ID:

dan_1194

 Coordinate:

scaffold_13082:2586996-2587146 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-20.2 -20.2 -20.0

Flybase annnotation

CDS [Dana\GF20563-cds]; exon [dana_GLEANR_3356:4]; intron [Dana\GF20563-in]

No Repeatable elements found

mature
  1. scaffold_461:423-444 +
  2. scaffold_8797:1458-1479 +
  3. scaffold_10538:4464-4485 +
  4. scaffold_12084:14319-14340 +
  5. scaffold_12586:630370-630391 +
  6. scaffold_13010:336761-336782 +
  7. scaffold_13021:163451-163472 +
  8. scaffold_13034:519136-519157 +
  9. scaffold_13045:731560-731581 +
  10. dan_1194  scaffold_13082:2587113-2587134 +
  11. scaffold_13082:3089609-3089630 +
  12. scaffold_13099:1318774-1318795 +
  13. scaffold_13228:794091-794112 +
  14. scaffold_13228:1032691-1032712 +
  15. scaffold_13339:1595540-1595561 +
  16. scaffold_13339:1764188-1764209 +
  17. scaffold_13339:2967681-2967702 +
  18. scaffold_13417:5629929-5629950 +
  19. scaffold_13417:5733742-5733763 +
  20. scaffold_13767:245487-245508 +
star

Sense Strand Reads

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##################################################
AGCGGATTTATTGAAGCGAACGGATATTTCCACGGCACGCAAGTTTATATATTCACATGCCATTAGATTGGACCACTCCACCATCAACCGTACTTAACTGATGCTCTCGGATAGTCTCATAATCGTCTTAACAATAAAATTAACAAATTTATTGTTAATATGTAAAGCTAGCGGATCCTCATTTTCACCAAATTCAGCTAGCCTCAGACTGAGCTGGTGAAGGTGGAGTCCCATCGCAGTTCCGTTTCCAA
**************************************************...................((((...(((..(((((............))))).....)))..))))......(((.(((((((((((.........))))))))))).))).....(((((.((..................)).)))))************************************************** 		Read size # Mismatch Hit Count Total Norm Total M058
embryo
 M044
female body
 V039
embryo
 V055
head
..................................................................................................................................................................................TCATTTTCACCAAATTCAGCTAGCC................................................ 25 0 1 1.00 1 1 0 0 0
...............................................................TAAATTGGACCACCCCACC......................................................................................................................................................................... 19 2 2 0.50 1 1 0 0 0
..................................................................................ACCAACCGTACTTAACGG....................................................................................................................................................... 18 2 3 0.33 1 0 1 0 0
....................................................................................................................................................................................................................GCTGTTGAAGGTGGATTTCCA.................. 21 3 9 0.11 1 0 0 1 0
..........TTGAAGCGAACGGATATTTCCACGGCAC..................................................................................................................................................................................................................... 28 0 9 0.11 1 0 1 0 0
..........TTGAAGCGAACGGATATTTCCAAGG........................................................................................................................................................................................................................ 25 1 16 0.06 1 1 0 0 0
................................................................AGATGGGACCAAGCCACCA........................................................................................................................................................................ 19 3 17 0.06 1 1 0 0 0
............................................................................................................................................................................................................AAGACTGGGGTGGTGAAGG............................ 19 3 20 0.05 1 0 0 0 1
.......................................................................................................................................................................CTAGCGGATCCTCATTTTCACC.............................................................. 22 0 20 0.05 1 0 1 0 0
....................................................................................................................................................................................ATGTACACCAGATTCAGCT.................................................... 19 3 20 0.05 1 0 0 1 0
.....................................................................................................................................................................AGCTAGCGGATCCTCATTTTCACC.............................................................. 24 0 20 0.05 1 0 1 0 0

