ID:

dps_3409

 Coordinate:

XL_group3a:344039-344189 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-46.0 -45.7 -45.6

Flybase annnotation

CDS [Dpse\GA19613-cds]; exon [dpse_GLEANR_10239:1]; intron [Dpse\GA19613-in]

No Repeatable elements found

Sense Strand Reads

---------------------------------------------#####---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
TTTGTGTTAATATTTTGTGGCCCGTTGGCAGGCTGATCACGAAAAATGAGGTAAGAAGTGGGGCTGGAAAGAGCGTGGAGGGGAGGGATGGAAGGTGGTGAACCGTTCATCCAACCCATTATGTGCACAGTACACTTGAATAGGTACCGCTTATCGGAGAGCATATAGATCTCATTTTGATGGAGAAGTAGCTCTTATCGGAGGAGATTGCACGTCTGCATCGATCCCTTCCTTTGTAGAGCAATCTCTCC
**************************************************.....(((((..((((......((((((.(((...(((((((.(((.....))).)))))))..))).))))))...)))).)))))..((((((...))))))..((((((.(((...((((.........)))).))))))))).....************************************************** 		Read size # Mismatch Hit Count Total Norm Total M040
female body
 V112
male body		 GSM444067
head
 GSM343916
embryo
.................TGGCCCGTTGGCAGGCTGA....................................................................................................................................................................................................................... 19 0 1 1.00 1 1 0 0 0
..............TTGTGGCCCGTTGGCAGGCTG........................................................................................................................................................................................................................ 21 0 1 1.00 1 1 0 0 0
...............................................................................................................................................................................................CTCTTATCGGAGGAGATTGCA....................................... 21 0 1 1.00 1 1 0 0 0
..............................................................GCTGGAAAGAGCGTGGAGG.......................................................................................................................................................................... 19 0 1 1.00 1 1 0 0 0
........................................................................GCGTGGAGGGTAGGGAAGGAA.............................................................................................................................................................. 21 2 1 1.00 1 0 1 0 0
.TTGTGTTAATATTTTGTGGCC..................................................................................................................................................................................................................................... 21 0 1 1.00 1 1 0 0 0
................................................................TGGAAAGAGCCTGGATGGAAG...................................................................................................................................................................... 21 3 3 0.33 1 0 0 1 0
........................................................................GCGTGGAGGGTAGGGAAGG................................................................................................................................................................ 19 2 9 0.33 3 3 0 0 0
........................................................................GCGTGGAGGGTAGGGAAGGAAA............................................................................................................................................................. 22 3 7 0.29 2 1 1 0 0
......................................................................GACCGTGGAGGGGAGGGATGAG............................................................................................................................................................... 22 3 4 0.25 1 1 0 0 0
........................................................................................TGGATGATGGTGAGCCGTTC............................................................................................................................................... 20 3 6 0.17 1 0 0 0 1
...........................................................................................................................TGCCCAGCACACTTGATTA............................................................................................................. 19 3 18 0.17 3 3 0 0 0
..................................................................................................................CCCATTATGTTCTCAGAACA..................................................................................................................... 20 3 6 0.17 1 1 0 0 0
........................TTCACAGGCTGGTCACGAAA............................................................................................................................................................................................................... 20 3 7 0.14 1 1 0 0 0
.................................................................................TGAGGGATGGAAAGTGGAGAA..................................................................................................................................................... 21 3 10 0.10 1 0 1 0 0
.............................................................................GAGTGGAGGGATGGAAGC............................................................................................................................................................ 18 2 11 0.09 1 1 0 0 0
..............................................................ACTGGAAAGAGGGTGGAG........................................................................................................................................................................... 18 2 11 0.09 1 1 0 0 0
..........................................................................GAGGAGGGGAGGGAAGGAAGG............................................................................................................................................................ 21 2 13 0.08 1 0 1 0 0
........................................................................GCGTGGAGGGTAGGGAAG................................................................................................................................................................. 18 2 13 0.08 1 1 0 0 0
........................................................................AAGTGGAGGGGAGGGAAGGAAG............................................................................................................................................................. 22 3 15 0.07 1 1 0 0 0
.....................................................................................................................................................................................GGAGATGTAGCTCTGATGGGA................................................. 21 3 15 0.07 1 0 0 0 1
...................................................................................AGGGATGGAAGGAGGGGAA..................................................................................................................................................... 19 2 16 0.06 1 1 0 0 0
..................................................GTAAGATGTTGGTCTGGAA...................................................................................................................................................................................... 19 3 16 0.06 1 1 0 0 0
............................................................................GGAGGGGAGAGAAGGAAGG............................................................................................................................................................ 19 2 20 0.05 1 0 1 0 0

