ID:

dpe_1536

 Coordinate:

scaffold_38:272216-272366 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-22.4 -21.7

Flybase annnotation

exon [dper_GLEANR_13648:2]; CDS [Dper\GL13267-cds]; intron [Dper\GL13267-in]

No Repeatable elements found

mature
  1. scaffold_21:1171408-1171432 +
  2. scaffold_22:1408853-1408877 +
  3. scaffold_22:1409487-1409511 +
  4. scaffold_13:103332-103356 +
  5. scaffold_13:103645-103669 +
  6. scaffold_15:196401-196425 +
  7. scaffold_24:1065202-1065226 +
  8. scaffold_24:1066159-1066183 +
  9. scaffold_24:1066797-1066821 +
  10. scaffold_24:1067755-1067779 +
  11. dpe_1536  scaffold_38:272226-272250 +
  12. scaffold_10583:707-731 +
  13. scaffold_1440:4710-4734 +
  14. scaffold_6434:938-962 +
  15. scaffold_6434:1172-1196 +
  16. scaffold_5961:517-541 +
  17. scaffold_5961:751-775 +
  18. scaffold_8045:54-78 +
  19. scaffold_8045:693-717 +
  20. scaffold_8045:1014-1038 +
star
  1. dpe_1536  scaffold_38:272281-272306 +
  2. scaffold_38:272908-272933 +
  3. scaffold_38:273221-273246 +
  4. scaffold_38:276501-276526 -
  5. scaffold_38:277134-277159 -
  6. scaffold_38:277452-277477 -
  7. scaffold_38:277766-277791 -
  8. scaffold_38:278080-278105 -
  9. scaffold_38:278393-278418 -
  10. scaffold_38:280443-280468 -
  11. scaffold_38:280912-280937 -
  12. scaffold_38:286185-286210 -
  13. scaffold_38:288638-288663 -

Sense Strand Reads

##################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
TATCCACTCCAAGCGCCTGACTGGCAGATATCGCGACATGCCAATCTTCGGTAGGCTATATCTCAGACAAATAGGGCCAGATCGGCGAAGGACCTACTTTCGCAGGATCGCGAGGACCCAGACTGTCGATTTGCACCAAAATCTCGACTTCGAAAATGAGGCCGATTTTTGGCAAATTTAATGATGTAACCATCATGATTTTTTGCGAAAATCGTGAAAATATGGATGTCCTTCTTTCCGATGGGAGTCGA
************************************************************.....((((....(((((.((((.(((((((.....)))))))..))))....)).)))....))))..............************************************************************************************************************** 		Read size # Mismatch Hit Count Total Norm Total M042
female body
 M021
embryo
 V057
head
 V050
head
 V111
male body
............................................................TCTCAGACAAATAGGGCCAGATCGG...................................................................................................................................................................... 25 0 20 0.50 10 10 0 0 0 0
...................................................................................................................ACCCAGACTGTCGATTTGCACCAAAA.............................................................................................................. 26 0 13 0.23 3 0 3 0 0 0
.....................................................................................................................................................TCGAAAATGAGGCCGATTTTTGG............................................................................... 23 0 20 0.15 3 3 0 0 0 0
.......................................................CTATATCTCAGACAAATAGGGCC............................................................................................................................................................................. 23 0 20 0.10 2 2 0 0 0 0
.......................................................CTATATCTCAGACAAATAGGGCCA............................................................................................................................................................................ 24 0 20 0.10 2 2 0 0 0 0
........................................................................................................................................................................................................TTTTGCGAAAATCGTGAAAATATGG.......................... 25 0 20 0.10 2 2 0 0 0 0
..............................................................................................TAATTTCGCGGGATCGAGA.......................................................................................................................................... 19 3 13 0.08 1 0 0 1 0 0
...................................................................................................................ACCCAGACTGTCGATTTGCACCAAAAT............................................................................................................. 27 0 13 0.08 1 0 1 0 0 0
...................................................................................................................ACCCAGACTGTCGATTTGCACCAAAAAA............................................................................................................ 28 2 13 0.08 1 0 1 0 0 0
.....................................................................................................................CCAGACTGTCGATTTGCACC.................................................................................................................. 20 0 17 0.06 1 0 1 0 0 0
....................................................................AAATAGGGCCAGATCGGCGAAGGACC............................................................................................................................................................. 26 0 20 0.05 1 0 0 0 0 1
.............................................CTTCGGTAGGCTATATCTCAG......................................................................................................................................................................................... 21 0 20 0.05 1 0 0 0 1 0
.......................................................CTATATCTCCGACAAATAGGGCC............................................................................................................................................................................. 23 1 20 0.05 1 1 0 0 0 0
.............................................................................................................................................TCTCGACTTCGAAAATGAGGCCGA...................................................................................... 24 0 20 0.05 1 1 0 0 0 0
...........................................................................................................................................................................................................GGCGAAAATCGTGAAAATATGGATG....................... 25 1 20 0.05 1 1 0 0 0 0
.............................................................CTCAGACAGATAGGGCCAGATCGG...................................................................................................................................................................... 24 1 20 0.05 1 1 0 0 0 0
..................................................................................................................................................ACTTCGAAAATGAGGCCGATTTTTG................................................................................ 25 0 20 0.05 1 1 0 0 0 0
......................................................GCTATATCTCAGACAAATAGG................................................................................................................................................................................ 21 0 20 0.05 1 1 0 0 0 0
.....................................................................AATAGGGCCAGATCGGCGAAGGACC............................................................................................................................................................. 25 0 20 0.05 1 0 1 0 0 0

