ID:

dan_783

 Coordinate:

scaffold_12929:696430-696580 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-33.2 -33.0 -32.9

Flybase annnotation

CDS [Dana\GF22039-cds]; exon [dana_GLEANR_6030:2]; intron [Dana\GF22039-in]

No Repeatable elements found

mature
  1. scaffold_1599:58-77 -
  2. scaffold_6316:121-140 -
  3. scaffold_7068:5-24 -
  4. scaffold_7546:513-532 -
  5. scaffold_10207:12977-12996 -
  6. scaffold_11862:3701-3720 -
  7. scaffold_12916:5281309-5281328 -
  8. dan_783  scaffold_12929:696439-696458 -
  9. scaffold_12943:1592701-1592720 -
  10. scaffold_12944:162564-162583 -
  11. scaffold_13010:142729-142748 -
  12. scaffold_13077:75343-75362 -
  13. scaffold_13117:4258342-4258361 -
  14. scaffold_13137:325293-325312 -
  15. dan_1516  scaffold_13248:1536076-1536095 -
  16. scaffold_13248:3306813-3306832 -
  17. scaffold_13271:25158-25177 -
  18. scaffold_13340:7503712-7503731 -
  19. scaffold_13340:19255412-19255431 -
  20. scaffold_13499:1525117-1525136 -
star

Sense Strand Reads

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------####################################--------------
ATGTAAACTTGAGAATCTATTATAAAGTTTGCGCATTAAATATATTTGATTAAATGGGCAGAGCGGAGGAGGAGGTCCTGCCGGGAAGAAGCTTCTCAAACATTTTCAAATTAGAAAGTTTCTGCTGCCAGAATTCCGGATAAAGTTACGAATTTGTCGCTTGCATGGTGGATGTTTTTTTTTTTTTTTTTTATCCAACAGGACTGCCAGGACTACCAGGACTACCAAGCATTCTAGGGGGTAATGGTTGA
**************************************************......((((((((((((((.....)))).)))(((((...))))).....((((((......))))))..)).)))))......(((....((((.(((....))).))))...)))((((((.................))))))....************************************************** 		Read size # Mismatch Hit Count Total Norm Total V039
embryo
 M058
embryo
............................................................................................................................................................................TGTTTTTTTTTTTTTTTTTT........................................................... 20 0 20 0.50 10 0 10
......................................................................................................................................................................................................................ACTAGGACTACCTATCATTC................. 20 3 2 0.50 1 1 0
.......................................................................................................................................................................................................................CTAGGACTACCATGCATGC................. 19 3 7 0.14 1 1 0
................................................................................................................................................................TTGGATGGTGGCTGTTTT......................................................................... 18 2 20 0.05 1 1 0

