ID:

dan_2225

 Coordinate:

scaffold_13150:35542-35692 -

 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.

-14.4

Flybase annnotation

CDS [Dana\GF18978-cds]; exon [dana_GLEANR_20368:7]; intron [Dana\GF18978-in]

No Repeatable elements found

mature
  1. dan_2225  scaffold_13150:35562-35585 -
  2. scaffold_13150:66105-66128 -
star
  1. scaffold_4905:10-30 +
  2. scaffold_6335:935-955 +
  3. scaffold_7490:128-148 +
  4. scaffold_8232:2026-2046 +
  5. scaffold_8232:4215-4235 +
  6. scaffold_8989:1550-1570 +
  7. scaffold_9232:2574-2594 +
  8. scaffold_9232:3076-3096 +
  9. scaffold_9976:379-399 +
  10. scaffold_10256:446-466 +
  11. scaffold_10256:5774-5794 +
  12. scaffold_10256:6521-6541 +
  13. scaffold_10256:6782-6802 +
  14. scaffold_10256:6921-6941 +
  15. scaffold_10316:236-256 +
  16. scaffold_11863:633-653 +
  17. scaffold_13017:1677-1697 +
  18. scaffold_13017:4239-4259 +
  19. scaffold_13017:7927-7947 +
  20. scaffold_13693:7248-7268 +
  21. scaffold_2349:3666-3686 -
  22. scaffold_6934:10391-10411 -
  23. scaffold_6934:10785-10805 -
  24. scaffold_6934:11669-11689 -
  25. scaffold_8307:3220-3240 -
  26. scaffold_8904:511-531 -
  27. scaffold_9760:1368-1388 -
  28. scaffold_11207:266-286 -
  29. scaffold_12579:2599-2619 -
  30. scaffold_12579:3877-3897 -
  31. scaffold_12579:7143-7163 -
  32. scaffold_12963:1437-1457 -
  33. scaffold_13150:12483-12503 -
  34. scaffold_13150:13027-13047 -
  35. scaffold_13150:13327-13347 -
  36. scaffold_13150:13982-14002 -
  37. scaffold_13150:15284-15304 -
  38. scaffold_13150:15961-15981 -
  39. dan_2225  scaffold_13150:35612-35632 -
  40. scaffold_13150:35851-35871 -

Sense Strand Reads

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##################################################
CACCTCCTCCCGCAGCCAGCCAGGTCGCCACCTCCAGGTCAGTGGCATGGGCAGGGGTGTGCGCCTCCTCCAGCAGCCGCCCAGCTCGCCTCCTCCCGTCACCGGCCTCCTCCAGTAGCCAGCCAGGTCGCCTCCTCCAGCAGCCGGCCAAGTAGTCATCTCCAGCAGCCAGCCAGGTCGCCTCCTCCATTAGCCAGCCAGGTCGCCTCCACCAGGTCAGGGGCAGGGGCCAGAGAGGTCACCTCCTCCAG
**************************************************************************************************************....((..((.(((.(((.((........)).))))))...........................))..))********************************************************************** 		Read size # Mismatch Hit Count Total Norm Total M058
embryo
 M044
female body
 V039
embryo
 V055
head
............................................................................................................................................................GATCTCCAGCAGCCAGCCAGGTCGC...................................................................... 25 1 2 1.00 2 2 0 0 0
..............................................................................................................................................................................................................................GCAGGGGCCAGAGAGGTCACC........ 21 0 2 0.50 1 1 0 0 0
.............................................................................................................................................................ATCTCCAGCAGCCAGCCAGGTCGC...................................................................... 24 0 2 0.50 1 1 0 0 0
..........................................................................................................................................................................................................TCGCCTCCACCAGGTCAGGGG............................ 21 0 20 0.25 5 5 0 0 0
CACCTCCTCCCGCAGCCAGCCA..................................................................................................................................................................................................................................... 22 0 8 0.13 1 0 1 0 0
............................................GCATGCGCAGCGGTGTTCGC........................................................................................................................................................................................... 20 3 20 0.05 1 0 0 0 1
CTCCTCCTCCCGCAGCCAGCCA..................................................................................................................................................................................................................................... 22 1 20 0.05 1 1 0 0 0
.........................................................................................................................................................................CAGCCAGGTCGCCTCCTCCAT............................................................. 21 0 20 0.05 1 0 1 0 0
..............................................................................................................TCCAGTAGCCAGCCAGGTCGC........................................................................................................................ 21 0 20 0.05 1 1 0 0 0
.............................................................................................................................................................................................................................GACAGTGGCCAGAGAGGT............ 18 2 20 0.05 1 0 0 1 0

