ID:

dan_1261

 Coordinate:

scaffold_13099:3187313-3187463 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-31.3 -30.6 -30.6

Flybase annnotation

CDS [Dana\GF22791-cds]; exon [dana_GLEANR_7134:2]; intron [Dana\GF22791-in]

No Repeatable elements found

mature
  1. scaffold_9363:329-353 -
  2. scaffold_9733:2719-2743 -
  3. scaffold_12586:449201-449225 -
  4. scaffold_12911:59136-59160 -
  5. scaffold_12984:445351-445375 -
  6. scaffold_13017:73471-73495 -
  7. scaffold_13043:351582-351606 -
  8. scaffold_13082:1077349-1077373 -
  9. scaffold_13082:1564550-1564574 -
  10. scaffold_13082:1583384-1583408 -
  11. scaffold_13082:3133772-3133796 -
  12. scaffold_13082:3452939-3452963 -
  13. scaffold_13099:3114068-3114092 -
  14. dan_1261  scaffold_13099:3187436-3187460 -
  15. scaffold_13230:256162-256186 -
  16. scaffold_13230:2386593-2386617 -
  17. scaffold_13230:2510265-2510289 -
  18. scaffold_13230:2529158-2529182 -
  19. scaffold_13417:3764551-3764575 -
  20. scaffold_13767:710438-710462 -
star
  1. scaffold_11638:12900-12924 +
  2. scaffold_13034:436541-436565 +
  3. scaffold_13034:1721784-1721808 +
  4. scaffold_13034:1731738-1731762 +
  5. scaffold_13043:351471-351495 -
  6. scaffold_13082:3088461-3088485 +
  7. scaffold_13082:3133649-3133673 -
  8. scaffold_13082:3516157-3516181 -
  9. scaffold_13082:3519297-3519321 -
  10. scaffold_13099:2308719-2308743 -
  11. scaffold_13099:3113945-3113969 -
  12. dan_1261  scaffold_13099:3187319-3187343 -
  13. scaffold_13111:559461-559485 +
  14. scaffold_13230:1699911-1699935 +
  15. scaffold_13260:568376-568400 +
  16. scaffold_13339:645261-645285 +
  17. scaffold_13339:2291258-2291282 +
  18. scaffold_13417:4637014-4637038 -
  19. scaffold_13417:5352909-5352933 +
  20. scaffold_13767:171354-171378 +

Sense Strand Reads

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##################################################
ATACGCTGGTTACAGAGTGCTACAATCGCTCATACATATATTACCCCGTGATATAGAAGTTGCACAGTGGGTCGTGAGCTAACAATAAATAAACGAACTAAAAAAATATTTGTGTTGCGAAAATTAATCCGTTTTTCGATTCTTCTGGAAGAAAAGAAGTCCTGAGCCTTAGTGCAGTTGTCCTTTTTGAGGACCTTCAAGGTTTTTTTCCTCCTTGAAAGAAGTGGAGAAATTTCCGGAGGCGATGATAA
*****************************************************......((((((...((.(((.((..(((((.((((((...............)))))))))))((((((.........))))))...(((((........))))))).))).))...))))))..((((((...)))))).******************************************************** 		Read size # Mismatch Hit Count Total Norm Total M058
embryo
 M044
female body
.....................................................TAGAAGTTGCACAGTGGGTCGTGAG............................................................................................................................................................................. 25 0 20 0.15 3 0 3
....................TACAATCGCTCATACATATATTACC.............................................................................................................................................................................................................. 25 0 20 0.10 2 2 0
....................TACAATCGCTCATACATATATTACCCCG........................................................................................................................................................................................................... 28 0 20 0.10 2 2 0
.....................................................TAGAAGTTGCACAGTGGGTCGTGAGC............................................................................................................................................................................ 26 0 20 0.05 1 0 1
..........................................................................................................................................................................AGTGCAGTTGTCCTTTTTGAGGACC........................................................ 25 0 20 0.05 1 1 0
....................TACAATCGCTCATACATATATTACCCC............................................................................................................................................................................................................ 27 0 20 0.05 1 0 1
....................................................ATAGAAGTTGCACAGTGGGTCGTG............................................................................................................................................................................... 24 0 20 0.05 1 1 0
...................................................TATGGAAGTTGCACAGTGGGTCGTG............................................................................................................................................................................... 25 1 20 0.05 1 0 1
....................................................ATAGAAGTTGCACAGTGGGTCGT................................................................................................................................................................................ 23 0 20 0.05 1 1 0
.....................................................TAGAAGTTGCACAGTGGGTCGTGA.............................................................................................................................................................................. 24 0 20 0.05 1 1 0
.....................................................TAGAAGTTGCACAGTGGGTCGTG............................................................................................................................................................................... 23 0 20 0.05 1 0 1
.................................................................................................................................................................................................................................GGAGAAATTTCCGGAGGCG....... 19 0 20 0.05 1 1 0

