ID:

dan_2132

 Coordinate:

scaffold_13272:107681-107831 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-20.9 -20.6 -20.5 -20.5

Flybase annnotation

exon [dana_GLEANR_3486:2]; CDS [Dana\GF20609-cds]; intron [Dana\GF20609-in]

No Repeatable elements found

mature
  1. scaffold_10229:439-466 -
  2. scaffold_13272:68507-68534 -
  3. scaffold_13272:70624-70651 -
  4. scaffold_13272:73048-73075 -
  5. scaffold_13272:77453-77480 -
  6. scaffold_13272:78981-79008 -
  7. dan_2132  scaffold_13272:107710-107737 -
  8. scaffold_13272:109777-109804 -
  9. scaffold_13272:126802-126829 -
  10. scaffold_13370:882-909 -
star

Sense Strand Reads

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##################################################
AAATGCATTTGAGCGGCTACGTTTTTAGGGTTAGATTCAACCACAAAATAAAATATAGATATTAAACTAAACCTCGTCTACTTATTTGACCCCTATTAAAAAATATTAATAAAGTAACATTTTTGTGATCAGCATTAAAAGTGCCACTAAAACGCTGATATTTTTGCTGTCACAAAGTTTCATTTTAATTACTTAATGGAGTCTGAAGCTGAAGCTACTGGATCTGCTTCAAGTAGGGAAAGGATGCTGCG
**************************************************................((........................((((((......(((((......(((...(((((((.(((((.....((((.........))))........))))))))))))))).....)))))....))))))))************************************************** 		Read size # Mismatch Hit Count Total Norm Total M044
female body
 M058
embryo
 V055
head
 V039
embryo
 V105
male body		 V106
head
...................................................................................................................AACCTTTTTGTGATCACCA..................................................................................................................... 19 2 1 1.00 1 0 1 0 0 0 0
.................................................................................................................................................................................................TAATGGAGTCTGAAGCTGAAGCTACT................................ 26 0 5 0.40 2 1 1 0 0 0 0
.........................................................................................................................................................................................................TCTGAAGCTGAAGCTACTGGATCTGCTT...................... 28 0 9 0.33 3 2 0 0 0 1 0
.............................................................................................................................................................................................TACTTAATGGAGTCTGAAGCTGAAGCTAC................................. 29 0 5 0.20 1 1 0 0 0 0 0
...................................................................................................................AACCTTTTTGTGATCAACA..................................................................................................................... 19 2 5 0.20 1 0 0 0 1 0 0
..........................................................................................................................................................................................AATTACTTAATGGAGTCTGAAGCTGAAG..................................... 28 0 5 0.20 1 1 0 0 0 0 0
....................................................................................................................................................................................................TGGAGTTTGAAGCAGCAGCTAC................................. 22 3 6 0.17 1 0 0 1 0 0 0
.........................................................................................................................................................................................TAATTACTTAATGGAGTCTGAAGC.......................................... 24 0 7 0.14 1 0 1 0 0 0 0
......................................................................................................................................................AACGCTGATACTTATACTGT................................................................................. 20 3 15 0.13 2 1 0 0 0 0 1
.....................................................................................................................CATTTTAGTGAGCAGCAT.................................................................................................................... 18 2 8 0.13 1 0 0 1 0 0 0
.........................................................................................................................................................................................................TCTGAAGCTGAAGCTACTGGATCTGC........................ 26 0 9 0.11 1 1 0 0 0 0 0
................................................................................................................................................CACTAAAACGCTGATATTTTTGCTGTCA............................................................................... 28 0 10 0.10 1 1 0 0 0 0 0
................................................................................................................................................CACTAAAACGCTGATATTTTTGCTGT................................................................................. 26 0 10 0.10 1 1 0 0 0 0 0
...................................................................................................................................................TAAAACGCTGATATTTTTGCTGTCACA............................................................................. 27 0 10 0.10 1 1 0 0 0 0 0
.........................................................................GCGTCTACTTATTTGACCCCTATTAAAA...................................................................................................................................................... 28 1 10 0.10 1 1 0 0 0 0 0
