ID:

dps_988

 Coordinate:

3:2972231-2972287 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-3.6 -3.5 -3.3

Flybase annnotation

CDS [Dpse\GA24663-cds]; CDS [Dpse\GA24663-cds]; exon [dpse_GLEANR_15220:2]; exon [dpse_GLEANR_15220:1]; intron [Dpse\GA24663-in]

No Repeatable elements found

mature
  1. dps_988  3:2972244-2972264 +
  2. 3:2974373-2974393 -
  3. XR_group6:7576346-7576366 +
star

Sense Strand Reads

##################################################---------------------------------------------------------##################################################
GCTCATTCATACGACGCCGAATCAAACGCTGGGCTACAGCTTCGAGACGAGTAAGTGAATCAGTATATAATTGTGGACACATTTTAAAAATATTTCTTCTTTCACAGAGGACCTATGTATCGTAAGCTTCGCCACAAACGAAGTCGTATCCGATTTC
**************************************************....(((((..(((((......(((....))).......)))))......)))))..************************************************** 		Read size # Mismatch Hit Count Total Norm Total SRR902011
testis
 V112
male body
......................................................................................................CACAGAGGACCTATGTATCG................................... 20 0 1 1.00 1 0 1
...................................................................................................TTTCACAGAGGACCTATGTAT..................................... 21 0 1 1.00 1 1 0
...............................................................TATATAATTGTGGACACATTT......................................................................... 21 0 3 0.67 2 2 0
..................GAATCAAACGCTGGGCTACAG...................................................................................................................... 21 0 2 0.50 1 1 0
........ATACGACGCCGAATCAAACGC................................................................................................................................ 21 0 3 0.33 1 1 0
.............................TGGGCTACAGCTTCGAGACGAG.......................................................................................................... 22 0 3 0.33 1 1 0
..................................TACAGCTTCGAGACGAGTAAG...................................................................................................... 21 0 3 0.33 1 1 0
.............................................................AGTATATAATTGTGGACACAT........................................................................... 21 0 3 0.33 1 1 0
.............................TGGGCTACAGCTTCGAGACGA........................................................................................................... 21 0 3 0.33 1 1 0
..........................................................ATCAGTATATAATTGTGGAC............................................................................... 20 0 14 0.07 1 1 0
..............CGCCGAATCAAACGCTGGG............................................................................................................................ 19 0 14 0.07 1 1 0
.......................................................TGAATCAGTATATAATTGTGG................................................................................. 21 0 20 0.05 1 1 0

Anti-sense strand reads

CGAGTAAGTATGCTGCGGCTTAGTTTGCGACCCGATGTCGAAGCTCTGCTCATTCACTTAGTCATATATTAACACCTGTGTAAAATTTTTATAAAGAAGAAAGTGTCTCCTGGATACATAGCATTCGAAGCGGTGTTTGCTTCAGCATAGGCTAAAG
**************************************************....(((((..(((((......(((....))).......)))))......)))))..************************************************** 		Read size # Mismatch Hit Count Total Norm Total SRR902011
testis
 M040
female body
 GSM444067
head
 V112
male body
.............................................................................GTGTAAAATTTTTATAAAGAA........................................................... 21 0 2 0.50 1 1 0 0 0
.GAGTAAGTATGCTGCGGCTTA....................................................................................................................................... 21 0 2 0.50 1 0 0 1 0
........................................................................................................................GCATTCGAAGCGGTGTTTGCT................ 21 0 2 0.50 1 0 1 0 0
..................................ATGTCGAAGCTCTGCTCATTC...................................................................................................... 21 0 3 0.33 1 1 0 0 0
................................CGATGTCGAAGCTCTGCTC.......................................................................................................... 19 0 3 0.33 1 1 0 0 0
...............................CCGATGTCGAAGCTCTGCT........................................................................................................... 19 0 3 0.33 1 1 0 0 0
....................................GTCGAAGCTCTGCTCATTCA..................................................................................................... 20 0 5 0.20 1 1 0 0 0
........................TTGCGACCCGATGTCGGAACTC............................................................................................................... 22 2 9 0.11 1 0 1 0 0
.GGGTAAGTATGGTGCGGCTTA....................................................................................................................................... 21 2 16 0.06 1 0 0 0 1