Anti-sense strand reads

AAACACAATTATAAAACACCGGGCAACCGTCCGACTAGTGCTTTTTACTCCATTCTTCACCCCGACCTTTCTCGCACCTCCCCTCCCTACCTTCCACCACTTGGCAAGTAGGTTGGGTAATACACGTGTCATGTGAACTTATCCATGGCGAATAGCCTCTCGTATATCTAGAGTAAAACTACCTCTTCATCGAGAATAGCCTCCTCTAACGTGCAGACGTAGCTAGGGAAGGAAACATCTCGTTAGAGAGG
**************************************************.....(((((..((((......((((((.(((...(((((((.(((.....))).)))))))..))).))))))...)))).)))))..((((((...))))))..((((((.(((...((((.........)))).))))))))).....************************************************** 		Read size # Mismatch Hit Count Total Norm Total M040
female body
 M022
male body		 V112
male body
...........................................................................................................................ACGGGTCGTGTGAACTAAT............................................................................................................. 19 3 18 1.33 24 22 0 2
......................GGCACCGTCCGACTAGTGGTTT............................................................................................................................................................................................................... 22 3 2 0.50 1 1 0 0
...........................................................................................................GTAGGTTGGTTATTGCACGT............................................................................................................................ 20 3 4 0.50 2 1 1 0
.....................CGCAACAGTCCGAGTAGTGC.................................................................................................................................................................................................................. 20 3 6 0.33 2 2 0 0
............................................................................................TCCACCAGTGCGCAAGTAG............................................................................................................................................ 19 3 11 0.09 1 1 0 0
...........................................................................................................GTAGGTTGGTTATTGCACG............................................................................................................................. 19 3 12 0.08 1 1 0 0
...............................................................................................AGCACTTGGCAAGTAGTTC......................................................................................................................................... 19 3 13 0.08 1 0 0 1
............................................................................................................TAGGTTGGTTATTGCACGT............................................................................................................................ 19 3 20 0.05 1 1 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
dp5 XL_group3a:343989-344239 - dps_3409 TTTGTGTTAATATTTTGTGGCCCGTTGGCAGGCTGATCACGAAAAATGAGGTAAGAAGTGGGGCTGGAAAGAGCGTGGAGGGGAGGGATGGAAGGTGGTGAACCGTTCATCCAACCCATTATGTGCACAGTACACTTGAATAGGTACCGCTTATCGGAGAGCATAT----AGATCTCATTTTGATGGAGAAGTAGCTCTTATCGGAGGAGATTGCACGTCTGCATCGATCCCTTCCTTTGTAGAGCAATCTCTCC
droPer2 scaffold_39:386745-386993 + TTTGTGTTAATATTTTGTGTCCCGTTGGCAAGCTGATCACGAAAAATGAGGTAAGAAGTGGGGTTGGAAAGTGCGTGGAGGGGAGGGATGGAAGGTGGTGAACCGTTCATCCAACCCATGATGTGCACAGTACACTTGAATAGGTACCGCTTATCGCAGAGCATATATGTAGATCTCATTTTGATGGAGAAGTAGCTCTTATCGGAGGAGATTGCACGTCTGCAT----CCCTTCCTTTGGAGTGC--TCTCTCC

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
dp5
TTTGTGTTAATATTTTGTGGCCCGTTGGCAGGCTGATCACGAAAAATGAGGTAAGAAGTGGGGCTGGAAAGAGCGTGGAGGGGAGGGATGGAAGGTGGTGAACCGTTCATCCAACCCATTATGTGCACAGTACACTTGAATAGGTACCGCTTATCGGAGAGCATAT----AGATCTCATTTTGATGGAGAAGTAGCTCTTATCGGAGGAGATTGCACGTCTGCATCGATCCCTTCCTTTGTAGAGCAATCTCTCCSizeHit 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
.................TGGCCCGTTGGCAGGCTGA...........................................................................................................................................................................................................................1911.0010100000000
..............TTGTGGCCCGTTGGCAGGCTG............................................................................................................................................................................................................................2111.0010100000000
...................................................................................................................................................................................................CTCTTATCGGAGGAGATTGCA.......................................2111.0010100000000
..............................................................GCTGGAAAGAGCGTGGAGG..............................................................................................................................................................................1911.0010100000000
.TTGTGTTAATATTTTGTGGCC.........................................................................................................................................................................................................................................2111.0010100000000
droPer2
TTTGTGTTAATATTTTGTGTCCCGTTGGCAAGCTGATCACGAAAAATGAGGTAAGAAGTGGGGTTGGAAAGTGCGTGGAGGGGAGGGATGGAAGGTGGTGAACCGTTCATCCAACCCATGATGTGCACAGTACACTTGAATAGGTACCGCTTATCGCAGAGCATATATGTAGATCTCATTTTGATGGAGAAGTAGCTCTTATCGGAGGAGATTGCACGTCTGCAT----CCCTTCCTTTGGAGTGC--TCTCTCCSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
........AATATTTTGTGTCCCGTTGGCAAGCT.............................................................................................................................................................................................................................2611.001100000
................GTGTCCCGTTGGCAAGCTGATCACG......................................................................................................................................................................................................................2511.001100000

Generated: 05/18/2015 at 05:30 AM