.........TGAGCGGCTACGTTTTTAGGGTTAG......................................................................................................................................................................................................................... 25 0 11 0.09 1 1 0 0 0 0 0
.......................................................................................................................................................................................................................TACTGGATCTGCTTCAAGTAGGGAA........... 25 0 11 0.09 1 1 0 0 0 0 0
..............................................................................................................................................................................................................ATCTGAAGCTACTGGATCTGCTTCAAG.................. 27 1 11 0.09 1 0 1 0 0 0 0
..........................................................................................................................................................................................................................TGGATCTGCTTCAAGTAGGGAAAGGA....... 26 0 11 0.09 1 1 0 0 0 0 0
..........................................................................................................................................................................................................................TGGATCTGCTTCAAGTAGGGAAAGG........ 25 0 11 0.09 1 0 1 0 0 0 0
.......................................................................................................................................................................................................................TACTGGATCTGCTTCAAGTAGGG............. 23 0 11 0.09 1 1 0 0 0 0 0
.......TGTGAGCGGCTACGTTTTTAGGGC............................................................................................................................................................................................................................ 24 2 11 0.09 1 0 1 0 0 0 0
.................TACGTTTTTAGGGTTAGATTCAACCAC............................................................................................................................................................................................................... 27 0 11 0.09 1 1 0 0 0 0 0
...............................................................................................................................................CCACTAAAACGCTGATATTTTTGC.................................................................................... 24 0 12 0.08 1 1 0 0 0 0 0
.....................TTTTTAGGATTAGCTGCAACCA................................................................................................................................................................................................................ 22 3 12 0.08 1 0 1 0 0 0 0
................................................................................................................................................CACTAAAACGCTGATATTTTTG..................................................................................... 22 0 12 0.08 1 1 0 0 0 0 0
.......................TTTAGGGTGAGGTTCAACC................................................................................................................................................................................................................. 19 2 13 0.08 1 0 1 0 0 0 0
.......................................................................................................................................................................................................................TACTGGATCAGCTTGAAGT................. 19 2 16 0.06 1 0 0 1 0 0 0
...............................TAGATTCATCCGCAAAAAAAAA...................................................................................................................................................................................................... 22 3 20 0.05 1 0 1 0 0 0 0
........................................................................................................................................................................................................................ACTGGATCTGGTTGAAGT................. 18 2 20 0.05 1 0 0 1 0 0 0
............................................................................................................................................................................................................................GATCTGCTTCGAGAAGGG............. 18 2 20 0.05 1 0 0 1 0 0 0
......................TTTTAGGGTGAGGTTAAACC................................................................................................................................................................................................................. 20 3 20 0.05 1 0 1 0 0 0 0
.........................................................................................................................................AGAGCACCACTAAAACGCT............................................................................................... 19 3 20 0.05 1 0 0 0 1 0 0
............................................................................................................................................GTCCCGCGAAAACGCTGAT............................................................................................ 19 3 20 0.05 1 0 0 1 0 0 0
.............................................................................................................................................................................................................................ATCTGCTTGAAGGAGGGA............ 18 2 20 0.05 1 0 1 0 0 0 0

