ID:

dps_1325

Coordinate:

3:19576508-19576658 +

Confidence:

Candidate

Type:

Unknown

[View on UCSC Genome Browser {Cornell Mirror}]

Legend:

mature

star

mismatch in alignment

mismatch in read

Predicted structure

-16.8	-16.4	-16.4

Flybase annnotation

exon [dpse_GLEANR_16460:2]; CDS [Dpse\GA25144-cds]; intron [Dpse\GA25144-in]

No Repeatable elements found

Sense Strand Reads

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------################################################## GCCGAAGCTATAGGCTCGATCAGTTGCAGCTCATTTCAAACCTCGCCGGCGACATGATCGGCTGTGTGTCGGGGAGCTTGACGTTTTGCCTGCTGGCAGCACTTATCGGAAGCGGACTGGGAGCAGAGGACTGTTAGCAGAGGTCTCGGAGCATCGCTGATAGGCGGGCACTAATTGCGAAATATTTTACGATTGTTTTAGATCCCGACTATTGTAGCACCTTTGAGGGGTGGCCTGGGTGGTGCGTCCAC ************************************************************..(((.((.((..((((((.((.(((((....))))).))...))..))))...)).)).)))......**********************************************************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	SRR902012 CNS imaginal disc	M040 female body	SRR902011 testis	M022 male body	GSM444067 head	GSM343916 embryo
..........................................................................................................CGGAAGCGGACTGGGAGCAGAGGAC........................................................................................................................	25	0	1	2.00	2	0	0	2	0	0	0
.................................................................................................AGCACTTATCGGAAGCGGACTGGG..................................................................................................................................	24	0	1	2.00	2	2	0	0	0	0	0
........................................................................................................ATCGGAAGCGGACTGGGAGC...............................................................................................................................	20	0	1	1.00	1	1	0	0	0	0	0
........................................CCTCGCCGGCGACATGATCGGCTGTG.........................................................................................................................................................................................	26	0	1	1.00	1	0	1	0	0	0	0
..............................................................TGTGTGTCGGGGAGCTTGACGTTTTG...................................................................................................................................................................	26	0	1	1.00	1	0	1	0	0	0	0
................................................................................................................CGGACTGGGAGCAGAGGAC........................................................................................................................	19	0	1	1.00	1	0	0	0	1	0	0
...................................................................................................CACTTATCGGAAGCGGACTGGG..................................................................................................................................	22	0	1	1.00	1	1	0	0	0	0	0
............................................................GCTGTGTGTCGGGGAGCTTGACGT.......................................................................................................................................................................	24	0	1	1.00	1	0	1	0	0	0	0
.................................................CGACATGATCGGCTGTGTGTCGGGGA................................................................................................................................................................................	26	0	1	1.00	1	0	1	0	0	0	0
.................................................................................................................................................................................................................................AGGGGTGGCCTGGGTGGT........	18	0	1	1.00	1	0	0	0	0	1	0
...........................................................................................................GGAAGCGGACTGGGAGCAGAGGAC........................................................................................................................	24	0	1	1.00	1	1	0	0	0	0	0
.............................................................................................TGGCAGCACTTATCGGAAGC..........................................................................................................................................	20	0	1	1.00	1	0	1	0	0	0	0
..........................................................................................................CGGAAGCGGACTGGGAGCAGAGG..........................................................................................................................	23	0	1	1.00	1	1	0	0	0	0	0
....................................................................................................ACTTATCGGAAGCGGACTGGG..................................................................................................................................	21	0	1	1.00	1	1	0	0	0	0	0
.........................................................................................CTGCTAGCAGCTCTTACCGG..............................................................................................................................................	20	3	6	0.17	1	0	1	0	0	0	0
.........................................................................................................................................................................................................................CAGGTTTGAGGGGTGGTCTG..............	20	3	7	0.14	1	0	1	0	0	0	0
....................................................................TCGGGTAGCTAGAGGTTTT....................................................................................................................................................................	19	3	13	0.08	1	0	0	0	0	0	1
....................................................................................................................................GTTTGTAGAGGGCTCGGAGC...................................................................................................	20	3	15	0.07	1	0	0	1	0	0	0

