ID:

dpe_1759

 Coordinate:

scaffold_5:2404639-2404789 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-27.0 -26.9 -26.8

Flybase annnotation

exon [dper_GLEANR_8302:1]; CDS [Dper\GL25738-cds]; intron [Dper\GL25738-in]

Repeatable elements

NameClassFamilyStrand
(TCC)nSimple_repeatSimple_repeat+
mature
  1. scaffold_25:577740-577762 -
  2. scaffold_0:5384624-5384646 +
  3. scaffold_6:794511-794533 -
  4. dpe_1759  scaffold_5:2404647-2404669 -
  5. scaffold_15:77477-77499 +
star

Sense Strand Reads

##################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
GGCCCTGGCGCCAACTTGGCGATGCGAACAAAACTCTTTACCGTCTTCACGTAAGTGGATCAAGATACATACCTGTACGAGTATCTATCAAAATGATATACTAGAAATATCACTGACAGGCTTGCAAACAGGCCATGAGACGTCAAATGATTTCGAAGCGCTTTGAAGTGGAGGAGGAGGAGGAGGGGGAGGATGAGCCATGCCTACTATCCGATTGTTCTATTTAGTGTGTTTTAATTCCACGATGGTTC
**************************************************....((((.(((((((((............)))))).(((...((((((.......)))))).)))((((((((....)))))).)).....((.....((((((((....))))))))....))..................))).))))************************************************** 		Read size # Mismatch Hit Count Total Norm Total V111
male body		 M042
female body
 V050
head
 V042
embryo
 V057
head
..........................................................................................................................................................................GAGGAGGAGGAGGAGGGGGAGGA.......................................................... 23 0 5 0.20 1 1 0 0 0 0
................................................................................................................................................................................GAGGAAGAGGGGGAGGAT......................................................... 18 1 9 0.11 1 0 1 0 0 0
...............................................................................................................................................................GCTTTGAAGAGGATGAGGAGC....................................................................... 21 3 9 0.11 1 1 0 0 0 0
..................................................................................................................................................ATAATTTGTAAGCGCTTTGAA.................................................................................... 21 3 10 0.10 1 0 0 1 0 0
......................................................................................................................................................................AGTGGAGGAGGAGGAGGA................................................................... 18 0 14 0.07 1 0 0 0 1 0
....................................................................................................................................................................GAAGTGGAGGAGGAGGAGT.................................................................... 19 1 15 0.07 1 1 0 0 0 0
...............................................................................................................................................................................GGAGGAAGAGGGGGAGGATA........................................................ 20 2 17 0.06 1 1 0 0 0 0
.................................................................................................................................................................................CGGAGGAGGGGGGGGATGA....................................................... 19 2 19 0.05 1 0 0 0 0 1
.................................................................................................................................................................TTTGAAGAGGATGAGGAG........................................................................ 18 2 20 0.05 1 1 0 0 0 0

Anti-sense strand reads

CCGGGACCGCGGTTGAACCGCTACGCTTGTTTTGAGAAATGGCAGAAGTGCATTCACCTAGTTCTATGTATGGACATGCTCATAGATAGTTTTACTATATGATCTTTATAGTGACTGTCCGAACGTTTGTCCGGTACTCTGCAGTTTACTAAAGCTTCGCGAAACTTCACCTCCTCCTCCTCCTCCCCCTCCTACTCGGTACGGATGATAGGCTAACAAGATAAATCACACAAAATTAAGGTGCTACCAAG
**************************************************....((((.(((((((((............)))))).(((...((((((.......)))))).)))((((((((....)))))).)).....((.....((((((((....))))))))....))..................))).))))************************************************** 		Read size # Mismatch Hit Count Total Norm Total V057
head
 M042
female body
......................................................................................................TCTTTATAGGGACTGTCATAAC............................................................................................................................... 22 3 1 1.00 1 1 0
.................................................................................................................TCTGTCCGAACGTCTGTACGGT.................................................................................................................... 22 3 2 0.50 1 1 0
...................................................................................................................................................................................................................GCCAACAAGGTAAATCACAAAAAA................ 24 3 2 0.50 1 1 0
.........................................................................................................................................................................................................CGGATGTTAGGCTAACAAG............................... 19 1 2 0.50 1 0 1
....................................................................................................................GTCCGGAAGTTTGACCGGTAC.................................................................................................................. 21 3 9 0.11 1 1 0
.................................................................................................................................................................................................................AGGCCCACAAGATAAACCA....................... 19 3 20 0.05 1 0 1