Anti-sense strand reads

TTTACGTAAACTCGCCGATGCAAAAATCCCAATCTAAGTTGGTGTTTTATTTTATATCTATAATTTGATTTGGAGCAGATGAATAAACTGGGGATAATTTTTTATAATTATTTCATTGTAAAAACACTAGTCGTAATTTTCACGGTGATTTTGCGACTATAAAAACGACAGTGTTTCAAAGTAAAATTAATGAATTACCTCAGACTTCGACTTCGATGACCTAGACGAAGTTCATCCCTTTCCTACGACGC
**************************************************................((........................((((((......(((((......(((...(((((((.(((((.....((((.........))))........))))))))))))))).....)))))....))))))))************************************************** 		Read size # Mismatch Hit Count Total Norm Total M058
embryo
 M044
female body
 V106
head
 V055
head
 V039
embryo
............................................................................................................................................................................................................................CTAGACGAAGTTCATCCCTTTCCTAC..... 26 0 11 0.27 3 1 2 0 0 0
....................................................................................................................................................................................GTAAAATTAATGAATTACCTCAGACTT............................................ 27 0 7 0.14 1 1 0 0 0 0
....................................................................................................................................GTAATTTTCACGGTGATTTTGCGACT............................................................................................. 26 0 8 0.13 1 0 1 0 0 0
...................................................................................................................................CGTAATTTTCACGGTGATTTTGCGACT............................................................................................. 27 0 8 0.13 1 1 0 0 0 0
...............................................................................................................................................................................................................CGACTTCGATGACCTAGAGGAAGTTCA................. 27 1 9 0.11 1 0 1 0 0 0
..................................................................................................................................................................AAACGACAGTGTTTCAAAGTAAAATTAAT............................................................ 29 0 10 0.10 1 1 0 0 0 0
.....................................................................................................................................................................CGACAGTGTTTCAAAGTAAAATTAAT............................................................ 26 0 10 0.10 1 1 0 0 0 0
.........................................................................................................................................................................................................................GACCTAGACGAAGTTCATCCCTTTCCT....... 27 0 11 0.09 1 0 1 0 0 0
.......AAACTCGCCGATGCAAAAATCCCA............................................................................................................................................................................................................................ 24 0 11 0.09 1 0 1 0 0 0
...........................................................................................................................................CCACGGTGATTTTGCGACTATAA......................................................................................... 23 1 11 0.09 1 1 0 0 0 0
.................ATGCAAAAATCCCAATCTAAGTTGGT................................................................................................................................................................................................................ 26 0 11 0.09 1 0 1 0 0 0
...............CGATGCAAAAATCCCAATCTAAGTTG.................................................................................................................................................................................................................. 26 0 11 0.09 1 0 1 0 0 0
............CGCCGATGCAAAAATCCCAATCTAAGT.................................................................................................................................................................................................................... 27 0 11 0.09 1 0 1 0 0 0
............CGCCGATGCAAAAATCCCAGTCTAAGTT................................................................................................................................................................................................................... 28 1 11 0.09 1 0 1 0 0 0
.TTACGTAAACTCGCCGATGCAAAAAT................................................................................................................................................................................................................................ 26 0 11 0.09 1 1 0 0 0 0
........................................................................................................................................................................................................................TGACCTAGACGAAGTTCATCC.............. 21 0 11 0.09 1 1 0 0 0 0
.............................................................................................................................................................................................................................TAGACGAAGTTCATCCCTTTCTTAC..... 25 1 11 0.09 1 1 0 0 0 0
..................CGCAAAAATCCCAATCTAAGT.................................................................................................................................................................................................................... 21 1 11 0.09 1 1 0 0 0 0
.........................................................................................................................................TTTCACGGTGATTTTGCGACTATAA......................................................................................... 25 0 11 0.09 1 0 1 0 0 0
..............................................................................................................................................................................................................................AGACGAAGTTCATCCCTTTCCTAC..... 24 0 11 0.09 1 1 0 0 0 0
