ID:

dps_1642

 Coordinate:

4_group3:10430660-10430810 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-15.3 -15.3 -15.1

Flybase annnotation

CDS [Dpse\GA26090-cds]; exon [dpse_GLEANR_2798:1]; intron [Dpse\GA26090-in]

No Repeatable elements found

mature
  1. XR_group3a:144505-144525 -
  2. XR_group8:6014043-6014063 +
  3. 4_group3:629906-629926 -
  4. 4_group3:631369-631389 +
  5. 4_group3:3109825-3109845 -
  6. 4_group3:3111258-3111278 +
  7. dps_1642  4_group3:10430779-10430799 +
  8. 4_group3:11399605-11399625 -
  9. 4_group4:2054677-2054697 -
  10. 4_group4:2056389-2056409 +
  11. 4_group4:2308224-2308244 +
  12. XR_group6:9033216-9033236 +
star

Sense Strand Reads

##################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
ATAATAAGAAAAATATCCCTGATCCCTTGGAATGGACTCAAACAACCCCAGTCCGTCATATTTCGCCAATTCTTTACAAGGATTATTTTTGAACTGTTTTATTCATCAAAAGTTAGCTTATTATCAATAAATAAACAAGTGGAAAACAGTTTTATCTATCTTACACTTAACAACAACGAGATCTATCTAGAGTCTAGCATCCCGCGTAGCTCTTCGCTTGGTTCCCATAGTCAAAGTCCTTGTTGTCGATG
**************************************************.........((((((.............(((((.......(((((((((..(((((......(((..(((((...))))).)))....)))))))))))))).....)))))..............))))))....((((...))))....************************************************** 		Read size # Mismatch Hit Count Total Norm Total M040
female body
 SRR902011
testis
 V112
male body		 GSM444067
head
..........................................................................................................................................................................................................CGCGTAGATATGCGCTTGGT............................. 20 3 4 0.25 1 1 0 0 0
.....................................................................................................................................................................................................CATCCCGCGTGGGTCTCCGC.................................. 20 3 5 0.20 1 1 0 0 0
.........................................................................................................................................................................ACAACAACGAGATCTATCTAG............................................................. 21 0 12 0.17 2 0 2 0 0
..........................................................................................................................................................................CAACAACGAGATCTATCTAG............................................................. 20 0 12 0.17 2 0 2 0 0
............................................................................................................................................................................................................................GTTCCTACAGTCAAATTCCTTG......... 22 3 7 0.14 1 1 0 0 0
..............................................................................................................................................................................................................................TCCTACAGTCAAATTCCTTG......... 20 3 9 0.11 1 1 0 0 0
............................................................................................................................................................................ACAACGAGATCTATCTAGAGT.......................................................... 21 0 10 0.10 1 1 0 0 0
...................................................................................................................................................................................................................................TAGTCAAAGTCCTTGTTGTCG... 21 0 20 0.10 2 1 1 0 0
..........................................................................................................................................................................CAACAACGAGATCTATCTAGA............................................................ 21 0 12 0.08 1 1 0 0 0
..............................................................................................................................................................................AACGAGATCTATCTAGAGTC......................................................... 20 0 14 0.07 1 0 0 1 0
..................................GACTCACACAATCCCGGTC...................................................................................................................................................................................................... 19 3 18 0.06 1 0 0 0 1
..................................................................................................................................................................................................................................ATAGTCAAAGTCCTTGTTGTC.... 21 0 20 0.05 1 0 0 1 0
.................................................................................................................................................................................................................................CATAGTCAAAGTCCTTGTTG...... 20 0 20 0.05 1 1 0 0 0
..................................................................................................................................................................................................................................ATAGTCAAAGTCCTTGTTGTCGAT. 24 0 20 0.05 1 1 0 0 0
.....................ATCCCTCGGAATCGAGTCA................................................................................................................................................................................................................... 19 3 20 0.05 1 1 0 0 0
......................................................................................................................................................................................................................................TCAAAGTCCTTGTTGTCGATG 21 0 20 0.05 1 1 0 0 0

