ID:

dpe_1168

 Coordinate:

scaffold_2131:547-697 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-7.2 -7.1 -6.9

Flybase annnotation

exon [dper_GLEANR_16538:1]; CDS [Dper\GL15395-cds]; intron [Dper\GL15395-in]

Repeatable elements

NameClassFamilyStrand
BEL3-LTR_DpseLTRPao-
mature
  1. dpe_1806  scaffold_504:3339-3363 +
  2. scaffold_700:2715-2739 -
  3. scaffold_1887:540-564 +
  4. scaffold_76:29768-29792 +
  5. scaffold_59:406727-406751 +
  6. scaffold_45:343572-343596 +
  7. scaffold_1704:4041-4065 +
  8. scaffold_10614:115-139 -
  9. scaffold_183:7737-7761 +
  10. scaffold_183:26021-26045 +
  11. scaffold_183:31320-31344 +
  12. scaffold_183:36636-36660 +
  13. scaffold_183:46103-46127 +
  14. scaffold_2058:4219-4243 +
  15. scaffold_2861:846-870 +
  16. scaffold_933:5905-5929 +
  17. scaffold_3603:1318-1342 -
  18. scaffold_1445:3879-3903 -
  19. dpe_1168  scaffold_2131:633-657 +
  20. scaffold_5517:1748-1772 -
  21. scaffold_828:7557-7581 -
  22. scaffold_781:9344-9368 -
  23. scaffold_1734:4542-4566 -
  24. scaffold_4602:62-86 -
  25. scaffold_8506:312-336 -
star
  1. dpe_1806  scaffold_504:3372-3397 +
  2. scaffold_1887:573-598 +
  3. scaffold_72:118159-118184 -
  4. scaffold_72:195972-195997 -
  5. scaffold_76:29801-29826 +
  6. scaffold_45:343605-343630 +
  7. scaffold_1704:4074-4099 +
  8. scaffold_183:7770-7795 +
  9. scaffold_183:26054-26079 +
  10. scaffold_183:31353-31378 +
  11. scaffold_183:36669-36694 +
  12. scaffold_183:46136-46161 +
  13. scaffold_183:70312-70337 +
  14. scaffold_2058:4252-4277 +
  15. scaffold_2861:879-904 +
  16. scaffold_3602:1437-1462 +
  17. scaffold_2051:3299-3324 -
  18. dpe_1168  scaffold_2131:666-691 +
  19. scaffold_2108:5245-5270 +
  20. scaffold_1540:3586-3611 +