Anti-sense strand reads

TCGCCTAAATAACTTCGCTTGCCTATAAAGGTGCCGTGCGTTCAAATATATAAGTGTACGGTAATCTAACCTGGTGAGGTGGTAGTTGGCATGAATTGACTACGAGAGCCTATCAGAGTATTAGCAGAATTGTTATTTTAATTGTTTAAATAACAATTATACATTTCGATCGCCTAGGAGTAAAAGTGGTTTAAGTCGATCGGAGTCTGACTCGACCACTTCCACCTCAGGGTAGCGTCAAGGCAAAGGTT
**************************************************...................((((...(((..(((((............))))).....)))..))))......(((.(((((((((((.........))))))))))).))).....(((((.((..................)).)))))************************************************** 		Read size # Mismatch Hit Count Total Norm Total M044
female body
 V055
head
 V105
male body		 V039
embryo
 V106
head
 M058
embryo
............................................................................................GAATTGACTACCAGACCCGA........................................................................................................................................... 20 3 10 1.00 10 4 2 1 0 3 0
.........................................................................................................................................................................................................................ACTTCCACCTCAGGGTAGCGTCAAG......... 25 0 1 1.00 1 1 0 0 0 0 0
............................................................................................GAATTGACTACCAGACCC............................................................................................................................................. 18 2 4 1.00 4 0 4 0 0 0 0
............................................................................................GAATTGACTACCAGACCCG............................................................................................................................................ 19 3 20 0.55 11 4 0 0 0 7 0
.......................................................................TGGGGAGTTGGTAGTTGGCAGG.............................................................................................................................................................. 22 3 2 0.50 1 0 0 0 1 0 0
...................................................................AACATGGTGAGTTGGTAGT..................................................................................................................................................................... 19 2 2 0.50 1 0 0 1 0 0 0
.....................................................................................................................................................................................................................................GGGTATCGTCAAGGGGAAGGT. 21 3 5 0.20 1 0 1 0 0 0 0
....................................................................ACATGGTGAGTTGGTAGT..................................................................................................................................................................... 18 2 5 0.20 1 0 0 1 0 0 0
..................................................................................................................................................................ATTTCGATCGCCTAGGAGTAAAAGTG............................................................... 26 0 11 0.18 2 2 0 0 0 0 0
...........................................................................GAGGTGGGAGTTGGCATA.............................................................................................................................................................. 18 2 6 0.17 1 0 0 0 1 0 0
......................................................................................................................................................................CGATCGCCTAGGAGTAAAAGTG............................................................... 22 0 20 0.10 2 0 0 0 0 0 2
...................................................................................................................................................................TTTCGATCGCCTAGGAGTAAAAGTG............................................................... 25 0 11 0.09 1 1 0 0 0 0 0
....................................................................................................................................................................TTCGATCGCCTAGGAGTAAAAGTGGT............................................................. 26 0 13 0.08 1 1 0 0 0 0 0
..................................................................................................................................................................ATTTCGATCGCCTAGGAGTAAAAGT................................................................ 25 0 14 0.07 1 1 0 0 0 0 0
.................................................................................................................................................................AATTTCGATCGCCTAGGAGTAAAAGTG............................................................... 27 1 15 0.07 1 1 0 0 0 0 0
...............................................................................................................................................................TACATTTCGATCGCCTAGGAGTAAAA.................................................................. 26 0 16 0.06 1 1 0 0 0 0 0
.................................................................................................................................................................CATTTCGATCGCCTAGGAGTAAAA.................................................................. 24 0 17 0.06 1 0 0 0 0 0 1
....................................................................................................................................................................TTCGATCGCCTAGGAGTAAAAG................................................................. 22 0 19 0.05 1 0 0 0 0 0 1
.....................................................................................................................................................................TCGATCGCCTAGGAGTAAAAGGG............................................................... 23 1 20 0.05 1 0 0 0 0 0 1
.....................................................................................................................................................................TCGATCGCCTAGGAGTAAATCGG............................................................... 23 3 20 0.05 1 0 0 0 0 0 1

