ID:

dps_1647

Coordinate:

4_group4:179-329 -

Confidence:

Candidate

Type:

Unknown

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

Predicted structure

-36.7 -36.6 -36.6

Flybase annnotation

CDS [Dpse\GA28927-cds]; exon [dpse_GLEANR_9231:2]; intron [Dpse\GA28927-in]

No Repeatable elements found

mature
  1. 2:6715924-6715944 -
  2. dps_1436  4_group1:5217922-5217942 +
  3. dps_1647  4_group4:285-305 -
star

Sense Strand Reads

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##################################################
TTAGCTGGACTGGGGCAGGCATCATGCCGCTGCACGGTCGCTGAGACGACAATGTGATGTCTCGTCCGTTGCAGCAGGGACCAGTGATTGACGGCGGAAATATTGGTTCAGCCGAATCAAACACTAGGATTCAGCTTCAATGCGCGTAAGTGAATCATTATATAAGTGTGGATAACTTTTAAAATATATCTTCCTTCACAGAGTACCTATGTACCCTACGCTTTGCCACAAGACGAGTCGTATCCGATGTC
**************************************************.((((((((...(((.(((((.(((..(((((((((.((((((((.(((.......))).))))..)))).)))).)).))).))).))))).))).........))))))))..(((.(((...................)))..)))..**************************************************
Read size # Mismatch Hit Count Total Norm Total M040
female body
SRR902011
testis
V112
male body
M062
head
GSM444067
head
...........................................................................................................TCAGCCAAATCAAACTCTAGA........................................................................................................................... 21 3 7 15.57 109 103 0 6 0 0
...........................................................................................................TCAGCCAAATCAAACTCTAG............................................................................................................................ 20 2 3 15.33 46 46 0 0 0 0
..........................................................................................................CTCAGCCAAATCAAACTCTAG............................................................................................................................ 21 3 9 11.11 100 98 0 2 0 0
............................................................................................................CAGCCAAATCAAACTCTAGAA.......................................................................................................................... 21 3 13 2.31 30 30 0 0 0 0
.............................................................................................................AGCCAAATCAAACTCTAGAA.......................................................................................................................... 20 3 20 1.65 33 33 0 0 0 0
...........................................................................................................TCAGCCAAATCAAACTCTAGAA.......................................................................................................................... 22 3 4 1.50 6 6 0 0 0 0
..........................................................................................ACGGCGGTAACATGGGTTC.............................................................................................................................................. 19 3 8 1.00 8 6 0 2 0 0
..........................................................................CAGGGACCAGTGATTGACGGC............................................................................................................................................................ 21 0 3 1.00 3 0 3 0 0 0
...........................................................................AGGGACCAGTGATTGACGGC............................................................................................................................................................ 20 0 3 0.67 2 0 2 0 0 0
...........................................................................................................TCAGCCAAATCAAACACTAG............................................................................................................................ 20 1 2 0.50 1 1 0 0 0 0
.................................................................................................................................................................................................................................CCACAAGACGAGTCGTATCCGA.... 22 0 2 0.50 1 0 0 0 0 1
...............................................................GTACGTTGCAGCAGGGACC......................................................................................................................................................................... 19 1 2 0.50 1 0 0 0 1 0
.....TGGACTGGGGCAGGCATC.................................................................................................................................................................................................................................... 18 0 2 0.50 1 0 1 0 0 0
....................ATCATGCCGCTGCACGGTCGCTGA............................................................................................................................................................................................................... 24 0 2 0.50 1 1 0 0 0 0
........................................................................................TGAAGGCGGAAATATTGTTT............................................................................................................................................... 20 2 2 0.50 1 0 1 0 0 0
....CTGGACTGGGGCAGGCATCATGCC............................................................................................................................................................................................................................... 24 0 2 0.50 1 1 0 0 0 0
.......GACTGGTTCAGGCATCATTCCG.............................................................................................................................................................................................................................. 22 3 2 0.50 1 1 0 0 0 0
.............................................................................................GCGGAAATATTGGTTCAGCCCA........................................................................................................................................ 22 1 2 0.50 1 1 0 0 0 0
....CTGGACTGGGGCAGGCATC.................................................................................................................................................................................................................................... 19 0 2 0.50 1 0 1 0 0 0
.....TGGACTGGGGCAGGCATCATG................................................................................................................................................................................................................................. 21 0 2 0.50 1 0 1 0 0 0
....................................................................................TGATTGACGGCGGAAATATTGG................................................................................................................................................. 22 0 2 0.50 1 0 1 0 0 0
............................................................................................................................TAAGATTCAGCATCAATTCGC.......................................................................................................... 21 3 2 0.50 1 1 0 0 0 0
............................................................................................................CAGCCAAATCAAACTCTAGG........................................................................................................................... 20 2 3 0.33 1 1 0 0 0 0
.............................................................................GGACCAGTGATTGACGGCGG.......................................................................................................................................................... 20 0 3 0.33 1 1 0 0 0 0
..........................................................................................................ATCAGCCAAATCAAACTCTAG............................................................................................................................ 21 3 5 0.20 1 1 0 0 0 0
..................................................................................................................................................................................................................................CACAGGACGGGTCGTGTCCGA.... 21 3 6 0.17 1 1 0 0 0 0
............................................................................................................CAGCCAAATCAAACTCTAG............................................................................................................................ 19 2 7 0.14 1 1 0 0 0 0
...........................................................................................................TCAGCCAAATCAAACTCTA............................................................................................................................. 19 2 7 0.14 1 1 0 0 0 0
...........................................................................................................TCAGCCAAATCAAACTCTAGC........................................................................................................................... 21 3 8 0.13 1 1 0 0 0 0
............................................................................................................CAGCCAAATCAAACTCTAGCA.......................................................................................................................... 21 3 8 0.13 1 1 0 0 0 0
.............................................................................GTACCGGTGATTGACGCC............................................................................................................................................................ 18 3 20 0.05 1 1 0 0 0 0