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droPer2 scaffold_5:2404589-2404839 - dpe_1759 GGCCCTGGCGCCAACTTGGCGATGCGAACAAAACTCTTTACCGTCTTCACGTAAGTGGATCAAGATACATACCTGTACGAGTATCTATCAAAATGA-TATACTAGAAATATCACTGACAGGCTTGCAAACAGGCCATGAGACGTCAAATGATTTCGAAGCGCTTTGAAGTGGAGGAGGAGGAGGAGGGGGAGGATGAGCCATGCCTACTATCCGATTGTTCTATTTAGTGTGTTTTAATTCCACGATGGTTC
dp5 4_group1:2804354-2804604 + GG-CCTGGCGCCGACTTGGCGATGCGAACAAAACTCTTTACCGTCTTCACGTAAGTGGTCCAAGATACATACCTGTACGAGTATCTATCGAAATGAATACACAAGAAATATTATTCACAGGCTTGCAAACAGGCCATGAGACGTCAAATTGTAAAGAAGCGCTAATAAATGGAGGAGGAGGAGGAGGAGGAGGAAAAGCCATGCCTACAATCCGATTGTTCCATTTAGTGTGTTTTAATTCCACGATGGTTC
droWil2 scf2_1100000007381:333-397 + GTGCCTGGTGCAGTTTATCGGAAGATAAGAAGAATCGTTATCGTCGCATGG---------CAAGAAACAAACCT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droAna3 scaffold_12916:969724-969767 + CG-CCTGGTGCCGCTTGTCCGAGGAAAAAAAGGACAAATACCGTC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droBip1 scf7180000396554:1279987-1280030 - AG-CCTGGTGCCGTTTATCAGAGGAAAAGAAAGATATATACCGCC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droFic1 scf7180000453172:71145-71188 + AG-CCTGGTGTGCTATGTCCGAGGAGAAAAAGGATCGCTACCGCC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droEle1 scf7180000489965:1210-1251 + GGTCCTGGAAACACCTGAGCGAGGAGGAAAAGAGTCGCTACC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droRho1 scf7180000779483:268370-268372 - AG-C--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droBia1 scf7180000302261:1730480-1730523 + GG-CCTGGTCCAGGCTGCCGGAGGAGAAGAAGGATCGCTACCGCC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droTak1 scf7180000413216:1263-1304 + GGTCCTGGAAACACCTGAGCGAGGAGGAAAAGAGTCGCTACC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droEug1 scf7180000409452:1447544-1447613 - GG-CCTGGTCCAGGCTCCCGGAGGAGAGAAAGGATCATTACCGCCGCATGGTAAATATATTAGAACATATA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droSim2 2l:14440241-14440249 - GG-CATGGGC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droSec2 scaffold_3:1151671-1151679 - AG-CATGGGC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droYak3 2L:14984572-14984615 - AG-CCTGGTCCAAGCTACCCGAGGAAAAAAAGGATCGATACCGCC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droEre2 scaffold_4929:6625113-6625154 - AG-CCTGGGCCAAGCTACCCGAGGAAAAAAAGGATCGCTATCG-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droPer2
GGCCCTGGCGCCAACTTGGCGATGCGAACAAAACTCTTTACCGTCTTCACGTAAGTGGATCAAGATACATACCTGTACGAGTATCTATCAAAATGA-TATACTAGAAATATCACTGACAGGCTTGCAAACAGGCCATGAGACGTCAAATGATTTCGAAGCGCTTTGAAGTGGAGGAGGAGGAGGAGGGGGAGGATGAGCCATGCCTACTATCCGATTGTTCTATTTAGTGTGTTTTAATTCCACGATGGTTCSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
...........................................................................................................................................................................GAGGAGGAGGAGGAGGGGGAGGA..........................................................2350.201000001
.......................................................................................................................................................................AGTGGAGGAGGAGGAGGA...................................................................18140.071001000
.....................................................................................................................................................................GAAGTGGAGGAGGAGGAGT....................................................................19150.071000001
dp5
GG-CCTGGCGCCGACTTGGCGATGCGAACAAAACTCTTTACCGTCTTCACGTAAGTGGTCCAAGATACATACCTGTACGAGTATCTATCGAAATGAATACACAAGAAATATTATTCACAGGCTTGCAAACAGGCCATGAGACGTCAAATTGTAAAGAAGCGCTAATAAATGGAGGAGGAGGAGGAGGAGGAGGAAAAGCCATGCCTACAATCCGATTGTTCCATTTAGTGTGTTTTAATTCCACGATGGTTCSizeHit 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
........................................................................................................................................................................ATGGAGGAGGAGGAGGAGGAGGAGGAA.........................................................2715.0050001000040
........................................................................................................................................................................ATGGAGGAGGAGGAGGAGGAGGAGGA..........................................................2661.5090001011060
.........................................................................................................................................................................TGGAGGAGGAGGAGGAGGAGGAGGAA.........................................................2620.5010000001000
..........................................................................................................................................................................GGAGGAGGAGGAGGAGGA................................................................18200.4590900000000
