ID:

dps_1392

 Coordinate:

4_group1:3251051-3251265 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-22.3 -22.2 -22.1 -21.8

Flybase annnotation

exon [dpse_GLEANR_16990:2]; exon [dpse_GLEANR_16990:3]; CDS [Dpse\GA25430-cds]; CDS [Dpse\GA25430-cds]; intron [Dpse\GA25430-in]

Repeatable elements

NameClassFamilyStrand
AT_richLow_complexityLow_complexity+
mature
  1. dps_1392  4_group1:3251057-3251077 +
  2. 4_group1:3253464-3253484 -
star

Sense Strand Reads

##################################################-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##################################################
TTGTTCTGCCCAACCGTAGTCATTTCGTCCTGTGGGTCCAGGCGGATTCTGTAAGGAGGCATTGGTAGTACGGCATCGTCGGGGTTTTTCGTCTCGACAACGGTTGCCCACAAATGCCTTTGACCTTGGGCGACTCGGACCACTCCGATTAGCACAGAACAAAAAATGTTTGCCTAGTTTCGATCTTCTGTTTGGTTTAAGGTGACTACTCTATTATTTATTATAAAAATAATAAGATTAAAGCCATTTTTTTTATATTTTCCAGAACTTCTACGTGTGGGCCTTGTGGATCGTGCCCTCCCATCTGCTGTGGAA
********************************************************.....................(((.(((....(((.((((((((.(((...........))).)))...))))))))))).)))******************************************************************************************************************************************************************************* 		Read size # Mismatch Hit Count Total Norm Total SRR902011
testis
 M040
female body
 V112
male body		 M022
male body		 M059
embryo
 SRR902010
ovaries
 GSM343916
embryo
........................................................AGGCATTGGTAGTACGGCATC.............................................................................................................................................................................................................................................. 21 0 2 6.50 13 13 0 0 0 0 0 0
......................................CAGGCGGATTCTGTAAGGAGG................................................................................................................................................................................................................................................................ 21 0 1 3.00 3 3 0 0 0 0 0 0
.......................................AGGCGGATTCTGTAAGGAGGC............................................................................................................................................................................................................................................................... 21 0 1 3.00 3 3 0 0 0 0 0 0
..........................................CGGATTCTGTAAGGAGGCAT............................................................................................................................................................................................................................................................. 20 0 1 2.00 2 2 0 0 0 0 0 0
.......................................................GAGGCATTGGTAGTACGGC................................................................................................................................................................................................................................................. 19 0 2 2.00 4 3 1 0 0 0 0 0
..........................................CGGATTCTGTAAGGAGGCATTC........................................................................................................................................................................................................................................................... 22 1 1 2.00 2 2 0 0 0 0 0 0
......................................................................CGGCATCGTCGGGGTTTTTCG................................................................................................................................................................................................................................ 21 0 2 1.50 3 3 0 0 0 0 0 0
.............................................ATTCTGTAAGGAGGCATTGG.......................................................................................................................................................................................................................................................... 20 0 1 1.00 1 1 0 0 0 0 0 0
.............................................................TTGGTAGTACGGCATCGTCGG......................................................................................................................................................................................................................................... 21 0 2 1.00 2 2 0 0 0 0 0 0
.......................................................................................................................TTGACCTTGGGCGACTCGGAC............................................................................................................................................................................... 21 0 1 1.00 1 0 1 0 0 0 0 0
..............................................................................................................................................................................TAGTTTCGATCTTCTGTTTGG........................................................................................................................ 21 0 1 1.00 1 1 0 0 0 0 0 0
.......................................................................................................TTGTCTACAAGTGCCTTTGACC.............................................................................................................................................................................................. 22 3 1 1.00 1 0 0 0 0 1 0 0
............................CCTGGGGGTGCGGGCGGATTC.......................................................................................................................................................................................................................................................................... 21 3 3 1.00 3 0 3 0 0 0 0 0
.......................................................................................................................TTGACCTTGGGCGACTCGGT................................................................................................................................................................................ 20 1 1 1.00 1 0 0 1 0 0 0 0
........................................GGCGGATTCTGTAAGGAGGCA.............................................................................................................................................................................................................................................................. 21 0 1 1.00 1 1 0 0 0 0 0 0
......................................................................................................................................................................................................................................................................AAGAACTTCTACGTGTGGGCC................................ 21 1 1 1.00 1 0 0 0 1 0 0 0
.............................CTGGGGGTGCGGGCGGATTC.......................................................................................................................................................................................................................................................................... 20 3 13 1.00 13 0 13 0 0 0 0 0
.......................................................................................................................................................................................TCTTCTGTTTGGTTTAAG.................................................................................................................. 18 0 1 1.00 1 0 0 0 0 0 1 0
......................................CAGGCGGATTCTGTAAGGAGGT............................................................................................................................................................................................................................................................... 22 1 1 1.00 1 1 0 0 0 0 0 0
.........................................GCGGATTCTGTAAGGAGGAAA............................................................................................................................................................................................................................................................. 21 2 1 1.00 1 1 0 0 0 0 0 0
