ID:

dvi_6458

Coordinate:

scaffold_12875:12377726-12377876 -

Confidence:

Candidate

Type:

Unknown

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

Predicted structure

Flybase annnotation

exon [dvir_GLEANR_5846:9]; CDS [Dvir\GJ20406-cds]; intron [Dvir\GJ20406-in]

No Repeatable elements found

Sense Strand Reads

##################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
AAATCTTTCTGGATAGCACGACCCCAGAGACCAAAGCACTTGTATCTCAGGTAAGTTCATTCAAATTTGAATGTGATAAAAATTGTCCGATTGAAAATTTGAAATAAATTAGAAAATAAGTCTATATTTGGTTCCTTAAGCTGATATAAATATTTTTGTTTAATGTTTAAAAAAATCACTCTCTTTCAAATTATATCTATTGATAAGTATCAACGGCGGCATTGTCGGTCCGTTATTATATTAGGAAATCA
**************************************************.........(((((((((.(((..(((((...)))))..)))..)))))))))....(((((....((((.(((....)))...))))..))))).((((((((.......))))))))................................**************************************************
Read size # Mismatch Hit Count Total Norm Total M028
head
M061
embryo
SRR060665
9_females_carcasses_total
SRR060666
160_males_carcasses_total
SRR060667
160_females_carcasses_total
SRR060672
9x160_females_carcasses_total
SRR060686
Argx9_0-2h_embryos_total
V116
male body
V053
head
SRR060684
140x9_0-2h_embryos_total
M047
female body
V047
embryo
..............AGCACGACCCCAGAGACCAAAGC...................................................................................................................................................................................................................... 23 0 1 1.00 1 0 1 0 0 0 0 0 0 0 0 0 0
....CTTTCTGGATAGCACGACCCCAGA............................................................................................................................................................................................................................... 24 0 1 1.00 1 0 0 1 0 0 0 0 0 0 0 0 0
.............TAGCACGACCCCAGAGACCAAA........................................................................................................................................................................................................................ 22 0 1 1.00 1 0 0 0 1 0 0 0 0 0 0 0 0
.AATCTTTCTGGATAGCACGACCCC.................................................................................................................................................................................................................................. 24 0 1 1.00 1 0 0 0 0 1 0 0 0 0 0 0 0
.......................................................................................................................................................................................................TTGATAAGTGTCAACGGCGGC............................... 21 1 1 1.00 1 0 0 0 0 0 0 0 1 0 0 0 0
.....TTTCTGGATAGCACGACC.................................................................................................................................................................................................................................... 18 0 1 1.00 1 1 0 0 0 0 0 0 0 0 0 0 0
..................................AGCACTTGTATCTCAGGT....................................................................................................................................................................................................... 18 0 1 1.00 1 0 0 0 0 0 0 1 0 0 0 0 0
................................................................................................................................................................................................................ATCAACGGCGGCATTGTCGGTCCGT.................. 25 0 1 1.00 1 0 0 0 0 0 1 0 0 0 0 0 0
...............................CAAAGCACTTATATCGCAGGA....................................................................................................................................................................................................... 21 3 2 0.50 1 0 0 0 0 0 0 0 0 1 0 0 0
........................................TGTAGCTCAGGTTAGTTC................................................................................................................................................................................................. 18 2 6 0.17 1 0 0 0 0 0 0 0 0 0 1 0 0
..........................................................................................................................................................................................................ATAAGTATCAGCGGCAGC............................... 18 2 20 0.05 1 0 0 0 0 0 0 0 0 0 0 1 0
..............................................................................................................................................................................................................GTATCAACGGCGACCTTC........................... 18 3 20 0.05 1 0 0 0 0 0 0 0 0 0 0 0 1