.................................................................................................................................................................................GAGGAGGAGGAGGAGGAA.........................................................18200.3060000060000
.............................................................................................................................................................................GGAGGAGGAGGAGGAGGAG............................................................19200.2550500000000
........................................................................................................................................................................ATGGAGGAGGAGGAGGAGGAGGAGGAT.........................................................27100.2020000002000
........................................................................................................................................................................ATGGAGGAGGAGGAGGAGGAGGAGG...........................................................25130.0810000000010
........................................................................................................................................................................ATGGAGGAGGAGGAGGAGGAGGAG............................................................24130.0810000001000
..........................................................................................................................................................................GGAGGAGGAGGAGGAGGAGGAGGAA.........................................................25170.0610000000010
...........................................................................................................................................................................GAGGAGGAGGAGGAGGAGGAGG...........................................................22200.0510000010000
........................................................................................................................................................................ATGGAGGAGGAGGAGGAGG.................................................................19200.0510000001000
..............................................................................................................................................................................GAGGAGGAGGAGGAGGAGGAA.........................................................21200.0510100000000
..........................................................................................................................................................................GGAGGAGGAGGAGGAGGAGGA.............................................................21200.0510000000001
droWil2
GTGCCTGGTGCAGTTTATCGGAAGATAAGAAGAATCGTTATCGTCGCATGG---------CAAGAAACAAACCT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotalM020
Head		M045
Female-body		V117
Male-body		V118
Embryo		V119
Head
.......GTGCAGTTTATCGGAAGATA.................................................................................................................................................................................................................................2090.11100100
.TGCCTGGTGCAGTTTATCGGAAGATAAG...............................................................................................................................................................................................................................2890.11100100
droAna3
CG-CCTGGTGCCGCTTGTCCGAGGAAAAAAAGGACAAATACCGTC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
No Reads
droBip1
AG-CCTGGTGCCGTTTATCAGAGGAAAAGAAAGATATATACCGCC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droFic1
AG-CCTGGTGTGCTATGTCCGAGGAGAAAAAGGATCGCTACCGCC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droEle1
GGTCCTGGAAACACCTGAGCGAGGAGGAAAAGAGTCGCTACC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droRho1
AG-C--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droBia1
GG-CCTGGTCCAGGCTGCCGGAGGAGAAGAAGGATCGCTACCGCC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droTak1
GGTCCTGGAAACACCTGAGCGAGGAGGAAAAGAGTCGCTACC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droEug1
GG-CCTGGTCCAGGCTCCCGGAGGAGAGAAAGGATCATTACCGCCGCATGGTAAATATATTAGAACATATA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droSim2
GG-CATGGGC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------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
droSec2
AG-CATGGGC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotalM054
Female-body		V113
Male-body		V114
Embryo		V115
Head
No Reads
droYak3
AG-CCTGGTCCAAGCTACCCGAGGAAAAAAAGGATCGATACCGCC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------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
No Reads
droEre2
AG-CCTGGGCCAAGCTACCCGAGGAAAAAAAGGATCGCTATCG-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotalM055
Female-body		M057
Embryo		V060
Head		V040
Embryo		V107
Male-body		V108
Head		GSM1528801
follicle cells
No Reads

Generated: 06/08/2015 at 04:39 PM