ID:

dps_897

 Coordinate:

3:179581-179643 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

Flybase annnotation

CDS [Dpse\GA24586-cds]; exon [dpse_GLEANR_14999:2]; exon [dpse_GLEANR_14999:1]; CDS [Dpse\GA24586-cds]; intron [Dpse\GA24586-in]

Repeatable elements

NameClassFamilyStrand
BilboLINELOA-

Sense Strand Reads

##################################################---------------------------------------------------------------##################################################
AACAATGTTGGTGGATTAGGGACTATGGCATACAAGATCCCAAAATGAAGGTAAAACGAGTACCTGCAAACTTGCAAGACATATCTCTTAAATATCTTTCTGCTCCACAATAGCGATGGCGTAACACGGCGGCAAGCCTAGAGATAAACGGGACTCATCTCAG
**************************************************.............((........((..........................))........))************************************************** 		Read size # Mismatch Hit Count Total Norm Total SRR902011
testis
 M040
female body
 SRR902010
ovaries
 GSM343916
embryo
 V112
male body
...........TGGATTAGGGACTATGGCATACA................................................................................................................................. 23 0 1 8.00 8 7 1 0 0 0
...........TGGATTAGGGACTATGGCATACAAGA.............................................................................................................................. 26 0 1 8.00 8 6 0 2 0 0
........TGGTGGATTAGGGACTATGGCATAC.................................................................................................................................. 25 0 1 2.00 2 2 0 0 0 0
...........TGGATTAGGGACTATGGCATACAAGAA............................................................................................................................. 27 1 1 2.00 2 0 0 2 0 0
...........TGGATTAGGGACTATGGCATAC.................................................................................................................................. 22 0 1 2.00 2 2 0 0 0 0
.....................................TCCCAAAATGAAGGTAAAACGAG....................................................................................................... 23 0 1 1.00 1 0 1 0 0 0
................TAGGGACTATGGCATACAAGATCCCAAA....................................................................................................................... 28 0 1 1.00 1 1 0 0 0 0
........TGGTGGATTAGGGACTATGGCATACAA................................................................................................................................ 27 0 1 1.00 1 1 0 0 0 0
............................................................................................TATCTTTCTGCTCCACAATAGCGA............................................... 24 0 1 1.00 1 0 1 0 0 0
........TGGTGGATTAGGGACTATGGCATACA................................................................................................................................. 26 0 1 1.00 1 1 0 0 0 0
...........TGGATTAGGGACTATGGCATACAAG............................................................................................................................... 25 0 1 1.00 1 1 0 0 0 0
...........................................AATGAAGGTAAAACGAGTACCTGC................................................................................................ 24 0 1 1.00 1 0 1 0 0 0
........TGGTGGATTAGGGACTATGGCATACAAG............................................................................................................................... 28 0 1 1.00 1 1 0 0 0 0
............................................................................................................AATAGCGATGGCGTAACACGGC................................. 22 0 1 1.00 1 1 0 0 0 0
....................................................................TACTTGCAATACATATCGCT........................................................................... 20 3 15 0.07 1 0 0 0 1 0
..........................................................................................................................AACACGGCGGCAAGCCTAGAG.................... 21 0 20 0.05 1 0 1 0 0 0
.......................................................................................TGAAAGATCTTTCTGCGCC......................................................... 19 3 20 0.05 1 0 0 0 0 1

