ID:

dan_1448

 Coordinate:

scaffold_13175:8096-8246 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

No conservation details.

-30.4 -30.3 -30.3

Flybase annnotation

exon [dana_GLEANR_5118:1]; CDS [Dana\GF21604-cds]; intron [Dana\GF21604-in]

No Repeatable elements found

mature
  1. scaffold_13034:805249-805273 -
  2. scaffold_13165:348602-348626 +
  3. dan_1448  scaffold_13175:8218-8242 +
  4. scaffold_13273:490-514 -
  5. scaffold_13339:1027221-1027245 +
  6. scaffold_13499:569491-569515 -
star
  1. scaffold_10513:34700-34723 +
  2. scaffold_11955:97-120 +
  3. scaffold_12586:48488-48511 +
  4. scaffold_13034:1003207-1003230 +
  5. scaffold_13034:1047499-1047522 +
  6. scaffold_13034:1056885-1056908 +
  7. scaffold_13077:524664-524687 +
  8. scaffold_13082:3042119-3042142 +
  9. dan_1448  scaffold_13175:8098-8121 +
  10. scaffold_13230:2551255-2551278 +
  11. scaffold_13230:2555788-2555811 +
  12. scaffold_13333:136947-136970 +
  13. scaffold_13333:829753-829776 +
  14. scaffold_13333:832919-832942 +
  15. scaffold_13335:2698174-2698197 +
  16. scaffold_13335:2702505-2702528 +
  17. scaffold_13335:2706760-2706783 +
  18. scaffold_13339:230956-230979 +
  19. scaffold_13339:925821-925844 +
  20. scaffold_13770:736146-736169 +
  21. scaffold_12844:148-171 +
  22. scaffold_12947:1438994-1439017 +
  23. scaffold_13034:1060274-1060297 +
  24. scaffold_13045:190121-190144 +
  25. scaffold_13082:3271299-3271322 +
  26. scaffold_13137:305702-305725 +
  27. scaffold_13239:216499-216522 +
  28. scaffold_13250:2223737-2223760 +
  29. scaffold_13339:2904315-2904338 +
  30. scaffold_13770:335072-335095 +