Anti-sense strand reads

AATCGACCTGACCCCGTCCGTAGTACGGCGACGTGCCAGCGACTCTGCTGTTACACTACAGAGCAGGCAACGTCGTCCCTGGTCACTAACTGCCGCCTTTATAACCAAGTCGGCTTAGTTTGTGATCCTAAGTCGAAGTTACGCGCATTCACTTAGTAATATATTCACACCTATTGAAAATTTTATATAGAAGGAAGTGTCTCATGGATACATGGGATGCGAAACGGTGTTCTGCTCAGCATAGGCTACAG
**************************************************.((((((((...(((.(((((.(((..(((((((((.((((((((.(((.......))).))))..)))).)))).)).))).))).))))).))).........))))))))..(((.(((...................)))..)))..**************************************************
Read size # Mismatch Hit Count Total Norm Total M040
female body
V112
male body
M022
male body
SRR902011
testis
M059
embryo
GSM444067
head
............................................................................................................GTCGGTTTAGTTTGAGATCTT.......................................................................................................................... 21 3 13 107.46 1397 1297 84 16 0 0 0
...........................................................................................................AGTCGGTTTAGTTTGAGATCT........................................................................................................................... 21 3 7 102.71 719 628 87 4 0 0 0
...........................................................................................................AGTCGGTTTAGTTTGAGATC............................................................................................................................ 20 2 3 76.67 230 190 38 2 0 0 0
..........................................................................................................GAGTCGGTTTAGTTTGAGATC............................................................................................................................ 21 3 9 46.22 416 354 59 3 0 0 0
...........................................................................................................AGTCGGTTTAGTTTGAGA.............................................................................................................................. 18 2 20 13.50 270 261 2 7 0 0 0
...........................................................................................................AGTCGGTTTAGTTTGAGATCTT.......................................................................................................................... 22 3 4 11.00 44 42 2 0 0 0 0
.............................................................................................................TCGGTTTAGTTTGAGATCTT.......................................................................................................................... 20 3 20 5.70 114 114 0 0 0 0 0
...........................................................................................................AGTCGGTTTAGTTTGAGAT............................................................................................................................. 19 2 7 5.00 35 30 5 0 0 0 0
............................................................................................................GTCGGTTTAGTTTGAGATC............................................................................................................................ 19 2 7 4.00 28 27 1 0 0 0 0
.............................................................................................................TCGGTTTAGTTTGAGATC............................................................................................................................ 18 2 11 1.36 15 13 1 1 0 0 0
..........................................................................................................AAGTCGGTTTAGTTTGAGATC............................................................................................................................ 21 2 2 1.00 2 2 0 0 0 0 0
.............................................TGCTGTTACACTACAGAGCAG......................................................................................................................................................................................... 21 0 2 1.00 2 2 0 0 0 0 0
..........................................................................................................AAGTCGGTTTAGTTTGAGATCT........................................................................................................................... 22 3 3 1.00 3 3 0 0 0 0 0
.....................................................CACTACAGAGCAGGCAACGT.................................................................................................................................................................................. 20 0 2 0.50 1 1 0 0 0 0 0
........................................................................................................CCGAGTCGGTTTAGTTTGAGATC............................................................................................................................ 23 3 2 0.50 1 1 0 0 0 0 0
..............................................................................................................CGGCTTAGTTTGTGATCCTAA........................................................................................................................ 21 0 2 0.50 1 1 0 0 0 0 0
.....................................................CACTACAGAGCAGGCAACGTC................................................................................................................................................................................. 21 0 2 0.50 1 0 1 0 0 0 0
....................................CAGCGACTCTGCTGTTACACT.................................................................................................................................................................................................. 21 0 2 0.50 1 1 0 0 0 0 0