Anti-sense strand reads

TTGTTACAACCACCTAATCCCTGATACCGTATGTTCTAGGGTTTTACTTCCATTTTGCTCATGGACGTTTGAACGTTCTGTATAGAGAATTTATAGAAAGACGAGGTGTTATCGCTACCGCATTGTGCCGCCGTTCGGATCTCTATTTGCCCTGAGTAGAGTC
**************************************************.............((........((..........................))........))************************************************** 		Read size # Mismatch Hit Count Total Norm Total SRR902011
testis
 M040
female body
 V112
male body		 SRR902012
CNS imaginal disc
 SRR902010
ovaries
 GSM343916
embryo
 M059
embryo
............................GTATGTTCTAGGGTTTTACTTCCAT.............................................................................................................. 25 0 1 7.00 7 7 0 0 0 0 0 0
............................................................................................ATAGAAAGACGAGGTGTTATCGCTAC............................................. 26 0 1 5.00 5 5 0 0 0 0 0 0
...............................................................................................GAAAGACGAGGTGTTATCGCTAC............................................. 23 0 1 3.00 3 2 1 0 0 0 0 0
..........................CCGTATGTTCTAGGGTTTTACTTCCAT.............................................................................................................. 27 0 1 2.00 2 1 1 0 0 0 0 0
..............................................................................................AGAAAGACGAGGTGTTATCGCTAC............................................. 24 0 1 2.00 2 2 0 0 0 0 0 0
................................................................................................AAAGACGAGGTGTTATCGCTAC............................................. 22 0 1 2.00 2 2 0 0 0 0 0 0
...........................CGTATGTTCTAGGGTTTTACTTCCAT.............................................................................................................. 26 0 1 1.00 1 1 0 0 0 0 0 0
....................................................................................AAGAATTTATAGAAAGACGAGGT........................................................ 23 1 1 1.00 1 1 0 0 0 0 0 0
..............................................................GGACGTTTGAACGTTCTGTATAGAGAAT......................................................................... 28 0 1 1.00 1 0 0 1 0 0 0 0
..............................ATGTTCTAGGGTTTTACTTCCAT.............................................................................................................. 23 0 1 1.00 1 0 1 0 0 0 0 0
..............................................................................................AGATAGGCGAGGTGTTATGG................................................. 20 3 4 0.50 2 0 0 0 2 0 0 0
............................................................................................AAAGAAAGACGAGGGGTTAT................................................... 20 2 3 0.33 1 0 0 0 0 1 0 0
..............................................................................................AGATAGGCGAGGTGTTATG.................................................. 19 3 19 0.26 5 0 0 0 5 0 0 0
......................................................................................GAAGTTATAGAAAGACGAGGT........................................................ 21 1 6 0.17 1 0 1 0 0 0 0 0
..........................................................................................TTATAGAAAGACGAGGTGTTA.................................................... 21 0 8 0.13 1 0 1 0 0 0 0 0
...........................CGTATGTTGTAGGGAGTTAC.................................................................................................................... 20 3 8 0.13 1 0 0 0 0 0 1 0
............................................................................................................................GTGCCGCCGTTCGGATCTTTATC................ 23 2 9 0.11 1 0 0 0 0 0 0 1