Anti-sense strand reads

TTTAGAAAGACCTATCGTGCTGGGGTCTCTGGTTTCGTGAACATAGAGTCCATTCAAGTAAGTTTAAACTTACACTATTTTTAACAGGCTAACTTTTAAACTTTATTTAATCTTTTATTCAGATATAAACCAAGGAATTCGACTATATTTATAAAAACAAATTACAAATTTTTTTAGTGAGAGAAAGTTTAATATAGATAACTATTCATAGTTGCCGCCGTAACAGCCAGGCAATAATATAATCCTTTAGT
**************************************************.........(((((((((.(((..(((((...)))))..)))..)))))))))....(((((....((((.(((....)))...))))..))))).((((((((.......))))))))................................**************************************************
Read size # Mismatch Hit Count Total Norm Total SRR060681
Argx9_testes_total
GSM1528803
follicle cells
SRR060675
140x9_ovaries_total
SRR060676
9xArg_ovaries_total
SRR060670
9_testes_total
SRR060680
 9xArg_testes_total
SRR060682
9x140_0-2h_embryos_total
SRR060689
160x9_testes_total
V116
male body
M047
female body
SRR060678
9x140_testes_total
SRR060679
140x9_testes_total
SRR060687
9_0-2h_embryos_total
SRR060655
9x160_testes_total
SRR060663
160_0-2h_embryos_total
SRR060686
Argx9_0-2h_embryos_total
SRR060684
140x9_0-2h_embryos_total
...................................................................................................................................AAGGAACTAGACTATATTTA.................................................................................................... 20 2 3 3.33 10 5 0 0 0 1 2 0 0 0 0 1 1 0 0 0 0 0
..................................................................................................................................................................TACAAATTTTTTTAGTGAGAGAAAGT............................................................... 26 0 1 1.00 1 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0
..TAGAAAGACCTATCGTGCTGGGGTCT............................................................................................................................................................................................................................... 26 0 1 1.00 1 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
TTTAGAAAGACCTATCGTGCTGGGG.................................................................................................................................................................................................................................. 25 0 1 1.00 1 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0
...........................................TAGGGTCCATTCAACTAACTT........................................................................................................................................................................................... 21 3 2 0.50 1 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0
..................................................................................................................................CAAGGAACTAGACTATATTTA.................................................................................................... 21 2 2 0.50 1 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0
...................................................................................................................................AAGGAACTAGACTATATTT..................................................................................................... 19 2 4 0.50 2 0 0 0 0 2 0 0 0 0 0 0 0 0 0 0 0 0
................................................................................................................................ACAAAGGAACTAGACTATATTT..................................................................................................... 22 3 2 0.50 1 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0
...................................................................................................................................AAGGAACTAGACTATATT...................................................................................................... 18 2 10 0.40 4 0 0 0 0 0 0 0 0 0 0 0 0 2 0 1 1 0
........................................................................................................................................................................................................................GCCTTAACAGCCAAGCAA................. 18 2 6 0.17 1 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0
..................................................................................................................................AAAGGAACTAGACTATATTTA.................................................................................................... 21 3 7 0.14 1 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0
.........................................................................................................................................................................................................................CCGTACCAGCTAGGCCATA............... 19 3 8 0.13 1 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0
