ID:

dvi_1545

 Coordinate:

scaffold_12723:3687736-3687886 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

Flybase annnotation

CDS [Dvir\GJ18290-cds]; exon [dvir_GLEANR_2846:16]; intron [Dvir\GJ18290-in]

No Repeatable elements found

Sense Strand Reads

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##################################################
TCAGATAATTCTATAGTGCTCAATCCGTTCTTATTTTGAGCCAATTTATGTAACTTAGACAAAATTAAACTGGAAGAGAAATCTACTTTAATGTCTAGCCAGTTAATCAGTTAACCTAGTTATCGTGAGCACGTCATCGGGATTTTCAGTATTTGTTCAGGTCCTAGCACATAGTTTAAACATTATTCTTGTTTCTTTCAGATGTTAAAATTGACTTTAATGCATTGCCAACAAATGGGCGCAGCAACAAC
**************************************************...................((((((((((.........((((((((((...(((((....))))))))).....((((.....)))).(((((((.((.....))...)))))))(((.....)))...))))))......))))))))))************************************************** 		Read size # Mismatch Hit Count Total Norm Total V053
head
 SRR060665
9_females_carcasses_total
 V047
embryo
 V116
male body
............................................................................................................................................................................................................................TGCACTGCCCACAAATGGGCG.......... 21 2 1 1.00 1 1 0 0 0
....................................................................................................................................................................................................................................CAACAAATGGGAGGAGCAACAGC 23 3 5 0.20 1 0 1 0 0
....................................................................................................................................GTCATCTGGATGTTCAGTC.................................................................................................... 19 3 11 0.09 1 0 0 1 0
..........................................................................................................................................................GTTCAGGTCCTGGCGGATA.............................................................................. 19 3 20 0.05 1 0 0 0 1

