ID:

dps_1604

 Coordinate:

4_group3:7423135-7423285 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-28.4 -28.3 -28.3

Flybase annnotation

CDS [Dpse\GA12955-cds]; exon [dpse_GLEANR_2628:1]; intron [Dpse\GA12955-in]

No Repeatable elements found

mature
  1. XL_group1e:6203566-6203588 +
  2. XL_group1e:6203908-6203930 +
  3. XL_group1e:6204234-6204256 +
  4. XL_group1e:6204887-6204909 +
  5. Unknown_singleton_573:856-878 +
  6. Unknown_singleton_573:1181-1203 +
  7. Unknown_singleton_573:1531-1553 +
  8. Unknown_singleton_573:3238-3260 +
  9. Unknown_singleton_573:3919-3941 +
  10. Unknown_singleton_573:4269-4291 +
  11. Unknown_singleton_573:4732-4754 +
  12. Unknown_singleton_573:5074-5096 +
  13. Unknown_singleton_573:5400-5422 +
  14. Unknown_singleton_573:5726-5748 +
  15. Unknown_singleton_573:6051-6073 +
  16. Unknown_singleton_573:6401-6423 +
  17. Unknown_singleton_573:6756-6778 +
  18. Unknown_singleton_573:7547-7569 +
  19. Unknown_singleton_573:7897-7919 +
  20. Unknown_singleton_573:8222-8244 +
  21. 3:16016576-16016598 +
  22. 3:16017211-16017233 +
  23. 2:3359069-3359091 +
  24. XR_group8:473570-473592 +
  25. XR_group8:474380-474402 +
  26. XR_group8:476485-476507 +
  27. XR_group8:480771-480793 +
  28. XR_group8:482416-482438 +
  29. XR_group8:482735-482757 +
  30. XR_group8:484355-484377 +
  31. XR_group8:486319-486341 +
  32. XR_group8:6480707-6480729 +
  33. XR_group8:6481026-6481048 +
  34. XR_group8:6481346-6481368 +
  35. XR_group8:6481665-6481687 +
  36. XR_group8:8445732-8445754 +
  37. dps_1604  4_group3:7423246-7423268 +
  38. Unknown_group_733:1848-1870 +
  39. Unknown_group_733:2731-2753 +
  40. Unknown_group_733:3366-3388 +
star

