ID:

dsi-mir-287

 Coordinate:

2L:17277853-17277923 +

 Confidence:

Known

 Type:

Unknown

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

Predicted structure

-28.1 -27.9 -27.9

Flybase annnotation

intron [Dsim\GD24117-in]; pre_miRNA [Dsim\mir-287-RM]; miRNA [Dsim\miR-287-RA]

No Repeatable elements found

Sense Strand Reads

AATGTATGTATGTAAGCTCACTCACAGAGGACGCCGTGGATGTATGGGTGTGTAGGGTCGGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACGACTGTGAGCAAAACACGTCGGAGAAGAAATTACTCTCTCGCTGTGTACGTGTGTGTG
***********************************...(((((.....(((.((.(((((((((((((..((((((((((((...))))))))))))..)))))..)))...))))).)).)))....)))))...*********************************** 		Read size # Mismatch Hit Count Total Norm Total
.............................................................................................................GCACGACTGTTAGCAAA............................................. 17 1 1 1.00 1
.....ATGTAAGTTAGCTCACTCA................................................................................................................................................... 19 2 2 1.00 2
............................................................................................................................................AAATGACTCTCTCGCGTTGTA.......... 21 3 2 0.50 1
.....ATGTAAGTTAGCTCACTC.................................................................................................................................................... 18 2 2 0.50 1
........................................................................................TAAATCTGTAGAAAATCATTTGC............................................................ 23 3 2 0.50 1
.............................................................................................................GCACGACTGTTAGCAA.............................................. 16 1 2 0.50 1
..........................................TGTGGGTGTATAGGGTCGAAA............................................................................................................ 21 3 3 0.33 1
...............................................................................................................ACGACTGTTAGCAAAA............................................ 16 1 3 0.33 1
............................................................................................................................................AAATGACTCTCTCGCTCTG............ 19 2 5 0.20 1
................................................................................................................CGACTGTTAGCAAAA............................................ 15 1 6 0.17 1
..........................................TACGGGGTTGTAGGGTCG............................................................................................................... 18 3 13 0.08 1
................................GCCGTGGAGGTATGGGA.......................................................................................................................... 17 2 13 0.08 1
....................................TGGACGTATGGGTGTGACG.................................................................................................................... 19 3 13 0.08 1
............................................................................................................AGCACGACTGTTAGCAAAC............................................ 19 3 15 0.07 1

Anti-sense strand reads

CACACACACGTACACAGCGAGAGAGTAATTTCTTCTCCGACGTGTTTTGCTCACAGTCGTGCAAACGATTTTCAACACATTTACAATTATTGTAAATGTGTGCAAAATTTCCGACCCTACACACCCATACATCCACGGCGTCCTCTGTGAGTGAGCTTACATACATACATT
***********************************...(((((....(((.((.(((((...(((..(((((..((((((((((((...))))))))))))..))))))))))))).)).))).....)))))...*********************************** 		Read size # Mismatch Hit Count Total Norm Total SRR618934
Ovary
...................................TCCGACGTGTTTTGC......................................................................................................................... 15 0 2 1.50 3 3

