ID:

dpe_1834

Coordinate:

scaffold_535:3960-4110 -

Confidence:

Candidate

Type:

Unknown

[View on UCSC Genome Browser {Cornell Mirror}]

Legend:

mature

star

mismatch in alignment

mismatch in read

Predicted structure

-31.8	-31.8	-31.7

Flybase annnotation

CDS [Dper\GL21450-cds]; exon [dper_GLEANR_352:2]; intron [Dper\GL21450-in]

No Repeatable elements found

mature

star

Sense Strand Reads

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------################################################## TAATATTAGCGGCGTCTGCCGTAGGAGTGCCATACTGACTAAGTATCGGGTATAAATGCTGCGGAGACCGCAACTCACAACGTTCCCCCTCGTTTTTCATTGGACTGCTTGAGCATAATGTCGCAGGAGAGCGTGCCTTGTTGGTACTTTTACCTCGAAATATGGAGAATTATGGAACACAAAATTTTGTTGATTTTTCAGAGACAACCGTCCCCTATCCAGGACGCCGAGGGTGGGCATGTCTCTTGGGA ************************************************.........(((((...)))))......((((........))))...(((((...(((....))))))))(((.(((((((.(((((.....))))))))).))))))....((((((((((..(((........)))..)))))))))).************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M021 embryo	M042 female body	V057 head
.................................................................GTCCACAACTCACAACGTTCCCCCT.................................................................................................................................................................	25	2	2	1.50	3	3	0	0
...................................TGACTAAGTATCGGGTATAAATGC................................................................................................................................................................................................	24	0	4	0.25	1	0	1	0
...............................................................................................TTCACTGGACTGATAGAGC.........................................................................................................................................	19	3	20	0.10	2	2	0	0
.....................................................................GCAACTCACAACGTTCCCCCTCGTTT............................................................................................................................................................	26	0	20	0.05	1	0	1	0
.....................................................................................................................TTGTCGCGGGAGAGCGTGG...................................................................................................................	19	3	20	0.05	1	0	0	1

Anti-sense strand reads

ATTATAATCGCCGCAGACGGCATCCTCACGGTATGACTGATTCATAGCCCATATTTACGACGCCTCTGGCGTTGAGTGTTGCAAGGGGGAGCAAAAAGTAACCTGACGAACTCGTATTACAGCGTCCTCTCGCACGGAACAACCATGAAAATGGAGCTTTATACCTCTTAATACCTTGTGTTTTAAAACAACTAAAAAGTCTCTGTTGGCAGGGGATAGGTCCTGCGGCTCCCACCCGTACAGAGAACCCT ************************************************.........(((((...)))))......((((........))))...(((((...(((....))))))))(((.(((((((.(((((.....))))))))).))))))....((((((((((..(((........)))..)))))))))).************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V057 head	V111 male body	M042 female body
.........................................................CGAGGCCTGTGGCGTGGAGTGT............................................................................................................................................................................	22	3	5	0.20	1	1	0	0
............................................................CGCCTGTGGCGTTGAGTGT............................................................................................................................................................................	19	1	5	0.20	1	0	1	0
..............................................................................TTGCAAGGGGGAGCAAAAAG.........................................................................................................................................................	20	0	20	0.05	1	0	0	1
...............................TATGACTGATTCATAGCCCATATT....................................................................................................................................................................................................	24	0	20	0.05	1	0	0	1