Sense Strand Reads

##################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
TGCGTCTGTGCATTCCACAACTCGCCTTCTTGGGCTTACTCTTAGCACAGGTGGGCTCCTGAAACATTCTTTAAATATGCGGTAAGAGAGCTCATCTTAGACATTTTTCATAAAACCTGTACGAGCTAAGTCCCTTCAACAGTTTTCCAGTGGAATCCGTCTACCCAATTAAGACCTTCCTTAATCCGCTCGATGTAGTTCCTTGCTCATTCGTTTTATTTTGTATATCTCTTAAATCTAGTGATCATAAT
****************************************************************************************************************************************.........((.((((((..............(((((......))))))))))).))..******************************************************** 		Read size # Mismatch Hit Count Total Norm Total M042
female body
 V111
male body		 M021
embryo
 V042
embryo
........................................................................................................................................CAACAGTTTTCCAGTGGAATCCGTC.......................................................................................... 25 0 20 4.75 95 85 9 0 1
........................................................................................................................................CAACAGTTTTCCAGTGGAATCCGTCT......................................................................................... 26 0 20 0.45 9 6 2 1 0
........................................................................................................................................CAACAGTTTTCCAGTGGAATCCGTCTA........................................................................................ 27 0 20 0.40 8 8 0 0 0
........................................................................................................................................CAACAGTTTTCCAGTGGAATCCG............................................................................................ 23 0 20 0.40 8 3 5 0 0
........................................................................................................................................CAACAGTTTTCCAGTGGAATCCGT........................................................................................... 24 0 20 0.30 6 4 1 1 0
.........................................................................................................................................................................TAAGACCTTCCTTAATCCGCTCGATG........................................................ 26 0 20 0.25 5 5 0 0 0
.........................................................................................................................................AACAGTTTTCCAGTGGAATCCGTC.......................................................................................... 24 0 20 0.20 4 4 0 0 0
.........................................................................................................................................................................TAAGACCTTCCTTAATCCGCTC............................................................ 22 0 20 0.15 3 2 1 0 0
.........................................................................................................................................................................TAAGACCTTCCTTAATCCGCTCGAT......................................................... 25 0 20 0.10 2 2 0 0 0
........................................................................................................................................CAACAGTTTTCCAGTGGAATCCGTCTAC....................................................................................... 28 0 20 0.10 2 2 0 0 0
..........................................................................................................................................ACAGTTTTCCAGTGGAATCCGTCTAC....................................................................................... 26 0 20 0.05 1 1 0 0 0
.....................................................................................................................................................................CAATTAAGACCTTCCTTAATCCGCTCGA.......................................................... 28 0 20 0.05 1 1 0 0 0
........................................................................................................................................CAACAGTTCTCCGGTGGAATCC............................................................................................. 22 2 20 0.05 1 1 0 0 0
..........................................................................................................................................ACAGTTTTCCAGTGGAATCCGTC.......................................................................................... 23 0 20 0.05 1 1 0 0 0
.....................................................................................................................................................................................TAATCCGCTCGATGTAGTTCCTTGCT............................................ 26 0 20 0.05 1 1 0 0 0
.........................................................................................................................................................................TAAGACCTTCCTTAATCCGCTCG........................................................... 23 0 20 0.05 1 0 1 0 0
............................................................................................................................................................................GACCTTCCTTAATCCGCTCGATGTAGT.................................................... 27 0 20 0.05 1 1 0 0 0
.....................................................................................................................................................................CAATTAAGACCTTCCTTAATCCGCTCG........................................................... 27 0 20 0.05 1 1 0 0 0
......................................................................................................................................................................AATTAAGAGCTTCCTTAATCCGCTCGA.......................................................... 27 1 20 0.05 1 1 0 0 0
........................................................................................................................................GAACAGTTTTCCAGTGGAATCCGTC.......................................................................................... 25 1 20 0.05 1 1 0 0 0
.........................................................................................................................................................................TAAGACCTTCCTTAATCCGCTCGATC........................................................ 26 1 20 0.05 1 0 1 0 0
..................................................................................................................................................................................CCTTAATCCGCTCGATGTAGTTCCT................................................ 25 0 20 0.05 1 1 0 0 0
........................................................................................................................................CAACAGTTTTCCAGTGGAATCCGAC.......................................................................................... 25 1 20 0.05 1 1 0 0 0
.........................................................................................................................................AACAGTTTTCCAGTGGAATCCGT........................................................................................... 23 0 20 0.05 1 1 0 0 0
........................................................................................................................................CAACAGTTGTCCAGTGGAATCCGTCT......................................................................................... 26 1 20 0.05 1 1 0 0 0
...............................................................................................................................................................................CTTCCTTAGTCCGCTCGATGTAG..................................................... 23 1 20 0.05 1 1 0 0 0
................ACAACACGCCTTCTCGCGCT....................................................................................................................................................................................................................... 20 3 20 0.05 1 1 0 0 0
........................................................................................................................................CAACAGTTATCCAGTGGAATCCGTC.......................................................................................... 25 1 20 0.05 1 1 0 0 0
.....................................................................................................................................................................................TAATCCGCTCGATGTAGTTCCTTGC............................................. 25 0 20 0.05 1 0 1 0 0
........................................................................................................................................CAACAGTTGTCCAGTGGAATCCGT........................................................................................... 24 1 20 0.05 1 1 0 0 0
......................................................................................................................................................................................AATCCGCTCGATGTAGTTCCTTGC............................................. 24 0 20 0.05 1 1 0 0 0