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droSim3 2L:17277803-17277973 + dsi-mir-287 A--AT---GTATGTAT----------GTA------------------------------AGCTCA-----------------------------CTCACAGAGG--ACGCC-GTG--GATGTATGGGTGTGTAGGGTCGGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACG-ACTGTGAGCAAAACAC-----GTCGGAGAAGAAATTACTCTCTCGCT------GTGT------------ACGT----G--------TGTGTG
droSec2 scaffold_7:1215420-1215590 + dse-mir-287 A--AT---GTATGTAT----------GTA------------------------------AGCTCA-----------------------------CTCACAGAGG--ACGCC-GTG--GATGTATGGGTGTGTAGGGTCGGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACG-ACTGTGAGCAAAACAC-----GTCGGAGAAGAAATTACTCTCTCGCT------GTGT------------ACGT----G--------TGTGTG
dm3 chr2L:17574582-17574752 + dme-mir-287 A--AT---GTATGTAT----------GTA------------------------------AGCCCA-----------------------------CTCACAGAGG--ACGCC-GGG--GATGTATGGGTGTGTAGGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACG-ACTGTGAGCAAAACAC-----GTCGGAGAAGAAATTACTCTCTCGCT------GTGT------------ACGT----G--------TGTGTG
droEre2 scaffold_4845:6676042-6676199 - der-mir-287 A--AT---GTATGTGTA----------TGT----------------------------------------------------------------------GT--GGAC---GCTG--GATGTATGGGTGTGTGGGCTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACG-ACTGCGAGCAAAACAC-----GTCGGAGAAGAAATTACTCTCTCGCT------GTGT------------ATGT----G--------TGTGTG
droYak3 2R:3525080-3525249 - dya-mir-287 A--AT---GTATGTAT----------GTAC----------------------------------------------A------T-----ATATACACACAGAGC--AAGCC-GTG--GATGTATGGG--TGT-GGGTCTGAAATTTTGCACACATTTACAGTAATTGTAAATGTGTTGAAAATCGTTTGCATG-ACTGTGAGCAAAACAC-----TTCGGAGAAGAAATTGCTCTCTCGCT------GTGT------------ACGT----G--------TGTGTG
droEug1 scf7180000409016:198044-198203 + T--AT---GTATATACA----------CAA----------------------------------------------------------------------TAAAGTGC---TCTA--GATGTATGGGTGTATAGGGTCTGAAATTTTGCACACATTTACAATTATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAAGCAC-----GTCGGTGTAGAAATCACTCTCTTACT------ATGT------------GTGT----G--------TGTGTG
droBia1 scf7180000302422:6132239-6132394 - A--GT---GTATATACA-----------GC-----------------------------------------------------------------------G--GGGC---GCTG--GTTGTGTGGGTGTGTAGGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAAACAC-----GTCGGAGTAGAAATCACTCTCTGGCT------GCGA------------GTGC----A--------TGCATG
droTak1 scf7180000415617:9703-9860 - A--AT---GTATATATA----------CAC---------------------------------------------------------------------T-G--GGGC---GCTG--GTTGTATGGGTGTGTGGGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAAACAC-----GTCGGAGTAGAAATCACTCTCTTGCC------GTGC------------TTCT----A--------TGTATG
droEle1 scf7180000491046:278908-279078 + A--AT---GTATATATAT--------GCAC---------------------------------------------------------------------G----GGGC---ACTG--GGTGTATGGG--TGTAAGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAAACAC-----GTCGGAGTAGAAATCACTCTCTTGCT--GT--GTGTA------------TGTATGGGTGGGCGGGTAGGTG
droRho1 scf7180000777709:31195-31333 + A--AT---GTATATATA----------C------------------------------------------------------------------------------------------------GGT--TGTAAGGTCTGAAATTTTGCACACATTTACAATTATTGTAAATGTGTTGAAAATCGCTTGCACA-ACTGTGAGCAAAACAC-----GTCGGAGTAGAAATCACTCTCTCGCT--GT--GTGT------------GTGT----A--------TGGGTG