Anti-sense strand reads

AGTCTATTAAGATATCACGAGTTAGGCAAGAATAAAACTCGGTTAAATACATTGAATCTGTTTTAATTTGACCTTCTCTTTAGATGAAATTACAGATCGGTCAATTAGTCAATTGGATCAATAGCACTCGTGCAGTAGCCCTAAAAGTCATAAACAAGTCCAGGATCGTGTATCAAATTTGTAATAAGAACAAAGAAAGTCTACAATTTTAACTGAAATTACGTAACGGTTGTTTACCCGCGTCGTTGTTG
**************************************************...................((((((((((.........((((((((((...(((((....))))))))).....((((.....)))).(((((((.((.....))...)))))))(((.....)))...))))))......))))))))))************************************************** 		Read size # Mismatch Hit Count Total Norm Total V053
head
 SRR060684
140x9_0-2h_embryos_total
 M027
male body		 M047
female body
......................TAGGCAAGAATAATACTAGGGT............................................................................................................................................................................................................... 22 3 1 1.00 1 1 0 0 0
.........................................................................................................................................................................................AAGAACTAACAAAGTCTACAA............................................. 21 2 2 0.50 1 0 1 0 0
.......................AGGCAAGAATAAAAGTAGGGT............................................................................................................................................................................................................... 21 3 3 0.33 1 1 0 0 0
......................................TCGGCTAAATACGTTGAGTCT................................................................................................................................................................................................ 21 3 4 0.25 1 0 0 1 0
..............TCACGAGTTAGGTAAGAGTC......................................................................................................................................................................................................................... 20 3 9 0.11 1 0 0 0 1
.................CAAGTTTGGCAAGAATAA........................................................................................................................................................................................................................ 18 2 11 0.09 1 0 0 1 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droVir3 scaffold_12723:3687686-3687936 + dvi_1545 TCAGATAATTCTATAGTGCTCAATCCGTTCTTATTTTGAGCCAATTTATGTAACTTAGACAAAATTAAACTGGAAGAGAAATCTACTTTAATGTCTAGCCAGTTAATCAGTTAACCTAGTTATCGTGAGCACGTCATCGGGATTTTCAGTATTTGTTCAGGTC----CTAGCACATAGTTTAAACATTATTCTTGTTTCTTTCAGATGTTAAAATTGACTTTAATGCAT---TGCCA--------ACAAATGGGCGCAGCA-------ACAAC
droMoj3 scaffold_6500:15110072-15110155 - CACGTGC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATTCAACATTATTCTTGCTCTTCGCAGATGTTAAAATCGACTTCAATGCAT---TGCCA--------ACAAATGGCCGCAACA-------ACAAC
droGri2 scaffold_14830:5067118-5067235 + GTCAG------------------------------------------------------------------------------------------------------------------------------------CGTTGTTGCCAGTGATTACTGAGACTACTGCTAG-TCATGGTCTAAACATTGCCATTCCATATTCAT-AATTGCTAATGGAA---TATGCTG---TGGCA--------ACCACAGACGACAACG-------ACAAC
droWil2 scf2_1100000004963:3919897-3919969 + ATTCT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCGTGTTTTTTTTTTTTTTTATGAGTAACTATAATTGTTTTTGGCCG--------AGAACGAGGAGCAGCA-------GGCGG
dp5 4_group4:2501272-2501294 - CCG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACGACTG-GACGAGCA-------TGATC
droPer2 scaffold_14:968718-968736 - AAA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGCCAAGAG-------GCAAC
droAna3 scaffold_13266:10360905-10360923 - AAC-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAACTGCAGCA-------ACAAA
droBip1 scf7180000393900:42615-42699 - TCAAATAATT------------------------------------------------------------------------------------------------------------------------------------------------------------------------TAAATTAATTTCTAACTTCTACGCTG--------------GAATTGCGTGG---CGTAATTATTAAATT---AAAATACAAAAAAAAAGTTCTTT
droFic1 scf7180000454105:343004-343069 + TTTAT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTTTTTTCCTCGGATTTTAAGTGGCCCGTGTGCGC---CGGCA--------ATAACGAGCAGCAGCA-------ACAAC
droEle1 scf7180000490993:1674198-1674201 + CA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AC
droBia1 scf7180000301709:70649-70671 + CAG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAGATAAGAACGAAA-------ACAAC
droTak1 scf7180000411326:134-156 - AAC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAACGAACGAACGAA-------CGAAC
droEug1 scf7180000409533:346288-346344 - AGTTAAA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATTCTTGTTTAGTTTCTTTTAATTTTTAAAAATGTTTTCAATTT---------------------------------A-------TTACC
droSim2 2l:9872069-9872107 - TAACATATTT------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTAAAACATTTTTATTGTTTATTTCA------------------------------------------------------------------GAT
droSec2 scaffold_138:52277-52286 - CA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCG-------GCAGC
droYak3 2L:2702150-2702186 + CCT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CTATAAAT---TGCCA--------CAAAACAGCAGCAGCA-------GCAGC
droEre2 scaffold_4845:11886090-11886099 - CA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACG-------ACAAC

