ID:

dps_2833

 Coordinate:

XL_group3a:1030207-1030327 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-9.1 -8.7 -8.7 -8.3

Flybase annnotation

exon [dpse_GLEANR_10313:4]; CDS [Dpse\GA22360-cds]; exon [dpse_GLEANR_10313:3]; CDS [Dpse\GA22360-cds]; intron [Dpse\GA22360-in]

No Repeatable elements found

Sense Strand Reads

##################################################-------------------------------------------------------------------------------------------------------------------------##################################################
AAAGAGCCCTCGGCGGAGAACTCGCGCTCACGCTCTCACTCGCAGCCATAGTAGCTAAAATTCCATATGATCTATATTTTTGGTTTTTTCGTTCAAATACATTTCTGGTTAACTTTTCGGCAGTCCCACAAACCCCCAGCCAATGCTTTCCTTCCTCCTTCCTCCTTCCAGTGGCAGTGGCAGTGGCAGTGGCTTCCAGGGACCAACTGTTGCTGCTTGGC
**************************************************.............................((((............((..((((.((((...........................))))..))))..))..................))))************************************************** 		Read size # Mismatch Hit Count Total Norm Total SRR902011
testis
 M040
female body
 GSM343916
embryo
...................................................................................................CATTTCTGGTTAACTTTTCGG..................................................................................................... 21 0 1 2.00 2 2 0 0
....................................................................................................ATTTCTGGTTAACTTTTCGG..................................................................................................... 20 0 1 2.00 2 2 0 0
......................................................................................TTTCGTTCAAATACATTTCTG.................................................................................................................. 21 0 1 2.00 2 2 0 0
..............................................................................................................................CACAAACGCCCAGCCAATG............................................................................ 19 1 1 1.00 1 0 1 0
.......................................................................................TTCGTTCAAATACATTTCTGG................................................................................................................. 21 0 1 1.00 1 1 0 0
..................................................................................................................................................................................GGCAGTGGCAGTGGCTTCC........................ 19 0 2 0.50 1 0 1 0
...........................................................................................................................................................................................AGTCGCTTCCCGGGACCA................ 18 2 2 0.50 1 0 1 0
...................................................................................................................................................................................CCAGTGGAAGTGGCTTCCAG...................... 20 2 3 0.33 1 0 0 1
........CTCGGCCGGGAAGTCGCGC.................................................................................................................................................................................................. 19 3 20 0.05 1 0 1 0

Anti-sense strand reads

TTTCTCGGGAGCCGCCTCTTGAGCGCGAGTGCGAGAGTGAGCGTCGGTATCATCGATTTTAAGGTATACTAGATATAAAAACCAAAAAAGCAAGTTTATGTAAAGACCAATTGAAAAGCCGTCAGGGTGTTTGGGGGTCGGTTACGAAAGGAAGGAGGAAGGAGGAAGGTCACCGTCACCGTCACCGTCACCGAAGGTCCCTGGTTGACAACGACGAACCG
**************************************************.............................((((............((..((((.((((...........................))))..))))..))..................))))************************************************** 		Read size # Mismatch Hit Count Total Norm Total M040
female body
 SRR902011
testis
 V112
male body		 GSM343916
embryo
 SRR902012
CNS imaginal disc
 GSM444067
head
..............................................................................................................................GTGTTTGCGGGTCGGTTACGT.......................................................................... 21 2 1 5.00 5 5 0 0 0 0 0
....................................................................................AAAAAGCAAGTTTATGTAA...................................................................................................................... 19 0 1 2.00 2 0 2 0 0 0 0
..................................................................................CAAAAAAGCAAGTTTATGTA....................................................................................................................... 20 0 1 2.00 2 0 2 0 0 0 0
..................................................................................AAAAAAAGCAAGTTTATGTA....................................................................................................................... 20 1 2 1.50 3 0 3 0 0 0 0
............................................................................................................................TTGTGTTTGCGGGTCGGTTACG........................................................................... 22 3 1 1.00 1 1 0 0 0 0 0
........................................................................................AGCAAGTTTATGTAAAGACC................................................................................................................. 20 0 1 1.00 1 0 1 0 0 0 0
.....................................................................................AAAAGCAAGTTTATGTAAAGA................................................................................................................... 21 0 1 1.00 1 0 1 0 0 0 0
................................................................................................................................GTTTGCGGGTCGGTTACGT.......................................................................... 19 2 3 1.00 3 3 0 0 0 0 0
..................................................................................CAAAAAAGCAAGTTTATGTAA...................................................................................................................... 21 0 1 1.00 1 0 0 1 0 0 0
.................................................................................CCAAAAAAGCAAGTTTATGTA....................................................................................................................... 21 0 1 1.00 1 0 1 0 0 0 0
.............................................................................................................................TGTGTTTGCGGGTCGGTTACG........................................................................... 21 2 1 1.00 1 1 0 0 0 0 0
...........................................TCGGTATCAACAATTTTAAAGT............................................................................................................................................................ 22 3 2 0.50 1 0 0 0 1 0 0
...................................................................................................................................................AAGGAAGGAGGAAGGAGGGA...................................................... 20 1 2 0.50 1 0 0 1 0 0 0
.............................................................................................................................TGTGTTTGCGGGTCGGTTACGT.......................................................................... 22 3 4 0.50 2 2 0 0 0 0 0
...................................................................................................................................................AAGGAAGGAGGAAGGAGAA....................................................... 19 1 6 0.17 1 0 0 1 0 0 0
.........................................................................................................................TCAGGGTGTTGGGGG..................................................................................... 15 1 20 0.15 3 0 0 0 0 3 0
.....................................................................................................................................................GAAAGGAGGAAGGAGGAAG..................................................... 19 1 7 0.14 1 1 0 0 0 0 0
.......................................................................................................................................................................................................CCTGGGTGACAGCGACGAAGC. 21 3 8 0.13 1 0 0 1 0 0 0
..................................................................................................................AAAGCCGTCGGGATGCTTG........................................................................................ 19 3 13 0.08 1 1 0 0 0 0 0
.................................................................................................................................................GAAAGGAGGGAGGTAGGAG......................................................... 19 2 17 0.06 1 1 0 0 0 0 0
.................................................................................................................................................GAAAGGAAGGGGGAAGAAG......................................................... 19 2 18 0.06 1 1 0 0 0 0 0
.................................................................................................................................TTTCTGGATCGGTTACGAA......................................................................... 19 3 20 0.05 1 0 0 0 1 0 0
.................................AGACTAAGCGTCGGTATTA......................................................................................................................................................................... 19 3 20 0.05 1 1 0 0 0 0 0
......................................................................................................................................................GGAGTAGGAAAGAGGAAGGT................................................... 20 3 20 0.05 1 0 0 0 0 0 1