Anti-sense strand reads

CGGCTTCGATATCCGAGCTAGTCAACGTCGAGTAAAGTTTGGAGCGGCCGCTGTACTAGCCGACACACAGCCCCTCGAACTGCAAAACGGACGACCGTCGTGAATAGCCTTCGCCTGACCCTCGTCTCCTGACAATCGTCTCCAGAGCCTCGTAGCGACTATCCGCCCGTGATTAACGCTTTATAAAATGCTAACAAAATCTAGGGCTGATAACATCGTGGAAACTCCCCACCGGACCCACCACGCAGGTG **********************************************************************************************************************..(((.((.((..((((((.((.(((((....))))).))...))..))))...)).)).)))......************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	SRR902012 CNS imaginal disc	M040 female body	GSM343916 embryo
..................................................................................................................................................................................................CGGAATCTAGGGCTGAT........................................	17	2	3	1.00	3	3	0	0
.......................................................................................................................................................................................TACAATGCTAACCAAACCTA................................................	20	3	11	0.09	1	0	1	0
......................................................................................ACCGACGACCGTAGTGAAAAG................................................................................................................................................	21	3	12	0.08	1	0	1	0
.....................................TTTGGACCGGCCGCCGCACTA.................................................................................................................................................................................................	21	3	20	0.05	1	0	0	1
..................................................................................................................................................................................................CGGAATCTAGGGCTGATT.......................................	18	3	20	0.05	1	1	0	0

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
dp5	3:19576458-19576708 +	dps_1325	GCCGAAGCTATAGGCTCGATCAGTTGCAGCTCATTTCAAACCTCGCCGGCGACATGATCGGCTGTGTGTCGGGGAGCTTGACGTTTTGCCTGCTGGCAGCACTTATCGGAAGCGGACTGGGAGCAGAGGACTGTTAGCAGAGGTCTCGGAGCATCGCTGATAGGCGGGCACTAATTGCGAAATATTTTACGATTGTTTTAGATCCCGACTATTGTAGCACCTTTGAGGGGTGGCCTGGGTGGTGCGTCCAC
droPer2	scaffold_37:578071-578321 +		GCCGAAGCTATAGGCTCGATCAGTTGCAGCTCATTTCAAACCTCGCCGGCGACATGATCGGCTGTGTGTCGGGGAGCTTGACGTTTTGCCTGCTGGCAGCACTTATCGGAAGCGGACTGGGAGCAGAGGACTGTTAGCAGAGGTCTCGGAGCATCGCTGATAGGCGGGCACTAATTGCGAAATATTTTACGATTGTTACAGATCCCGACTATTGTAGCACCTTTGAGGGGTGGCCTGGGTGGTGCGTCCAC
droKik1	scf7180000302682:1755104-1755162 +		GTTCTACT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCTCCACAATACTGCACTACCTATGATGAGAAGCCAGGCAGGTGTCTTCGC
droFic1	scf7180000453809:79063-79114 +		-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGATCCCACCTACTGCACCACCTTTGAAGAGAAACCAGGGAAATGCATACAC
droEug1	scf7180000409672:479825-479876 +		-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGATCCCGAATACTGCACCACCTTCGATAATAAACCAGGTAAATGTGTAGAC
droSim2	2r:12253265-12253316 +		-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGATCCAACATACTGCACCACCTACGATCAGAAGCCAGGCAAATGCGTACAC
droSec2	scaffold_1:9080477-9080528 +		-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGATCCAACATACTGCACCACCTACGATCAGAAGCCAGGCAAATGCGTACAC
droEre2	scaffold_4845:14278514-14278565 -		-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGATCCCACATACTGCACTACGTACGATCAGAAGCCAGGCAAATGCGTAAAC

