ID:

dan_2217

 Coordinate:

scaffold_13150:934-1084 -

 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.

-56.5 -56.5 -56.2

Flybase annnotation

exon [dana_GLEANR_20368:11]; CDS [Dana\GF18978-cds]; intron [Dana\GF18978-in]

No Repeatable elements found

mature
  1. scaffold_4084:916-936 +
  2. scaffold_4084:3452-3472 +
  3. scaffold_4085:233-253 +
  4. scaffold_4387:2776-2796 +
  5. scaffold_6357:224-244 +
  6. scaffold_6358:512-532 +
  7. scaffold_8989:998-1018 +
  8. scaffold_9232:4085-4105 +
  9. scaffold_9376:698-718 +
  10. scaffold_9376:4567-4587 +
  11. scaffold_9688:2288-2308 +
  12. scaffold_10046:41454-41474 +
  13. scaffold_10422:185-205 +
  14. scaffold_12139:1801-1821 +
  15. scaffold_12139:2520-2540 +
  16. scaffold_12139:4507-4527 +
  17. scaffold_12139:5314-5334 +
  18. scaffold_12617:567-587 +
  19. scaffold_12954:3780-3800 +
  20. scaffold_12954:3977-3997 +
  21. scaffold_1727:57-77 +
  22. scaffold_2287:365-385 +
  23. scaffold_5059:676-696 +
  24. scaffold_5836:861-881 +
  25. scaffold_7207:362-382 +
  26. scaffold_7718:212-232 +
  27. scaffold_8751:2662-2682 +
  28. scaffold_8751:4912-4932 +
  29. scaffold_9441:863-883 +
  30. scaffold_9441:918-938 +
  31. scaffold_9481:2356-2376 +
  32. scaffold_9481:3447-3467 +
  33. scaffold_9481:5990-6010 +
  34. scaffold_9481:6874-6894 +
  35. scaffold_9481:8501-8521 +
  36. scaffold_9719:689-709 +
  37. scaffold_10377:3043-3063 +
  38. scaffold_11994:1337-1357 +
  39. scaffold_13013:3149-3169 +
  40. scaffold_13013:5006-5026 +
  41. scaffold_3009:959-979 -
  42. scaffold_4268:516-536 -
  43. scaffold_9156:3764-3784 -
  44. scaffold_9760:1475-1495 -
  45. scaffold_10081:2142-2162 -
  46. scaffold_10081:12892-12912 -
  47. scaffold_10081:14943-14963 -
  48. scaffold_10081:22585-22605 -
  49. scaffold_10303:4289-4309 -
  50. scaffold_10818:109-129 -
  51. scaffold_12579:3366-3386 -
  52. scaffold_12579:4644-4664 -
  53. scaffold_12942:16136-16156 -
  54. scaffold_12963:1612-1632 -
  55. scaffold_13015:3928-3948 -
  56. dan_2217  scaffold_13150:1055-1075 -
  57. scaffold_13150:2517-2537 -
  58. scaffold_13150:4594-4614 -
  59. scaffold_13150:13767-13787 -
  60. scaffold_13252:2215-2235 -
  61. scaffold_2270:622-642 -
  62. scaffold_4267:1060-1080 -
  63. scaffold_4268:461-481 -
  64. scaffold_5376:2699-2719 -
  65. scaffold_7373:719-739 -
  66. scaffold_8599:1176-1196 -
  67. scaffold_9044:1851-1871 -
  68. scaffold_9156:3709-3729 -
  69. scaffold_9324:2916-2936 -
  70. scaffold_10065:3823-3843 -
  71. scaffold_10065:7193-7213 -
  72. scaffold_10081:2087-2107 -
  73. scaffold_10081:7530-7550 -
  74. scaffold_10081:12837-12857 -
  75. scaffold_10081:14888-14908 -
  76. scaffold_10081:21146-21166 -
  77. scaffold_10115:3765-3785 -
  78. scaffold_10270:3917-3937 -
  79. scaffold_12236:908-928 -
  80. scaffold_13252:2160-2180 -
star
  1. scaffold_4387:3662-3689 +
  2. scaffold_8821:937-964 +
  3. scaffold_9782:1785-1812 +
  4. scaffold_9782:2799-2826 +
  5. scaffold_10046:12265-12292 +
  6. scaffold_10046:15427-15454 +
  7. scaffold_10046:17269-17296 +
  8. scaffold_10046:17599-17626 +
  9. scaffold_13017:31763-31790 +
  10. scaffold_13017:32462-32489 +
  11. dan_2217  scaffold_13150:939-966 -
  12. scaffold_13150:2760-2787 -
  13. scaffold_13150:6445-6472 -
  14. scaffold_13165:628622-628649 -
  15. scaffold_13220:6096-6123 +
  16. scaffold_13220:7464-7491 +
  17. scaffold_13220:8036-8063 +
  18. scaffold_13220:8209-8236 +
  19. scaffold_13220:8598-8625 +
  20. scaffold_13693:85067-85094 +