Anti-sense strand reads

ATAGGTGAGGTTCGCGGACTGACCGTCTATAGCGCTGTACGGTTAGAAGCCATCCGATATAGAGTCTGTTTATCCCGGTCTAGCCGCTTCCTGGATGAAAGCGTCCTAGCGCTCCTGGGTCTGACAGCTAAACGTGGTTTTAGAGCTGAAGCTTTTACTCCGGCTAAAAACCGTTTAAATTACTACATTGGTAGTACTAAAAAACGCTTTTAGCACTTTTATACCTACAGGAAGAAAGGCTACCCTCAGCT
**************************************************************************************************************.....((((....(((((.((((.(((((((.....)))))))..))))....)).)))....))))..............************************************************************ 		Read size # Mismatch Hit Count Total Norm Total M042
female body
 M021
embryo
 V050
head
 V111
male body
...............................................AGCCATCCGATATAGAGTCTGTT..................................................................................................................................................................................... 23 0 18 0.22 4 4 0 0 0
.....................................................................................................................GGACTGATAGCTAAACGTG................................................................................................................... 19 2 20 0.20 4 0 4 0 0
.............................................GAAGCCATCCGATATAGAGTCTGTT..................................................................................................................................................................................... 25 0 18 0.17 3 3 0 0 0
............CACGGACTGACCGTCTTTTGC.......................................................................................................................................................................................................................... 21 3 6 0.17 1 0 0 1 0
..............................................................................................ATTAAAGCGCCCTAGCTCT.......................................................................................................................................... 19 3 13 0.15 2 0 0 0 2
.TAGGTGAGGTGCGCAGTCTG...................................................................................................................................................................................................................................... 20 3 7 0.14 1 1 0 0 0
................................................GCCATCCGATATAGAGTCTGTT..................................................................................................................................................................................... 22 0 18 0.11 2 2 0 0 0
..............................................AAGCCATCCGATATAGAGTCTGTT..................................................................................................................................................................................... 24 0 18 0.11 2 2 0 0 0
...................TGCCCTTCCATAGCGCTG...................................................................................................................................................................................................................... 18 3 20 0.10 2 0 2 0 0
.........................................GTTAGAAGCCATCCGATATAGAGT.......................................................................................................................................................................................... 24 0 20 0.10 2 2 0 0 0
...........................................TAGAAGCCATCCGATATAGAGTCTGTT..................................................................................................................................................................................... 27 0 17 0.06 1 1 0 0 0
.....................................TACGGTTAGAAGCCATCCGATATAGAGT.......................................................................................................................................................................................... 28 0 17 0.06 1 1 0 0 0
