ID:

dan_2223

 Coordinate:

scaffold_13150:10209-10359 -

 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.

-19.5 -19.2 -19.1

Flybase annnotation

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

No Repeatable elements found

mature
  1. scaffold_2360:1093-1112 -
  2. scaffold_7681:576-595 -
  3. scaffold_7682:778-797 -
  4. scaffold_9097:661-680 -
  5. scaffold_9153:3451-3470 -
  6. scaffold_10345:650-669 -
  7. scaffold_12579:8658-8677 -
  8. scaffold_12968:1736-1755 -
  9. scaffold_12968:3936-3955 -
  10. scaffold_12968:5199-5218 -
  11. scaffold_12968:11554-11573 -
  12. scaffold_12968:13306-13325 -
  13. dan_2223  scaffold_13150:10241-10260 -
  14. scaffold_13150:45377-45396 -
  15. scaffold_13150:47269-47288 -
  16. scaffold_13201:67594-67613 -
  17. scaffold_13201:68696-68715 -
  18. scaffold_13201:69936-69955 -
  19. scaffold_13252:40416-40435 -
  20. scaffold_13252:42312-42331 -
star
  1. scaffold_3008:2949-2970 -
  2. scaffold_3008:3323-3344 -
  3. scaffold_5747:4650-4671 -
  4. scaffold_10065:3799-3820 -
  5. scaffold_10065:4517-4538 -
  6. scaffold_10065:6451-6472 -
  7. scaffold_10065:7169-7190 -
  8. scaffold_12236:884-905 -
  9. scaffold_12579:2377-2398 -
  10. scaffold_12968:8756-8777 -
  11. dan_2223  scaffold_13150:10292-10313 -
  12. scaffold_13150:33311-33332 -
  13. scaffold_13150:36330-36351 -
  14. scaffold_13201:68145-68166 -
  15. scaffold_13201:68378-68399 -
  16. scaffold_13201:80981-81002 -
  17. scaffold_13201:81227-81248 -
  18. scaffold_13201:81448-81469 -
  19. scaffold_13201:83459-83480 -
  20. scaffold_13201:88779-88800 -

Sense Strand Reads

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##################################################
AGCCGGCCAGGTCGCCTCCTTCAGCAGCCGGCCAGGTCGCTTCCTCCAGGTCAGTGGCGGGGCCAGGGGTGTGCGCCTCCTCCAGTAGCCAGCCAGGTCTCCTCCTCCAGTAGCCAGCCAGGTCGCCTCCACCAGGTCAGGGGCAGGGGCCCGCCAGGTCACCTCCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGGTTAGGGGCAGGAGCCAGCCAGGTGGGGTCGCCTCCTCCAGCAGCCGGCCAGGTC
************************************************************************************************.............((.(((.((..((((.(((((.((......)))).))))))).))..))).)).......********************************************************************************** 		Read size # Mismatch Hit Count Total Norm Total M058
embryo
 M044
female body
................................................................................................................................................................................................................................TCGCCTCCTCCAGCAGCCGGCC..... 22 0 20 0.15 3 3 0
...........TCGCCTCCTTCAGCAGCCGGC........................................................................................................................................................................................................................... 21 0 17 0.06 1 1 0
.....................................................................................................................................................CCCGCCAGGTCACCTCCTCC.................................................................................. 20 0 20 0.05 1 1 0
................................................................................................GTCTCCTCCTCCAGTAGCCAGC..................................................................................................................................... 22 0 20 0.05 1 0 1
.......................................................................................GCCAGCCAGGTCTCCTCCTCC............................................................................................................................................... 21 0 20 0.05 1 1 0
..................................GGTCGCTTCCTCCAGGTC....................................................................................................................................................................................................... 18 0 20 0.05 1 1 0
.........................................................................CGCCTCCTCCAGTAGCCAGCC............................................................................................................................................................. 21 0 20 0.05 1 1 0

