ID:

dan_2222

 Coordinate:

scaffold_13150:6891-7041 -

 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.

-17.2 -16.6

Flybase annnotation

CDS [Dana\GF18978-cds]; exon [dana_GLEANR_20368:8]; intron [Dana\GF18978-in]

No Repeatable elements found

mature
  1. scaffold_2456:465-487 -
  2. scaffold_2456:2108-2130 -
  3. scaffold_2456:3878-3900 -
  4. scaffold_2461:1375-1397 -
  5. scaffold_2658:676-698 -
  6. scaffold_5874:1086-1108 -
  7. scaffold_6121:315-337 -
  8. scaffold_6121:548-570 -
  9. scaffold_6121:781-803 -
  10. scaffold_8811:3554-3576 -
  11. scaffold_9380:1390-1412 -
  12. scaffold_9380:4176-4198 -
  13. scaffold_9580:5411-5433 -
  14. scaffold_10119:2625-2647 -
  15. scaffold_10119:3432-3454 -
  16. scaffold_10119:4215-4237 -
  17. scaffold_10119:4941-4963 -
  18. dan_2222  scaffold_13150:6900-6922 -
  19. scaffold_13150:14517-14539 -
  20. scaffold_13150:14750-14772 -
  21. scaffold_2130:1003-1025 -
  22. scaffold_2456:1792-1814 -
  23. scaffold_3045:45-67 -
  24. scaffold_3045:770-792 -
  25. scaffold_5376:2450-2472 -
  26. scaffold_5846:468-490 -
  27. scaffold_5847:6-28 -
  28. scaffold_8778:3678-3700 -
  29. scaffold_9104:37-59 -
  30. scaffold_9580:3344-3366 -
  31. scaffold_9620:34-56 -
  32. scaffold_10119:1061-1083 -
  33. scaffold_10292:261-283 -
  34. scaffold_10382:1340-1362 -
  35. scaffold_10382:2722-2744 -
  36. scaffold_10382:4853-4875 -
  37. scaffold_10382:5506-5528 -
  38. scaffold_11167:69-91 -
  39. scaffold_11457:1263-1285 -
  40. scaffold_12174:4139-4161 -
star
  1. scaffold_1420:325-345 +
  2. scaffold_2289:368-388 +
  3. scaffold_4355:985-1005 +
  4. scaffold_4904:823-843 +
  5. scaffold_5066:156-176 +
  6. scaffold_6993:12323-12343 +
  7. scaffold_8232:3903-3923 +
  8. scaffold_9376:2918-2938 +
  9. scaffold_9688:3370-3390 +
  10. scaffold_9782:12058-12078 +
  11. scaffold_9976:128-148 +
  12. scaffold_10183:426-446 +
  13. scaffold_10256:3668-3688 +
  14. scaffold_11863:382-402 +
  15. scaffold_12648:300-320 +
  16. scaffold_13220:52533-52553 +
  17. scaffold_13250:24985-25005 +
  18. scaffold_13337:13485854-13485874 +
  19. scaffold_13337:13487603-13487623 +
  20. scaffold_13337:13490679-13490699 +
  21. scaffold_2254:512-532 -
  22. scaffold_2321:463-483 -
  23. scaffold_4664:1158-1178 -
  24. scaffold_4664:1219-1239 -
  25. scaffold_4919:251-271 -
  26. scaffold_5439:255-275 -
  27. scaffold_5439:4265-4285 -
  28. scaffold_5454:928-948 -
  29. scaffold_8246:811-831 -
  30. scaffold_9210:2870-2890 -
  31. scaffold_10261:1319-1339 -
  32. scaffold_11304:407-427 -
  33. scaffold_11304:1103-1123 -
  34. scaffold_11304:2070-2090 -
  35. scaffold_11304:3797-3817 -
  36. scaffold_13150:72167-72187 -
  37. scaffold_13209:1547-1567 -
  38. scaffold_13239:2812-2832 -
  39. scaffold_13239:11648-11668 -
  40. scaffold_13239:11709-11729 -
  41. scaffold_2286:63-83 -
  42. scaffold_2456:3423-3443 -
  43. scaffold_2911:746-766 -
  44. scaffold_5528:497-517 -
  45. scaffold_5747:4442-4462 -
  46. scaffold_6121:345-365 -
  47. scaffold_6121:578-598 -
  48. scaffold_6121:811-831 -
  49. scaffold_9104:3095-3115 -
  50. scaffold_9580:5075-5095 -
  51. scaffold_10119:1320-1340 -
  52. scaffold_10292:565-585 -
  53. scaffold_10382:3051-3071 -
  54. scaffold_11167:373-393 -
  55. dan_2222  scaffold_13150:6930-6950 -
  56. scaffold_13150:14547-14567 -
  57. scaffold_13150:14780-14800 -
  58. scaffold_13150:34741-34761 -
  59. scaffold_13201:90046-90066 -
  60. scaffold_13201:90931-90951 -