.......................................................................................................TTGTCTACAAGTGCCTTTGACCT............................................................................................................................................................................................. 23 3 1 1.00 1 0 1 0 0 0 0 0
............................CCTGGGGGTGCGGGCGGATT........................................................................................................................................................................................................................................................................... 20 3 10 0.80 8 0 6 2 0 0 0 0
...............................................................GGTAGTACGGCATCGT............................................................................................................................................................................................................................................ 16 0 2 0.50 1 1 0 0 0 0 0 0
.....................................................AGGAGGCATTGGTAGTACGGCATCG............................................................................................................................................................................................................................................. 25 0 2 0.50 1 1 0 0 0 0 0 0
........................................................AGGCATTGGTAGTACGGCATG.............................................................................................................................................................................................................................................. 21 1 2 0.50 1 1 0 0 0 0 0 0
.....................................................................ACGGCATCGTCGGGGTTTTTCTCTT............................................................................................................................................................................................................................. 25 3 2 0.50 1 1 0 0 0 0 0 0
...............................................................................CGGGGTTTTTCGTCTCGACAACGGTT.................................................................................................................................................................................................................. 26 0 2 0.50 1 0 1 0 0 0 0 0
............................CCTGGGGGTGCGGGCGGATTCT......................................................................................................................................................................................................................................................................... 22 3 2 0.50 1 0 0 1 0 0 0 0
.......................................................................................................................................................................................................................................................................................GGCCTTGTGGATCGTGCCCTC............... 21 0 2 0.50 1 0 1 0 0 0 0 0
....................................................................TACGGCATCGTCGGGGTTTTTCGTC.............................................................................................................................................................................................................................. 25 0 2 0.50 1 1 0 0 0 0 0 0
...................................................TGAGGAGGCATTGGTAGTAC.................................................................................................................................................................................................................................................... 20 1 2 0.50 1 0 1 0 0 0 0 0
............................................................................................................................CTTGGGCGACTCGGACCACTC.......................................................................................................................................................................... 21 0 2 0.50 1 0 1 0 0 0 0 0
....................................................................TACGGCATCGTCGGGGTTTTT.................................................................................................................................................................................................................................. 21 0 2 0.50 1 1 0 0 0 0 0 0
........................TCGTCCTGTGGGTCCAGGCGG.............................................................................................................................................................................................................................................................................. 21 0 2 0.50 1 0 1 0 0 0 0 0
.......................................................GAGGCATTGGTAGTACGGCAT............................................................................................................................................................................................................................................... 21 0 2 0.50 1 1 0 0 0 0 0 0
..........................................................................................GTCTCGACAACGGTTGCCCAC............................................................................................................................................................................................................ 21 0 2 0.50 1 0 1 0 0 0 0 0
..................................................................................GGTTTTTCGTCTCGACAACG..................................................................................................................................................................................................................... 20 0 2 0.50 1 1 0 0 0 0 0 0
......................................................GGAGGCATTGGTAGTACGGC................................................................................................................................................................................................................................................. 20 0 2 0.50 1 0 1 0 0 0 0 0
..................................................................................................................................................................................................................................................................................GTGTGGGCCTTGTGGATCG...................... 19 0 2 0.50 1 0 1 0 0 0 0 0
....................................................AAGGAGGATTTGGTAGTA..................................................................................................................................................................................................................................................... 18 2 3 0.33 1 0 0 0 0 0 0 1
................................................................GTGGTGCGGCGTCGTCGGGGT...................................................................................................................................................................................................................................... 21 3 9 0.11 1 0 1 0 0 0 0 0
.......................................................GAGGCATTGGTATTACGA.................................................................................................................................................................................................................................................. 18 2 10 0.10 1 0 0 0 0 0 0 1
..........................................................................................................................................................................................TCTAGTTGGTTTAAGGGGA.............................................................................................................. 19 3 16 0.06 1 0 1 0 0 0 0 0
..................................................................................................................................................................................................................................................................................GTGTTGGCCTTCGGGATCG...................... 19 3 20 0.05 1 0 1 0 0 0 0 0