......................................ACGGTTAGAAGCCATCCGATATAGAGT.......................................................................................................................................................................................... 27 0 18 0.06 1 1 0 0 0
............................................AGAAGCCATCCGATATAGAGTCTGTT..................................................................................................................................................................................... 26 0 18 0.06 1 1 0 0 0
.......................................CGGTTAGAAGCCATCCGATATAGAGT.......................................................................................................................................................................................... 26 0 18 0.06 1 1 0 0 0
..............................................AAGCCATCCGATATAGAGTCTGT...................................................................................................................................................................................... 23 0 18 0.06 1 1 0 0 0
.............................................AAAGCCATCCGATATAGAGTCTGT...................................................................................................................................................................................... 24 1 18 0.06 1 1 0 0 0
.......................................CGGTTAGAAGCCATCCGATATAGAG........................................................................................................................................................................................... 25 0 19 0.05 1 1 0 0 0
........................................................................................................................CTGACAGCTAAACGTGGTTTT.............................................................................................................. 21 0 19 0.05 1 0 0 1 0
........................................TGTTAGAAGCCATCCGATA................................................................................................................................................................................................ 19 1 20 0.05 1 1 0 0 0
........................................GGTTAGAAGCCATCCGATATAGAGT.......................................................................................................................................................................................... 25 0 20 0.05 1 1 0 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droPer2 scaffold_38:272166-272416 + dpe_1536 TATCCACTCCAAGCGCCTGACTGGCAGATATCGCGACATGCCAATCTTCGGTAGGCTATATCTCAGACAAATAGGGCCAGATCGGCGAAGGACCTACTTTCGCAGGATCGCGAGGACCCAGACTGTCGATTTGCACCAAAATCTCGACTTCGAAAATGAGGCCGATTTTTGGCAAATTTAATGATGTAACCATCAT-GATTTTTTGCGAAAATCG--TGAAAATATGGATGTCCTTC-----TTTCCGATGGGAGTCGA
dp5 XR_group8:5414350-5414600 - dps_3331 TATCCACTCCAAGCGCCTGACTGGCAGATATCGCGACATGCCAATCTTCGGTAAGCTATATCTCAGACAAATAGGGCCAGATCGGTGAAGGACCTATTTTCCCAGAATCGCGAGGACCCAGACTGTCGATTTGCACCAAAATCTCGACTTCGAAAATGAGGCCGATTTTTGGCAAATTTAATGATGTAACCATCAT-GATTTTTTGCGAAAATCG--TGAAAAAATGGATGTCCTTC-----TTTCCGATGGCAGTCGA
droAna3 scaffold_13340:16404276-16404476 - TAGCC---------------------------------------------------AATATCTCAGCCAATTTTTATCCGATTTCAAAAAGAATCACCATTTATGTATCGCAGATTCAATCTCCTCAGATCTGCATTGAAATATGGACAGCAAAAATTTGATCGATTTTTGGCAAAAATCGTGATGTTACCCCTTT-GAAAATTTGCGAAAATCGGCTCAGATTTTCGATGACCATA-----TTT-TGATTGGAAGCGA
droKik1 scf7180000302686:1405839-1405946 + T-----------------------------------------------------------------------------------------------------------------------------------------------------CAAAATTTAAGCCATTTTTTGAAAATTTTAATGATGTAACCCCTTGCATTTTTTTGAAAAAATGG--CTTAAAAATTGTTTTCCTCCGGACATGTCTAAAAAGACGCGC