Anti-sense strand reads

ACGCAGACACGTAAGGTGTTGAGCGGAAGAACCCGAATGAGAATCGTGTCCACCCGAGGACTTTGTAAGAAATTTATACGCCATTCTCTCGAGTAGAATCTGTAAAAAGTATTTTGGACATGCTCGATTCAGGGAAGTTGTCAAAAGGTCACCTTAGGCAGATGGGTTAATTCTGGAAGGAATTAGGCGAGCTACATCAAGGAACGAGTAAGCAAAATAAAACATATAGAGAATTTAGATCACTAGTATTA
********************************************************.........((.((((((..............(((((......))))))))))).))..**************************************************************************************************************************************** 		Read size # Mismatch Hit Count Total Norm Total M042
female body
 V111
male body		 V042
embryo
 M021
embryo
...........................................................................................................AGTATTTTGACTATGCTCGA............................................................................................................................ 20 3 19 0.95 18 7 2 6 3
...................................................................................................................................................................................GAATTAGGCGAGCTACATCAAGGAA............................................... 25 0 20 0.15 3 3 0 0 0
.................................................................................................................................................................................AGGAATTAGGCGAGCTACATCAAGGA................................................ 26 0 20 0.15 3 1 2 0 0
............................................................................................................................CGATTCAGGGAAGTTGTCAAAA......................................................................................................... 22 0 18 0.11 2 0 2 0 0
...................................................................................................................................................................................GAATTAGGCGAGCTACATCAAGGA................................................ 24 0 20 0.10 2 2 0 0 0
.....................................................................................................................................................................................ATTAGGCGAGCTACATCAAGGAA............................................... 23 0 20 0.10 2 2 0 0 0
...............................CCCGAATGAGAATCGTGTCCAC...................................................................................................................................................................................................... 22 0 15 0.07 1 0 1 0 0
...................TGAGCGGAAGAACCCGAATGAGAAT............................................................................................................................................................................................................... 25 0 16 0.06 1 0 1 0 0
......................................................................................................................................................................................TTAGGCGAGCTACATCAAGGAA............................................... 22 0 20 0.05 1 1 0 0 0
..................................................................................................................................................GGTCACCTTAGGCAGATGGGT.................................................................................... 21 0 20 0.05 1 1 0 0 0
................................................................................................................................................................................AACGAATTAGGCGAGGTACATCAA................................................... 24 2 20 0.05 1 1 0 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droPer2 scaffold_2131:497-747 + dpe_1168 TGCGTCTGTG-----------------------CATTCCACAACTCGCCTTCTTGGGCTTACTCTTAGCAC--------------AGGT----------GGGCTCCTGAAACATTCTTTAAATATGCGGTAAGAGAGCTCATCTTAGACATTTTTCATAAAACCTGT-----------ACGAGCTAAGTCCCTTCAACAGTTTTCCAGTGGAATCCGTCTACCCAATTAAGACCTTCCTTAATC-CGCTCGATGTAGTTCCTTGCTCATTCGTTTTATTTTGTATATCTCTTAAATCTAGTGATCATAAT
dp5 4_group3:4395820-4396067 - GACACCTGGAGAAAACTAAAAAAAATATTGATATATTCCGTAGA-------------TTTATTTACAGTACTTTTTATGGAATAATAATAGAGTTATCTATTTTTATAATTAATTATTCAAATATTT----ATGAAGTTCAATTTAAATTATTTTGATCAAAATTATCGTATATATGCACATATTTTGTGGATTTATTTATAGTACAATGGAATAA-------TA-ATAAGAATATTATGAATTATAATTATTTATATTTTTAGTTAATTTTT-------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droPer2
TGCGTCTGTG-----------------------CATTCCACAACTCGCCTTCTTGGGCTTACTCTTAGCAC--------------AGGT----------GGGCTCCTGAAACATTCTTTAAATATGCGGTAAGAGAGCTCATCTTAGACATTTTTCATAAAACCTGT-----------ACGAGCTAAGTCCCTTCAACAGTTTTCCAGTGGAATCCGTCTACCCAATTAAGACCTTCCTTAATC-CGCTCGATGTAGTTCCTTGCTCATTCGTTTTATTTTGTATATCTCTTAAATCTAGTGATCATAATSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
..................................................................................................................................................................................................CAACAGTTTTCCAGTGGAATCCGTC...........................................................................................25204.75950851009
..................................................................................................................................................................................................CAACAGTTTTCCAGTGGAATCCGTCT..........................................................................................26200.459160002
..................................................................................................................................................................................................CAACAGTTTTCCAGTGGAATCCGTCTA.........................................................................................27200.408080000
..................................................................................................................................................................................................CAACAGTTTTCCAGTGGAATCCG.............................................................................................23200.408030005