Anti-sense strand reads

TATGCGACCAATGTCTCACGATGTTAGCGAGTATGTATATAATGGGGCACTATATCTTCAACGTGTCACCCAGCACTCGATTGTTATTTATTTGCTTGATTTTTTTATAAACACAACGCTTTTAATTAGGCAAAAAGCTAAGAAGACCTTCTTTTCTTCAGGACTCGGAATCACGTCAACAGGAAAAACTCCTGGAAGTTCCAAAAAAAGGAGGAACTTTCTTCACCTCTTTAAAGGCCTCCGCTACTATT
********************************************************......((((((...((.(((.((..(((((.((((((...............)))))))))))((((((.........))))))...(((((........))))))).))).))...))))))..((((((...)))))).***************************************************** 		Read size # Mismatch Hit Count Total Norm Total M044
female body
 V039
embryo
 M058
embryo
 V105
male body
.................................................CGATATCTTCAAGGTGTCA....................................................................................................................................................................................... 19 2 5 0.20 1 0 1 0 0
...................................................ATATCTTCAACGTGTCACCCAGCACT.............................................................................................................................................................................. 26 0 20 0.15 3 3 0 0 0
.............................................................................................................................................................................................................................TTCACCTCTTTAAAGGCCTCCGCTACTA.. 28 0 10 0.10 1 1 0 0 0
.............................................................................................................................................................................................................................TTCACCTCTTTAAAGGCCTCCGCTAC.... 26 0 10 0.10 1 1 0 0 0
.............................................................................................................................................................................................................................ATCACCTCTTTAAAGGCCTCCGCTACT... 27 1 20 0.05 1 1 0 0 0
..............................................................................................................................................................................................................CAAGGAGGAATTTTATTCAC......................... 20 3 20 0.05 1 0 0 0 1
...............TCACGATGTTAGCGAGTATGTATATAAT................................................................................................................................................................................................................ 28 0 20 0.05 1 0 0 1 0
...................................................ATATCTTCAACGTGTCAGCCAGCACT.............................................................................................................................................................................. 26 1 20 0.05 1 1 0 0 0
....................ATGTTAGCGAGTATGTATATAATGG.............................................................................................................................................................................................................. 25 0 20 0.05 1 0 1 0 0
..............................................................................................................................................................................................CCTAGAAGTTCAAAAAAAA.......................................... 19 2 20 0.05 1 0 0 1 0
..................................................TATATCTTCAACGTGTCAGCCAGCACT.............................................................................................................................................................................. 27 1 20 0.05 1 1 0 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droAna3 scaffold_13099:3187263-3187513 - dan_1261 ATACGC--------TGGTTACAGAGTGCTACAATCGCTCATACATATATTACCCCGTGATATAGAAGTTGCACAGTGGGTCGTGAGCTAACAATAAATAAACGAACTAAAAAAATATTTGTGTTGCG------------------------------------AAAATTAATCCGTTTTTCGATTCTTCTGGAAGAAAAGAAGTCCTGAGCCTTAGTGCAGTTGTCCTTTTTGAGGACCTTCAAGGTTTTTTTCCTCCTTGAAAGAAGTGGAGAAATTTCCGGAGGCGATGATAA
droBip1 scf7180000393792:28889-29119 + CGTTA-----------TTTGCAGATTACTACAATCG-------TT-----ACCCCTTTATATAGCAGTTGCACCGTGGGTCGTGAACTATC----GATAAACAAACTAAAATAAATTTATTGTTGAGAAAATGAAAATCCGTTTGTTGAGTCTGCATCTCCTGAAAGGAAGCTCT----------------------------TTCTGAGCCAAAAAGCTATTGTCCTTTTTGACGATCTCCAAGGATTCCTT-GTCTTTAAAAGAGGTGGAGACATTTCCGGAGAC--------
droRho1 scf7180000772588:448-461 + GGACGC------------------------------------CATGCT--------------------------------------------------------------------------------------------------------------------------------------------------------CC---------------------------------------------------------------------------------------------
droTak1 scf7180000413255:274-287 + GGACGC------------------------------------CATGCT--------------------------------------------------------------------------------------------------------------------------------------------------------CC---------------------------------------------------------------------------------------------
droYak3 v2_chrUn_7001:1292-1334 + TTACATATTATGTTTATTTACATATTATTATCAT-------ACATATT--------------------------------------------------------------------------------------------------------------------------------------------------------TT---------------------------------------------------------------------------------------------
droEre2 scaffold_3334:92-147 - AAAATA--------------------------------------------------------------------------------------------------------------TCCGATTTCTG------------------------------------ACAACAAATTTTTTTTTCGATTTTTTTTGATAAAAATAA---------------------------------------------------------------------------------------------
dp5 Unknown_group_629:7018-7063 - ACAAGA-----------------------------------------------------------------------------------------AATAAATAAATTGAAATACAATTTCTGTTACC------------------------------------GAAA-------------------------------GTAA---------------------------------------------------------------------------------------------
droVir3 scaffold_12116:4052-4058 - ATACAT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------T---------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