......................................GGGTTTTACTTCCAT.............................................................................................................. 15 0 11 0.09 1 1 0 0 0 0 0 0
.....................................................................................AGAGTTGATAGAAAGACGACG......................................................... 21 3 13 0.08 1 0 1 0 0 0 0 0
..............................................................................................AGAAAGACGAGGGGTTAT................................................... 18 1 20 0.05 1 0 1 0 0 0 0 0
...........................................................................................................................TGTGCCGCCATTCGGATCT..................... 19 1 20 0.05 1 0 1 0 0 0 0 0
.........................................................................................................................TCAGTGCCGCCGTTCGGATCT..................... 21 3 20 0.05 1 0 1 0 0 0 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
dp5 3:179531-179693 - dps_897 AACAATGTT---GGTGGATTAGGGACTATGGCATACAAGATCCCA--------AAATGAAGGTAAAACGAGTACCTGCAAACTTGCAAGACATATCTCTTAAATATCTTTCTGCTCCACAAT---AGCGATGGCG-TAACACGGCGGCAAGCCTAGAGATAAACGGGA---CT--CATCTCAG
droPer2 scaffold_2:369169-369331 - AACAAGGTC---GGTGGATTAGGGACTATGGCATACAAGATCCCA--------AAATGAAGGTAAAACGAGTACCTGCAAACTTGCAAGAAATATCTCTTAAATATCTTTCTGCTCCACAAT---AGGGAGGGCG-TAACACGGCGGCAAGCCTAGAGATAAACGGGA---CT--CATCTCAG
droWil2 scf2_1100000004909:10501717-10501768 - CTAA-TATG------------------------------------------------ACAGGGAAAGTACATACATACAT----ACAAGACATATCTCTTAAATA------------------------------------------------------------------------------
droGri2 scaffold_3023:1569-1741 + GGCAAGGTT---TGCGGACTAGTAAATAAAGATTATAAGCTCTAAGTAGCTGGAAATGAAGGTAAAAAACGCACCTGCATCCTCGCTAGAAA--ATATTTAAATATTTTTCTGCTTCATAATTTTAGCAATGCCGACAACACAGCGGTAAGCCTGGAGCTCCAGTCAG---CTAC--GGTAAG
droAna3 scaffold_13417:5387365-5387535 + GGAAGTGTT---TCTGGACTAGGGACCAGGGAGTTCAAGCTACCAGTAGCTCGCTCTTAAGGTAAAATTAGAGCCTGCATTTTAGCTAAAAA--GCACCTTAGCATATTTTTGCTCCATAATTATAGCGACGCAGAAAA--CGGCAGCTACCGTGGAGTTCCAGACGA---CT-C-TAATTCG
droBip1 scf7180000391410:12823-12993 - GACAGGATT---CTTGGGTTAGGGGCGTCGGAGTATAGGCTCTGA--AGCCGATACAACAGGTAAAAGGCGAACCTGCATCCTCACAAAAAA--GCACCTTAGCATCTTTTTGCTACCCAATTTCAGTAATGAAGAGAACTTAGCCGCAACCATAGAGAGCCCAAATG---GCCC--TCTAAG
droKik1 scf7180000298947:7696-7866 + AGCAATGCCATCGTCGGAATGAAGTCCGCAAATTACAATTTGCTCCCTCCACCAACGGTAAGCAGGAATAGAACCGCCTTACTTGTACGGAA--GGATCTACACACTAACCTTATGTCCCATTAAAGCTGTGATGACGA--CCGTGGTGATGCTAGAGAGA---GGGA---AA--AAGCGCAT
droEle1 scf7180000491131:14896-15068 - GCCAAGATT---TCTGGATTAGGCACTACGGAATACAAGTTATTACTTGGCACAAAAGGTGGTAAAATTCGTACCTGCATTTTAGCCAAAAC--GCACCTTAGCATTTTTCTGCTTCATAATTTTAGCAATGGAGACAGCACCGTGGCAAGTCTGGAACTACCAGCAG---CCAC--GATCAG
droRho1 scf7180000762034:87-259 - GGCAGGGTT---GCTGGACTAGGAACAAAAGACTACAAGCTTATGCTTGACCCCAAACAAGGTAAAATTCGAACCTGCATTTTAGCCAAACG--GCATCTTAGTACATTTCTGCTTCGCAATTACAGCAACGGAGACAACACAGCAATAAGCCTGGAGCTGCAAAGCG---GCTC--TTTTAG
droBia1 scf7180000300606:7955-8121 - CGA--CATC---TATGCTTTATCCACCCCCTTATACAAGCTATT-------TACACCGAGGGTGAAACCAAAATTTGCATTCTTACCAAGAC--ACACGTTAATGCATATCTCATTCCACAGTTTAGCGAAGGCGACCTCACCACCGTCAGACTGGAGATAAATGAACACACT--CATCACAG
droTak1 scf7180000412663:6075-6246 - GGCAAGGTT---GCTGGATTGGGAACAAAAGAGTATAGCCTAT-GCTTGACCCCAAACAAGGTAAAATTCGAACCTGCATTTTAGCCAAAAG--GCTCCTAAATATATTTCTGCTTCGCAATTACAGCAACGGAGATAACACCTCAGTAAGCCTGGAGCTGCAGGACG---GCTC--CATTAG
droYak3 v2_chr2L_random_010:466888-467060 + GGAA-GGTT---TCAGGATTAGGGACTAAGGAATATAAGCTTCTAACAGCTCCCAGCGAAGGTAAAATAAGAGCCTGGATTCTAGCCAAAAA--GCACCTTAGCATTTTTCTGCTCCATAATTACAGCGATGCAGACAACGCGGCAGCCACCGTGGAGAGTCAACCAT---CT-CCATTTCGA