Sense Strand Reads

##################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
CAAAAGGGTGATGCCCCTGGTCAACGATGGAGGGCATATCGGTCTCCGGGGTACGCAAGTGGTATTCCAAGCCACCCGAGGGTGCTATCTGCCAAGATAATAGGAGGAGTTAAATAAAGTAACAATATTAAATGATATGCAAGCCTTCAGAAGGCTATATCTCAGACAAATAGGGCCAGATCGGTAGATGTCCTTTTTTCCGATGGCAGTCGACTGGCAGGACTCTCCCGATCACGAAAAGACATGCCGCA
**************************************************((((....(((((.......)))))......))))(((((....)))))...((((((((((.......))))..........(((((...((((((...)))))))))))..........(((((...(((....)))))))).))))))************************************************** 		Read size # Mismatch Hit Count Total Norm Total M040
female body
 SRR902010
ovaries
 GSM343916
embryo
 V112
male body
...............................................................................................................................................................TCTCAGACAAATAGGGCCAGATCGAGAG................................................................ 28 2 1 1.00 1 0 1 0 0
.................................................................................................................................................................TCAGACAAATAGGGCCAGATCGG................................................................... 23 0 20 0.65 13 0 13 0 0
...........................................................................................................................................................TATATCTCAGACAAATAGGGCCAGA....................................................................... 25 0 20 0.65 13 13 0 0 0
...............................................................................................................................................................TCTCAGACAAATAGGGCCAGAT...................................................................... 22 0 20 0.60 12 12 0 0 0
..........................ATGGTTAGCATATCGGTCT.............................................................................................................................................................................................................. 19 3 15 0.47 7 7 0 0 0
...............................................................................................................................................................................................................................TCTCCCGATCACGAAAAGACATGCCG.. 26 0 20 0.25 5 0 3 2 0
.............................................................................................................................................................TATCTCAGACAAATAGGGCCAGATCGG................................................................... 27 0 20 0.20 4 0 4 0 0
......................................................................................................................................................................................................TCCGATGGCAGTCGACTGGCA................................ 21 0 20 0.15 3 3 0 0 0
................................................................................................................................................................CTCAGACAAATAGGGCCAGATCGGT.................................................................. 25 0 20 0.15 3 3 0 0 0
..........................ATGGTTAGCATATCGGTCTC............................................................................................................................................................................................................. 20 3 8 0.13 1 1 0 0 0
.................................................................................................................................................................TCAGACAAATAGGGCCAGATCGGT.................................................................. 24 0 20 0.10 2 0 2 0 0
.............................................................................................................................................................................................................................ACTCTCCCGATCACGAAAAGACAT...... 24 0 20 0.10 2 2 0 0 0
...................................................................CAAACCACGCGAGGGTTC...................................................................................................................................................................... 18 3 20 0.05 1 1 0 0 0
.................................................................................................................................................................................................................TCGACTGGCAGGACTCTCCCGA.................... 22 0 20 0.05 1 1 0 0 0
..............................................................................................................................................................................................TCCTTTTTTCCGATGGCAGT......................................... 20 0 20 0.05 1 1 0 0 0
................................................................................................................................................................................................................................CTCCCGATCACGAAAAGACATGCCGC. 26 0 20 0.05 1 1 0 0 0
............................................................................................................................................................ATATCTCAGACAAATAGGGCCAG........................................................................ 23 0 20 0.05 1 1 0 0 0
...............................................................................................................................................................TCTCAGACAAATAGGGCCAGATT..................................................................... 23 1 20 0.05 1 1 0 0 0
...............................................................................................................................................................TCTCAGACAGATAGGGCCAGATCGG................................................................... 25 1 20 0.05 1 1 0 0 0
...............................................................................................................................................................................................CCTTTTTTCCGATGGCAGTCGA...................................... 22 0 20 0.05 1 1 0 0 0
...............................................................................................................................................................TCTCAGACAAATAGGGCCAG........................................................................ 20 0 20 0.05 1 0 1 0 0
.............................................................................................................................................................TATCTCAGACAAATAGGGC........................................................................... 19 0 20 0.05 1 1 0 0 0
...............CATGTTGAACGATGGAGGG......................................................................................................................................................................................................................... 19 3 20 0.05 1 0 0 0 1
......................................................................................................................................................................................................................TGGCAGGACTCTCCCGATCACGAAAA........... 26 0 20 0.05 1 1 0 0 0
...................................................................................................................................................................................................................................CCGATCACGAAAAGACATGCC... 21 0 20 0.05 1 1 0 0 0
..............................................................................................................................................................................................TCCTTTTTTCCGATGGCAGTC........................................ 21 0 20 0.05 1 1 0 0 0
..............................................................................................................................................................TTCTCAGACAAATAGGGCCAGATC..................................................................... 24 1 20 0.05 1 1 0 0 0
...................................................................................................................................................................................................................GACTGGCAGGACTCTCCCGA.................... 20 0 20 0.05 1 1 0 0 0
...............................................................................................................................................................CCTCAGACAAATAGGGCCAGATCGG................................................................... 25 1 20 0.05 1 0 1 0 0
.....................................................................................................................................................................................................................CTGGCAGGACTCTCCCGATCACGA.............. 24 0 20 0.05 1 1 0 0 0