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droPer2	scaffold_535:3910-4160 -	dpe_1834	TAATATTAGCGGCGTCTGCCGTAGGAGTGC---------CATACTGACTAAGTATCGGGTATAAATG-CTGCGGAGA-CC----GCAACTCAC-AACGTTCCCCCTCG--TTTT---TCATTGGACTGCTT----------------------------------------GAGCATAATGTCGCAGGAGAGCGTGCCTTGTTGGTACTTTTACCTCGAAATATGGAGAATTATGGAACACAAAA-TTTTGTTGATTTTTCAGAGACAACCGTCCCCTATCCAGGACGCCGAGGGTGGGCATGTCTCTTGGGA
dp5	Unknown_group_123:11247-11483 -		TAATATTAGCGGCGTCTGCCGTAGGAGAGC---------CATACTGACTAAGTATCGGGTATAAATGTG--------------------T-ATAAACGTTCCCCCTCG--TTTT---TCATTGGACTGCTT----------------------------------------GAGCATAATGTCGCAGGAGAGCGTGCCTTGTTGGTACTTTTACCTCGAAATATGGAGAATTATGGAACACAAAA-TTTTGTTGATTTTTCAGAGACAACCGTCCCCTATCCAGGACGCCGAGGGTGGGCATGTCCCTTGGGA
droWil2	scf2_1100000004947:515677-515734 -		TT-------------------------------------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------AAACTTTAACTCTGAAATATTGCGAGCTTGGAATAACATAA-TTTTGTTGGATTTT-----------------------------------------------------
droVir3	scaffold_12958:2052021-2052059 -		AA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A-TTTTGTTGGCTTTCTAGGGCTGATCATCACCTACCC-------------------------------
droMoj3	scaffold_6540:24541436-24541466 +		TT-------------------------------------------T-------------------------------------------------------------------G---CCATCCGGCTGCTT----------------------------------------GAGCACAATGTCG---------------------------------------------------------------------------------------------------------------------------------
droGri2	scaffold_14592:110465-110503 +		CCTTG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACAAGGGAAACAAGGACGGAAGAATCCCGAGGAA
droAna3	scaffold_13217:33550-33606 -		TGCTGT-------------------------------------------------------------------------------------------------------ATTG-------------------------------------------------------------------------------------------TTA--TTTATTTCAACACTTATAAAATTATGAAACAAAAAA-TTTTGTTG-----------------------------------------------------------
droBip1	scf7180000392908:7542-7590 +		AT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATGGAAAATCATTAAACCCAAAT-TTTGATTAATTTTGCAGACACAGC-------------------------------------------
droKik1	scf7180000302577:1585106-1585140 +		AA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AATTAAAGAAATTAAAA-TTTTTTTGATTTTTCA---------------------------------------------------
droFic1	scf7180000453794:1620-1651 -		CG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAAAATAGAGAAATATGGAACAAAAAA-GTT----------------------------------------------------------------
droEle1	scf7180000490982:745541-745611 -		TT-------------------------------------------A-------------------------------------------------------CCCCTCATGTTCTGATTCATGGAAATGATT----------------------------------------GAGTAAAATGTCGCAGAAATATATGTGTGGTCTGTGCT--------------------------------------------------------------------------------------------------------
droRho1	scf7180000769140:1308-1454 +		TT-------------------------------------------ACCTGAGTAACGGGTATCTGATGGT--CGGGGCAC----CCGACT-AT-AGCGTTCTCTCTTG--TTTT---AATTTGTGTTACTT----------------------------------------TAACATAAAAT-----------ATTCATTTCTAGTTTTTT--TCGAAATAATTTCTGAATTAT-----ATAAAA-TAATTTTTATTTTTTA---------------------------------------------------
droBia1	scf7180000302069:212114-212230 -		TA-------------------------------------------AGCTAAGTAACGGGTATCTGATAGT--CGAGGCAC----TCGACT-AC-AGCGTTCTTCCTTG--TTTT----CAATGGTCTGACT----------------------------------------TAATACAATATCG-------------------------------------------------TAAGATTGAATATTTTCGCTAATTTTTCC-T-------------------------------------------------
droTak1	scf7180000414279:4091-4296 +		TATTAGTCGGGACACCAACCCGAGTACAGCGTTCGCACTCCCTTTAGCTGAGTGACGGGTATTAGATAGT--CGGGACACCAACCCGACT-AT-AGCGTTCTCTCTTG--TTTT---TTTTTGTATTT--TGAAATGCCTCAATATGGTAGTACCTCGACCGATGAGCAATG----------AG------------------------------C---AAA---ATTGAAT-TTAAAGAGTAAAA-TTTTGCTCATTCATTAGAG------------------------------------------------
droYak3	v2_chrUn_2875:20973-21018 +		GT-------------------------------------------G------------------------------------------------------------------------------------------------------------------------------------------------------CCTCGTAAAGACCTTTTTCTTGTAATATGGACAATAGTGAAAC--------------------------------------------------------------------------
droEre2	scaffold_4845:17592383-17592434 -		TGCTTTT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAACTTAGAAAGTCATTTAAAAAAAAA-TTTTTTTAATTTTTCTGA-------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droPer2