.............................................GGGTCCATTCAACTAACTTT.......................................................................................................................................................................................... 20 3 9 0.11 1 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0
..................................................................................................................................AAAGGAACTAGACTATATTT..................................................................................................... 20 3 20 0.10 2 1 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0
..TAGAGATCCCTATCGTGCT...................................................................................................................................................................................................................................... 19 3 12 0.08 1 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0
...........................................TAGGGTCCATTCAACTAAC............................................................................................................................................................................................. 19 3 20 0.05 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droVir3 scaffold_12875:12377676-12377926 - dvi_6458 AAATCTTTCTGGATAGCACGACCCCAGAGACCAAAGCACTTGTATCTCAGGTAAGTTCAT------------TCAAATTTGAATGTGATAAAAATTGTC--------------------------------------------------------------------------------------CGATTGA-----------------------------AAATTT---GAAATAAATTAGAAAATAAGTCTATATTTGGTTCCTTAAGCTGATATAAA---TATTTTTGTTTAATGTTTAAAAAAATCACTCTCT----------------TTCAAATTATATCTATTGATAAGTATCAACGGCGGCATTGTCGGTCCGTTATTATATTAGGA----AATCA
droMoj3 scaffold_6496:14485138-14485224 + AAATCTTTCTGGATAGCACGACACCGGAGACCAAAGCACTCGTATCTCAGGTGAGAATTATAATTGCTT---TTAAATT---ATGTGACAAAA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droGri2 scaffold_15245:7977387-7977599 + AAATCTTTTTGGAAAGCACAACACCGGAAACCAAAGCACTTGTATCTCAGGTAAGGTGACTATT--ATTCATGCAAATAATTCTCAGAAGAAAACTGGCC--------------------ATTTATAT---------------------------------------TGATATGAAAAGT------------------GCTTGAGCCGCCGG--------------------------------------------------------------------------------------------AAAATCCCTCTCAAGACTTTAAGACTTGGCCAAAATTAAATCGATTTTAAAGTTCAAAT--------------CACTTTTG------TGTTTGTCATGTA
droWil2 scf2_1100000004382:1122286-1122342 - AGATTTTCCTTGAAAGCACAACACCTGAGACTAAAGCTCTTGTTTCACAGGTGAGTT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
dp5 3:134458-134612 - AAATTTTCCTTGATAGCACTACTCCTGAGACCAAAGCTCTCGTATCACAGGTGAGTGGATCAGTGGATCCATTAAAA-----------------------------------AGATTATAATTTTGTTTGATTA---------------TAAATCAAAATTGTATC------------------------------ATGCTGAC------TAAA---GTTAAAGTACATCGTG----------------------------------------------------------------------------------------------------------------------------------------------------------------AAATTTTTATT
droPer2 scaffold_2:324876-325030 - AAATTTTCCTTGATAGCACTACTCCTGAGACCAAAGCTCTCGTATCACAGGTGAGTGGATCAGTGGATCCATTAAAA-----------------------------------AGATTATAATTTTGTTTGATTA---------------TAAATCAAAATTGTATC------------------------------ATGCTGAC------TAAA---GTTAAAGTACATCGTG----------------------------------------------------------------------------------------------------------------------------------------------------------------AAATTTTTATT
droAna3 scaffold_13266:19386555-19386773 + AAATAATTTTAGAAAGCACAACTCCGGAGACAAAAGCATTAGTATCACAGGTATTTAT--------------AAAAA------TTAGAAAAAATTATTCTAATTAATTAATTACGTTATAAATTTCTTAGATATTTTAATATTTTGGTGTTAAAAAAATTTGTATTTTGCTTTGTA-----AAAAAATGTTAAATTT---------------------------------------------------------------------------------------------------------------TACTCCTAAAGACGCGTCGATTG---------------------------------------------GTCCGAAATTTCGTTCAAA----AGTTA
droBip1 scf7180000396710:7417-7587 - AAATAATTTTAGAAAGCACAACCCCGGAGACTAAAGCATTAGTATATCAGGTAATTGT--------------TAACA-----------------------------------------------------------------------------------------------------CTAAAAAAATGTCAAATTTTGTTTAAGCCTTTTGAAGGGGTCAAAATAC---GAAATCAAATAT--C-----------------TACATAAGTTGTTACACAATCTATTTTTTCCTAATATTAAA------------------------------------------------------------------------------------------------AGAAA
droKik1 scf7180000301494:24319-24423 - AAATTTTTTTAGAAAGCACAACTCCAGAAACTAAGGCTTTAGTATCACAGGTAAGTAAATTT-----TT---TTT--------------------------------------------------------------------------------------------TGTTATGTAAAGT------------------TCG-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTACGTTGA------GGTAAATCAGTAA
droFic1 scf7180000453334:16311-16497 + GCATTTTTTTAGAAGGCACAACACCGGAGACAAAAGCCTTGGTTGCCCAGGTAAGTGTTTCATTAACTT---TC--ATTTGCTTGTT------------------------------------------------------------------------------------CTGAAAACCGCGTACGTCTCAGATCTTGTTAAC------TAAA---ATTACCGTGGAACATAATCAATGAT--CTTGAGTGTACTTTTCCTCAGTTAGGCTGTTATGGA---GGTTTT------------------------------------------------------------------------------------------------------------------T