Anti-sense strand reads

GTTTTCCCACTACGGGGACCAGTTGCTACCTCCCGTATAGCCAGAGGCCCCATGCGTTCACCATAAGGTTCGGTGGGCTCCCACGATAGACGGTTCTATTATCCTCCTCAATTTATTTCATTGTTATAATTTACTATACGTTCGGAAGTCTTCCGATATAGAGTCTGTTTATCCCGGTCTAGCCATCTACAGGAAAAAAGGCTACCGTCAGCTGACCGTCCTGAGAGGGCTAGTGCTTTTCTGTACGGCGT
**************************************************((((....(((((.......)))))......))))(((((....)))))...((((((((((.......))))..........(((((...((((((...)))))))))))..........(((((...(((....)))))))).))))))************************************************** 		Read size # Mismatch Hit Count Total Norm Total M040
female body
 M059
embryo
 SRR902010
ovaries
 GSM343916
embryo
 V112
male body
...........................................................................................................................................................................TCGTGGTCTAGCCATCGACA............................................................ 20 3 8 0.13 1 1 0 0 0 0
..TTTCCCACTTCGCGGACCAGT.................................................................................................................................................................................................................................... 21 2 10 0.10 1 0 1 0 0 0
....................................................................................................................................................................................................................TGACCGTCCTGAGAGGGCTAGTGCTT............. 26 0 20 0.10 2 0 0 2 0 0
.......................................................................................AGGCGGTTCTATTACCCTA................................................................................................................................................. 19 3 20 0.10 2 1 0 0 0 1
..........................................................................................................................................................................................................................TCCTGAGAGGGCTAGTGCTT............. 20 0 20 0.10 2 2 0 0 0 0
......................................................................................................................................................................................................AGGCTACCATCAGATGACCGTCCTG............................ 25 2 20 0.10 2 2 0 0 0 0
..................................................................................................................................................AGTCTTCCGATATAGAGTCTGTTT................................................................................. 24 0 13 0.08 1 1 0 0 0 0
.....................................................................................................................................................................................................................GACCGTCTTGAGAGGGCTAGTGCTT............. 25 1 20 0.05 1 1 0 0 0 0
.......................................................................................................CTCATCAATTGATTTCATA................................................................................................................................. 19 3 20 0.05 1 0 0 0 1 0
...........................................................................................................................................................................................................................CCTGAGAGGGCTAGTGCTT............. 19 0 20 0.05 1 1 0 0 0 0
........................................................................................................................................................................................................................CGACCTGAGAGGGCTAGTGCTT............. 22 1 20 0.05 1 1 0 0 0 0
.........................................................................................................................................................................................................CTCCCGTCAGCTGACCGTCCTG............................ 22 1 20 0.05 1 1 0 0 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
dp5 4_group3:7423085-7423335 + dps_1604 CAAAAGGGTGATGCCCCTGGTCAACGATGGAGGGCATATCGGTCTCCGGGGTACGCAAGTGGTATTCCAAGCCACCCGAGGGTGCTATCTGCCAAGATAATAGGAGGAGTTAAATAAAGTAACAATATTAAATGATATGCAAGCCTTCAGAAGGCTATATCTCAGACAAATAGGGCCAGATCGGTAGATGTCCTTTTTTCCGATGGCAGTCGACTGGCAGGACTCTCCCGATCACGAAAAGACATGCCGCA
droPer2 scaffold_1440:4551-4801 + CAAAAGGGTGATGCCCCTGGTCAACGATGGAGGGCATGTCGGTCTCCGGGGCACGCAAGTGGTATTTCAAGCCACCCAAGGGTGCGATCTGCCAAGATAATAGGAAGAGTTAAATAAAGTAACAATATTAAATGATATGCAAGCCTTCAGAAGGCTATATCTCAGACAAATAGGGCCAGATCGGTAGATGTCCTTTTTTCCGATGGCAGTCGACTGGCAGGACTCTCCCGATAACGAAAAGACATGCCGCA
droAna3 scaffold_13334:335382-335405 - C-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGATTCCGAAAATGTACGCCGTT

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
dp5
CAAAAGGGTGATGCCCCTGGTCAACGATGGAGGGCATATCGGTCTCCGGGGTACGCAAGTGGTATTCCAAGCCACCCGAGGGTGCTATCTGCCAAGATAATAGGAGGAGTTAAATAAAGTAACAATATTAAATGATATGCAAGCCTTCAGAAGGCTATATCTCAGACAAATAGGGCCAGATCGGTAGATGTCCTTTTTTCCGATGGCAGTCGACTGGCAGGACTCTCCCGATCACGAAAAGACATGCCGCASizeHit 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
.................................................................................................................................................................TCAGACAAATAGGGCCAGATCGG...................................................................23200.651300000001300
...........................................................................................................................................................TATATCTCAGACAAATAGGGCCAGA.......................................................................25200.651301300000000
...............................................................................................................................................................TCTCAGACAAATAGGGCCAGAT......................................................................22200.601201200000000
...............................................................................................................................................................................................................................TCTCCCGATCACGAAAAGACATGCCG..26200.2550000200300
.............................................................................................................................................................TATCTCAGACAAATAGGGCCAGATCGG...................................................................27200.2040000000400
......................................................................................................................................................................................................TCCGATGGCAGTCGACTGGCA................................21200.1530300000000
................................................................................................................................................................CTCAGACAAATAGGGCCAGATCGGT..................................................................25200.1530300000000
.................................................................................................................................................................TCAGACAAATAGGGCCAGATCGGT..................................................................24200.1020000000200
.............................................................................................................................................................................................................................ACTCTCCCGATCACGAAAAGACAT......24200.1020200000000
.................................................................................................................................................................................................................TCGACTGGCAGGACTCTCCCGA....................22200.0510100000000
..............................................................................................................................................................................................TCCTTTTTTCCGATGGCAGT.........................................20200.0510100000000
................................................................................................................................................................................................................................CTCCCGATCACGAAAAGACATGCCGC.26200.0510100000000
............................................................................................................................................................ATATCTCAGACAAATAGGGCCAG........................................................................23200.0510100000000
...............................................................................................................................................................TCTCAGACAAATAGGGCCAGATT.....................................................................23200.0510100000000
...............................................................................................................................................................................................CCTTTTTTCCGATGGCAGTCGA......................................22200.0510100000000
...............................................................................................................................................................TCTCAGACAAATAGGGCCAG........................................................................20200.0510000000100
.............................................................................................................................................................TATCTCAGACAAATAGGGC...........................................................................19200.0510100000000
......................................................................................................................................................................................................................TGGCAGGACTCTCCCGATCACGAAAA...........26200.0510100000000
...................................................................................................................................................................................................................................CCGATCACGAAAAGACATGCC...21200.0510100000000
..............................................................................................................................................................................................TCCTTTTTTCCGATGGCAGTC........................................21200.0510100000000
...................................................................................................................................................................................................................GACTGGCAGGACTCTCCCGA....................20200.0510100000000
.....................................................................................................................................................................................................................CTGGCAGGACTCTCCCGATCACGA..............24200.0510100000000
droPer2
CAAAAGGGTGATGCCCCTGGTCAACGATGGAGGGCATGTCGGTCTCCGGGGCACGCAAGTGGTATTTCAAGCCACCCAAGGGTGCGATCTGCCAAGATAATAGGAAGAGTTAAATAAAGTAACAATATTAAATGATATGCAAGCCTTCAGAAGGCTATATCTCAGACAAATAGGGCCAGATCGGTAGATGTCCTTTTTTCCGATGGCAGTCGACTGGCAGGACTCTCCCGATAACGAAAAGACATGCCGCASizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
...............................................................................................................................................................TCTCAGACAAATAGGGCCAGATCGG...................................................................25200.50100100000
....................................................................................................................................................................................................TTTCCGATGGCAGTCGACTGGCA................................23170.061100000
..............................................................................................................................................................................................TCCTTTTTTCCGATGGCAGTC........................................21200.051000001
droAna3
C-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGATTCCGAAAATGTACGCCGTTSizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
No Reads

Generated: 05/18/2015 at 01:04 AM