droFic1 scf7180000453855:358897-359051 + A--AT---GTATATATA----------CAC-----------------------------------------------------------------------T--GGGC---GCTG--GGTGTATGGG--TGTAAGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAAACAC-----GTCCGAGTAGAAATCACTCTCTTGCT------GTGT------------GTGT----A--------TGTATG
droKik1 scf7180000302246:110115-110283 - ACAAT---GTACATGT----------GCA------------------------------GGACGA-----------------------------C-GACAACGA--AGGCCAGTGCGTTTGTGTGGG--TGTAGGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAGACAT-----GTCGGAGTAGAAATCACTCTCTC----------TGT------------GCGT----C--------TGTATG
droAna3 scaffold_12916:3302394-3302556 - dan-mir-287 G--GCGG--GATATATA-----------------------------------------------------------------------------------------GG---GCTG--TGTGTATTGG--TAGTGGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAAGCAC-----GTCGGAGTAGAAATCACTCTCTTTGT------GTGTATGTACAAGTGTA-----------GGGAGTGGGTG
droBip1 scf7180000396737:1470802-1470955 + G--GCGG--GATATATA-----------------------------------------------------------------------------------------GG---GCTG--TGTGTATTGG--TAGTGGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAAGCAC-----GTCGGAGTAGAAATCACTCTCTTTGT------GTGT------------ATGTATGAG--------TGTGCG
dp5 4_group3:10858825-10859033 - dps-mir-287 A--CACATATATGTA--------------C-TGGTCGCTCCGCCCGCACAAGGGCCCTG------C------ACACACACACAT---AAATATATTCACGGAGA--CAGTC-T----TATGTGTGAG--TGTGGGGCCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAAACAC-----GTCGGAGTAGAAATCACTCTCTCTCT------CTCT------------CTGT----G--------TGTGTG
droPer2 scaffold_8:2069895-2070117 - dpe-mir-287 AC-AT---ATATGTA--------------C-TGGTCGCTCCGCCCGCACAAGGGCCCTG------C------ACACACACACAT---AAATATATTCACGGAGA--C-----CTGCTTATGTGTGAG--TGTGGGGCCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAAACAC-----GTCGGAGTAGAAATCACTCTCTCTCTCTGT--GTGTG------------TGGGTGGGTGTACGTGTGTGTG
droWil2 scf2_1100000004577:928775-928970 - dwi-mir-287 A--TT---GTCTGTCT----------GTGTGAT-----------------------ATACTCCCAC------------ATACATTGGAAAGAGCTTCTCCGTAA--T-----ATGTATATGTATTGC--TGTAAAGTCTGAAATTTTGCACACATTTACAATTATTGTAAATGTGTTGAAAATCGTTTGCACAAACTGTGAGCAAAATCCTGTAGCTGGGAGTGAAAATATCTC-CATGAT------AAGT------------GTGT----G--------TGTTTG
droVir3 scaffold_12963:16502505-16502675 + dvi-mir-287 A--CAAAGGCGTGTATT-CTCTCTTTGGCAGAT-----------------------TGACTCCCACGCTTTCGCACACA----------------------------------------CACAAACGTGCATAATGTTTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAA------------CCGAACAGACAT------------------GTGT------------GG------GTGACAGTGTGTGTG
droMoj3 scaffold_6500:21428970-21429109 + dmo-mir-287 T--TT---GTC-A-----------------GAT-----------------------AGACTCCCAC------GCACA------------------------------------------CACACACGCGCATAATGTTTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAACCAAC-----AGCA---------------------T--GTGTATGT------------GTGT----G--------TGTATG
droGri2 scaffold_8166:210-372 + dgr-mir-287-2 A--CT---CTCTCTTT----------GTCAGTTT----------------------TCACTCCCAC------ACACTCA----------------------------------------CACATACATGCATAATGCTTGAAATTTTGCACACATTTACAATATTTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAGCAAC-------------ACACAT--------------GTGTGTGTATGTCAATGTGTGTGT----G--------TGTGTG