............................................................................................................................................................................................................................CTAGACGAAGTTCATCCCTTTCCT....... 24 0 11 0.09 1 1 0 0 0 0
............................................................................................................................................................................................................................CTAGACGAAGTTCATCCCTTTCCTACG.... 27 0 11 0.09 1 0 1 0 0 0
...........................................................................................................................................................................................................................CCTAGACGAAGTTCATCCCTTTCCTAC..... 27 0 11 0.09 1 0 1 0 0 0
...........................................................................................................................................................................................................................CCTAGACGAAGTTCATCC.............. 18 0 11 0.09 1 0 1 0 0 0
............................................................................................................................................................................................................................CTAGACGAAGTTCATCCCTTTCCTA...... 25 0 11 0.09 1 1 0 0 0 0
...........................................................................................................................................................................................................................CCTAGACGAAGTTCATCCCTTTCCTACG.... 28 0 11 0.09 1 0 1 0 0 0
..............................................................................................................................................CGGTGATTTTGCGACTATAAAAA...................................................................................... 23 0 12 0.08 1 1 0 0 0 0
................................................................................................................................AGTCGTAATTTTCACGGTGATTTTGC................................................................................................. 26 0 12 0.08 1 1 0 0 0 0
...................................................................................................................................................................................................TCCCTCACACTTCGACTACG.................................... 20 3 13 0.08 1 0 0 1 0 0
.......................................................................................................................................................................................................................AGGACCTAGGCCAAGTTCATC............... 21 3 13 0.08 1 0 1 0 0 0
.....................................................................TGGTAGCAGACGAATAAACTGGG............................................................................................................................................................... 23 3 14 0.07 1 0 0 0 1 0
.....GTAAACTCGTCGAGGCAAA................................................................................................................................................................................................................................... 19 2 14 0.07 1 0 0 1 0 0
...............................................................................................................................................................................................................CGACTTCGATAACATAAACGAA...................... 22 3 17 0.06 1 1 0 0 0 0
...................................................................................................................................................ATTTTGCGACTAGGAAAA...................................................................................... 18 2 20 0.05 1 0 0 0 0 1
...........................................................................................................................ACACTAGTCGTAATTTTCACGGTGAT...................................................................................................... 26 0 20 0.05 1 1 0 0 0 0
.............................................................................................ACCATTTTTTATAATTATTT.......................................................................................................................................... 20 2 20 0.05 1 1 0 0 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droAna3 scaffold_13272:107631-107881 - dan_2132 AAATGCATTTGAG-CGGCTACGTT----------TTTAGGGTTA-GATTCAACCACAAAATAAAATA---------------TAGATATTAAACTAAAC-CTCGTCTACTTATT--------TGACCCCTATTAAAAAATATTAATAAAGTAACA------------------------------------TTTTTGTGATCAGCATTAAAAGTGCCACTAAAACGCTGATATTTTTGCTGTCACAAAGTTTCATTTTAATTACTTAATGGAGTCTGAAGCTGAAGCTACTGGATC---TGCTTCAAGTAGGGAAAGGATGCTGCG
droBip1 scf7180000395241:4783-5061 - A---T---TTGAG-CCGCAGCAAA---------TTTTA-GTTTAAACTTGAACGCCTAAAAA--GTATTGATTCAATACTATTAAACATTGAACTACAACGTTGT-TATTCATT--------CGGCCGCAATTAAAAACTAATCATTGCGTAAGCTATTGATGACCCCAACGTGAGTGCACCCCGTTTTGGTTATTGTGGTTAGT-TTAAAAGTTCCACGGAAAC-TTGTTGTTTTTGTTGTCATAACCTTGCACTTAAATTACTTAATGGA-------------GCTACTGGATCTGATGCTTC----AGGGAGAAGGTGTTGCT
droEug1 scf7180000408770:6038-6298 + T---GCATTCGGGGTGGTTTTGTTGCGGAGTTGGTTTG-GTTTTGAATTGAACTCGGAAAAAT-----------AATATTTTTGGAAATTGAACTGCCCCG--GTTTGTTTATT--------ATACAGCAATTAAAATC--G------------------------------------CACCCCATTTGGATTATTGTGATCTGT-TTAAGCGTGCCACGGATAC-TTGTTGTTTTTGTTGTCATAATCGTGAACTTAAATGACATAATGGAGTCTGGAGCTGAAGCCACTGTGTGTGCTGCTGCAAGCAGGGAGAAAATGCTGCG
droEre2 scaffold_4929:21148637-21148696 + T---A------------------------------------------------------------------------------------------------------------------------------TCAAAAAAAAAAAAAAAAGAAACA------------------------------------TTTGTCGAATAATTATTAAAAGCAGCAAAAAAAC-----------------------------------------------------------------------------------------------------
droVir3 scaffold_12958:3154920-3155010 + A---C--------------------------------------A-AATTGGAACACAAGAAA---------------------------TA-----AAATAAGGT-TAATTATTTCTATTTGTGAACGCTATTGAAAAAACTCAATAGAGCAACA------------------------------------TTTTGGTGACC----------------------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