Anti-sense strand reads

TATTATTCTTTTTATAGGGACTAGGGAACCTTACCTGAGTTTGTTGGGGTCAGGCAGTATAAAGCGGTTAAGAAATGTTCCTAATAAAAACTTGACAAAATAAGTAGTTTTCAATCGAATAATAGTTATTTATTTGTTCACCTTTTGTCAAAATAGATAGAATGTGAATTGTTGTTGCTCTAGATAGATCTCAGATCGTAGGGCGCATCGAGAAGCGAACCAAGGGTATCAGTTTCAGGAACAACAGCTAC
**************************************************.........((((((.............(((((.......(((((((((..(((((......(((..(((((...))))).)))....)))))))))))))).....)))))..............))))))....((((...))))....************************************************** 		Read size # Mismatch Hit Count Total Norm Total SRR902012
CNS imaginal disc
 SRR902011
testis
 M040
female body
 V112
male body
.................................................................................................................................................................................................................GAGAAGCGAACCAAGGGTA....................... 19 0 1 2.00 2 2 0 0 0
........................................................................................................................................................................TTGTTGTTGCTCTAGATAGAT.............................................................. 21 0 13 0.31 4 0 4 0 0
........................................................................................................................................................................CTGTTGTTGCTCTAGATAGATC............................................................. 22 1 12 0.17 2 0 2 0 0
................................................................................................................................................................................GCTCTAGATAGATCTCAGATC...................................................... 21 0 15 0.13 2 0 2 0 0
........................................................................................................................................................................TTGTTGTTGCTCTAGATAG................................................................ 19 0 16 0.13 2 0 2 0 0
................................................................................................................................................................................................................................GGTATCAGTTTCAGGAACAAC...... 21 0 20 0.10 2 0 2 0 0
.....................................................................................................................................................................................................................................CAGTTTCAGGAACAACAGCTA. 21 0 20 0.10 2 0 2 0 0
..........................................................................................................................................................................GTTGTTGCTCTAGATAGATCT............................................................ 21 0 12 0.08 1 0 0 1 0
...........................................................................................................................................................................TTGTTGCTCTAGATAGATCTC........................................................... 21 0 12 0.08 1 0 1 0 0
...............AGGGACGAGGAAACCTTA.......................................................................................................................................................................................................................... 18 2 13 0.08 1 0 0 1 0
..........................................................................................................................................................................GTTGTTGCTCTAGACAGATCT............................................................ 21 1 15 0.07 1 0 0 1 0
..............................................................................................................................................................................TTGCTCTAGATAGATACCAGAT....................................................... 22 2 16 0.06 1 0 0 1 0
................................................................................................................................................................................GCTCTAGATAGATCTCAGAT....................................................... 20 0 16 0.06 1 0 1 0 0
...................................................................................................................................................................................................................................ATCAGTTTCAGGAACAACAGC... 21 0 20 0.05 1 0 0 0 1
...............................................................GCGGTTAAGAACTGTTCTA......................................................................................................................................................................... 19 3 20 0.05 1 0 0 1 0