Anti-sense strand reads

TCGGCCGGTCCAGCGGAGGAAGTCGTCGGCCGGTCCAGCGAAGGAGGTCCAGTCACCGCCCCGGTCCCCACACGCGGAGGAGGTCATCGGTCGGTCCAGAGGAGGAGGTCATCGGTCGGTCCAGCGGAGGTGGTCCAGTCCCCGTCCCCGGGCGGTCCAGTGGAGGAGGTCGTCGGTCGGTCCAGCGGAGGAGGTCCAATCCCCGTCCTCGGTCGGTCCACCCCAGCGGAGGAGGTCGTCGGCCGGTCCAG
**********************************************************************************.............((.(((.((..((((.(((((.((......)))).))))))).))..))).)).......************************************************************************************************ 		Read size # Mismatch Hit Count Total Norm Total M044
female body
 V039
embryo
 M058
embryo
 V105
male body
................................................................................................................................................................TGGAGGAGGTCGTCGGTCGG....................................................................... 20 0 20 0.20 4 4 0 0 0
.......................................................................................................................................................................GGTCGTCGGTCGGTCCAGC................................................................. 19 0 20 0.15 3 0 3 0 0
....CCGGTCCAGCGGAGGAAGTCG.................................................................................................................................................................................................................................. 21 0 7 0.14 1 0 0 1 0
..............................................................................................................................................................................GGTCGGTCCAGCGGAGGAGGT........................................................ 21 0 20 0.10 2 0 2 0 0
.............................................................................................................................................................................................................................CCCAGCGGAGGAGGTCGTC........... 19 0 20 0.10 2 0 0 2 0
..............................................................................................................................GAGGTGGTCCAGTCCCCGTCCC....................................................................................................... 22 0 20 0.05 1 0 1 0 0
.............................................................................................................................................................................................................................CCCAGCGGAGGAGGTCGTCG.......... 20 0 20 0.05 1 0 0 1 0
.............................................................................................................................................................................................................TCCTCGGTCGGACCACACCA.......................... 20 2 20 0.05 1 0 0 0 1
..........................................................................................................................................................................CGTCGGTCGGTCCAGCGGAGGAGGTC....................................................... 26 0 20 0.05 1 0 0 0 1
...........................................................................................CGGTCCAGAGGAGGAGGT.............................................................................................................................................. 18 0 20 0.05 1 1 0 0 0
...............................GGGCCAGCGAAGGAGGTCCAGT...................................................................................................................................................................................................... 22 1 20 0.05 1 1 0 0 0
................................................................................AGGTCATCGGTCGGTCCAGAG...................................................................................................................................................... 21 0 20 0.05 1 1 0 0 0
.............................................................................................................................................................................................................................CCCAGCGGAGGAGGTCGTCGG......... 21 0 20 0.05 1 0 0 1 0
......GGTCCAGCGGAGGAAGTCGTC................................................................................................................................................................................................................................ 21 0 20 0.05 1 0 1 0 0
.............................................................................................................................................................................................................................CCCAGCGGAGGAGGTCGTCGGCCGGT.... 26 0 20 0.05 1 1 0 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droAna3 scaffold_13150:10159-10409 - dan_2223 AGCCGGCCAGGTCGCCTCCTTCAGCAGCCGGCCAGGTCGCTTCCTCCAGGTCAGTGGCGGGGCCAGGGGTGTGCGCCTCCTCCAGTAGCCAGCCAGGTCTCCTCCTCCAGTAGCCAGCCAGGTCGCCTCCACCAGGTCAGGGGCAGGGGCCCGCCAGGTCACCTCCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGGTTAGGGGCAGGAGCCAGCCAGGTGGGGTCGCCTCCTCCAGCAGCCGGCCAGGTC

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
AGCCGGCCAGGTCGCCTCCTTCAGCAGCCGGCCAGGTCGCTTCCTCCAGGTCAGTGGCGGGGCCAGGGGTGTGCGCCTCCTCCAGTAGCCAGCCAGGTCTCCTCCTCCAGTAGCCAGCCAGGTCGCCTCCACCAGGTCAGGGGCAGGGGCCCGCCAGGTCACCTCCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGGTTAGGGGCAGGAGCCAGCCAGGTGGGGTCGCCTCCTCCAGCAGCCGGCCAGGTCSizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
................................................................................................................................................................................................................................TCGCCTCCTCCAGCAGCCGGCC.....22200.153030000
...........TCGCCTCCTTCAGCAGCCGGC...........................................................................................................................................................................................................................21170.061010000
.....................................................................................................................................................CCCGCCAGGTCACCTCCTCC..................................................................................20200.051010000
................................................................................................GTCTCCTCCTCCAGTAGCCAGC.....................................................................................................................................22200.051100000
.......................................................................................GCCAGCCAGGTCTCCTCCTCC...............................................................................................................................................21200.051010000
..................................GGTCGCTTCCTCCAGGTC.......................................................................................................................................................................................................18200.051010000
.........................................................................CGCCTCCTCCAGTAGCCAGCC.............................................................................................................................................................21200.051010000

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