Sense Strand Reads

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##################################################
CCTCCTGCCGGCCAGGGACAGGGGCAGGGGTGTGCGCCTCCTCCAGCAGCCGTCCAGGTCGCCTCCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGGTCAGTGGCAGGGGCAGGGGTGTGCGCCTACTCCAGCAGCCGGCCAGGGGGTTGCGCCCCCTCCAGCAGCCGGCCAGGTCGACTCCTCCAGGTTAGGGGCATCAGCCAGCCAGGTCACCTCCTCCAGCAGCCAGCCAGATCGTCCCCTCCAGGTT
***********************************************************.(((.(((.....((((.....((((((((((((((......))).))).((.((((((......)))))).)).((((((.(((((((...)))))))......)))))).))).)))))......))))))))))******************************************************* 		Read size # Mismatch Hit Count Total Norm Total M058
embryo
 V039
embryo
 V106
head
 M044
female body
 V055
head
....................................................................................................................................................................................................ATCAGCCAGCCAGGTCACCTC.................................. 21 0 18 0.33 6 6 0 0 0 0
.........................................................................................................................................................................................AGGTTAGGGGCATTAGCCAGCC............................................ 22 1 4 0.25 1 0 1 0 0 0
..........................................................................................................................................................................................................CAGCCAGGTCACCTCCTCC.............................. 19 0 20 0.20 4 0 0 4 0 0
....................................................................................................................................................................................................ATCTGCCAGCCAGGTCACCTC.................................. 21 1 20 0.10 2 2 0 0 0 0
.....................................................................................................................................................................................................TCAGCCAGCCAGGTCACCTC.................................. 20 0 18 0.06 1 1 0 0 0 0
...........................................................CGCCTCCTCCAGCAGCCAGCC........................................................................................................................................................................... 21 0 20 0.05 1 0 0 0 0 1
.....................................................................................................................................................................................CTCCAGGTTAGGGGCATT.................................................... 18 1 20 0.05 1 1 0 0 0 0
....................................................................................................................................................................................................ATCAGCCAGCCAGGTCACC.................................... 19 0 20 0.05 1 1 0 0 0 0
........................................................................................................................................................................GCCAGGTCGACTCCTCCAGGTTAGGGGC....................................................... 28 0 20 0.05 1 0 0 0 1 0
....................................................................................................................................................................................................ATAAGCCAGCCAGGTCACCTC.................................. 21 1 20 0.05 1 1 0 0 0 0