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
dp5 XL_group3a:1030157-1030377 + dps_2833 AAAGAGCCCTCGGCGGAGAACTCGCGCTCACGCTCTCACTCGCAGCCATAGTAGCTAAAATTCCATATGATCTATATTTTTGGTTTTTTCGTTCAAATACATTTCTGGTTAACTTTTCGGCAGTCCCACAAACCCCCAGCCAATGCTTTCCTTCCTCCTTCCTCCTTCCAGTGGCAGTGGCAGTGGCAGTGGCTTCCAGGGACCAACTGTTGCTGCTTGGC-----
droPer2 scaffold_15:1863032-1863249 - AAAGAGCCCTCGGCGGAGAACTCGCGCTCACGCTCTCACTCGCAGCCATAGTAGCAAAAATTCCATATGATCTATATTTTTGGGTTTTTCGTTCAAATACATTTCTGGTTAACTTCCCGGCAGTCCCACAAACCCCAAGCCAATGCTTTTCTTCCTCCTTCCTCCTTCCAGTGGCAGTGGCAGTGGCAGTGGCTTCCAGGGACCAACTGTTGCTGCTT--------
droAna3 scaffold_13047:302761-302784 - ------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGGTGGCAGTGGCAGTGGCAGTGG----------------------------------
droTak1 scf7180000415872:452277-452307 + G----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACTTCCAGTTTCCACCTGTTGATTCCCTCT-----
droYak3 X:18389446-18389479 + ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CTTCCAGTATCCACTTGTTGATTCAATCTTTCGC

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
dp5
AAAGAGCCCTCGGCGGAGAACTCGCGCTCACGCTCTCACTCGCAGCCATAGTAGCTAAAATTCCATATGATCTATATTTTTGGTTTTTTCGTTCAAATACATTTCTGGTTAACTTTTCGGCAGTCCCACAAACCCCCAGCCAATGCTTTCCTTCCTCCTTCCTCCTTCCAGTGGCAGTGGCAGTGGCAGTGGCTTCCAGGGACCAACTGTTGCTGCTTGGC-----SizeHit 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
...................................................................................................CATTTCTGGTTAACTTTTCGG..........................................................................................................2112.0020000000020
....................................................................................................ATTTCTGGTTAACTTTTCGG..........................................................................................................2012.0020000000020
......................................................................................TTTCGTTCAAATACATTTCTG.......................................................................................................................2112.0020000000020
.......................................................................................TTCGTTCAAATACATTTCTGG......................................................................................................................2111.0010000000010
..................................................................................................................................................................................GGCAGTGGCAGTGGCTTCC.............................1920.5010100000000
droPer2
AAAGAGCCCTCGGCGGAGAACTCGCGCTCACGCTCTCACTCGCAGCCATAGTAGCAAAAATTCCATATGATCTATATTTTTGGGTTTTTCGTTCAAATACATTTCTGGTTAACTTCCCGGCAGTCCCACAAACCCCAAGCCAATGCTTTTCTTCCTCCTTCCTCCTTCCAGTGGCAGTGGCAGTGGCAGTGGCTTCCAGGGACCAACTGTTGCTGCTT--------SizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
..........................................................................................................................................................................GTGGCAGTGGCAGTGGCAGTGGCT................................24200.051000001
droAna3
------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGGTGGCAGTGGCAGTGGCAGTGG----------------------------------SizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
........................................................................................................................................................................CGGTGGCAGTGGCAGTGGCAGT....................................2260.171100000
droTak1
G----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACTTCCAGTTTCCACCTGTTGATTCCCTCT-----SizeHit CountTotal NormTotal
No Reads
droYak3
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CTTCCAGTATCCACTTGTTGATTCAATCTTTCGCSizeHit 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

Generated: 05/18/2015 at 05:32 AM