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droPer2
TATCCACTCCAAGCGCCTGACTGGCAGATATCGCGACATGCCAATCTTCGGTAGGCTATATCTCAGACAAATAGGGCCAGATCGGCGAAGGACCTACTTTCGCAGGATCGCGAGGACCCAGACTGTCGATTTGCACCAAAATCTCGACTTCGAAAATGAGGCCGATTTTTGGCAAATTTAATGATGTAACCATCAT-GATTTTTTGCGAAAATCG--TGAAAATATGGATGTCCTTC-----TTTCCGATGGGAGTCGASizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
............................................................TCTCAGACAAATAGGGCCAGATCGG..............................................................................................................................................................................25200.50100100000
...................................................................................................................ACCCAGACTGTCGATTTGCACCAAAA......................................................................................................................26130.233300000
.....................................................................................................................................................TCGAAAATGAGGCCGATTTTTGG.......................................................................................23200.153030000
.......................................................CTATATCTCAGACAAATAGGGCC.....................................................................................................................................................................................23200.102020000
.......................................................CTATATCTCAGACAAATAGGGCCA....................................................................................................................................................................................24200.102020000
.........................................................................................................................................................................................................TTTTGCGAAAATCG--TGAAAATATGG...............................25200.102020000
...................................................................................................................ACCCAGACTGTCGATTTGCACCAAAAT.....................................................................................................................27130.081100000
...................................................................................................................ACCCAGACTGTCGATTTGCACCAAAAAA....................................................................................................................28130.081100000
.....................................................................................................................CCAGACTGTCGATTTGCACC..........................................................................................................................20170.061100000
....................................................................AAATAGGGCCAGATCGGCGAAGGACC.....................................................................................................................................................................26200.051000001
.............................................CTTCGGTAGGCTATATCTCAG.................................................................................................................................................................................................21200.051000100
.............................................................................................................................................TCTCGACTTCGAAAATGAGGCCGA..............................................................................................24200.051010000
..................................................................................................................................................ACTTCGAAAATGAGGCCGATTTTTG........................................................................................25200.051010000
......................................................GCTATATCTCAGACAAATAGG........................................................................................................................................................................................21200.051010000
.....................................................................AATAGGGCCAGATCGGCGAAGGACC.....................................................................................................................................................................25200.051100000
dp5
TATCCACTCCAAGCGCCTGACTGGCAGATATCGCGACATGCCAATCTTCGGTAAGCTATATCTCAGACAAATAGGGCCAGATCGGTGAAGGACCTATTTTCCCAGAATCGCGAGGACCCAGACTGTCGATTTGCACCAAAATCTCGACTTCGAAAATGAGGCCGATTTTTGGCAAATTTAATGATGTAACCATCAT-GATTTTTTGCGAAAATCG--TGAAAAAATGGATGTCCTTC-----TTTCCGATGGCAGTCGASizeHit 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
....................................................................................................................................................TTCGAAAATGAGGCCGATTT...........................................................................................20200.1530000000300
..........................................................................................................................................................................................................TTTGCGAAAATCG--TGAAAAAATG................................23200.1020200000000
...................................................................................................................ACCCAGACTGTCGATTTGCACCAAAA......................................................................................................................26200.1020200000000
........................................................................................................................................................AAAATGAGGCCGATTTTTGGC......................................................................................21200.1020200000000
.........................................................ATATCTCAGACAAATAGGGC......................................................................................................................................................................................20200.0510100000000
.......................................................................................................................................................GAAAATGAGGCCGATTTTTGG.......................................................................................21200.0510100000000
.....................................................AGCTATATCTCAGACAAATAGGGC......................................................................................................................................................................................24200.0510100000000
..............................................................TCAGACAAATAGGGCCAGATCGGT.............................................................................................................................................................................24200.0510000000010
.......................................................................TAGGGCCAGATCGGTGAAG.........................................................................................................................................................................19200.0510100000000
...................................................................................................................................................................................................................................GATGTCCTTC-----TTTCCGATGGC......21200.0510100000000
......................................................................................................................................................................TTTTGGCAAATTTAATGATGTAACCAT..................................................................27200.0510100000000
......................................................................................................................................................CGAAAATGAGGCCGATTTT..........................................................................................19200.0510100000000
droAna3
TAGCC---------------------------------------------------AATATCTCAGCCAATTTTTATCCGATTTCAAAAAGAATCACCATTTATGTATCGCAGATTCAATCTCCTCAGATCTGCATTGAAATATGGACAGCAAAAATTTGATCGATTTTTGGCAAAAATCGTGATGTTACCCCTTT-GAAAATTTGCGAAAATCGGCTCAGATTTTCGATGACCATA-----TTT-TGATTGGAAGCGASizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
No Reads
droKik1
T-----------------------------------------------------------------------------------------------------------------------------------------------------CAAAATTTAAGCCATTTTTTGAAAATTTTAATGATGTAACCCCTTGCATTTTTTTGAAAAAATGG--CTTAAAAATTGTTTTCCTCCGGACATGTCTAAAAAGACGCGCSizeHit CountTotal NormTotal
No Reads

Generated: 06/08/2015 at 04:23 PM