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droSim3
A--AT---GTATGTAT----------GTA------------------------------AGCTCA-----------------------------CTCACAGAGG--ACGCC-GTG--GATGTATGGGTGTGTAGGGTCGGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACG-ACTGTGAGCAAAACAC-----GTCGGAGAAGAAATTACTCTCTCGCT------GTGT------------ACGT----G--------TGTGTGSizeHit CountTotal NormTotalV044
Embryo		M023
Head		M024
Male-body		M025
Embryo		O001
Testis		O002
Head		M053
Female-body		SRR553485
Ovary		SRR553486
Ovary		SRR553487
Ovary		SRR553488
Ovary		SRR618934
Ovary
No Reads
droSec2
A--AT---GTATGTAT----------GTA------------------------------AGCTCA-----------------------------CTCACAGAGG--ACGCC-GTG--GATGTATGGGTGTGTAGGGTCGGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACG-ACTGTGAGCAAAACAC-----GTCGGAGAAGAAATTACTCTCTCGCT------GTGT------------ACGT----G--------TGTGTGSizeHit CountTotal NormTotalV113
Male-body		V114
Embryo		V115
Head		M054
Female-body
No Reads
droEre2
A--AT---GTATGTGTA----------TGT----------------------------------------------------------------------GT--GGAC---GCTG--GATGTATGGGTGTGTGGGCTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACG-ACTGCGAGCAAAACAC-----GTCGGAGAAGAAATTACTCTCTCGCT------GTGT------------ATGT----G--------TGTGTGSizeHit CountTotal NormTotalV040
Embryo		V060
Head		V107
Male-body		V108
Head		M055
Female-body		M057
Embryo
No Reads
droYak3
A--AT---GTATGTAT----------GTAC----------------------------------------------A------T-----ATATACACACAGAGC--AAGCC-GTG--GATGTATGGG--TGT-GGGTCTGAAATTTTGCACACATTTACAGTAATTGTAAATGTGTTGAAAATCGTTTGCATG-ACTGTGAGCAAAACAC-----TTCGGAGAAGAAATTGCTCTCTCGCT------GTGT------------ACGT----G--------TGTGTGSizeHit CountTotal NormTotalV046
Embryo		V052
Head		V120
Male-body		V058
Head		M026
Head		M043
Female-body		M056
Embryo
No Reads
droEug1
T--AT---GTATATACA----------CAA----------------------------------------------------------------------TAAAGTGC---TCTA--GATGTATGGGTGTATAGGGTCTGAAATTTTGCACACATTTACAATTATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAAGCAC-----GTCGGTGTAGAAATCACTCTCTTACT------ATGT------------GTGT----G--------TGTGTGSizeHit CountTotal NormTotal
No Reads
droBia1
A--GT---GTATATACA-----------GC-----------------------------------------------------------------------G--GGGC---GCTG--GTTGTGTGGGTGTGTAGGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAAACAC-----GTCGGAGTAGAAATCACTCTCTGGCT------GCGA------------GTGC----A--------TGCATGSizeHit CountTotal NormTotal
No Reads
droTak1
A--AT---GTATATATA----------CAC---------------------------------------------------------------------T-G--GGGC---GCTG--GTTGTATGGGTGTGTGGGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAAACAC-----GTCGGAGTAGAAATCACTCTCTTGCC------GTGC------------TTCT----A--------TGTATGSizeHit CountTotal NormTotal
No Reads
droEle1
A--AT---GTATATATAT--------GCAC---------------------------------------------------------------------G----GGGC---ACTG--GGTGTATGGG--TGTAAGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAAACAC-----GTCGGAGTAGAAATCACTCTCTTGCT--GT--GTGTA------------TGTATGGGTGGGCGGGTAGGTGSizeHit CountTotal NormTotal
No Reads
droRho1
A--AT---GTATATATA----------C------------------------------------------------------------------------------------------------GGT--TGTAAGGTCTGAAATTTTGCACACATTTACAATTATTGTAAATGTGTTGAAAATCGCTTGCACA-ACTGTGAGCAAAACAC-----GTCGGAGTAGAAATCACTCTCTCGCT--GT--GTGT------------GTGT----A--------TGGGTGSizeHit CountTotal NormTotal
No Reads
droFic1
A--AT---GTATATATA----------CAC-----------------------------------------------------------------------T--GGGC---GCTG--GGTGTATGGG--TGTAAGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAAACAC-----GTCCGAGTAGAAATCACTCTCTTGCT------GTGT------------GTGT----A--------TGTATGSizeHit CountTotal NormTotal
No Reads
droKik1
ACAAT---GTACATGT----------GCA------------------------------GGACGA-----------------------------C-GACAACGA--AGGCCAGTGCGTTTGTGTGGG--TGTAGGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAGACAT-----GTCGGAGTAGAAATCACTCTCTC----------TGT------------GCGT----C--------TGTATGSizeHit CountTotal NormTotal