Anti-sense strand reads

GGAGGACGGCCGGTCCCTGTCCCCGTCCCCACACGCGGAGGAGGTCGTCGGCAGGTCCAGCGGAGGAGGTCGTCGGTCGGTCCAGCGGAGGAGGTCCAGTCACCGTCCCCGTCCCCACACGCGGATGAGGTCGTCGGCCGGTCCCCCAACGCGGGGGAGGTCGTCGGCCGGTCCAGCTGAGGAGGTCCAATCCCCGTAGTCGGTCGGTCCAGTGGAGGAGGTCGTCGGTCGGTCTAGCAGGGGAGGTCCAA
*******************************************************.(((.(((.....((((.....((((((((((((((......))).))).((.((((((......)))))).)).((((((.(((((((...)))))))......)))))).))).)))))......))))))))))*********************************************************** 		Read size # Mismatch Hit Count Total Norm Total M058
embryo
 V106
head
 M044
female body
 V105
male body
........................................................CCAGCGGAGGAGGTCGTC................................................................................................................................................................................. 18 0 20 0.40 8 8 0 0 0
.................................................................GAGGTCGTCGGTCGGTCCAG...................................................................................................................................................................... 20 0 20 0.20 4 0 0 4 0
....................................................AGGTCCAGCGGAGGAGGTCGTCG................................................................................................................................................................................ 23 0 20 0.10 2 1 1 0 0
....................................................................................................................................................................................................................TGGAGGAGGTCGTCGGTCGGT.................. 21 0 20 0.10 2 0 2 0 0
.................................................................................................................................................................CGTCGGCCGGTCCAGCTG........................................................................ 18 0 15 0.07 1 1 0 0 0
.....................................................................................................................................................................................................AGTCGGTCGGTCCAGTGGAGG................................. 21 0 18 0.06 1 0 1 0 0
.....................................................................................................................................................................GGCCGGTCCAGCTGAGGAGG.................................................................. 20 0 19 0.05 1 0 0 1 0
......................................................................................................................................................................................................................GAGGAGGTCGTCGGTCGGTCT................ 21 0 20 0.05 1 1 0 0 0
............................CCACACGCGGAGGAGGTCGTC.......................................................................................................................................................................................................... 21 0 20 0.05 1 1 0 0 0
....................................GGAGGAGGTGGTCGGCAGGT................................................................................................................................................................................................... 20 1 20 0.05 1 0 0 1 0
.........................................................................................................................CGGATGAGGTCGTCGGCCC............................................................................................................... 19 1 20 0.05 1 0 1 0 0
...................................................CAGGTCCAGCGGAGGAGGTC.................................................................................................................................................................................... 20 0 20 0.05 1 1 0 0 0
...................................CGGAGGAGGTCGTCGGCAGCG................................................................................................................................................................................................... 21 2 20 0.05 1 0 0 0 1
.................................................................................................................................................................................TGAGGAGGTCCAATCCCCGT...................................................... 20 0 20 0.05 1 0 0 1 0
...................................................................................................................................................................................................GTAGTCGGTCGGTCCAGTGG.................................... 20 0 20 0.05 1 0 1 0 0
.................................................................................CCAGCGGAGGAGGTCCAGTCAC.................................................................................................................................................... 22 0 20 0.05 1 1 0 0 0
.....................................................................................................................................................................................................AGTCGGTCGGTCCAGAGGAGG................................. 21 1 20 0.05 1 0 1 0 0
.....................................................................................CGGAGGAGGTCCAGTCACCG.................................................................................................................................................. 20 0 20 0.05 1 0 1 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droAna3 scaffold_13150:884-1134 - dan_2217 CCTCCTGCCGGCCAGGGACAGGGGCAGGGGTGTGCGCCTCCTCCAGCAGCCGTCCAGGTCGCCTCCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGGTCAGTGGCAGGGGCAGGGGTGTGCGCCTACTCCAGCAGCCGGCCAGGGGGTTGCGCCCCCTCCAGCAGCCGGCCAGGTCGACTCCTCCAGGTTAGGGGCATCAGCCAGCCAGGTCACCTCCTCCAGCAGCCAGCCAGATCGTCCCCTCCAGGTT

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
CCTCCTGCCGGCCAGGGACAGGGGCAGGGGTGTGCGCCTCCTCCAGCAGCCGTCCAGGTCGCCTCCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGGTCAGTGGCAGGGGCAGGGGTGTGCGCCTACTCCAGCAGCCGGCCAGGGGGTTGCGCCCCCTCCAGCAGCCGGCCAGGTCGACTCCTCCAGGTTAGGGGCATCAGCCAGCCAGGTCACCTCCTCCAGCAGCCAGCCAGATCGTCCCCTCCAGGTTSizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
....................................................................................................................................................................................................ATCAGCCAGCCAGGTCACCTC..................................21180.336060000
..........................................................................................................................................................................................................CAGCCAGGTCACCTCCTCC..............................19200.204000004
.....................................................................................................................................................................................................TCAGCCAGCCAGGTCACCTC..................................20180.061010000
...........................................................CGCCTCCTCCAGCAGCCAGCC...........................................................................................................................................................................21200.051000100
.....................................................................................................................................................................................CTCCAGGTTAGGGGCATT....................................................18200.051010000
....................................................................................................................................................................................................ATCAGCCAGCCAGGTCACC....................................19200.051010000
........................................................................................................................................................................GCCAGGTCGACTCCTCCAGGTTAGGGGC.......................................................28200.051100000

Generated: 05/18/2015 at 01:47 AM