ID:

dpe_1132

 Coordinate:

scaffold_20:1480098-1480248 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-44.0 -43.8 -43.5

Flybase annnotation

CDS [Dper\GL22891-cds]; exon [dper_GLEANR_5137:1]; intron [Dper\GL22891-in]

No Repeatable elements found

mature
  1. scaffold_21:1100446-1100465 +
  2. scaffold_27:1053948-1053967 +
  3. scaffold_0:2066998-2067017 +
  4. scaffold_0:8450867-8450886 +
  5. scaffold_6:222486-222505 +
  6. scaffold_4:2583727-2583746 +
  7. scaffold_5:3313920-3313939 +
  8. scaffold_9:2314753-2314772 +
  9. scaffold_12:1472025-1472044 +
  10. scaffold_12:1625450-1625469 +
  11. scaffold_11:2026697-2026716 +
  12. scaffold_17:367693-367712 +
  13. scaffold_20:1444524-1444543 +
  14. dpe_1132  scaffold_20:1480156-1480175 +
  15. scaffold_53:444639-444658 +
  16. scaffold_29:281115-281134 +
  17. scaffold_30:686282-686301 +
  18. scaffold_48:109269-109288 +
  19. scaffold_48:481162-481181 +
  20. scaffold_48:510327-510346 +
star

Sense Strand Reads

##################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
GACGAGAAGGGTAGCCATGGATTAGATCGGATCTTTATTGTAAGCCAGAAGTAACAAAGCCCCTTCCACGCGCTTACTCAACGTCTCTCCCTCTCTCTCGCACACACACTCTTCCTCGTGCAGTGTGCACGCTCTGAAGGAGCTGAGCGAGAGCATGAAGCAAAAGAGACAGAGTATCGGGCAGCGGCTCACAACGTTCCCGCTCGTTTTACACTCTATTTACATATGCCCTTGTTAACGGCTCTAGTGCA
**************************************************.......((((.((.((.((....(((((...((((((..(((((.(((((((((.(((........)))..))))))..(((((...))))).))).)))))...........)))))).))))).)))).)).))))............************************************************** 		Read size # Mismatch Hit Count Total Norm Total V057
head
 V042
embryo
...................................................TATCAAAGCCCCTTTCACGCGTT................................................................................................................................................................................. 23 3 1 1.00 1 1 0
............................................................................................................CTCTTCCTCGTGCAGTGTGC........................................................................................................................... 20 0 20 0.05 1 0 1

Anti-sense strand reads

CTGCTCTTCCCATCGGTACCTAATCTAGCCTAGAAATAACATTCGGTCTTCATTGTTTCGGGGAAGGTGCGCGAATGAGTTGCAGAGAGGGAGAGAGAGCGTGTGTGTGAGAAGGAGCACGTCACACGTGCGAGACTTCCTCGACTCGCTCTCGTACTTCGTTTTCTCTGTCTCATAGCCCGTCGCCGAGTGTTGCAAGGGCGAGCAAAATGTGAGATAAATGTATACGGGAACAATTGCCGAGATCACGT
**************************************************.......((((.((.((.((....(((((...((((((..(((((.(((((((((.(((........)))..))))))..(((((...))))).))).)))))...........)))))).))))).)))).)).))))............************************************************** 		Read size # Mismatch Hit Count Total Norm Total V057
head
 V111
male body		 V050
head
 V042
embryo
 M042
female body
 M021
embryo
.......................................................TTTCGGCGAGAGTGCGCGAATG.............................................................................................................................................................................. 22 3 1 1.00 1 1 0 0 0 0 0
...............................................CGTCATTGTGTCGGGGAAGGC....................................................................................................................................................................................... 21 3 3 0.33 1 1 0 0 0 0 0
.....................................................................................AGAGGGAGAGAGAGCGTG.................................................................................................................................................... 18 0 3 0.33 1 0 1 0 0 0 0
..............................................................................................................................................................................................................................GTACGCGGGAACAATTGA........... 18 3 20 0.30 6 1 0 0 0 3 2
...................................................................................................................................................ACACTCGTACTTCGTTTTC..................................................................................... 19 2 4 0.25 1 0 0 0 1 0 0
..............................................TCGTTATTGTGTCGGGGAAGGT....................................................................................................................................................................................... 22 3 4 0.25 1 0 0 1 0 0 0
......................................................................................................................................................................................TGGCCGATTGTTGCGAGGGC................................................. 20 3 8 0.13 1 1 0 0 0 0 0
.......................................................TTTCGGGGAAGGTGTGCGAGTGT............................................................................................................................................................................. 23 3 15 0.07 1 1 0 0 0 0 0
...................................................................................................................................................ACCCTCGTACTTCGTTTCCT.................................................................................... 20 3 20 0.05 1 0 0 1 0 0 0
........................................................................................................................GGCAAACGTGCGAGAGTTC................................................................................................................ 19 3 20 0.05 1 1 0 0 0 0 0
.............................................................................................................................................................................................................................GGTACGCGGGAACAATTG............ 18 3 20 0.05 1 0 0 0 0 1 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droPer2 scaffold_20:1480048-1480298 + dpe_1132 GACGAGAAGGGTAGCCATGGATTAGATCGGATCTTTATTGTAAGCCAGAAGTAACAAAGCCCCTTCCACGCGCTTACTCAACGTCTCTCCCTCTCTCTCGCACACACACTCTTCCTCGTGCAGTGTGCACGCTCTGAAGGAGCTGAGCGAGAGCATGAAGCAAAAGAGACAGAGTATCGGGCAGCGGCTCACAACGTTCCCGCTCGTTTTACACTCTATTTACATATGCCCTTGTTAACGGCTCTAGTGCA
dp5 XR_group6:11580646-11580814 + GACGAGAAGGGTAGCCAGGGATTAGATCGGATCTTTATTGTAAGCCAGAAGGAACAAAGCCCCTTCCACGCGCTTACTCAACGTCTCTC--TCTCTCTCGCACACACACTCTTCCTCGTGCAGTGTGCACGCTCTGAAGGAGCTGAGCGAGAGCAT--------------------------------------------------------------------------------AACGGCTCTAGTGCA

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droPer2
GACGAGAAGGGTAGCCATGGATTAGATCGGATCTTTATTGTAAGCCAGAAGTAACAAAGCCCCTTCCACGCGCTTACTCAACGTCTCTCCCTCTCTCTCGCACACACACTCTTCCTCGTGCAGTGTGCACGCTCTGAAGGAGCTGAGCGAGAGCATGAAGCAAAAGAGACAGAGTATCGGGCAGCGGCTCACAACGTTCCCGCTCGTTTTACACTCTATTTACATATGCCCTTGTTAACGGCTCTAGTGCASizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
............................................................................................................CTCTTCCTCGTGCAGTGTGC...........................................................................................................................20200.051001000
dp5
GACGAGAAGGGTAGCCAGGGATTAGATCGGATCTTTATTGTAAGCCAGAAGGAACAAAGCCCCTTCCACGCGCTTACTCAACGTCTCTC--TCTCTCTCGCACACACACTCTTCCTCGTGCAGTGTGCACGCTCTGAAGGAGCTGAGCGAGAGCAT--------------------------------------------------------------------------------AACGGCTCTAGTGCASizeHit CountTotal NormTotalM022
Male-body		M040
Female-body		M059
Embryo		M062
Head		V043
Embryo		V051
Head		V112
Male-body		SRR902010
Ovary		SRR902011
Testis		SRR902012
CNS imaginal disc
No Reads

Generated: 06/08/2015 at 03:47 PM