Anti-sense strand reads

AACAAGACGGGTTGGCATCAGTAAAGCAGGACACCCAGGTCCGCCTAAGACATTCCTCCGTAACCATCATGCCGTAGCAGCCCCAAAAAGCAGAGCTGTTGCCAACGGGTGTTTACGGAAACTGGAACCCGCTGAGCCTGGTGAGGCTAATCGTGTCTTGTTTTTTACAAACGGATCAAAGCTAGAAGACAAACCAAATTCCACTGATGAGATAATAAATAATATTTTTATTATTCTAATTTCGGTAAAAAAAATATAAAAGGTCTTGAAGATGCACACCCGGAACACCTAGCACGGGAGGGTAGACGACACCTT
*******************************************************************************************************************************************************************************.....................(((.(((....(((.((((((((.(((...........))).)))...))))))))))).)))******************************************************** 		Read size # Mismatch Hit Count Total Norm Total M040
female body
 SRR902011
testis
 V112
male body		 GSM444067
head
 GSM343916
embryo
...........TTGGCATCAGTAAAGCAGGAC........................................................................................................................................................................................................................................................................................... 21 0 1 2.00 2 0 2 0 0 0
.................................CCCAGGTCCGCCTAAGACA....................................................................................................................................................................................................................................................................... 19 0 1 1.00 1 1 0 0 0 0
..CAAGACGGGTTGGCATCAGTA.................................................................................................................................................................................................................................................................................................... 21 0 2 0.50 1 0 0 1 0 0
...............................................................................GCCCCAAAAAGCAGAGCTGTT....................................................................................................................................................................................................................... 21 0 2 0.50 1 0 1 0 0 0
..............................................................................TGCCCCAAAAAGCAGAGCTGTT....................................................................................................................................................................................................................... 22 1 2 0.50 1 0 1 0 0 0
.......................................................................................................................................................................................................................................................................................CCGGAACACCTAGCACGGGAG............... 21 0 2 0.50 1 1 0 0 0 0
...........................................................................................................GGTGTTTACGGAAACAGGAAC........................................................................................................................................................................................... 21 1 2 0.50 1 0 1 0 0 0
.........................................................CCGTAACCATCATGCCGTA............................................................................................................................................................................................................................................... 19 0 2 0.50 1 1 0 0 0 0
.........................GCAGGACACCCAGGTCCGCCT............................................................................................................................................................................................................................................................................. 21 0 2 0.50 1 1 0 0 0 0
.................................................................................................................................................................................................................................................................................GCACACCCGGAACACCTAGCAC.................... 22 0 2 0.50 1 1 0 0 0 0
....AGACGGGTTGGCATCAGT..................................................................................................................................................................................................................................................................................................... 18 0 2 0.50 1 1 0 0 0 0
..CAAGACGGGTTGGCATCAGT..................................................................................................................................................................................................................................................................................................... 20 0 2 0.50 1 0 1 0 0 0
................................................................................................................................CCGCTGAGCCTGGTGAGGC........................................................................................................................................................................ 19 0 2 0.50 1 1 0 0 0 0
............TGGGGTCAGTAAAGCAGGAG........................................................................................................................................................................................................................................................................................... 20 3 3 0.33 1 1 0 0 0 0
..............................................................................................................GTTTACGGAAAGTGGAAC........................................................................................................................................................................................... 18 1 3 0.33 1 0 0 1 0 0
....................................................TTCCTTCGGAACGATCATG.................................................................................................................................................................................................................................................... 19 3 3 0.33 1 1 0 0 0 0