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
dp5
AACAATGTT---GGTGGATTAGGGACTATGGCATACAAGATCCCA--------AAATGAAGGTAAAACGAGTACCTGCAAACTTGCAAGACATATCTCTTAAATATCTTTCTGCTCCACAAT---AGCGATGGCG-TAACACGGCGGCAAGCCTAGAGATAAACGGGA---CT--CATCTCAGSizeHit 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
..............TGGATTAGGGACTATGGCATACA..................................................................................................................................................2318.0080100000070
..............TGGATTAGGGACTATGGCATACAAGA...............................................................................................................................................2618.0080000000260
........T---GGTGGATTAGGGACTATGGCATAC...................................................................................................................................................2512.0020000000020
..............TGGATTAGGGACTATGGCATACAAGAA..............................................................................................................................................2712.0020000000200
..............TGGATTAGGGACTATGGCATAC...................................................................................................................................................2212.0020000000020
........................................TCCCA--------AAATGAAGGTAAAACGAG................................................................................................................2311.0010100000000
...................TAGGGACTATGGCATACAAGATCCCA--------AA................................................................................................................................2811.0010000000010
........T---GGTGGATTAGGGACTATGGCATACAA.................................................................................................................................................2711.0010000000010
.......................................................................................................TATCTTTCTGCTCCACAAT---AGCGA.....................................................2411.0010100000000
........T---GGTGGATTAGGGACTATGGCATACA..................................................................................................................................................2611.0010000000010
..............TGGATTAGGGACTATGGCATACAAG................................................................................................................................................2511.0010000000010
......................................................AATGAAGGTAAAACGAGTACCTGC.........................................................................................................2411.0010100000000
........T---GGTGGATTAGGGACTATGGCATACAAG................................................................................................................................................2811.0010000000010
.......................................................................................................................AAT---AGCGATGGCG-TAACACGGC......................................2211.0010000000010
.........................................................................................................................................AACACGGCGGCAAGCCTAGAG.........................21200.0510100000000
droPer2
AACAAGGTC---GGTGGATTAGGGACTATGGCATACAAGATCCCA--------AAATGAAGGTAAAACGAGTACCTGCAAACTTGCAAGAAATATCTCTTAAATATCTTTCTGCTCCACAAT---AGGGAGGGCG-TAACACGGCGGCAAGCCTAGAGATAAACGGGA---CT--CATCTCAGSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
..........................................................................................................................................ACACGGCGGCAAGCCTAGAGA........................2140.251001000
droWil2
CTAA-TATG------------------------------------------------ACAGGGAAAGTACATACATACAT----ACAAGACATATCTCTTAAATA------------------------------------------------------------------------------SizeHit CountTotal NormTotalM020
Head		M045
Female-body		V117
Male-body		V118
Embryo		V119
Head
No Reads
droGri2
GGCAAGGTT---TGCGGACTAGTAAATAAAGATTATAAGCTCTAAGTAGCTGGAAATGAAGGTAAAAAACGCACCTGCATCCTCGCTAGAAA--ATATTTAAATATTTTTCTGCTTCATAATTTTAGCAATGCCGACAACACAGCGGTAAGCCTGGAGCTCCAGTCAG---CTAC--GGTAAGSizeHit CountTotal NormTotalM041
Female-body		V109
Male-body
...............GGACTAGTAAATAAAGATTATAAGC...............................................................................................................................................25200.05101
droAna3
GGAAGTGTT---TCTGGACTAGGGACCAGGGAGTTCAAGCTACCAGTAGCTCGCTCTTAAGGTAAAATTAGAGCCTGCATTTTAGCTAAAAA--GCACCTTAGCATATTTTTGCTCCATAATTATAGCGACGCAGAAAA--CGGCAGCTACCGTGGAGTTCCAGACGA---CT-C-TAATTCGSizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
No Reads
droBip1
GACAGGATT---CTTGGGTTAGGGGCGTCGGAGTATAGGCTCTGA--AGCCGATACAACAGGTAAAAGGCGAACCTGCATCCTCACAAAAAA--GCACCTTAGCATCTTTTTGCTACCCAATTTCAGTAATGAAGAGAACTTAGCCGCAACCATAGAGAGCCCAAATG---GCCC--TCTAAGSizeHit CountTotal NormTotal
No Reads
droKik1
AGCAATGCCATCGTCGGAATGAAGTCCGCAAATTACAATTTGCTCCCTCCACCAACGGTAAGCAGGAATAGAACCGCCTTACTTGTACGGAA--GGATCTACACACTAACCTTATGTCCCATTAAAGCTGTGATGACGA--CCGTGGTGATGCTAGAGAGA---GGGA---AA--AAGCGCATSizeHit CountTotal NormTotal
No Reads
droEle1
GCCAAGATT---TCTGGATTAGGCACTACGGAATACAAGTTATTACTTGGCACAAAAGGTGGTAAAATTCGTACCTGCATTTTAGCCAAAAC--GCACCTTAGCATTTTTCTGCTTCATAATTTTAGCAATGGAGACAGCACCGTGGCAAGTCTGGAACTACCAGCAG---CCAC--GATCAGSizeHit CountTotal NormTotal
No Reads
droRho1
GGCAGGGTT---GCTGGACTAGGAACAAAAGACTACAAGCTTATGCTTGACCCCAAACAAGGTAAAATTCGAACCTGCATTTTAGCCAAACG--GCATCTTAGTACATTTCTGCTTCGCAATTACAGCAACGGAGACAACACAGCAATAAGCCTGGAGCTGCAAAGCG---GCTC--TTTTAGSizeHit CountTotal NormTotal