Sense Strand Reads

------------######################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
TTCCCGCTGATAATGCTGATTCTGCTTCCGGTGCCATCGACTAGTGTCGGGTTAGTAGGTTGGATATTGGCTTATGCTTATCGTTACATTATTAATAGGCTAGTAGGTCTGATTCTTGTATATTGTATAGGTGCCAACAGTAGGTTGGATATTGTTTTATGCTTATTGCTAATTTATTACTAGGTGTGCCAATAGGTTAGTGGGTCTGATGATTGTATATTGTGACATACTGATGCATCTGGATTGAGTAG
****************************************************.....((((((((((((((((((...................))))))))))..))))))))(((((((...)))))))..(((((.....)))))............(((((((((..(((((....)))))..)).)))))))****************************************************** 		Read size # Mismatch Hit Count Total Norm Total M058
embryo
 M044
female body
 V055
head
 V039
embryo
...........................................................................................................................................................................................GCCAATAGGTTAGTAGGTCTGATGAT...................................... 26 1 1 1.00 1 1 0 0 0
.....................................................................................................AGAAGGTCTGACTCTAGTA................................................................................................................................... 19 3 14 0.36 5 1 0 4 0
...........................................GCGTAGGGTTAGTCGGTT.............................................................................................................................................................................................. 18 3 20 0.20 4 0 0 4 0
............................................................................................................................................................................TTTATTACTAGGTGTGCCAATAGGT...................................................... 25 0 6 0.17 1 1 0 0 0
...................TTCTGCTTCCGGTGCCATCGACTAG............................................................................................................................................................................................................... 25 0 20 0.15 3 1 2 0 0
.............................................................................................................................AATAGGTGCCAGCAGTCGGTT......................................................................................................... 21 3 8 0.13 1 1 0 0 0
....................................................TAGTAGGTTGGATATTGGCTTATG............................................................................................................................................................................... 24 0 20 0.10 2 0 1 0 1
....................................................................................TACATTATTAATAGGCTAGTAGGT............................................................................................................................................... 24 0 20 0.10 2 2 0 0 0
........GATAATGCTGATTCTGCTTCCGGTGCC........................................................................................................................................................................................................................ 27 0 20 0.10 2 0 2 0 0
.................................................................................................................................................................................TACTAGGTGTGCCAATAGGTTAGTGG................................................ 26 0 20 0.10 2 0 2 0 0
................................................................................TCGTTACATTATTAATAGGCTAGTAGG................................................................................................................................................ 27 0 20 0.05 1 0 0 0 1
.................................................GGTTAGTAGGTTGGATATTGGCTTATGC.............................................................................................................................................................................. 28 0 20 0.05 1 1 0 0 0
TTCCCGCTGATAATGCTGATTCTGC.................................................................................................................................................................................................................................. 25 0 20 0.05 1 0 1 0 0
.TCCCGCTGATAATGCTGATTCTGCTTCC.............................................................................................................................................................................................................................. 28 0 20 0.05 1 0 1 0 0
.................................................................ATTGGCTTATGCTTATCGTTA..................................................................................................................................................................... 21 0 20 0.05 1 0 1 0 0
..............................................................................TATCGTTACATTATTAATAGGCTAG.................................................................................................................................................... 25 0 20 0.05 1 0 1 0 0
..........................TCCGGTGCCATCGACTAGTG............................................................................................................................................................................................................. 20 0 20 0.05 1 0 1 0 0
................TGATTCTGCTTCCGGTTCCATC..................................................................................................................................................................................................................... 22 1 20 0.05 1 0 1 0 0
.............TGCTGATTCTGCTTCCGGTGCCATCGAC.................................................................................................................................................................................................................. 28 0 20 0.05 1 0 1 0 0
...........AATGCTGATTCTGCTTCCGGTGCC........................................................................................................................................................................................................................ 24 0 20 0.05 1 1 0 0 0
.........................................................................................................................................................................................GTGCCAATAGGTTAGTGGGTCC............................................ 22 1 20 0.05 1 1 0 0 0
....................TCTGCTTCCGGTGCCATCGACT................................................................................................................................................................................................................. 22 0 20 0.05 1 0 1 0 0
.........................................................................................................................................................................................GTGCCAATAGGTTAGTGGGTC............................................. 21 0 20 0.05 1 0 1 0 0
.......TGATAATGCTGATTCTGCTTCCGGTG.......................................................................................................................................................................................................................... 26 0 20 0.05 1 0 1 0 0
.........ATAATGCTGATTCTGCTTCCGGTGCCA....................................................................................................................................................................................................................... 27 0 20 0.05 1 0 1 0 0
....................TCTGCTTCCGGTGCCATCGACTAGTG............................................................................................................................................................................................................. 26 0 20 0.05 1 0 1 0 0
..............................................................................TATCGTTACATTATTAATAGGCTAGC................................................................................................................................................... 26 1 20 0.05 1 1 0 0 0
........................................................AGGTTGGATATTGGCTTATGCTTATC......................................................................................................................................................................... 26 0 20 0.05 1 0 1 0 0
................................................................TATTGGCTAATGCTTATCGTTACAT.................................................................................................................................................................. 25 1 20 0.05 1 0 1 0 0
.......................................................TAGGTTGGATATTGGCTTATGATTT........................................................................................................................................................................... 25 2 20 0.05 1 1 0 0 0
..........TAATGCTGATTCTGCTTCCGGTG.......................................................................................................................................................................................................................... 23 0 20 0.05 1 0 1 0 0
..........TAATGCTGATTCTGCTTCCGGTGCC........................................................................................................................................................................................................................ 25 0 20 0.05 1 0 1 0 0
................................................................................TCGTTACATTATTAATAGGCTAGTAT................................................................................................................................................. 26 1 20 0.05 1 0 1 0 0
............................................................................................................................................................................................................................TGTGACTTAGGGATGCATC............ 19 3 20 0.05 1 0 0 1 0
..............GCTGATTCTGCTTCCGGTGCCATCGA................................................................................................................................................................................................................... 26 0 20 0.05 1 0 1 0 0
......................TGCTTCCGGTGCCATCGACTA................................................................................................................................................................................................................ 21 0 20 0.05 1 0 1 0 0
....................................................................................................................................................................................TAGGTGTGCCAATAGGTTAGTGGGTC............................................. 26 0 20 0.05 1 0 1 0 0
.....GCTGATAATGCTGATTCTGCTTCCGGTGC......................................................................................................................................................................................................................... 29 0 20 0.05 1 0 1 0 0
.............................................................................TTATCGTTACATTATTAATAGGCTAG.................................................................................................................................................... 26 0 20 0.05 1 1 0 0 0
................TGATTCTGCTTCCGGTGCCATCGAC.................................................................................................................................................................................................................. 25 0 20 0.05 1 1 0 0 0
........................................................................................................................................................................................TGTGCCAATAGGTTAGTGGGTCTG........................................... 24 0 20 0.05 1 0 1 0 0
...........AATGCTGATTCTGCTTCCGGT........................................................................................................................................................................................................................... 21 0 20 0.05 1 0 1 0 0
................................................................TATTGGCTTATGCTTATCGTTACATT................................................................................................................................................................. 26 0 20 0.05 1 0 1 0 0
TTCCCGCTGATAATGCTGATTCTGCT................................................................................................................................................................................................................................. 26 0 20 0.05 1 1 0 0 0
...CCGCTGATAATGCTGATTCTGCTTC............................................................................................................................................................................................................................... 25 0 20 0.05 1 0 1 0 0
................................................................................TCGTTACACTATTAATAGGCTAGTAGG................................................................................................................................................ 27 1 20 0.05 1 0 1 0 0
......................................................GTAGGTTGGATATTGGCTTATGCTTA........................................................................................................................................................................... 26 0 20 0.05 1 0 1 0 0