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droAna3 scaffold_13082:2586946-2587196 + dan_1194 AGCGGATTTATTGAAGCGAACGGATATTTCCACGGCACGCAA--------------------------------------------GTTTATATATTCACATGCCATTAGATTGGACCACTCCACCATCAACCGTACTTAACTGATGCTCTCGGATAGTCTCATAATCGTCTTAACAATAAAATTAACAAATTTATTGTTAA------T-ATGTAAA-GCTAGCGGATCCTCATTTTCACCAAATTCAGCTAGCCTCAGACTGAGCTGGTGAAGGTGGAGTCCCATCGCA-GTTCCGTTTCCAA
droBip1 scf7180000395259:4562-4742 + AGTGGATTTGTTGAAAGGGACGGAGATTTTTATGGCACGCAGTCAAAGAATAAATTTAAAGTGTAATAAAACTGCTGTCAGGCTATATTTATATCTTGAAATGCCAAGAGATCGGACCAATCAAATTCC--------------------------------------------------AAAATTAACTTATTTA------G------T-TTCATAAAGTCA------------------------------------------------------------GCCTCACAGAAGAAACGAACTT
droKik1 scf7180000302230:166076-166079 - CCA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A
droFic1 scf7180000453221:58657-58697 - ATCT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CTGGA-GTTGGTGAATCATCATTTTCATCAAATGCAA------------------------------------------------------C
droRho1 scf7180000774099:791-831 + AGGTGATTTAATGG--ATAACGGATAGTACCACGGAACACAG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------G
droBia1 scf7180000302069:1423285-1423324 + AGAC---------------------------------------------------------------------------------------------------------------------------------------------------CGAAC--------------------------------------------------------------------------------------------------------------------AGCTGGAGCAGCACCAGA-GCGAGGCGACCAA
droTak1 scf7180000410478:1222-1276 - CTCC---------------------------------------------------------------------------------------------------------------------------------------------------CAAATTGTATGATAAATGAATAAATAATAAAATAAATAAATAAATTATTA------------------------------------------------------------------------------------------------------A
droEug1 scf7180000409128:4544-4621 - GGAGGGTTATCCGTTCTGGACGGGTACCTCATCGGAACACAT--------------------------------------------------------------------------------------------------------------------------------------------------ATATCAATTGCTATTGCTAGACCTCTTACCGCCA--------------------------T------------------------------------------------------C
droSec2 scaffold_933:546-588 - TTA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGAATAAGATTTACAAACTTATTGTTAG------T-CTCTTAA-GTTA----------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
AGCGGATTTATTGAAGCGAACGGATATTTCCACGGCACGCAA--------------------------------------------GTTTATATATTCACATGCCATTAGATTGGACCACTCCACCATCAACCGTACTTAACTGATGCTCTCGGATAGTCTCATAATCGTCTTAACAATAAAATTAACAAATTTATTGTTAA------T-ATGTAAA-GCTAGCGGATCCTCATTTTCACCAAATTCAGCTAGCCTCAGACTGAGCTGGTGAAGGTGGAGTCCCATCGCA-GTTCCGTTTCCAASizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
......................................................................................................................................................................................................................................TCATTTTCACCAAATTCAGCTAGCC.................................................2511.001010000
..........TTGAAGCGAACGGATATTTCCACGGCAC..........................................................................................................................................................................................................................................................................2890.111100000
...........................................................................................................................................................................................................................CTAGCGGATCCTCATTTTCACC...............................................................22200.051100000
........................................................................................................................................................................................................................A-GCTAGCGGATCCTCATTTTCACC...............................................................24200.051100000
droBip1
AGTGGATTTGTTGAAAGGGACGGAGATTTTTATGGCACGCAGTCAAAGAATAAATTTAAAGTGTAATAAAACTGCTGTCAGGCTATATTTATATCTTGAAATGCCAAGAGATCGGACCAATCAAATTCC--------------------------------------------------AAAATTAACTTATTTA------G------T-TTCATAAAGTCA------------------------------------------------------------GCCTCACAGAAGAAACGAACTTSizeHit CountTotal NormTotal
No Reads
droKik1
CCA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ASizeHit CountTotal NormTotal
No Reads
droFic1
ATCT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CTGGA-GTTGGTGAATCATCATTTTCATCAAATGCAA------------------------------------------------------CSizeHit CountTotal NormTotal
No Reads
droRho1
AGGTGATTTAATGG--ATAACGGATAGTACCACGGAACACAG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GSizeHit CountTotal NormTotal
No Reads
droBia1
AGAC---------------------------------------------------------------------------------------------------------------------------------------------------CGAAC--------------------------------------------------------------------------------------------------------------------AGCTGGAGCAGCACCAGA-GCGAGGCGACCAASizeHit CountTotal NormTotal
No Reads
droTak1
CTCC---------------------------------------------------------------------------------------------------------------------------------------------------CAAATTGTATGATAAATGAATAAATAATAAAATAAATAAATAAATTATTA------------------------------------------------------------------------------------------------------ASizeHit CountTotal NormTotal
No Reads
droEug1
GGAGGGTTATCCGTTCTGGACGGGTACCTCATCGGAACACAT--------------------------------------------------------------------------------------------------------------------------------------------------ATATCAATTGCTATTGCTAGACCTCTTACCGCCA--------------------------T------------------------------------------------------CSizeHit CountTotal NormTotal
No Reads
droSec2
TTA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGAATAAGATTTACAAACTTATTGTTAG------T-CTCTTAA-GTTA----------------------------------------------------------------------------------SizeHit CountTotal NormTotalM054
Female-body		V113
Male-body		V114
Embryo		V115
Head
No Reads

Generated: 05/18/2015 at 12:47 AM