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droVir3
AAATCTTTCTGGATAGCACGACCCCAGAGACCAAAGCACTTGTATCTCAGGTAAGTTCAT------------TCAAATTTGAATGTGATAAAAATTGTC--------------------------------------------------------------------------------------CGATTGA-----------------------------AAATTT---GAAATAAATTAGAAAATAAGTCTATATTTGGTTCCTTAAGCTGATATAAA---TATTTTTGTTTAATGTTTAAAAAAATCACTCTCT----------------TTCAAATTATATCTATTGATAAGTATCAACGGCGGCATTGTCGGTCCGTTATTATATTAGGA----AATCASizeHit 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
..............AGCACGACCCCAGAGACCAAAGC...............................................................................................................................................................................................................................................................................................................................................................................2311.001000100000000000000000000000000000000000000000000000000000000000
....CTTTCTGGATAGCACGACCCCAGA........................................................................................................................................................................................................................................................................................................................................................................................2411.001000000000000000100000000000000000000000000000000000000000000000
.............TAGCACGACCCCAGAGACCAAA.................................................................................................................................................................................................................................................................................................................................................................................2211.001000000000000000010000000000000000000000000000000000000000000000
.AATCTTTCTGGATAGCACGACCCC...........................................................................................................................................................................................................................................................................................................................................................................................2411.001000000000000000001000000000000000000000000000000000000000000000
.....TTTCTGGATAGCACGACC.............................................................................................................................................................................................................................................................................................................................................................................................1811.001010000000000000000000000000000000000000000000000000000000000000
..................................AGCACTTGTATCTCAGGT................................................................................................................................................................................................................................................................................................................................................................1811.001000000000000000000000000000000000000100000000000000000000000000
.....................................................................................................................................................................................................................................................................................................................................................................ATCAACGGCGGCATTGTCGGTCCGT......................2511.001000000000000000000000010000000000000000000000000000000000000000
droMoj3
AAATCTTTCTGGATAGCACGACACCGGAGACCAAAGCACTCGTATCTCAGGTGAGAATTATAATTGCTT---TTAAATT---ATGTGACAAAA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotalM046
Female-body
V041
Embryo
V049
Head
V056
Head
M060
Embryo
V110
Male-body
AAATCTTTCTGGATAGCACGACACCGGA........................................................................................................................................................................................................................................................................................................................................................................................2811.001100000
droGri2
AAATCTTTTTGGAAAGCACAACACCGGAAACCAAAGCACTTGTATCTCAGGTAAGGTGACTATT--ATTCATGCAAATAATTCTCAGAAGAAAACTGGCC--------------------ATTTATAT---------------------------------------TGATATGAAAAGT------------------GCTTGAGCCGCCGG--------------------------------------------------------------------------------------------AAAATCCCTCTCAAGACTTTAAGACTTGGCCAAAATTAAATCGATTTTAAAGTTCAAAT--------------CACTTTTG------TGTTTGTCATGTASizeHit CountTotal NormTotalM041
Female-body
V109
Male-body
No Reads
droWil2