Anti-sense strand reads

AAGGGCGACTATTACGACTAAGACGAAGGCCACGGTAGCTGATCACAGCCCAATCATCCAACCTATAACCGAATACGAATAGCAATGTAATAATTATCCGATCATCCAGACTAAGAACATATAACATATCCACGGTTGTCATCCAACCTATAACAAAATACGAATAACGATTAAATAATGATCCACACGGTTATCCAATCACCCAGACTACTAACATATAACACTGTATGACTACGTAGACCTAACTCATC
******************************************************.....((((((((((((((((((...................))))))))))..))))))))(((((((...)))))))..(((((.....)))))............(((((((((..(((((....)))))..)).)))))))**************************************************** 		Read size # Mismatch Hit Count Total Norm Total M044
female body
 M058
embryo
 V039
embryo
.........................................................................................................................................................................................................CACAGACTACTCGCATATAA.............................. 20 3 10 0.10 1 1 0 0
........................................................................................................................................................................................ACACGGTTATCCAATCACCCAGACTAC........................................ 27 0 17 0.06 1 0 1 0
.......................................................ATCCAACCTATAACCGAATACGAAT........................................................................................................................................................................... 25 0 20 0.05 1 0 1 0
.....................................................................................................................................................................................................ACCACCCAGTCTACTAACAA.................................. 20 3 20 0.05 1 0 0 1
............................................................................................................................................ATCCAACCTATAACAAAATAC.......................................................................................... 21 0 20 0.05 1 1 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droAna3 scaffold_13175:8046-8296 + dan_1448 TTCCCGCTGATAATGCTGATTCTGCTTCCGGTGCCATCGACTAGTGTCGGGTTAGTAGGTTGGATATTGGCTTATGCTTATCGTTACATTATTAATAGGCTAGTAGGTCTGATTCTTGTATATTGTATAGGTGCCAACAGTAGGTTGGATATTGTTTTATGCTTATTGCTAATTTATTACTAGGTGTGCCAATAGGTTAGTGGGTCTGATGATTGTATATTGTGACATACTGATGCATCTGGATTGAGTAG