Anti-sense strand reads

GTGGAGGAGGGCGTCGGTCGGTCCAGCGGTGGAGGTCCAGTCACCGTACCCGTCCCCACACGCGGAGGAGGTCGTCGGCGGGTCGAGCGGAGGAGGGCAGTGGCCGGAGGAGGTCATCGGTCGGTCCAGCGGAGGAGGTCGTCGGCCGGTTCATCAGTAGAGGTCGTCGGTCGGTCCAGCGGAGGAGGTAATCGGTCGGTCCAGCGGAGGTGGTCCAGTCCCCGTCCCCGGTCTCTCCAGTGGAGGAGGTC
**********************************************************************....((..((.(((.(((.((........)).))))))...........................))..))************************************************************************************************************** 		Read size # Mismatch Hit Count Total Norm Total M044
female body
 M058
embryo
 V055
head
 V106
head
.........................................................................TTCCGCGGGTCGAGCGGCGGAGGG.......................................................................................................................................................... 24 3 2 0.50 1 0 0 1 0
.......................................................................................................................................................................CGGTCGGTCCAGCGGAGGAGG............................................................... 21 0 20 0.30 6 6 0 0 0
.....................................................................................................................CGGTCGGTCCAGCGGAGGAGGT................................................................................................................ 22 0 20 0.25 5 5 0 0 0
............GTCGGTCGGTCCAGCGGTGGA.......................................................................................................................................................................................................................... 21 0 20 0.20 4 0 4 0 0
..............CGGTCGGTCCAGCGGTGGA.......................................................................................................................................................................................................................... 19 0 20 0.15 3 0 3 0 0
.......AGGGCGTCGGTCGGTCCAGC................................................................................................................................................................................................................................ 20 0 10 0.10 1 1 0 0 0
...........................GGTGGAGGTCCAGTCACCGTA........................................................................................................................................................................................................... 21 0 10 0.10 1 0 1 0 0
.............................TGGAGGTCCAGTCACCGTGC.......................................................................................................................................................................................................... 20 1 19 0.05 1 1 0 0 0
..............................................................................................................................................................AGAGGTCGTCGGTCGGTCCAGCGG..................................................................... 24 0 20 0.05 1 1 0 0 0
........................................................................................................CGGAGGAGGTCATCGGTCGGTCCAGCG........................................................................................................................ 27 0 20 0.05 1 0 0 0 1
.........................................................................................................................................................................GTCGGTCCAGCGGAGGAGGTA............................................................. 21 0 20 0.05 1 1 0 0 0
........................................TCATCGTAGCCGTCCACACA............................................................................................................................................................................................... 20 3 20 0.05 1 0 0 1 0
.......................................................................................................CCGGAGGAGGTCATCGTTCG................................................................................................................................ 20 1 20 0.05 1 0 1 0 0
....................................................................................................................................................................................................CGGTCCAGCGGAGGTGGT..................................... 18 0 20 0.05 1 1 0 0 0
...........CGTCGGTCGGTCCAGCGGTGGA.......................................................................................................................................................................................................................... 22 0 20 0.05 1 0 1 0 0
.............TCGGTCGGTCCAGCGGTGGA.......................................................................................................................................................................................................................... 20 0 20 0.05 1 0 1 0 0
....................................................................................GAGCGCAGGAGGGCGGTCG.................................................................................................................................................... 19 3 20 0.05 1 0 0 0 1
.......................................................................................................CCGGAGGAGGTCATCGGTCGGTCCAG.......................................................................................................................... 26 0 20 0.05 1 1 0 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droAna3 scaffold_13150:35492-35742 - dan_2225 CACCTCCTCCCGCAGCCAGCCAGGTCGCCACCTCCAGGTCAGTGGCATGGGCAGGGGTGTGCGCCTCCTCCAGCAGCCGCCCAGCTCGCCTCCTCCCGTCACCGGCCTCCTCCAGTAGCCAGCCAGGTCGCCTCCTCCAGCAGCCGGCCAAGTAGTCATCTCCAGCAGCCAGCCAGGTCGCCTCCTCCATTAGCCAGCCAGGTCGCCTCCACCAGGTCAGGGGCAGGGGCCAGAGAGGTCACCTCCTCCAG

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
CACCTCCTCCCGCAGCCAGCCAGGTCGCCACCTCCAGGTCAGTGGCATGGGCAGGGGTGTGCGCCTCCTCCAGCAGCCGCCCAGCTCGCCTCCTCCCGTCACCGGCCTCCTCCAGTAGCCAGCCAGGTCGCCTCCTCCAGCAGCCGGCCAAGTAGTCATCTCCAGCAGCCAGCCAGGTCGCCTCCTCCATTAGCCAGCCAGGTCGCCTCCACCAGGTCAGGGGCAGGGGCCAGAGAGGTCACCTCCTCCAGSizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
..............................................................................................................................................................................................................................GCAGGGGCCAGAGAGGTCACC........2120.501010000
.............................................................................................................................................................ATCTCCAGCAGCCAGCCAGGTCGC......................................................................2420.501010000
..........................................................................................................................................................................................................TCGCCTCCACCAGGTCAGGGG............................21200.255050000
CACCTCCTCCCGCAGCCAGCCA.....................................................................................................................................................................................................................................2280.131100000
.........................................................................................................................................................................CAGCCAGGTCGCCTCCTCCAT.............................................................21200.051100000
..............................................................................................................TCCAGTAGCCAGCCAGGTCGC........................................................................................................................21200.051010000

Generated: 05/18/2015 at 01:49 AM