Sense Strand Reads

##################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
GTCGCCACCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGCAGCCGGCCAGGTCAGTGGTGGGGTCAGGGGTGTGCGCCTCCTCCAGTAGCCAGCCAGGTCGCCTCCTCCAGTAGCCAGCCAGGTCGCCTCCACCAGGTCAGGGGCAGGGGCCAGCCAGGTCACCTCCTCCAGCAGCCAGCCAGGTCGCCTCCTTCAGCAGCCAGCCAGGTCGCCTCCTACAGCAGCCGGCCAGGTCGCCTCCTCCAGGTCA
*********************************************************************************************************************************************((....((((..(((.(((...((........))...))).))).))))))*********************************************************** 		Read size # Mismatch Hit Count Total Norm Total V106
head
 M058
embryo
 V055
head
 M044
female body
........CTCCAGCAGCCAGCCAGGTCG.............................................................................................................................................................................................................................. 21 0 20 0.45 9 9 0 0 0
....................................................CAGGGATGGGGTCCGGGGTGTG................................................................................................................................................................................. 22 3 6 0.17 1 0 0 1 0
..............................................................................................................................................................................................................AGGTCGCCTCCTACCGCAGCC........................ 21 1 7 0.14 1 0 1 0 0
.........................................................................................................................................................................CAGCAGCCAGCCAGGTCGCCTCC........................................................... 23 0 20 0.10 2 0 0 0 2
.TCGCCACCTCCAGCAGCCAGCC.................................................................................................................................................................................................................................... 22 0 14 0.07 1 0 1 0 0
.........................................................GTGGGGTCTGGGGGGTGC................................................................................................................................................................................ 18 2 15 0.07 1 0 0 1 0
................................................................................................................................................................................................................................GCCGGCCAGGTCGCCTCCTCC...... 21 0 20 0.05 1 0 0 0 1
..................................................................................................................................................................................GCCAGGTCGCCTCCTTCAGCAGCCAGC.............................................. 27 0 20 0.05 1 0 1 0 0
.............................................................................................................................................GGGCAGGGGCCAGCCAGGTCA......................................................................................... 21 0 20 0.05 1 1 0 0 0
..........................................................................................................................................................................................................................ACAGCAGCTGGCCACGTC............... 18 2 20 0.05 1 0 1 0 0
...........................................................................................................................................................................................................GCCAGATCGCCTCCTACAGCAGCC........................ 24 1 20 0.05 1 1 0 0 0