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
TTCCCGCTGATAATGCTGATTCTGCTTCCGGTGCCATCGACTAGTGTCGGGTTAGTAGGTTGGATATTGGCTTATGCTTATCGTTACATTATTAATAGGCTAGTAGGTCTGATTCTTGTATATTGTATAGGTGCCAACAGTAGGTTGGATATTGTTTTATGCTTATTGCTAATTTATTACTAGGTGTGCCAATAGGTTAGTGGGTCTGATGATTGTATATTGTGACATACTGATGCATCTGGATTGAGTAGSizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
............................................................................................................................................................................TTTATTACTAGGTGTGCCAATAGGT......................................................2560.171010000
...................TTCTGCTTCCGGTGCCATCGACTAG...............................................................................................................................................................................................................25200.153210000
....................................................TAGTAGGTTGGATATTGGCTTATG...............................................................................................................................................................................24200.102101000
....................................................................................TACATTATTAATAGGCTAGTAGGT...............................................................................................................................................24200.102020000
........GATAATGCTGATTCTGCTTCCGGTGCC........................................................................................................................................................................................................................27200.102200000
.................................................................................................................................................................................TACTAGGTGTGCCAATAGGTTAGTGG................................................26200.102200000
................................................................................TCGTTACATTATTAATAGGCTAGTAGG................................................................................................................................................27200.051001000
.................................................GGTTAGTAGGTTGGATATTGGCTTATGC..............................................................................................................................................................................28200.051010000
TTCCCGCTGATAATGCTGATTCTGC..................................................................................................................................................................................................................................25200.051100000
.TCCCGCTGATAATGCTGATTCTGCTTCC..............................................................................................................................................................................................................................28200.051100000
.................................................................ATTGGCTTATGCTTATCGTTA.....................................................................................................................................................................21200.051100000
..............................................................................TATCGTTACATTATTAATAGGCTAG....................................................................................................................................................25200.051100000
..........................TCCGGTGCCATCGACTAGTG.............................................................................................................................................................................................................20200.051100000
.............TGCTGATTCTGCTTCCGGTGCCATCGAC..................................................................................................................................................................................................................28200.051100000
...........AATGCTGATTCTGCTTCCGGTGCC........................................................................................................................................................................................................................24200.051010000
.........................................................................................................................................................................................GTGCCAATAGGTTAGTGGGTCC............................................22200.051010000
....................TCTGCTTCCGGTGCCATCGACT.................................................................................................................................................................................................................22200.051100000
.........................................................................................................................................................................................GTGCCAATAGGTTAGTGGGTC.............................................21200.051100000
.......TGATAATGCTGATTCTGCTTCCGGTG..........................................................................................................................................................................................................................26200.051100000
.........ATAATGCTGATTCTGCTTCCGGTGCCA.......................................................................................................................................................................................................................27200.051100000
....................TCTGCTTCCGGTGCCATCGACTAGTG.............................................................................................................................................................................................................26200.051100000
..............................................................................TATCGTTACATTATTAATAGGCTAGC...................................................................................................................................................26200.051010000
........................................................AGGTTGGATATTGGCTTATGCTTATC.........................................................................................................................................................................26200.051100000
..........TAATGCTGATTCTGCTTCCGGTG..........................................................................................................................................................................................................................23200.051100000
..........TAATGCTGATTCTGCTTCCGGTGCC........................................................................................................................................................................................................................25200.051100000
................................................................................TCGTTACATTATTAATAGGCTAGTAT.................................................................................................................................................26200.051100000
..............GCTGATTCTGCTTCCGGTGCCATCGA...................................................................................................................................................................................................................26200.051100000
......................TGCTTCCGGTGCCATCGACTA................................................................................................................................................................................................................21200.051100000
....................................................................................................................................................................................TAGGTGTGCCAATAGGTTAGTGGGTC.............................................26200.051100000
.....GCTGATAATGCTGATTCTGCTTCCGGTGC.........................................................................................................................................................................................................................29200.051100000
.............................................................................TTATCGTTACATTATTAATAGGCTAG....................................................................................................................................................26200.051010000
................TGATTCTGCTTCCGGTGCCATCGAC..................................................................................................................................................................................................................25200.051010000
........................................................................................................................................................................................TGTGCCAATAGGTTAGTGGGTCTG...........................................24200.051100000
...........AATGCTGATTCTGCTTCCGGT...........................................................................................................................................................................................................................21200.051100000
................................................................TATTGGCTTATGCTTATCGTTACATT.................................................................................................................................................................26200.051100000
TTCCCGCTGATAATGCTGATTCTGCT.................................................................................................................................................................................................................................26200.051010000
...CCGCTGATAATGCTGATTCTGCTTC...............................................................................................................................................................................................................................25200.051100000
......................................................GTAGGTTGGATATTGGCTTATGCTTA...........................................................................................................................................................................26200.051100000

Generated: 05/18/2015 at 01:56 AM