ATACGC--------TGGTTACAGAGTGCTACAATCGCTCATACATATATTACCCCGTGATATAGAAGTTGCACAGTGGGTCGTGAGCTAACAATAAATAAACGAACTAAAAAAATATTTGTGTTGCG------------------------------------AAAATTAATCCGTTTTTCGATTCTTCTGGAAGAAAAGAAGTCCTGAGCCTTAGTGCAGTTGTCCTTTTTGAGGACCTTCAAGGTTTTTTTCCTCCTTGAAAGAAGTGGAGAAATTTCCGGAGGCGATGATAASizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
.............................................................TAGAAGTTGCACAGTGGGTCGTGAG.................................................................................................................................................................................................................25200.153300000
............................TACAATCGCTCATACATATATTACC..................................................................................................................................................................................................................................................25200.102020000
............................TACAATCGCTCATACATATATTACCCCG...............................................................................................................................................................................................................................................28200.102020000
.............................................................TAGAAGTTGCACAGTGGGTCGTGAGC................................................................................................................................................................................................................26200.051100000
......................................................................................................................................................................................................................AGTGCAGTTGTCCTTTTTGAGGACC........................................................25200.051010000
............................TACAATCGCTCATACATATATTACCCC................................................................................................................................................................................................................................................27200.051100000
............................................................ATAGAAGTTGCACAGTGGGTCGTG...................................................................................................................................................................................................................24200.051010000
............................................................ATAGAAGTTGCACAGTGGGTCGT....................................................................................................................................................................................................................23200.051010000
.............................................................TAGAAGTTGCACAGTGGGTCGTGA..................................................................................................................................................................................................................24200.051010000
.............................................................TAGAAGTTGCACAGTGGGTCGTG...................................................................................................................................................................................................................23200.051100000
.............................................................................................................................................................................................................................................................................GGAGAAATTTCCGGAGGCG.......19200.051010000
droBip1
CGTTA-----------TTTGCAGATTACTACAATCG-------TT-----ACCCCTTTATATAGCAGTTGCACCGTGGGTCGTGAACTATC----GATAAACAAACTAAAATAAATTTATTGTTGAGAAAATGAAAATCCGTTTGTTGAGTCTGCATCTCCTGAAAGGAAGCTCT----------------------------TTCTGAGCCAAAAAGCTATTGTCCTTTTTGACGATCTCCAAGGATTCCTT-GTCTTTAAAAGAGGTGGAGACATTTCCGGAGAC--------SizeHit CountTotal NormTotal
No Reads
droRho1
GGACGC------------------------------------CATGCT--------------------------------------------------------------------------------------------------------------------------------------------------------CC---------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droTak1
GGACGC------------------------------------CATGCT--------------------------------------------------------------------------------------------------------------------------------------------------------CC---------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droYak3
TTACATATTATGTTTATTTACATATTATTATCAT-------ACATATT--------------------------------------------------------------------------------------------------------------------------------------------------------TT---------------------------------------------------------------------------------------------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
AAAATA--------------------------------------------------------------------------------------------------------------TCCGATTTCTG------------------------------------ACAACAAATTTTTTTTTCGATTTTTTTTGATAAAAATAA---------------------------------------------------------------------------------------------SizeHit CountTotal NormTotalM055
Female-body		M057
Embryo		V060
Head		V040
Embryo		V107
Male-body		V108
Head		GSM1528801
follicle cells
No Reads
dp5
ACAAGA-----------------------------------------------------------------------------------------AATAAATAAATTGAAATACAATTTCTGTTACC------------------------------------GAAA-------------------------------GTAA---------------------------------------------------------------------------------------------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
droVir3
ATACAT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------T---------------------------------------------------------------------------------------------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
No Reads

Generated: 05/18/2015 at 01:10 AM