No Reads
droAna3
G--GCGG--GATATATA-----------------------------------------------------------------------------------------GG---GCTG--TGTGTATTGG--TAGTGGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAAGCAC-----GTCGGAGTAGAAATCACTCTCTTTGT------GTGTATGTACAAGTGTA-----------GGGAGTGGGTGSizeHit CountTotal NormTotalV105
Male-body		V106
Head		V055
Head		V039
Embryo		M044
Female-body		M058
Embryo
No Reads
droBip1
G--GCGG--GATATATA-----------------------------------------------------------------------------------------GG---GCTG--TGTGTATTGG--TAGTGGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAAGCAC-----GTCGGAGTAGAAATCACTCTCTTTGT------GTGT------------ATGTATGAG--------TGTGCGSizeHit CountTotal NormTotal
No Reads
dp5
A--CACATATATGTA--------------C-TGGTCGCTCCGCCCGCACAAGGGCCCTG------C------ACACACACACAT---AAATATATTCACGGAGA--CAGTC-T----TATGTGTGAG--TGTGGGGCCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAAACAC-----GTCGGAGTAGAAATCACTCTCTCTCT------CTCT------------CTGT----G--------TGTGTGSizeHit CountTotal NormTotalV112
Male-body		V043
Embryo		V051
Head		M022
Male-body		M040
Female-body		M059
Embryo		M062
Head
No Reads
droPer2
AC-AT---ATATGTA--------------C-TGGTCGCTCCGCCCGCACAAGGGCCCTG------C------ACACACACACAT---AAATATATTCACGGAGA--C-----CTGCTTATGTGTGAG--TGTGGGGCCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAAACAC-----GTCGGAGTAGAAATCACTCTCTCTCTCTGT--GTGTG------------TGGGTGGGTGTACGTGTGTGTGSizeHit CountTotal NormTotalV111
Male-body		V042
Embryo		V050
Head		V057
Head		M021
Embryo		M042
Female-body
No Reads
droWil2
A--TT---GTCTGTCT----------GTGTGAT-----------------------ATACTCCCAC------------ATACATTGGAAAGAGCTTCTCCGTAA--T-----ATGTATATGTATTGC--TGTAAAGTCTGAAATTTTGCACACATTTACAATTATTGTAAATGTGTTGAAAATCGTTTGCACAAACTGTGAGCAAAATCCTGTAGCTGGGAGTGAAAATATCTC-CATGAT------AAGT------------GTGT----G--------TGTTTGSizeHit CountTotal NormTotalV117
Male-body		V118
Embryo		V119
Head		M020
Head		M045
Female-body
No Reads
droVir3
A--CAAAGGCGTGTATT-CTCTCTTTGGCAGAT-----------------------TGACTCCCACGCTTTCGCACACA----------------------------------------CACAAACGTGCATAATGTTTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAA------------CCGAACAGACAT------------------GTGT------------GG------GTGACAGTGTGTGTGSizeHit CountTotal NormTotalV116
Male-body		V053
Head		V047
Embryo		M027
Male-body		M028
Head		M047
Female-body		M061
Embryo		SRR060654
Ovary		SRR060655
Testis		SRR060656
Ovary		SRR060657
Testis		SRR060658
Ovary		SRR060659
Testis		SRR060660
Ovary		SRR060661
Embryo		SRR060662
Embryo		SRR060663
Embryo		SRR060664
Male-body		SRR060665
Female-body		SRR060666
Male-body		SRR060667
Female-body		SRR060668
Male-body		SRR060669
Female-body		SRR060670
Testis		SRR060671
Male-body		SRR060672
Female-body		SRR060673
Ovary		SRR060674
Ovary		SRR060675
Ovary		SRR060676
Ovary		SRR060677
Ovary		SRR060678
Testis		SRR060679
Testis		SRR060680
Testis		SRR060681
Testis		SRR060682
Embryo		SRR060683
Testis		SRR060684
Embryo		SRR060685
Embryo		SRR060686
Embryo		SRR060687
Embryo		SRR060688
Ovary		SRR060689
Testis
No Reads
droMoj3
T--TT---GTC-A-----------------GAT-----------------------AGACTCCCAC------GCACA------------------------------------------CACACACGCGCATAATGTTTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAACCAAC-----AGCA---------------------T--GTGTATGT------------GTGT----G--------TGTATGSizeHit CountTotal NormTotalV110
Male-body		V056
Head		V049
Head		V041
Embryo		M046
Female-body		M060
Embryo
No Reads
droGri2
A--CT---CTCTCTTT----------GTCAGTTT----------------------TCACTCCCAC------ACACTCA----------------------------------------CACATACATGCATAATGCTTGAAATTTTGCACACATTTACAATATTTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAGCAAC-------------ACACAT--------------GTGTGTGTATGTCAATGTGTGTGT----G--------TGTGTGSizeHit CountTotal NormTotalV109
Male-body		M041
Female-body
No Reads

Generated: 12/06/2013 at 02:37 PM