCTGGTCGACCGGGTCAGCCA------GGAACTCCTGGCGG----SizeHit CountTotal NormTotal
No Reads
droRho1
TAATCTGCTGCCTTGGCTTAATGCACAGAGGTGATAAT-----AAGCAAGTTATGTTAT---ACATT-AACTTTAAGATGTGTTTTCTTTAGGTCAAGCTGTCGAAGAGGAGGTGTTTCCTGTGGGTCCACCAATAA-------------ATCAGAGGAGTATCCGAGAGGTAAGCTCATTTGCCTCGCCAGGACAGCCT------------------GGTAGACCTGGACAAGGAATACCTGGCCGACCTGGTTCGGGAATACCTGGCCGACCTGGTTCGGGAAT--ACCTGGCCGACCTGGTCGACCAGGTC------------------AACCAGGAAGTSizeHit CountTotal NormTotal
No Reads
droBia1
TAGTCTGCTGCCTTGCCCTGATGCAGGAAGGTGCACTTCTAAAAAAA-----CGGTTATTAAAT-TT-AAATCTTAAATATTTTTTCTTTAGCTCAAGCTGACGAGAAGAATGTGCTTCCTGTGGGTCCGCCAGTAA-------------ATCAGAGAAGTCTTCGTGAAGTAGGCTCCTTTGCCAGAGAAGGGAAGCCG------------------GGAAGACCCGGA------------------------------------------------------AG--ACCTGGGTTACCTGGCCGGCGAGGTA------------------------AGGCCSizeHit CountTotal NormTotal
No Reads
droTak1
GCCCT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGAAGATGGGGASizeHit CountTotal NormTotal
No Reads
droSec2
G----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCGGAGGCSizeHit CountTotal NormTotalM054
Female-body		V113
Male-body		V114
Embryo		V115
Head
No Reads
droYak3
GCGGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GGTGGTGGAGGAGGCGGCSizeHit CountTotal NormTotalM026
Head		M043
Female-body		M056
Embryo		V046
Embryo		V052
Head		V058
Head		V120
Male-body		SRR1275488
Male larvae		SRR1275486
Male prepupae		SRR1275484
Male prepupae		GSM1528802
follicle cells
No Reads

Generated: 05/18/2015 at 06:06 AM