Anti-sense strand reads

TACATTTGAACTCTTAGATAATATTTCAAACGCGTAATTTATATAAACTAATTTACCCGTCTCGCCTCCTCCTCCAGGACGGCCCTTCTTCGAAGAGTTTGTAAAAGTTTAATCTTTCAAAGACGACGGTCTTAAGGCCTATTTCAATGCTTAAACAGCGAACGTACCACCTACAAAAAAAAAAAAAAAAAATAGGTTGTCCTGACGGTCCTGATGGTCCTGATGGTTCGTAAGATCCCCCATTACCAACT
**************************************************......((((((((((((((.....)))).)))(((((...))))).....((((((......))))))..)).)))))......(((....((((.(((....))).))))...)))((((((.................))))))....************************************************** 		Read size # Mismatch Hit Count Total Norm Total M058
embryo
 V055
head
 V039
embryo
 M044
female body
 V106
head
...........................................................................................................................................................GAGCGACCGTAGCACCTACAAA.......................................................................... 22 3 1 1.00 1 0 1 0 0 0
.....................................................................................................................................................................CCCACCTACAAAAAGAAAAAAA................................................................ 22 2 4 0.25 1 1 0 0 0 0
.....................................................................................................................................................................ACCACCCACAAAAAAAAA.................................................................... 18 1 20 0.20 4 4 0 0 0 0
......................................................................................................................................................................CCACCTCCAAAAAAAAAAAA................................................................. 20 1 5 0.20 1 1 0 0 0 0
.....................................................................................................................................................................ACCACCCACAAAAAAAAAA................................................................... 19 1 16 0.19 3 3 0 0 0 0
.......................................................................................................................................................................CACCTACAGAAAAAAAAAA................................................................. 19 1 6 0.17 1 1 0 0 0 0
.....................................................................................................................................................................ACCACCCACAAAAAAAAAGAAAAA.............................................................. 24 2 7 0.14 1 1 0 0 0 0
.....................................................................................................................................................................ACCACCTCCAACAAAACAAAAAA............................................................... 23 3 7 0.14 1 1 0 0 0 0
.....................................................................................................................................................................................................................................GTGAGATCCCCCTTTACCGA.. 20 3 7 0.14 1 0 0 1 0 0
.....................................................................................................................................................................ACCACCCACAAAACAAGAAAAAAAA............................................................. 25 3 9 0.11 1 1 0 0 0 0
.....................................................................................................................................................................ACCACCTCCAACAAAAAAAA.................................................................. 20 2 9 0.11 1 1 0 0 0 0
.....................................................................................................................................................................ACCACCCACAAAAAAAAAAAAGA............................................................... 23 2 10 0.10 1 1 0 0 0 0
.....................................................................................................................................................................ACCACCCACAACAAAAAAAAA................................................................. 21 2 20 0.10 2 2 0 0 0 0
.....................................................................................................................................................................ACCACCCACAAGAAAAAAAA.................................................................. 20 2 20 0.10 2 1 0 1 0 0
..................................................................................................................................................................................AAAAAAAAAAAAATAAGGTTGTCAT................................................ 25 3 11 0.09 1 1 0 0 0 0
.....................................................................................................................................................................ACCACCAACAAAAAAAACACAAAAAA............................................................ 26 3 11 0.09 1 1 0 0 0 0
......................................................................................................................................................................CCACCCACAAAAAAAAAAAAAA............................................................... 22 1 12 0.08 1 1 0 0 0 0
......................................................................................................................................................................CCACCGACAAAAAAAAACAAAAAA............................................................. 24 2 12 0.08 1 1 0 0 0 0
......................................................................................................................................................................CCACCAACAAAAAAAAAAAAA................................................................ 21 1 13 0.08 1 1 0 0 0 0
.........................................................................................................................................................................................AAAAAAAAAAGTTGTCCTGA.............................................. 20 2 15 0.07 1 0 0 0 1 0
.....................................................................................................................................................................ACCACCAACAAAAAAAAAAAACAACAA........................................................... 27 3 16 0.06 1 1 0 0 0 0
.....................................................................................................................................................................................AAAAAAAAAAAAAGGTTGTCAT................................................ 22 2 16 0.06 1 0 0 0 0 1
......................................................................................................................................................................CCACCAACAAAAAAAAAAAA................................................................. 20 1 18 0.06 1 1 0 0 0 0
.....................................................................................................................................................................ACCACCTGCACAAAAAAACAA................................................................. 21 3 19 0.05 1 0 0 1 0 0
......................................................................................................................................................................CCACCCACAAAAAAAAAAAAA................................................................ 21 1 19 0.05 1 1 0 0 0 0