AAATGCATTTGAG-CGGCTACGTT----------TTTAGGGTTA-GATTCAACCACAAAATAAAATA---------------TAGATATTAAACTAAAC-CTCGTCTACTTATT--------TGACCCCTATTAAAAAATATTAATAAAGTAACA------------------------------------TTTTTGTGATCAGCATTAAAAGTGCCACTAAAACGCTGATATTTTTGCTGTCACAAAGTTTCATTTTAATTACTTAATGGAGTCTGAAGCTGAAGCTACTGGATC---TGCTTCAAGTAGGGAAAGGATGCTGCGSizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
.........................................................................................................................................................................................................................................................................TAATGGAGTCTGAAGCTGAAGCTACT...................................2650.402110000
.................................................................................................................................................................................................................................................................................TCTGAAGCTGAAGCTACTGGATC---TGCTT......................2890.333200010
.....................................................................................................................................................................................................................................................................TACTTAATGGAGTCTGAAGCTGAAGCTAC....................................2950.201100000
..................................................................................................................................................................................................................................................................AATTACTTAATGGAGTCTGAAGCTGAAG........................................2850.201100000
.................................................................................................................................................................................................................................................................TAATTACTTAATGGAGTCTGAAGC.............................................2470.141010000
.................................................................................................................................................................................................................................................................................TCTGAAGCTGAAGCTACTGGATC---TGC........................2690.111100000
........................................................................................................................................................................................................................CACTAAAACGCTGATATTTTTGCTGTCA..................................................................................28100.101100000
........................................................................................................................................................................................................................CACTAAAACGCTGATATTTTTGCTGT....................................................................................26100.101100000
...........................................................................................................................................................................................................................TAAAACGCTGATATTTTTGCTGTCACA................................................................................27100.101100000
.........TGAG-CGGCTACGTT----------TTTAGGGTTA-G........................................................................................................................................................................................................................................................................................25110.091100000
...............................................................................................................................................................................................................................................................................................TACTGGATC---TGCTTCAAGTAGGGAA...........25110.091100000
..................................................................................................................................................................................................................................................................................................TGGATC---TGCTTCAAGTAGGGAAAGGA.......26110.091100000
..................................................................................................................................................................................................................................................................................................TGGATC---TGCTTCAAGTAGGGAAAGG........25110.091010000
...............................................................................................................................................................................................................................................................................................TACTGGATC---TGCTTCAAGTAGGG.............23110.091100000
..................TACGTT----------TTTAGGGTTA-GATTCAACCAC..............................................................................................................................................................................................................................................................................27110.091100000
.......................................................................................................................................................................................................................CCACTAAAACGCTGATATTTTTGC.......................................................................................24120.081100000
........................................................................................................................................................................................................................CACTAAAACGCTGATATTTTTG........................................................................................22120.081100000
droBip1