...............................................................CCATCATACCCTAGCAGC.......................................................................................................................................................................................................................................... 18 2 3 0.33 1 1 0 0 0 0
................................................................................................................................................................................................................................................................................AGCACGCCCGGAACACCTA........................ 19 2 3 0.33 1 1 0 0 0 0
.......................................................................CCGTTGCACCCCCAAAAAG................................................................................................................................................................................................................................. 19 2 3 0.33 1 1 0 0 0 0
..............................................................ACCATAATGGCCTAGCAGCC......................................................................................................................................................................................................................................... 20 3 4 0.25 1 1 0 0 0 0
..............................................................................................GCTGTTACCAACGGGTGGTTG........................................................................................................................................................................................................ 21 3 4 0.25 1 1 0 0 0 0
.............................................................................................................................................................................................................................................................ATACAAAAGGTCATGTAGATG......................................... 21 3 4 0.25 1 0 0 0 1 0
...............................................................................................CGGTTACCAACGGGTGGTTAC....................................................................................................................................................................................................... 21 3 5 0.20 1 1 0 0 0 0
...............................................................................................CGGTTACCAACGGGTGTTTGC....................................................................................................................................................................................................... 21 3 6 0.17 1 1 0 0 0 0
..............................................................................................GCGGTTACCAACGGGTGTTTG........................................................................................................................................................................................................ 21 3 8 0.13 1 1 0 0 0 0
................................................................................................................................................................................................ACCAAATTCGATTGATGAC........................................................................................................ 19 3 9 0.11 1 0 0 0 0 1
..................................................................................................................................................................................................................................................................................................AGTACGGGAGGGAAGACG....... 18 2 11 0.09 1 1 0 0 0 0
...............CTTCAGTAAAGCAGGCCTC......................................................................................................................................................................................................................................................................................... 19 3 14 0.07 1 1 0 0 0 0
...............................................................................................CTGTTACCAACGGGTGGTTG........................................................................................................................................................................................................ 20 3 14 0.07 1 1 0 0 0 0
...............................................................................................CGGTTACCAACGGGTGATT......................................................................................................................................................................................................... 19 3 20 0.05 1 1 0 0 0 0
........................................................................................................ACGGGTGTTATCGGGAACT................................................................................................................................................................................................ 19 3 20 0.05 1 0 0 0 0 1
........................................................................................................................................................................................................................................................AAAAAATCGCAAAGGTCTTG............................................... 20 3 20 0.05 1 1 0 0 0 0
.......................................................................................AAGCCGCGCTTTTGCCAAC................................................................................................................................................................................................................. 19 3 20 0.05 1 1 0 0 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
dp5 4_group1:3251001-3251315 + dps_1392 TTGTTCTGCCCAACCGTAGTCATTTCGTCCTGTGGGTCCAGGCGGATTCTGTAAGGAGGCATTGGTAGTACGGCATCGTCGGGGTTTTTCGTCTCGACAACGGTTGCCCACAAATGCCTTTGACCTTGGGCGACTCGGACCACTCCGATTAGCACAGAACAAAAAATGTTTGCCTAGTTTCGATCTTCTGTTTGGTTTAAGGTGACTACTCTATTATTTATTATAAAAATAATAAGATTAAAGCCATTTTTTTTATATTTTCCAGAACTTCTACGTGTGGGCCTTGTGGATCGTGCCCTCCCATCTGCTGTGGAA
droPer2 scaffold_5:1969078-1969390 + TTGTTCTGCCCAACCGTAGTCATATCGTCCTGTGGGTCCAGGCGGATTCTGTGAGGAGGCATTGGTAGTACGGCATCGTCGGGGTTTTTCGTCTCGACAACGGTTGCCCACAAATGCCTTTGTCCTTGGGCGACTCGGACCACTCCGAATAGCACAGAACAAAAAATGTTTGCCTAGTTTCGATCTTCTGTTTGGTTTAAGGTGACTACTCTATTATTTATTATAAAAATAATAAGATTAAAGCCATTT--TTTATATTTTCCAGAACTTCTACGTGTGGGCCTTGTGGATCGTGCCCTCCCATCTGCTGTGGAA