......................................................................................................................................................................CCACCCACAAAAACAAAAAAA................................................................ 21 2 20 0.05 1 1 0 0 0 0
....................................................................................................................................................................................................................GATGGTCCTTATGGGTC...................... 17 2 20 0.05 1 0 1 0 0 0
......................................................................................................................................................................CCACCTCCAAAAAAAACAAGA................................................................ 21 3 20 0.05 1 1 0 0 0 0
........................TTCAAACGCTTAAATTAT................................................................................................................................................................................................................. 18 2 20 0.05 1 0 0 1 0 0
......................................................................................................................................................................CCACCCACAAGAAAAAAAACAAA.............................................................. 23 3 20 0.05 1 1 0 0 0 0
......................................................................................................................................................................................AAAAAAAAAATAGGTTGTTG................................................. 20 2 20 0.05 1 1 0 0 0 0
......................................................................................................................................................................CCACCCACAAACAAAAAAAAAA............................................................... 22 2 20 0.05 1 1 0 0 0 0
.....................................................................................................................................................................ACCACCCACAAGAAAAAAA................................................................... 19 2 20 0.05 1 1 0 0 0 0
......................................................................................................................................................................CCACCCACAAAAAAAAAACAAAA.............................................................. 23 2 20 0.05 1 1 0 0 0 0
.....................................................................................................................................................................ACCACCCACAAAAGAAAAAA.................................................................. 20 2 20 0.05 1 1 0 0 0 0
.....................................................................................................................................................................ACCACCCACAAACAAAAAAA.................................................................. 20 2 20 0.05 1 1 0 0 0 0
.....................................................................................................................................................................ACCACCTGCAACAAAAAA.................................................................... 18 2 20 0.05 1 1 0 0 0 0
.....................................................................................................................................................................ACCACCCACAAAAAGAAAAA.................................................................. 20 2 20 0.05 1 0 0 1 0 0
.....................................................................................................................................................................ACCACCCGCCAAAAAAAAAAAAAAAA............................................................ 26 3 20 0.05 1 1 0 0 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droAna3 scaffold_12929:696380-696630 - dan_783 ATGTAAACTTGAGAATCTATTATAAAGTTTGCGCATTAAATATATTTGATTAAATGGGCAGAGCGGAG-----GAGGAGGTCCTGCCGGGAAGAAGCTTCTCAAACATTTTCAAATTAGAAAGTTTCTGCTGCC------------------AGAATTCCGGATAAAGTTACGA-ATTTGTCGCTTGCATGGTGGATGTTTTTTTTTTTTTTTTTTATCCAACAGGACTGCCAGGACTACCAGGACTACCAAGCATTCTAGGGGGTAATGGTTGA
droBip1 scf7180000394782:47633-47827 + ATGTTAACTTGAAAATCTATTATAAACTTTATGCATTAAATATTTTTGATTAAATCGGTCGAGTCGAGTCAGGAAGGAGGTCCTTC-------------CTCAAACATTTTCAAATTAGAAAGTTTCT--TGCGGAAGAAAGAAAAAAAAAAAGAA-ACCGGATAAAGTTACAAAATTTGTC-------------------------------------------------CAGGACTACCAGGACT---AAGGATTCTAGAG------------
droKik1 scf7180000301810:10178-10215 - A-------------GTCTATTAAAAAGTTTCAACATTAAATTTACTTTATT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droFic1 scf7180000454072:2202094-2202094 + A----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droEle1 scf7180000491013:1513578-1513601 - AT-------------TCGA--------------GAGTAAGATGATGATAGG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droYak3 X:835178-835191 - GGGAAAATGGGTAA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droEre2 scaffold_4644:895157-895170 - GGGTAAATGGGTAA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
dp5 XL_group1a:5243695-5243732 + A-------------ATCTATTAAAAACTTTGCACATTAACTTTATTTCATT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer2 scaffold_11:1830486-1830523 + A-------------ATCTATTAAAAACTTTGCACATTAACTTTATTTCATT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
ATGTAAACTTGAGAATCTATTATAAAGTTTGCGCATTAAATATATTTGATTAAATGGGCAGAGCGGAG-----GAGGAGGTCCTGCCGGGAAGAAGCTTCTCAAACATTTTCAAATTAGAAAGTTTCTGCTGCC------------------AGAATTCCGGATAAAGTTACGA-ATTTGTCGCTTGCATGGTGGATGTTTTTTTTTTTTTTTTTTATCCAACAGGACTGCCAGGACTACCAGGACTACCAAGCATTCTAGGGGGTAATGGTTGASizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
....................................................................................................................................................................................................TGTTTTTTTTTTTTTTTTTT...........................................................20200.50100100000
droBip1
ATGTTAACTTGAAAATCTATTATAAACTTTATGCATTAAATATTTTTGATTAAATCGGTCGAGTCGAGTCAGGAAGGAGGTCCTTC-------------CTCAAACATTTTCAAATTAGAAAGTTTCT--TGCGGAAGAAAGAAAAAAAAAAAGAA-ACCGGATAAAGTTACAAAATTTGTC-------------------------------------------------CAGGACTACCAGGACT---AAGGATTCTAGAG------------SizeHit CountTotal NormTotal
No Reads
droKik1
A-------------GTCTATTAAAAAGTTTCAACATTAAATTTACTTTATT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droFic1
A----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droEle1
AT-------------TCGA--------------GAGTAAGATGATGATAGG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droYak3
GGGAAAATGGGTAA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit 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
droEre2
GGGTAAATGGGTAA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotalM055
Female-body		M057
Embryo		V060
Head		V040
Embryo		V107
Male-body		V108
Head		GSM1528801
follicle cells
No Reads
dp5
A-------------ATCTATTAAAAACTTTGCACATTAACTTTATTTCATT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------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
droPer2
A-------------ATCTATTAAAAACTTTGCACATTAACTTTATTTCATT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
No Reads

Generated: 05/17/2015 at 11:14 PM