A---T---TTGAG-CCGCAGCAAA---------TTTTA-GTTTAAACTTGAACGCCTAAAAA--GTATTGATTCAATACTATTAAACATTGAACTACAACGTTGT-TATTCATT--------CGGCCGCAATTAAAAACTAATCATTGCGTAAGCTATTGATGACCCCAACGTGAGTGCACCCCGTTTTGGTTATTGTGGTTAGT-TTAAAAGTTCCACGGAAAC-TTGTTGTTTTTGTTGTCATAACCTTGCACTTAAATTACTTAATGGA-------------GCTACTGGATCTGATGCTTC----AGGGAGAAGGTGTTGCTSizeHit CountTotal NormTotal
No Reads
droEug1
T---GCATTCGGGGTGGTTTTGTTGCGGAGTTGGTTTG-GTTTTGAATTGAACTCGGAAAAAT-----------AATATTTTTGGAAATTGAACTGCCCCG--GTTTGTTTATT--------ATACAGCAATTAAAATC--G------------------------------------CACCCCATTTGGATTATTGTGATCTGT-TTAAGCGTGCCACGGATAC-TTGTTGTTTTTGTTGTCATAATCGTGAACTTAAATGACATAATGGAGTCTGGAGCTGAAGCCACTGTGTGTGCTGCTGCAAGCAGGGAGAAAATGCTGCGSizeHit CountTotal NormTotal
No Reads
droEre2
T---A------------------------------------------------------------------------------------------------------------------------------TCAAAAAAAAAAAAAAAAGAAACA------------------------------------TTTGTCGAATAATTATTAAAAGCAGCAAAAAAAC-----------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotalM055
Female-body		M057
Embryo		V060
Head		V040
Embryo		V107
Male-body		V108
Head		GSM1528801
follicle cells
No Reads
droVir3
A---C--------------------------------------A-AATTGGAACACAAGAAA---------------------------TA-----AAATAAGGT-TAATTATTTCTATTTGTGAACGCTATTGAAAAAACTCAATAGAGCAACA------------------------------------TTTTGGTGACC----------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotalM027
Male-body		M028
Head		M047
Female-body		M061
Embryo		SRR060654
Ovary		SRR060655
Testis		SRR060656
Ovary		SRR060657
Testis		SRR060658
Ovary		SRR060659
Testis		SRR060660
Ovary		SRR060661
Embryo		SRR060662
Embryo		SRR060663
Embryo		SRR060664
Male-body		SRR060665
Female-body		SRR060666
Male-body		SRR060667
Female-body		SRR060668
Male-body		SRR060669
Female-body		SRR060670
Testis		SRR060671
Male-body		SRR060672
Female-body		SRR060673
Ovary		SRR060674
Ovary		SRR060675
Ovary		SRR060676
Ovary		SRR060677
Ovary		SRR060678
Testis		SRR060679
Testis		SRR060680
Testis		SRR060681
Testis		SRR060682
Embryo		SRR060683
Testis		SRR060684
Embryo		SRR060685
Embryo		SRR060686
Embryo		SRR060687
Embryo		SRR060688
Ovary		SRR060689
Testis		SRR1106712
embryo_0-2h		SRR1106713
embryo_0-2h		SRR1106714
embryo_2-4h		SRR1106715
embryo_4-6h		SRR1106716
embryo_4-6h		SRR1106717
embryo_6-8h		SRR1106718
embryo_6-8h		SRR1106719
embryo_8-10h		SRR1106720
embryo_8-10h		SRR1106721
embryo_10-12h		SRR1106722
embryo_10-12h		SRR1106723
embryo_12-14h		SRR1106724
embryo_12-14h		SRR1106725
embryo_14-16h		SRR1106726
embryo_14-16h		SRR1106727
larvae		SRR1106728
larvae		SRR1106729
mixed whole adult body		SRR1106730
embryo_16-30h		V047
Embryo		V053
Head		V116
Male-body		GSM1528803
follicle cells
...................................................................................................................................TTGAAAAAACTCAATAGAGCAACA------------------------------------TTT....................................................................................................................................2724.509000000100000000000000000003100002001100000000000000000000000000
...................................................................................................................................TTGAAAAAACTCAATAGAGCAACA------------------------------------TT.....................................................................................................................................2624.008000000000000000000000000101300000002100000000000000000000000000
...................................................................................................................................TTGAAAAAACTCAATAGAGCAACA------------------------------------T......................................................................................................................................2521.503000010000000000000000000100100000000000000000000000000000000000
...............................................TTGGAACACAAGAAA---------------------------TA-----AAATAAGGT-............................................................................................................................................................................................................................26130.152000000000000000000000000000001000000000000000000000000000000010
................................................TGGAACACAAGAAA---------------------------TA-----AAATAAGGT-TAA.........................................................................................................................................................................................................................28100.101000000000000000000000000000000000010000000000000000000000000000
..................................................GAACACAAGAAA---------------------------TA-----AAATAAGGT-TAAT........................................................................................................................................................................................................................27110.091000000000000000000000000000001000000000000000000000000000000000
................................................TGGAACACAAGAAA---------------------------TA-----AAATAAGGT-TA..........................................................................................................................................................................................................................27110.091000000000000000000000000000000000010000000000000000000000000000
....C--------------------------------------A-AATTGGAACACAAGAAA---------------------------T............................................................................................................................................................................................................................................20130.081001000000000000000000000000000000000000000000000000000000000000
...........................................A-AATTGGAACACAAGAAA---------------------------.............................................................................................................................................................................................................................................18180.061001000000000000000000000000000000000000000000000000000000000000

Generated: 05/18/2015 at 03:48 AM