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

dp5

GCCGAAGCTATAGGCTCGATCAGTTGCAGCTCATTTCAAACCTCGCCGGCGACATGATCGGCTGTGTGTCGGGGAGCTTGACGTTTTGCCTGCTGGCAGCACTTATCGGAAGCGGACTGGGAGCAGAGGACTGTTAGCAGAGGTCTCGGAGCATCGCTGATAGGCGGGCACTAATTGCGAAATATTTTACGATTGTTTTAGATCCCGACTATTGTAGCACCTTTGAGGGGTGGCCTGGGTGGTGCGTCCAC	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
..........................................................................................................CGGAAGCGGACTGGGAGCAGAGGAC........................................................................................................................	25	1	2.00	2	0	0	0	0	0	0	0	0	2	0
.................................................................................................AGCACTTATCGGAAGCGGACTGGG..................................................................................................................................	24	1	2.00	2	0	0	0	0	0	0	0	0	0	2
........................................................................................................ATCGGAAGCGGACTGGGAGC...............................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	1
........................................CCTCGCCGGCGACATGATCGGCTGTG.........................................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..............................................................TGTGTGTCGGGGAGCTTGACGTTTTG...................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................CGGACTGGGAGCAGAGGAC........................................................................................................................	19	1	1.00	1	1	0	0	0	0	0	0	0	0	0
...................................................................................................CACTTATCGGAAGCGGACTGGG..................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	1
............................................................GCTGTGTGTCGGGGAGCTTGACGT.......................................................................................................................................................................	24	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.................................................CGACATGATCGGCTGTGTGTCGGGGA................................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................AGGGGTGGCCTGGGTGGT........	18	1	1.00	1	0	0	0	0	0	1	0	0	0	0
...........................................................................................................GGAAGCGGACTGGGAGCAGAGGAC........................................................................................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	1
.............................................................................................TGGCAGCACTTATCGGAAGC..........................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..........................................................................................................CGGAAGCGGACTGGGAGCAGAGG..........................................................................................................................	23	1	1.00	1	0	0	0	0	0	0	0	0	0	1
....................................................................................................ACTTATCGGAAGCGGACTGGG..................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	1

droPer2

GCCGAAGCTATAGGCTCGATCAGTTGCAGCTCATTTCAAACCTCGCCGGCGACATGATCGGCTGTGTGTCGGGGAGCTTGACGTTTTGCCTGCTGGCAGCACTTATCGGAAGCGGACTGGGAGCAGAGGACTGTTAGCAGAGGTCTCGGAGCATCGCTGATAGGCGGGCACTAATTGCGAAATATTTTACGATTGTTACAGATCCCGACTATTGTAGCACCTTTGAGGGGTGGCCTGGGTGGTGCGTCCAC	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
............................................................GCTGTGTGTCGGGGAGCTTGACG........................................................................................................................................................................	23	1	1.00	1	0	0	0	0	0	1

droKik1

GTTCTACT------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCTCCACAATACTGCACTACCTATGATGAGAAGCCAGGCAGGTGTCTTCGC	Size	Hit Count	Total Norm	Total
No Reads

droFic1

-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGATCCCACCTACTGCACCACCTTTGAAGAGAAACCAGGGAAATGCATACAC	Size	Hit Count	Total Norm	Total
No Reads

droEug1

-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGATCCCGAATACTGCACCACCTTCGATAATAAACCAGGTAAATGTGTAGAC	Size	Hit Count	Total Norm	Total
No Reads

droSim2

-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGATCCAACATACTGCACCACCTACGATCAGAAGCCAGGCAAATGCGTACAC	Size	Hit Count	Total Norm	Total	M023 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
........................................................................................................................................................................................................................CCACCTACGATCAGAAGC.................	18	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droSec2

-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGATCCAACATACTGCACCACCTACGATCAGAAGCCAGGCAAATGCGTACAC	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
No Reads

droEre2

-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGATCCCACATACTGCACTACGTACGATCAGAAGCCAGGCAAATGCGTAAAC	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: 05/18/2015 at 12:26 AM