AGATTTTCCTTGAAAGCACAACACCTGAGACTAAAGCTCTTGTTTCACAGGTGAGTT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotalM020
Head
M045
Female-body
V117
Male-body
V118
Embryo
V119
Head
No Reads
dp5
AAATTTTCCTTGATAGCACTACTCCTGAGACCAAAGCTCTCGTATCACAGGTGAGTGGATCAGTGGATCCATTAAAA-----------------------------------AGATTATAATTTTGTTTGATTA---------------TAAATCAAAATTGTATC------------------------------ATGCTGAC------TAAA---GTTAAAGTACATCGTG----------------------------------------------------------------------------------------------------------------------------------------------------------------AAATTTTTATTSizeHit 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
..........................................................................................................................................................CAAAATTGTATC------------------------------ATGCTG..........................................................................................................................................................................................................1811.0010100000000
.....................CTCCTGAGACCAAAGCTCTC...........................................................................................................................................................................................................................................................................................................................................................................2011.0010100000000
droPer2
AAATTTTCCTTGATAGCACTACTCCTGAGACCAAAGCTCTCGTATCACAGGTGAGTGGATCAGTGGATCCATTAAAA-----------------------------------AGATTATAATTTTGTTTGATTA---------------TAAATCAAAATTGTATC------------------------------ATGCTGAC------TAAA---GTTAAAGTACATCGTG----------------------------------------------------------------------------------------------------------------------------------------------------------------AAATTTTTATTSizeHit CountTotal NormTotalM021
Embryo
M042
Female-body
V042
Embryo
V050
Head
V057
Head
V111
Male-body
.....TTCCTTGATAGCACTACTCCTGAGACC....................................................................................................................................................................................................................................................................................................................................................................................2711.001010000
.............................ACCAAAGCTCTCGTATCACAGGTG...............................................................................................................................................................................................................................................................................................................................................................2411.001010000
droAna3
AAATAATTTTAGAAAGCACAACTCCGGAGACAAAAGCATTAGTATCACAGGTATTTAT--------------AAAAA------TTAGAAAAAATTATTCTAATTAATTAATTACGTTATAAATTTCTTAGATATTTTAATATTTTGGTGTTAAAAAAATTTGTATTTTGCTTTGTA-----AAAAAATGTTAAATTT---------------------------------------------------------------------------------------------------------------TACTCCTAAAGACGCGTCGATTG---------------------------------------------GTCCGAAATTTCGTTCAAA----AGTTASizeHit CountTotal NormTotalM044
Female-body
M058
Embryo
V039
Embryo
V055
Head
V105
Male-body
V106
Head
....AATTTTAGAAAGCACAACTG............................................................................................................................................................................................................................................................................................................................................................................................2011.001000100
droBip1
AAATAATTTTAGAAAGCACAACCCCGGAGACTAAAGCATTAGTATATCAGGTAATTGT--------------TAACA-----------------------------------------------------------------------------------------------------CTAAAAAAATGTCAAATTTTGTTTAAGCCTTTTGAAGGGGTCAAAATAC---GAAATCAAATAT--C-----------------TACATAAGTTGTTACACAATCTATTTTTTCCTAATATTAAA------------------------------------------------------------------------------------------------AGAAASizeHit CountTotal NormTotal
No Reads
droKik1
AAATTTTTTTAGAAAGCACAACTCCAGAAACTAAGGCTTTAGTATCACAGGTAAGTAAATTT-----TT---TTT--------------------------------------------------------------------------------------------TGTTATGTAAAGT------------------TCG-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTACGTTGA------GGTAAATCAGTAASizeHit CountTotal NormTotal
No Reads
droFic1
GCATTTTTTTAGAAGGCACAACACCGGAGACAAAAGCCTTGGTTGCCCAGGTAAGTGTTTCATTAACTT---TC--ATTTGCTTGTT------------------------------------------------------------------------------------CTGAAAACCGCGTACGTCTCAGATCTTGTTAAC------TAAA---ATTACCGTGGAACATAATCAATGAT--CTTGAGTGTACTTTTCCTCAGTTAGGCTGTTATGGA---GGTTTT------------------------------------------------------------------------------------------------------------------TSizeHit CountTotal NormTotal
No Reads

Generated: 05/17/2015 at 04:55 AM