............................................................................................................................................................................................................................GAAACGGTGTTCTGCTCAGC........... 20 0 2 0.50 1 0 1 0 0 0 0
.............................................................................................CGCCTTTATAACCAAGTCGGC......................................................................................................................................... 21 0 2 0.50 1 0 0 0 0 1 0
..............................ACGTGCCAGCGACTCTGCTGT........................................................................................................................................................................................................ 21 0 2 0.50 1 1 0 0 0 0 0
...............................................................................................................................................................................................................................ACGGTGTTCTGCTCAGCATAG....... 21 0 2 0.50 1 1 0 0 0 0 0
................................................................................................CTTTATAACCAAGTCGGCTT....................................................................................................................................... 20 0 2 0.50 1 0 0 0 1 0 0
.........................................................................................................................................GTTACGCGCGTTCACTTAGT.............................................................................................. 20 1 2 0.50 1 0 0 0 0 0 1
.........................................................................................................AAAGTCGGTTTAGTTTGAGATC............................................................................................................................ 22 3 5 0.40 2 2 0 0 0 0 0
..........................................................................................................TAGTCGGTTTAGTTTGAGATC............................................................................................................................ 21 3 5 0.40 2 1 1 0 0 0 0
.........................................................................................................AGAGTCGGTTTAGTTTGTGAT............................................................................................................................. 21 3 3 0.33 1 1 0 0 0 0 0
.............................................................................................................TCGGTTTAGTTTGAGATCCTT......................................................................................................................... 21 3 6 0.33 2 2 0 0 0 0 0
.........................................................................................................AGAGTCGGCTTAGTTTGAGAT............................................................................................................................. 21 3 8 0.13 1 1 0 0 0 0 0
...........................................................................................................CGTCGGTTTAGTTTGAGATC............................................................................................................................ 20 3 18 0.11 2 2 0 0 0 0 0
....................................................................................................................................................................................TTTTATATAGAAGGAAGTGT................................................... 20 0 20 0.05 1 0 0 0 1 0 0
..................................................................................................................................................................................................................CATGTGATGCGAAACGGTGTC.................... 21 2 20 0.05 1 1 0 0 0 0 0
...........................................................................................................................................................................TATTGAAATGTTTATATAG............................................................. 19 2 20 0.05 1 1 0 0 0 0 0
...........................................................................................................AGTCGGTTTAGTTTGAGACC............................................................................................................................ 20 3 20 0.05 1 1 0 0 0 0 0
...............................................................................................................................................................................................................ATACATGTGATGCGAAACGGT....................... 21 1 20 0.05 1 1 0 0 0 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
dp5 4_group4:129-379 - dps_1647 TTAGCTGGACTGGGGCAGGCATCATGCCGCTGCACGGTCGCTGAGACGACAATGTGATGTCTCGTCCGTTGCAGCAGGGACCAGTGATTGACGGCGGAAATATTGGTTCAGCCGAATCAAACACTAGGATTCAGCTTCAATGCGCGTAAGTGAATCATTATATAAGTGTGGATAACTTTTAAAATATATCTTCCTTCACAGAGTACCTATGTACCCTACGCTTTGCCACAAGACGAGTCGTATCCGATGTC
droPer2 scaffold_6019:374-624 - TTAGCTGGACTGGGGCAGGCATCATGCCGCTGCACGGTCGCTGAGACGACAATGTGATGTCTCGTCCGTTGCAGCAGGGACCAGTGATTGACGGCGGAAATATTGGTTCAGCCGAATCAAACACTAGGATTCAGCTTCAATGCGCGTAAGTGAATCATTATATAAGTGTGGATAACTTTTAAAATATATCTTCCTTCACAGAGTACCTATGTACCCTACGCTTTGCCACAAGACGAGTCGTATCCGATGTC
droKik1 scf7180000302472:1877085-1877117 + ATA-------------------------------------------------------------------------------------------------------------------------------------------------------------TATATGT-----------ATGGTATATATATTAGTGCCTAG--------------------------------------------------
droFic1 scf7180000449391:947-962 - A-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCCGAGTCCTGTGCC
droRho1 scf7180000777283:2112-2122 - T------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATCCCGTACC
droTak1 scf7180000415880:356744-356760 - G------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGGCCTATCCCGTGCC

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
dp5
TTAGCTGGACTGGGGCAGGCATCATGCCGCTGCACGGTCGCTGAGACGACAATGTGATGTCTCGTCCGTTGCAGCAGGGACCAGTGATTGACGGCGGAAATATTGGTTCAGCCGAATCAAACACTAGGATTCAGCTTCAATGCGCGTAAGTGAATCATTATATAAGTGTGGATAACTTTTAAAATATATCTTCCTTCACAGAGTACCTATGTACCCTACGCTTTGCCACAAGACGAGTCGTATCCGATGTCSizeHit 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
..........................................................................CAGGGACCAGTGATTGACGGC............................................................................................................................................................2131.0030000000030
...........................................................................AGGGACCAGTGATTGACGGC............................................................................................................................................................2030.6720000000020
.................................................................................................................................................................................................................................CCACAAGACGAGTCGTATCCGA....2220.5010000010000
.....TGGACTGGGGCAGGCATC....................................................................................................................................................................................................................................1820.5010000000010
....................ATCATGCCGCTGCACGGTCGCTGA...............................................................................................................................................................................................................2420.5010100000000
....CTGGACTGGGGCAGGCATCATGCC...............................................................................................................................................................................................................................2420.5010100000000
....CTGGACTGGGGCAGGCATC....................................................................................................................................................................................................................................1920.5010000000010
.....TGGACTGGGGCAGGCATCATG.................................................................................................................................................................................................................................2120.5010000000010
....................................................................................TGATTGACGGCGGAAATATTGG.................................................................................................................................................2220.5010000000010
.............................................................................GGACCAGTGATTGACGGCGG..........................................................................................................................................................2030.3310100000000
droPer2
TTAGCTGGACTGGGGCAGGCATCATGCCGCTGCACGGTCGCTGAGACGACAATGTGATGTCTCGTCCGTTGCAGCAGGGACCAGTGATTGACGGCGGAAATATTGGTTCAGCCGAATCAAACACTAGGATTCAGCTTCAATGCGCGTAAGTGAATCATTATATAAGTGTGGATAACTTTTAAAATATATCTTCCTTCACAGAGTACCTATGTACCCTACGCTTTGCCACAAGACGAGTCGTATCCGATGTCSizeHit CountTotal NormTotalM021
Embryo
M042
Female-body
V042
Embryo
V050
Head
V057
Head
V111
Male-body
No Reads
droKik1
ATA-------------------------------------------------------------------------------------------------------------------------------------------------------------TATATGT-----------ATGGTATATATATTAGTGCCTAG--------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droFic1
A-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCCGAGTCCTGTGCCSizeHit CountTotal NormTotal
No Reads
droRho1
T------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATCCCGTACCSizeHit CountTotal NormTotal
No Reads
droTak1
G------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGGCCTATCCCGTGCCSizeHit CountTotal NormTotal
No Reads

Generated: 05/18/2015 at 01:09 AM