TAATATTAGCGGCGTCTGCCGTAGGAGTGC---------CATACTGACTAAGTATCGGGTATAAATG-CTGCGGAGA-CC----GCAACTCAC-AACGTTCCCCCTCG--TTTT---TCATTGGACTGCTT----------------------------------------GAGCATAATGTCGCAGGAGAGCGTGCCTTGTTGGTACTTTTACCTCGAAATATGGAGAATTATGGAACACAAAA-TTTTGTTGATTTTTCAGAGACAACCGTCCCCTATCCAGGACGCCGAGGGTGGGCATGTCTCTTGGGA	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
............................................TGACTAAGTATCGGGTATAAATG-C....................................................................................................................................................................................................................................................	24	4	0.25	1	0	1	0	0	0	0
....................................................................................GCAACTCAC-AACGTTCCCCCTCG--TTT........................................................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0

dp5

TAATATTAGCGGCGTCTGCCGTAGGAGAGC---------CATACTGACTAAGTATCGGGTATAAATGTG--------------------T-ATAAACGTTCCCCCTCG--TTTT---TCATTGGACTGCTT----------------------------------------GAGCATAATGTCGCAGGAGAGCGTGCCTTGTTGGTACTTTTACCTCGAAATATGGAGAATTATGGAACACAAAA-TTTTGTTGATTTTTCAGAGACAACCGTCCCCTATCCAGGACGCCGAGGGTGGGCATGTCCCTTGGGA	Size	Hit Count	Total Norm	Total	M022 Male-body	M040 Female-body	M059 Embryo	M062 Head	V043 Embryo	V051 Head	V112 Male-body	SRR902010 Ovary	SRR902011 Testis	SRR902012 CNS imaginal disc
..................................................................................................................................T----------------------------------------GAGCATAATGTCGCAGGAGAGCGTG.....................................................................................................................	26	1	2.00	2	0	2	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................TGTTGGTACTTTTACCTCGAAATA..........................................................................................	24	1	1.00	1	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................TTGTTGATTTTTCAGAGAC..............................................	19	1	1.00	1	0	0	0	0	0	0	0	0	1	0
..................................................................................................TTCCCCCTCG--TTTT---TCATTGGACTGC........................................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................T----------------------------------------GAGCATAATGTCGCAGGAGAGCGTGC....................................................................................................................	27	1	1.00	1	0	1	0	0	0	0	0	0	0	0
............................................................................................TAAACGTTCCCCCTCG--TTTT---TCATTGG.............................................................................................................................................................................................	27	1	1.00	1	0	0	0	0	0	0	0	1	0	0
...................CGTAGGAGAGC---------CATACTGAC.........................................................................................................................................................................................................................................................................	20	5	0.20	1	0	1	0	0	0	0	0	0	0	0
...........GCGTCTGCCGTAGGAGAG............................................................................................................................................................................................................................................................................................	18	5	0.20	1	0	1	0	0	0	0	0	0	0	0
.............................................GACTAAGTATCGGGTATAAA........................................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0

droWil2

TT-------------------------------------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------AAACTTTAACTCTGAAATATTGCGAGCTTGGAATAACATAA-TTTTGTTGGATTTT-----------------------------------------------------	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
........................................................................................................................................................................................................................................TGGAATAACATAA-TTTTGTTGGATT.......................................................	25	2	0.50	1	0	1	0	0	0
........................................................................................................................................................................................................................................TGGAATAACATAA-TTTTGTTGGAT........................................................	24	2	0.50	1	0	1	0	0	0
.T-------------------------------------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------AAACTTTAACTCTGAAATATTGCGA....................................................................................	27	13	0.15	2	0	1	0	1	0
..................................................................................................................................................................................................................TAACTCTGAAATATTGCGAGCTTGG..............................................................................	25	12	0.08	1	0	0	0	1	0
TT-------------------------------------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------AAACTTTAACTCTGAAATATTGCG.....................................................................................	27	13	0.08	1	0	1	0	0	0
.T-------------------------------------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------AAACTTTAACTCTGAAATATTGCGAGC..................................................................................	29	13	0.08	1	0	1	0	0	0
......................................................................................................................................................................................................................TCTGAAATATTGCGAGCTTGG..............................................................................	21	14	0.07	1	0	0	0	1	0
TT-------------------------------------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------AAACTTTAACTCTGAAATATTG.......................................................................................	25	14	0.07	1	0	1	0	0	0

droVir3

AA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A-TTTTGTTGGCTTTCTAGGGCTGATCATCACCTACCC-------------------------------	Size	Hit Count	Total Norm	Total	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	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
AA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A-TTTTGTTGGCTTTCTAGGGCT..............................................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................TTTGTTGGCTTTCTAGGGCTG.............................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0

droMoj3

TT-------------------------------------------T-------------------------------------------------------------------G---CCATCCGGCTGCTT----------------------------------------GAGCACAATGTCG---------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
No Reads

droGri2

CCTTG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACAAGGGAAACAAGGACGGAAGAATCCCGAGGAA	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

droAna3

TGCTGT-------------------------------------------------------------------------------------------------------ATTG-------------------------------------------------------------------------------------------TTA--TTTATTTCAACACTTATAAAATTATGAAACAAAAAA-TTTTGTTG-----------------------------------------------------------	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
No Reads

droBip1

AT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATGGAAAATCATTAAACCCAAAT-TTTGATTAATTTTGCAGACACAGC-------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droKik1