..................................................................................................................................................................................................................................TATCAGTTTCAGGAACAACAGCTA. 24 0 20 0.05 1 0 1 0 0
........................................................................................................................................................................TTGTTGTTGCTCTAGATA................................................................. 18 0 20 0.05 1 0 1 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
dp5 4_group3:10430610-10430860 + dps_1642 ATAATAAGAAAAATATCCCTGATCCCTTGGAATGGACTCAAACAACCCCAGTCCGTCATATTTCGCCAATTCTTTACAAGGATTA--TTTTTGAACTGTTTTATTCATCAAAAGTTAGCTTATTATCAATAAAT------------------------------------------------------------------AAACAAG--------TGGAAAACAGTTTTATCTAT------------CTTACACTTAACAACAA---CGAGATC-----------------------------------TATCTA--GAGT-CTAGCATCCCGCGTAGCTCTTCGCTTGGTTCCCATAGTCAAAGTCCTT------GTTGTCGATG
droPer2 scaffold_8:1644155-1644405 + ATAATAAGAAAAATATCCCTGATCCCTTGGAAAGGACTCAAACAACCCCAGTCCGTCATATTTCGCCAATTCGTTTCAAGGATTA--TTTTTTAACTATTTTATTCATCAAAAGTTAGCTTATTATCAATAAAT------------------------------------------------------------------AAACAAG--------TGGAAAACAGTTTTATCTAT------------CTTACACCTAACAACAA---CGAGATC-----------------------------------TATATA--GAGT-CTAGCATCCCGCGTAGCTCTTCGCTTGGTTACCATAGTCAAAGTCCTT------GTTGTCGATG
droAna3 scaffold_13334:572515-572545 + A-----------------------------------------------------------------------------AGGATCC--TTTTTGAGCTATTTTACTCACCA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droBip1 scf7180000396728:2217046-2217204 + AAA-----------------------------------------------------------------------------GTCGA-T-----------------------------------------------TCAT-AAATAAT-------------------CAAAAA---------------------------------AGG--------AGGAAAACAGTATCATCTATCCTAGTAAGAAGTCTAAACCTAACAACAA---CAGCTACC----------------------------------T-ACTG--AGGT-CCATCAGTAATCGTAGCCCCTTCCCTGGTTGCCGTAGCCAAAGTCCTTCAGGTAGTTGTCTATG
droKik1 scf7180000302472:1879828-1879982 - A-------------------------------------------------------------------------------------------------------------------------------------A--T-AAATAATTAAATAGTCATAG--------------------------------------------------------------------------------------AACCTAAACCTAACAACAA---CGAT---TGAAACGGAAAGCTCCATTTCCATCTCTTCATCCCCATCTC--TCGC-TCAGTAATCTCCGTAACCCCTGCCTTGGTTGCCATAGCCAAAGTCCTTCAGATAGTTATCTATG
droFic1 scf7180000449391:678-868 + T-------------------------------------------------------------------------------------------------------------------------------------TTTT-AAATAATTTAATCATCATGAAGTCAACAGGAGTGGAGACCGTT-A----------ACAAATAAATAAGAGGACACCTAGAAAACATTT----CTAGCCTAGAAGTACGCCTAAACCTAACAACAA---AGAG---C-------------------------------------CTG--GAGC-TCAGTAGTCCGCGTATCCCCTTCCCTGGTTGCCGTATCCAAAGTCCTTCAGGTAGTTATCGATG
droEle1 scf7180000491186:2533209-2533378 - T-------------------------------------------------------------------------------------------------------------------------------------TTTT-AAATATTTTAATAATCATTAAGTCAACAG---------------CTTTACTTTATATAAATAAATAAAAGGATCCCTAGGAA----------------------TAAGTCTTAACCTAACAACAACAACGAG---T---------------------------------------G--GAAC-TCAGTAGTCCACATAGCCCCTTCCCTGGTTGCCATAACCAAAGTCCTTCAGGTAGTTATCGATG
droBia1 scf7180000302408:3629032-3629171 + A--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TAAATAAATAAGAGGACACCTAGAAAACATTT----CTAGCCTAGAGATACGCCTAAACCTAGCAACAA---TGCA---T---------------------------------------G--GAAC-TTAGTAGTCCGCGTAGCCCCTTCCCTGGTTGCCATAGCCAAAGTCCTTCAGGTAGTTATCAATG
droTak1 scf7180000415880:356482-356665 + T--------------------------------------------------------------------------ATAAAAATCTTT-----------------------------------------------TTTT-AAATAGTTTAATCATCATTAGTTCAACAGGGAAGGAGAAAGAA-C----------ATAAATAAATAAGAGGACACCTAT----------------------CGATAAGCCTAAACCTAACAACAA---CGAT---T--------------------------------------CG--GAAC-TCAGTAGTCCGCATAGCCCCTTCCCTGGTTGCCATAACCAAAGTCCTTCAGATAGTTATCAATG
droSec2 scaffold_3:4994556-4994690 - A--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCAATAAATAATGGGATACCTAGAAAGCATT-----CTAGCCTAG-------ACTAATCCTAAAAACAA---CGTG---T---------------------------------------GGGGAACTTCAGTAGTCCGCATATCCCCTTCCTTGGTTGCCATATCCGAAGTCCTTCAGATAATTATCGATG
droYak3 2L:12222990-12223171 - T-------------------------------------------------------------------------------------------------------------------------------------TTTTAAAATAATTTAATCATCATTTAGTCAACAGGAAAGGGGGA-G-TAC-----------TCAATAAATAATGGGATACCTAGAAAACATT-----CTAGCCTAGA------CTTATGCTAAAAAACAA---CAGA---T---------------------------------------G--GAACTTCAGTAGTCCGCATAGCCCCTTCCTTGGTTGCCATATCCAAAGTCCTTCAGGTAATTATCGATG