..................................................................................................................................................................................................CAACAGTTTTCCAGTGGAATCCGT............................................................................................24200.306140001
...................................................................................................................................................................................................................................TAAGACCTTCCTTAATC-CGCTCGATG........................................................26200.255050000
...................................................................................................................................................................................................AACAGTTTTCCAGTGGAATCCGTC...........................................................................................24200.204040000
...................................................................................................................................................................................................................................TAAGACCTTCCTTAATC-CGCTC............................................................22200.153020001
...................................................................................................................................................................................................................................TAAGACCTTCCTTAATC-CGCTCGAT.........................................................25200.102020000
..................................................................................................................................................................................................CAACAGTTTTCCAGTGGAATCCGTCTAC........................................................................................28200.102020000
....................................................................................................................................................................................................ACAGTTTTCCAGTGGAATCCGTCTAC........................................................................................26200.051010000
...............................................................................................................................................................................................................................CAATTAAGACCTTCCTTAATC-CGCTCGA..........................................................28200.051010000
....................................................................................................................................................................................................ACAGTTTTCCAGTGGAATCCGTC...........................................................................................23200.051010000
...............................................................................................................................................................................................................................................TAATC-CGCTCGATGTAGTTCCTTGCT............................................26200.051010000
...................................................................................................................................................................................................................................TAAGACCTTCCTTAATC-CGCTCG...........................................................23200.051000001
......................................................................................................................................................................................................................................GACCTTCCTTAATC-CGCTCGATGTAGT....................................................27200.051010000
...............................................................................................................................................................................................................................CAATTAAGACCTTCCTTAATC-CGCTCG...........................................................27200.051010000
...................................................................................................................................................................................................................................TAAGACCTTCCTTAATC-CGCTCGATC........................................................26200.051000001
............................................................................................................................................................................................................................................CCTTAATC-CGCTCGATGTAGTTCCT................................................25200.051010000
...................................................................................................................................................................................................AACAGTTTTCCAGTGGAATCCGT............................................................................................23200.051010000
...............................................................................................................................................................................................................................................TAATC-CGCTCGATGTAGTTCCTTGC.............................................25200.051000001
................................................................................................................................................................................................................................................AATC-CGCTCGATGTAGTTCCTTGC.............................................24200.051010000
dp5
GACACCTGGAGAAAACTAAAAAAAATATTGATATATTCCGTAGA-------------TTTATTTACAGTACTTTTTATGGAATAATAATAGAGTTATCTATTTTTATAATTAATTATTCAAATATTT----ATGAAGTTCAATTTAAATTATTTTGATCAAAATTATCGTATATATGCACATATTTTGTGGATTTATTTATAGTACAATGGAATAA-------TA-ATAAGAATATTATGAATTATAATTATTTATATTTTTAGTTAATTTTT-------------------------------------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
No Reads

Generated: 06/08/2015 at 03:51 PM