AA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AATTAAAGAAATTAAAA-TTTTTTTGATTTTTCA---------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droFic1

CG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAAAATAGAGAAATATGGAACAAAAAA-GTT----------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEle1

TT-------------------------------------------A-------------------------------------------------------CCCCTCATGTTCTGATTCATGGAAATGATT----------------------------------------GAGTAAAATGTCGCAGAAATATATGTGTGGTCTGTGCT--------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droRho1

TT-------------------------------------------ACCTGAGTAACGGGTATCTGATGGT--CGGGGCAC----CCGACT-AT-AGCGTTCTCTCTTG--TTTT---AATTTGTGTTACTT----------------------------------------TAACATAAAAT-----------ATTCATTTCTAGTTTTTT--TCGAAATAATTTCTGAATTAT-----ATAAAA-TAATTTTTATTTTTTA---------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droBia1

TA-------------------------------------------AGCTAAGTAACGGGTATCTGATAGT--CGAGGCAC----TCGACT-AC-AGCGTTCTTCCTTG--TTTT----CAATGGTCTGACT----------------------------------------TAATACAATATCG-------------------------------------------------TAAGATTGAATATTTTCGCTAATTTTTCC-T-------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droTak1

TATTAGTCGGGACACCAACCCGAGTACAGCGTTCGCACTCCCTTTAGCTGAGTGACGGGTATTAGATAGT--CGGGACACCAACCCGACT-AT-AGCGTTCTCTCTTG--TTTT---TTTTTGTATTT--TGAAATGCCTCAATATGGTAGTACCTCGACCGATGAGCAATG----------AG------------------------------C---AAA---ATTGAAT-TTAAAGAGTAAAA-TTTTGCTCATTCATTAGAG------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droYak3

GT-------------------------------------------G------------------------------------------------------------------------------------------------------------------------------------------------------CCTCGTAAAGACCTTTTTCTTGTAATATGGACAATAGTGAAAC--------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M026 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
......................................................................................................................................................................................................TCGTAAAGACCTTTTTCTTGTAATA..........................................................................................	25	10	0.40	4	0	3	1	0	0	0	0	0	0	0	0
.T-------------------------------------------G------------------------------------------------------------------------------------------------------------------------------------------------------CCTCGTAAAGACCTTTTTCTTG...............................................................................................	24	10	0.20	2	0	2	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................TCGTAAAGACCTTTTTCTTGTAATATG........................................................................................	27	10	0.10	1	0	1	0	0	0	0	0	0	0	0	0
.T-------------------------------------------G------------------------------------------------------------------------------------------------------------------------------------------------------CCTCGTAAAGACCTTTTTCTATA..............................................................................................	25	10	0.10	1	0	1	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................CGTAAAGACCTTTTTCTTGTAATATG........................................................................................	26	10	0.10	1	0	1	0	0	0	0	0	0	0	0	0
.T-------------------------------------------G------------------------------------------------------------------------------------------------------------------------------------------------------CCTCGTAAAGACCTTTTTCTTGTA.............................................................................................	26	10	0.10	1	0	1	0	0	0	0	0	0	0	0	0
.T-------------------------------------------G------------------------------------------------------------------------------------------------------------------------------------------------------CCTCGTAAAGACCTTTTTCT.................................................................................................	22	10	0.10	1	0	1	0	0	0	0	0	0	0	0	0
.............................................G------------------------------------------------------------------------------------------------------------------------------------------------------CCTCGTAAAGACCTTTTTCTTGTAATA..........................................................................................	28	10	0.10	1	0	1	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................CGTAAAGACCTTTTTCTTGTAATA..........................................................................................	24	10	0.10	1	0	1	0	0	0	0	0	0	0	0	0
.T-------------------------------------------G------------------------------------------------------------------------------------------------------------------------------------------------------CCTCGTAAAGACCTTTTTCTTGT..............................................................................................	25	10	0.10	1	0	1	0	0	0	0	0	0	0	0	0

droEre2

TGCTTTT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAACTTAGAAAGTCATTTAAAAAAAAA-TTTTTTTAATTTTTCTGA-------------------------------------------------	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
No Reads

Generated: 06/08/2015 at 04:45 PM