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
dp5
TTGTTCTGCCCAACCGTAGTCATTTCGTCCTGTGGGTCCAGGCGGATTCTGTAAGGAGGCATTGGTAGTACGGCATCGTCGGGGTTTTTCGTCTCGACAACGGTTGCCCACAAATGCCTTTGACCTTGGGCGACTCGGACCACTCCGATTAGCACAGAACAAAAAATGTTTGCCTAGTTTCGATCTTCTGTTTGGTTTAAGGTGACTACTCTATTATTTATTATAAAAATAATAAGATTAAAGCCATTTTTTTTATATTTTCCAGAACTTCTACGTGTGGGCCTTGTGGATCGTGCCCTCCCATCTGCTGTGGAASizeHit 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
........................................................AGGCATTGGTAGTACGGCATC..............................................................................................................................................................................................................................................2126.501300000000130
......................................CAGGCGGATTCTGTAAGGAGG................................................................................................................................................................................................................................................................2113.0030000000030
.......................................AGGCGGATTCTGTAAGGAGGC...............................................................................................................................................................................................................................................................2113.0030000000030
..........................................CGGATTCTGTAAGGAGGCAT.............................................................................................................................................................................................................................................................2012.0020000000020
.......................................................GAGGCATTGGTAGTACGGC.................................................................................................................................................................................................................................................1922.0040100000030
..........................................CGGATTCTGTAAGGAGGCATTC...........................................................................................................................................................................................................................................................2212.0020000000020
......................................................................CGGCATCGTCGGGGTTTTTCG................................................................................................................................................................................................................................2121.5030000000030
.............................................ATTCTGTAAGGAGGCATTGG..........................................................................................................................................................................................................................................................2011.0010000000010
.............................................................TTGGTAGTACGGCATCGTCGG.........................................................................................................................................................................................................................................2121.0020000000020
.......................................................................................................................TTGACCTTGGGCGACTCGGAC...............................................................................................................................................................................2111.0010100000000
..............................................................................................................................................................................TAGTTTCGATCTTCTGTTTGG........................................................................................................................2111.0010000000010
.......................................................................................................................TTGACCTTGGGCGACTCGGT................................................................................................................................................................................2011.0010000001000
........................................GGCGGATTCTGTAAGGAGGCA..............................................................................................................................................................................................................................................................2111.0010000000010
.......................................................................................................................................................................................TCTTCTGTTTGGTTTAAG..................................................................................................................1811.0010000000100
......................................CAGGCGGATTCTGTAAGGAGGT...............................................................................................................................................................................................................................................................2211.0010000000010
...............................................................GGTAGTACGGCATCGT............................................................................................................................................................................................................................................1620.5010000000010
.....................................................AGGAGGCATTGGTAGTACGGCATCG.............................................................................................................................................................................................................................................2520.5010000000010
........................................................AGGCATTGGTAGTACGGCATG..............................................................................................................................................................................................................................................2120.5010000000010
...............................................................................CGGGGTTTTTCGTCTCGACAACGGTT..................................................................................................................................................................................................................2620.5010100000000
.......................................................................................................................................................................................................................................................................................GGCCTTGTGGATCGTGCCCTC...............2120.5010100000000
....................................................................TACGGCATCGTCGGGGTTTTTCGTC..............................................................................................................................................................................................................................2520.5010000000010
............................................................................................................................CTTGGGCGACTCGGACCACTC..........................................................................................................................................................................2120.5010100000000
....................................................................TACGGCATCGTCGGGGTTTTT..................................................................................................................................................................................................................................2120.5010000000010
........................TCGTCCTGTGGGTCCAGGCGG..............................................................................................................................................................................................................................................................................2120.5010100000000
.......................................................GAGGCATTGGTAGTACGGCAT...............................................................................................................................................................................................................................................2120.5010000000010
..........................................................................................GTCTCGACAACGGTTGCCCAC............................................................................................................................................................................................................2120.5010100000000
..................................................................................GGTTTTTCGTCTCGACAACG.....................................................................................................................................................................................................................2020.5010000000010
......................................................GGAGGCATTGGTAGTACGGC.................................................................................................................................................................................................................................................2020.5010100000000
..................................................................................................................................................................................................................................................................................GTGTGGGCCTTGTGGATCG......................1920.5010100000000
droPer2
TTGTTCTGCCCAACCGTAGTCATATCGTCCTGTGGGTCCAGGCGGATTCTGTGAGGAGGCATTGGTAGTACGGCATCGTCGGGGTTTTTCGTCTCGACAACGGTTGCCCACAAATGCCTTTGTCCTTGGGCGACTCGGACCACTCCGAATAGCACAGAACAAAAAATGTTTGCCTAGTTTCGATCTTCTGTTTGGTTTAAGGTGACTACTCTATTATTTATTATAAAAATAATAAGATTAAAGCCATTT--TTTATATTTTCCAGAACTTCTACGTGTGGGCCTTGTGGATCGTGCCCTCCCATCTGCTGTGGAASizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
......................................CAGGCGGATTCTGTGAGGA..................................................................................................................................................................................................................................................................1911.001000001
...................................................TGAGGAGGCATTGGTAGTAC....................................................................................................................................................................................................................................................2011.001000001
.................................................................TAGTACGGCATCGTCGGGGTT.....................................................................................................................................................................................................................................2120.501000001
...................TCATATCGTCCTGTGGGTCCAGGCG...............................................................................................................................................................................................................................................................................2520.501000001

Generated: 05/18/2015 at 12:37 AM