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
dp5
ATAATAAGAAAAATATCCCTGATCCCTTGGAATGGACTCAAACAACCCCAGTCCGTCATATTTCGCCAATTCTTTACAAGGATTA--TTTTTGAACTGTTTTATTCATCAAAAGTTAGCTTATTATCAATAAAT------------------------------------------------------------------AAACAAG--------TGGAAAACAGTTTTATCTAT------------CTTACACTTAACAACAA---CGAGATC-----------------------------------TATCTA--GAGT-CTAGCATCCCGCGTAGCTCTTCGCTTGGTTCCCATAGTCAAAGTCCTT------GTTGTCGATGSizeHit 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
.................................................................................................................................................................................................................................................................ACAACAA---CGAGATC-----------------------------------TATCTA--G....................................................................21120.1720000000020
..................................................................................................................................................................................................................................................................CAACAA---CGAGATC-----------------------------------TATCTA--G....................................................................20120.1720000000020
....................................................................................................................................................................................................................................................................ACAA---CGAGATC-----------------------------------TATCTA--GAGT-................................................................21100.1010100000000
....................................................................................................................................................................................................................................................................................................................................................................TAGTCAAAGTCCTT------GTTGTCG...21200.1020100000010
..................................................................................................................................................................................................................................................................CAACAA---CGAGATC-----------------------------------TATCTA--GA...................................................................21120.0810100000000
......................................................................................................................................................................................................................................................................AA---CGAGATC-----------------------------------TATCTA--GAGT-C...............................................................20140.0710000001000
...................................................................................................................................................................................................................................................................................................................................................................ATAGTCAAAGTCCTT------GTTGTC....21200.0510000001000
..................................................................................................................................................................................................................................................................................................................................................................CATAGTCAAAGTCCTT------GTTG......20200.0510100000000
...................................................................................................................................................................................................................................................................................................................................................................ATAGTCAAAGTCCTT------GTTGTCGAT.24200.0510100000000
.......................................................................................................................................................................................................................................................................................................................................................................TCAAAGTCCTT------GTTGTCGATG21200.0510100000000
droPer2
ATAATAAGAAAAATATCCCTGATCCCTTGGAAAGGACTCAAACAACCCCAGTCCGTCATATTTCGCCAATTCGTTTCAAGGATTA--TTTTTTAACTATTTTATTCATCAAAAGTTAGCTTATTATCAATAAAT------------------------------------------------------------------AAACAAG--------TGGAAAACAGTTTTATCTAT------------CTTACACCTAACAACAA---CGAGATC-----------------------------------TATATA--GAGT-CTAGCATCCCGCGTAGCTCTTCGCTTGGTTACCATAGTCAAAGTCCTT------GTTGTCGATGSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