No Reads
droBia1
CGA--CATC---TATGCTTTATCCACCCCCTTATACAAGCTATT-------TACACCGAGGGTGAAACCAAAATTTGCATTCTTACCAAGAC--ACACGTTAATGCATATCTCATTCCACAGTTTAGCGAAGGCGACCTCACCACCGTCAGACTGGAGATAAATGAACACACT--CATCACAGSizeHit CountTotal NormTotal
No Reads
droTak1
GGCAAGGTT---GCTGGATTGGGAACAAAAGAGTATAGCCTAT-GCTTGACCCCAAACAAGGTAAAATTCGAACCTGCATTTTAGCCAAAAG--GCTCCTAAATATATTTCTGCTTCGCAATTACAGCAACGGAGATAACACCTCAGTAAGCCTGGAGCTGCAGGACG---GCTC--CATTAGSizeHit CountTotal NormTotal
No Reads
droYak3
GGAA-GGTT---TCAGGATTAGGGACTAAGGAATATAAGCTTCTAACAGCTCCCAGCGAAGGTAAAATAAGAGCCTGGATTCTAGCCAAAAA--GCACCTTAGCATTTTTCTGCTCCATAATTACAGCGATGCAGACAACGCGGCAGCCACCGTGGAGAGTCAACCAT---CT-CCATTTCGASizeHit 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
...............................................................................................................TGCTCCATAATTACAGCGATGCAT................................................24200.9018000000000018
.........................CTAAGGAATATAAGCTTCTAACAGCTCCC.................................................................................................................................29200.7515000000000015
...............................................................................................................TGCTCCATAATTACAGCGATGCAGA...............................................25200.6513013000000000
............................AGGAATATAAGCTTCTAACAGCTCC..................................................................................................................................25200.25500000000005
.........................CTAAGGAATATAAGCTTCTAACAGC.....................................................................................................................................25200.20402200000000
..........................TAAGGAATATAAGCTTCTAACAGC.....................................................................................................................................24200.10202000000000
.....GGTT---TCAGGATTAGGGACTAAGGA.......................................................................................................................................................24200.10202000000000
...............................................................................................................TGCTCCATAATTACAGCGATGC..................................................22200.10202000000000
.........................CTAAGGAATATAAGCTTCTAACAGCT....................................................................................................................................26200.10201100000000
...............................................................................TTCTAGCCAAAAA--GCACCTTAGCATT............................................................................26110.09101000000000
..................................................................................................................................TGCAGACAACGCGGCAGCCACCGTG............................25170.06101000000000
...A-GGTT---TCAGGATTAGGGACTAAG.........................................................................................................................................................23200.05101000000000
...............................................................................................................TGCTCCATAATTACAGCGATGCA.................................................23200.05101000000000
..................TTAGGGACTAAGGAATATAAG................................................................................................................................................21200.05100000010000
........T---TCAGGATTAGGGACTAAGGAATATA..................................................................................................................................................26200.05101000000000
...............................................................................................................TGCTCCATAATTACAGCGATGCAG................................................24200.05101000000000
...........................AAGGAATATAAGCTTCTAACAGC.....................................................................................................................................23200.05101000000000
......................................................................................CAAAAA--GCACCTTAGCATTTTTCTGC.....................................................................26200.05100100000000
...............................AATATAAGCTTCTAACAGCTCCC.................................................................................................................................23200.05101000000000
...............................................................................................................TGCTCCATAATTACAGCGATGCAGAA..............................................26200.05101000000000
...............................................................................................................TGCTCCATAATTACAGCGATGCCT................................................24200.05100000000001
...................................TAAGCTTCTAACAGCTCCCAGCGT............................................................................................................................24200.05101000000000
................................................................................................................GCTCCATAATTACAGCGATGCAGA...............................................24200.05101000000000
......................................GCTTCTAACAGCTCCCAGCGAAGG.........................................................................................................................24200.05101000000000

Generated: 05/17/2015 at 11:32 PM