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
dp5 3:2972181-2972337 + dps_988 GCTCATTCATACGACGCCGAATCAAACGCTGGGCTACAGCTTCGAGACGAGTAAGTGAATCAGTATATAATTGTG-------GACACATTTTAAAAATAT-T-TCTTCTTTCACAGAGGACCTATGTATCGTAAGCTTCGCCACAAACGAAGTCGTATCCGAT------TTC
droPer2 scaffold_2:3162649-3162805 + GCCCATTCATACGACGCCGAATCAAACGCTGGGCTACAGCTTCGAGACGAGTAAGTGAATCAGTATATAATTGTG-------GACACATTTAAAAAATAT-T-TTTTCTTTCACAGAGGACCTATGTATCGTAAGCTTCGCCACAAACGAAGTCGTATCCGAT------TTC
droKik1 scf7180000302472:1879652-1879665 + A--------------------------------------------------------------------------------------------------------------------------------------------------CGGAGTCCTATCC------------
droFic1 scf7180000454076:109529-109557 - -----------------------------------------------------------------------------------------------------------------------------------------------CAAACGGAAGCGTATCCCAGCATCACTCC
droEle1 scf7180000491186:2533027-2533040 + A--------------------------------------------------------------------------------------------------------------------------------------------------CGGAATCGTATCC------------
droRho1 scf7180000777283:2223-2236 - A--------------------------------------------------------------------------------------------------------------------------------------------------CGGAATCGTATCC------------
droBia1 scf7180000302408:3629370-3629392 - -----------------------------------------------------------------------------------------------------------------------------------------------CAGACGGAATCGTATCCCAG------CCC
droTak1 scf7180000415880:356792-356805 - A--------------------------------------------------------------------------------------------------------------------------------------------------CGGAGTCGTATCC------------
droSim2 2l:8938439-8938574 + GCTCA---ACACGCCGCCGGACCCAACGCTGAGCTTCAGCTTCGAGACGCGTAAGT--ACTGGCACACATATTT--ATTTTGGATATAACTTCAAAATTCCTTTTTATTACCATAGCGGACTTCT---TCACCAGCAGCGCTACGA--------------------------
droYak3 2L:11912940-11913076 + GCTCA---ACACGCCGCCAGACCCAACGCTGAGCTTCAGCTTCGAGACGCGTAAGT--ACCAGCACATATATATGCATTTTACTTATAATTATAAAATTTGT-TTTATTTGCACAGCGGACTTCT---TCACCAGCAGCGCCACGA--------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
dp5
GCTCATTCATACGACGCCGAATCAAACGCTGGGCTACAGCTTCGAGACGAGTAAGTGAATCAGTATATAATTGTG-------GACACATTTTAAAAATAT-T-TCTTCTTTCACAGAGGACCTATGTATCGTAAGCTTCGCCACAAACGAAGTCGTATCCGAT------TTCSizeHit 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
...............................................................................................................CACAGAGGACCTATGTATCG.........................................2011.0010000001000
............................................................................................................TTTCACAGAGGACCTATGTAT...........................................2111.0010000000010
...............................................................TATATAATTGTG-------GACACATTT.................................................................................2130.6720000000020
..................GAATCAAACGCTGGGCTACAG.....................................................................................................................................2120.5010000000010
........ATACGACGCCGAATCAAACGC...............................................................................................................................................2130.3310000000010
.............................TGGGCTACAGCTTCGAGACGAG.........................................................................................................................2230.3310000000010
..................................TACAGCTTCGAGACGAGTAAG.....................................................................................................................2130.3310000000010
.............................................................AGTATATAATTGTG-------GACACAT...................................................................................2130.3310000000010
.............................TGGGCTACAGCTTCGAGACGA..........................................................................................................................2130.3310000000010
..........................................................ATCAGTATATAATTGTG-------GAC.......................................................................................20140.0710000000010
..............CGCCGAATCAAACGCTGGG...........................................................................................................................................19140.0710000000010
.......................................................TGAATCAGTATATAATTGTG-------G.........................................................................................21200.0510000000010
droPer2
GCCCATTCATACGACGCCGAATCAAACGCTGGGCTACAGCTTCGAGACGAGTAAGTGAATCAGTATATAATTGTG-------GACACATTTAAAAAATAT-T-TTTTCTTTCACAGAGGACCTATGTATCGTAAGCTTCGCCACAAACGAAGTCGTATCCGAT------TTCSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
.....................................................AGTGAATCAGTATATAATTGTG-------GACA......................................................................................26140.142200000
droKik1
A--------------------------------------------------------------------------------------------------------------------------------------------------CGGAGTCCTATCC------------SizeHit CountTotal NormTotal
No Reads
droFic1
-----------------------------------------------------------------------------------------------------------------------------------------------CAAACGGAAGCGTATCCCAGCATCACTCCSizeHit CountTotal NormTotal
No Reads
droEle1
A--------------------------------------------------------------------------------------------------------------------------------------------------CGGAATCGTATCC------------SizeHit CountTotal NormTotal
No Reads
droRho1
A--------------------------------------------------------------------------------------------------------------------------------------------------CGGAATCGTATCC------------SizeHit CountTotal NormTotal
No Reads
droBia1
-----------------------------------------------------------------------------------------------------------------------------------------------CAGACGGAATCGTATCCCAG------CCCSizeHit CountTotal NormTotal
No Reads
droTak1
A--------------------------------------------------------------------------------------------------------------------------------------------------CGGAGTCGTATCC------------SizeHit CountTotal NormTotal
No Reads
droSim2
GCTCA---ACACGCCGCCGGACCCAACGCTGAGCTTCAGCTTCGAGACGCGTAAGT--ACTGGCACACATATTT--ATTTTGGATATAACTTCAAAATTCCTTTTTATTACCATAGCGGACTTCT---TCACCAGCAGCGCTACGA--------------------------SizeHit CountTotal NormTotalM023
Head		M024
Male-body		M025
Embryo		M053
Female-body		O001
Testis		O002
Head		SRR553485
Ovary		SRR553486
Ovary		SRR553487
Ovary		SRR553488
Ovary		SRR618934
Ovary		V044
Embryo		SRR902008
Ovary		SRR902009
Testis		SRR1275487
Male larvae		SRR1275485
Male prepupae		SRR1275483
Male prepupae
No Reads
droYak3
GCTCA---ACACGCCGCCAGACCCAACGCTGAGCTTCAGCTTCGAGACGCGTAAGT--ACCAGCACATATATATGCATTTTACTTATAATTATAAAATTTGT-TTTATTTGCACAGCGGACTTCT---TCACCAGCAGCGCCACGA--------------------------SizeHit 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
GCTCA---ACACGCCGCCAGAC......................................................................................................................................................1911.00100100000000
....................................................................................................................CGGACTTCT---TCACCAGCAGCGC...............................2211.00101000000000
...............GCCAGACCCAACGCTGAGCTTC.......................................................................................................................................2211.00100000010000

Generated: 05/17/2015 at 11:49 PM