...............................................................................................................................................................................................................................................................TAACAACAA---CGAGATC-----------------------------------TATA.........................................................................2040.251000001
....................................................................................................................................................................................................................................................................................................................................................................TAGTCAAAGTCCTT------GTTGTCG...21200.051010000
.....................................................................................................................................................................................................................................................................................................................................................................AGTCAAAGTCCTT------GTTGTCG...20200.051010000
.....................................................................................................................................................................................................................................................................................................................................................................AGTCAAAGTCCTT------GTTGTCGA..21200.051000010
droAna3
A-----------------------------------------------------------------------------AGGATCC--TTTTTGAGCTATTTTACTCACCA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
No Reads
droBip1
AAA-----------------------------------------------------------------------------GTCGA-T-----------------------------------------------TCAT-AAATAAT-------------------CAAAAA---------------------------------AGG--------AGGAAAACAGTATCATCTATCCTAGTAAGAAGTCTAAACCTAACAACAA---CAGCTACC----------------------------------T-ACTG--AGGT-CCATCAGTAATCGTAGCCCCTTCCCTGGTTGCCGTAGCCAAAGTCCTTCAGGTAGTTGTCTATGSizeHit CountTotal NormTotal
No Reads
droKik1
A-------------------------------------------------------------------------------------------------------------------------------------A--T-AAATAATTAAATAGTCATAG--------------------------------------------------------------------------------------AACCTAAACCTAACAACAA---CGAT---TGAAACGGAAAGCTCCATTTCCATCTCTTCATCCCCATCTC--TCGC-TCAGTAATCTCCGTAACCCCTGCCTTGGTTGCCATAGCCAAAGTCCTTCAGATAGTTATCTATGSizeHit CountTotal NormTotal
No Reads
droFic1
T-------------------------------------------------------------------------------------------------------------------------------------TTTT-AAATAATTTAATCATCATGAAGTCAACAGGAGTGGAGACCGTT-A----------ACAAATAAATAAGAGGACACCTAGAAAACATTT----CTAGCCTAGAAGTACGCCTAAACCTAACAACAA---AGAG---C-------------------------------------CTG--GAGC-TCAGTAGTCCGCGTATCCCCTTCCCTGGTTGCCGTATCCAAAGTCCTTCAGGTAGTTATCGATGSizeHit CountTotal NormTotal
No Reads
droEle1
T-------------------------------------------------------------------------------------------------------------------------------------TTTT-AAATATTTTAATAATCATTAAGTCAACAG---------------CTTTACTTTATATAAATAAATAAAAGGATCCCTAGGAA----------------------TAAGTCTTAACCTAACAACAACAACGAG---T---------------------------------------G--GAAC-TCAGTAGTCCACATAGCCCCTTCCCTGGTTGCCATAACCAAAGTCCTTCAGGTAGTTATCGATGSizeHit CountTotal NormTotal
No Reads
droBia1
A--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TAAATAAATAAGAGGACACCTAGAAAACATTT----CTAGCCTAGAGATACGCCTAAACCTAGCAACAA---TGCA---T---------------------------------------G--GAAC-TTAGTAGTCCGCGTAGCCCCTTCCCTGGTTGCCATAGCCAAAGTCCTTCAGGTAGTTATCAATGSizeHit CountTotal NormTotal
No Reads
droTak1
T--------------------------------------------------------------------------ATAAAAATCTTT-----------------------------------------------TTTT-AAATAGTTTAATCATCATTAGTTCAACAGGGAAGGAGAAAGAA-C----------ATAAATAAATAAGAGGACACCTAT----------------------CGATAAGCCTAAACCTAACAACAA---CGAT---T--------------------------------------CG--GAAC-TCAGTAGTCCGCATAGCCCCTTCCCTGGTTGCCATAACCAAAGTCCTTCAGATAGTTATCAATGSizeHit CountTotal NormTotal
No Reads
droSec2
A--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCAATAAATAATGGGATACCTAGAAAGCATT-----CTAGCCTAG-------ACTAATCCTAAAAACAA---CGTG---T---------------------------------------GGGGAACTTCAGTAGTCCGCATATCCCCTTCCTTGGTTGCCATATCCGAAGTCCTTCAGATAATTATCGATGSizeHit CountTotal NormTotalM054
Female-body		V113
Male-body		V114
Embryo		V115
Head
No Reads
droYak3
T-------------------------------------------------------------------------------------------------------------------------------------TTTTAAAATAATTTAATCATCATTTAGTCAACAGGAAAGGGGGA-G-TAC-----------TCAATAAATAATGGGATACCTAGAAAACATT-----CTAGCCTAGA------CTTATGCTAAAAAACAA---CAGA---T---------------------------------------G--GAACTTCAGTAGTCCGCATAGCCCCTTCCTTGGTTGCCATATCCAAAGTCCTTCAGGTAATTATCGATGSizeHit CountTotal NormTotalM026
Head		M043
Female-body		M056
Embryo		V046
Embryo		V052
Head		V058
Head		V120
Male-body		SRR1275488
Male larvae		SRR1275486
Male prepupae		SRR1275484
Male prepupae		GSM1528802
follicle cells
No Reads

Generated: 05/18/2015 at 01:09 AM