Anti-sense strand reads

CAGCGGTGGAGGTCGTCGGTCGGTCCAGCGGAGGAGGTCGTCGGCCGGTCCAGTCACCACCCCAGTCCCCACACGCGGAGGAGGTCATCGGTCGGTCCAGCGGAGGAGGTCATCGGTCGGTCCAGCGGAGGTGGTCCAGTCCCCGTCCCCGGTCGGTCCAGTGGAGGAGGTCGTCGGTCGGTCCAGCGGAGGAAGTCGTCGGTCGGTCCAGCGGAGGATGTCGTCGGCCGGTCCAGCGGAGGAGGTCCAGT
***********************************************************((....((((..(((.(((...((........))...))).))).))))))********************************************************************************************************************************************* 		Read size # Mismatch Hit Count Total Norm Total M058
embryo
 V106
head
 M044
female body
 V039
embryo
 V105
male body
...........................................................................................................................................................................................GGAGGAAGTCGTCGGTCGGTC........................................... 21 0 20 0.20 4 0 0 4 0 0
.......................................................................................................................................................................................CAGCGGAGGAAGTCGTCGGTC............................................... 21 0 20 0.20 4 2 2 0 0 0
...........................................................................................................................................................................................................CGGTCCAGCGGAGGATGTCGTCG......................... 23 0 7 0.14 1 0 1 0 0 0
...........................................................................................................................................................................................................CGGTCCAGCGGAGGATGTCGTC.......................... 22 0 7 0.14 1 1 0 0 0 0
...........................................................................................................................................................................................................CGGTCCAGCGGAGGATGTCGTCGG........................ 24 0 7 0.14 1 0 1 0 0 0
............................................................................................................................................................................................................GGTCCAGCGGAGGATGTCGTC.......................... 21 0 7 0.14 1 0 0 0 1 0
......................................................................................ATCGGTCGGTCCAGCGGAGGAGG.............................................................................................................................................. 23 0 20 0.10 2 2 0 0 0 0
..............................................................................................................................................................................CGGTCGGTCCAGCGGAGGAAG........................................................ 21 0 20 0.10 2 2 0 0 0 0
......TGGAGGTCGTCGGTCGGTCC................................................................................................................................................................................................................................. 20 0 20 0.10 2 0 0 2 0 0
.....................................................................................................................................................CGGTCGGTCCAGTGGAGG.................................................................................... 18 0 20 0.10 2 0 0 2 0 0
........................................................................................................................................................................................................GGTCGGTCCAGCGGAGGATG............................... 20 0 20 0.10 2 2 0 0 0 0
......TGGAGGTCGTCGGTCGGTCCAGC.............................................................................................................................................................................................................................. 23 0 20 0.10 2 1 1 0 0 0
.........................................................................................................................................................................................................TTCGGTCCAGCGGAGGATGTCGTCG......................... 25 1 11 0.09 1 0 1 0 0 0
......................................................CACCACCCGAGTCCACAC................................................................................................................................................................................... 18 2 12 0.08 1 1 0 0 0 0
..................................AGGTCGTCGGCCGGTCCAGTC.................................................................................................................................................................................................... 21 0 17 0.06 1 0 0 1 0 0
......................................................................................................................................................................................................................................GTCCAGCGGAGGAGGTCCAGT 21 0 20 0.05 1 0 0 1 0 0
.....TTGGAGGTCGTCGGTCGGTC.................................................................................................................................................................................................................................. 20 1 20 0.05 1 0 0 1 0 0
.....ATGGAGGTCGTCGGTCGGTCC................................................................................................................................................................................................................................. 21 1 20 0.05 1 1 0 0 0 0
...............................................................................................TCCAGCGGAGGAGGTCATCGGT...................................................................................................................................... 22 0 20 0.05 1 1 0 0 0 0
..........................................................................................................................................................................................CGGAGGAAGTCGTCGGTCGGTC........................................... 22 0 20 0.05 1 1 0 0 0 0
..........................................................................................................................................................................................................TCGGTCCAGCGGAGGATG............................... 18 0 20 0.05 1 1 0 0 0 0
..........................................................................................................................................................................................CGGAGGAAGTCGTCGGTCGGTCCAGCG...................................... 27 0 20 0.05 1 0 1 0 0 0
...................................GGTCGTCGGCCGGTCCAGT..................................................................................................................................................................................................... 19 0 20 0.05 1 0 0 1 0 0
.....TTGGAGGTCGTCGGTCGGTCC................................................................................................................................................................................................................................. 21 1 20 0.05 1 1 0 0 0 0
...........................................................CCACAGTTCCCACACGTGG............................................................................................................................................................................. 19 3 20 0.05 1 1 0 0 0 0
...CGGTGGAGGTCGTCGGTCGG.................................................................................................................................................................................................................................... 20 0 20 0.05 1 0 1 0 0 0
....................CGGTCCAGCGGAGGAGGTCGTCG................................................................................................................................................................................................................ 23 0 20 0.05 1 0 0 0 0 1
.................................................................................................................................................................................TCGGTCCAGCGGAGGAAGT....................................................... 19 0 20 0.05 1 1 0 0 0 0
......................................................................................ATCGGTCGGTCCAGCGGAGGA................................................................................................................................................ 21 0 20 0.05 1 1 0 0 0 0
..............................................................................................................................................................................................GGAAGTCGTCGGTCGGTCCAGCGG..................................... 24 0 20 0.05 1 0 0 0 0 1
.GGCGGTGGAGGTCGTCGGTC...................................................................................................................................................................................................................................... 20 1 20 0.05 1 0 0 0 1 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droAna3 scaffold_13150:6841-7091 - dan_2222 GTCGCCACCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGCAGCCGGCCAGGTCAGTGGTGGGGTCAGGGGTGTGCGCCTCCTCCAGTAGCCAGCCAGGTCGCCTCCTCCAGTAGCCAGCCAGGTCGCCTCCACCAGGTCAGGGGCAGGGGCCAGCCAGGTCACCTCCTCCAGCAGCCAGCCAGGTCGCCTCCTTCAGCAGCCAGCCAGGTCGCCTCCTACAGCAGCCGGCCAGGTCGCCTCCTCCAGGTCA

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
GTCGCCACCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGCAGCCGGCCAGGTCAGTGGTGGGGTCAGGGGTGTGCGCCTCCTCCAGTAGCCAGCCAGGTCGCCTCCTCCAGTAGCCAGCCAGGTCGCCTCCACCAGGTCAGGGGCAGGGGCCAGCCAGGTCACCTCCTCCAGCAGCCAGCCAGGTCGCCTCCTTCAGCAGCCAGCCAGGTCGCCTCCTACAGCAGCCGGCCAGGTCGCCTCCTCCAGGTCASizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
........CTCCAGCAGCCAGCCAGGTCG..............................................................................................................................................................................................................................21200.459000009
.........................................................................................................................................................................CAGCAGCCAGCCAGGTCGCCTCC...........................................................23200.102200000
.TCGCCACCTCCAGCAGCCAGCC....................................................................................................................................................................................................................................22140.071010000
................................................................................................................................................................................................................................GCCGGCCAGGTCGCCTCCTCC......21200.051100000
..................................................................................................................................................................................GCCAGGTCGCCTCCTTCAGCAGCCAGC..............................................27200.051010000
.............................................................................................................................................GGGCAGGGGCCAGCCAGGTCA.........................................................................................21200.051000001

Generated: 05/18/2015 at 01:48 AM