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droVir3
TCAGATAATTCTATAGTGCTCAATCCGTTCTTATTTTGAGCCAATTTATGTAACTTAGACAAAATTAAACTGGAAGAGAAATCTACTTTAATGTCTAGCCAGTTAATCAGTTAACCTAGTTATCGTGAGCACGTCATCGGGATTTTCAGTATTTGTTCAGGTC----CTAGCACATAGTTTAAACATTATTCTTGTTTCTTTCAGATGTTAAAATTGACTTTAATGCAT---TGCCA--------ACAAATGGGCGCAGCA-------ACAACSizeHit CountTotal NormTotalM027
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		SRR1106712
embryo_0-2h		SRR1106713
embryo_0-2h		SRR1106714
embryo_2-4h		SRR1106715
embryo_4-6h		SRR1106716
embryo_4-6h		SRR1106717
embryo_6-8h		SRR1106718
embryo_6-8h		SRR1106719
embryo_8-10h		SRR1106720
embryo_8-10h		SRR1106721
embryo_10-12h		SRR1106722
embryo_10-12h		SRR1106723
embryo_12-14h		SRR1106724
embryo_12-14h		SRR1106725
embryo_14-16h		SRR1106726
embryo_14-16h		SRR1106727
larvae		SRR1106728
larvae		SRR1106729
mixed whole adult body		SRR1106730
embryo_16-30h		V047
Embryo		V053
Head		V116
Male-body		GSM1528803
follicle cells
No Reads
droMoj3
CACGTGC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATTCAACATTATTCTTGCTCTTCGCAGATGTTAAAATCGACTTCAATGCAT---TGCCA--------ACAAATGGCCGCAACA-------ACAACSizeHit CountTotal NormTotalM046
Female-body		V041
Embryo		V049
Head		V056
Head		M060
Embryo		V110
Male-body
No Reads
droGri2
GTCAG------------------------------------------------------------------------------------------------------------------------------------CGTTGTTGCCAGTGATTACTGAGACTACTGCTAG-TCATGGTCTAAACATTGCCATTCCATATTCAT-AATTGCTAATGGAA---TATGCTG---TGGCA--------ACCACAGACGACAACG-------ACAACSizeHit CountTotal NormTotalM041
Female-body		V109
Male-body
No Reads
droWil2
ATTCT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCGTGTTTTTTTTTTTTTTTATGAGTAACTATAATTGTTTTTGGCCG--------AGAACGAGGAGCAGCA-------GGCGGSizeHit CountTotal NormTotalM020
Head		M045
Female-body		V117
Male-body		V118
Embryo		V119
Head
No Reads
dp5
CCG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACGACTG-GACGAGCA-------TGATCSizeHit 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
.....................................................................................................................................................................................................................................................ACGACTG-GACGAGCA-------TGATC2011.0010000000010
CCG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACGACTG-GACGAGCA-------TGA..2111.0010000000010
......................................................................................................................................................................................................................................................CGACTG-GACGAGCA-------TGATC1911.0010000000010
droPer2
AAA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGCCAAGAG-------GCAACSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
No Reads
droAna3
AAC-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAACTGCAGCA-------ACAAASizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
No Reads
droBip1
TCAAATAATT------------------------------------------------------------------------------------------------------------------------------------------------------------------------TAAATTAATTTCTAACTTCTACGCTG--------------GAATTGCGTGG---CGTAATTATTAAATT---AAAATACAAAAAAAAAGTTCTTTSizeHit CountTotal NormTotal
No Reads
droFic1
TTTAT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTTTTTTCCTCGGATTTTAAGTGGCCCGTGTGCGC---CGGCA--------ATAACGAGCAGCAGCA-------ACAACSizeHit CountTotal NormTotal
No Reads
droEle1
CA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACSizeHit CountTotal NormTotal
No Reads
droBia1
CAG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAGATAAGAACGAAA-------ACAACSizeHit CountTotal NormTotal
No Reads
droTak1
AAC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAACGAACGAACGAA-------CGAACSizeHit CountTotal NormTotal
No Reads
droEug1
AGTTAAA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATTCTTGTTTAGTTTCTTTTAATTTTTAAAAATGTTTTCAATTT---------------------------------A-------TTACCSizeHit CountTotal NormTotal
No Reads
droSim2
TAACATATTT------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTAAAACATTTTTATTGTTTATTTCA------------------------------------------------------------------GATSizeHit CountTotal NormTotalM023
Head		M024
Male-body		M025
Embryo		M053
Female-body		O001
Testis		O002
Head		SRR553485
Ovary		SRR553486
Ovary		SRR553487
Ovary		SRR553488
Ovary		SRR618934
Ovary		V044
Embryo		SRR902008
Ovary		SRR902009
Testis		SRR1275487
Male larvae		SRR1275485
Male prepupae		SRR1275483
Male prepupae
No Reads
droSec2
CA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCG-------GCAGCSizeHit CountTotal NormTotalM054
Female-body		V113
Male-body		V114
Embryo		V115
Head
No Reads
droYak3
CCT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CTATAAAT---TGCCA--------CAAAACAGCAGCAGCA-------GCAGCSizeHit 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
droEre2
CA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACG-------ACAACSizeHit CountTotal NormTotalM055
Female-body		M057
Embryo		V060
Head		V040
Embryo		V107
Male-body		V108
Head		GSM1528801
follicle cells
No Reads

Generated: 05/19/2015 at 11:12 AM