Clone RE40347 Report

Search the DGRC for RE40347

Clone and Library Details

Library:RE
Tissue Source:Drosophila melanogaster embryo
Created by:Piero Carninci, RIKEN Genome Science Laboratory
Date Registered:2000-10-23
Comments:Average reported size from P Carninci is 2.3kb. Directionally cloned:5 end at XhoI, 3 end at BamHI
Original Plate Number:403
Well:47
Vector:pFlc-1
Associated Gene/TranscriptSry-alpha-RA
Protein status:RE40347.pep: gold
Preliminary Size:1593
Sequenced Size:1874

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
CG17957 2001-12-14 Blastp of sequenced clone
CG17957 2002-01-01 Sim4 clustering to Release 2
CG17957 2003-01-01 Sim4 clustering to Release 3
Sry-alpha 2008-04-29 Release 5.5 accounting
Sry-alpha 2008-08-15 Release 5.9 accounting
Sry-alpha 2008-12-18 5.12 accounting

Clone Sequence Records

RE40347.complete Sequence

1874 bp (1874 high quality bases) assembled on 2001-12-14

GenBank Submission: AY071374

> RE40347.complete
ACTTTGTTGAACATTTCTGTTTCCCGGAGCACATCTGATAGAACAGCATG
GAACAGCTATTGGCCCAATTACACACTTGCAGTGAGCTGATTGCAGAGGG
CTACAGCAGCACCGGCAACATTGGCTGGCTGAACGAGTTCTGCGCCACTT
TCCTGGACTTCGCCAGCGATCTGAAGGCTAGGCTGCCGGAGGTGGCGCCC
AGTGGCGCAAACCTTGATGTGGAGACCATCTTCCTGTGCCTCACCCAGGT
GGTAACCTGCATCACCCACCTAGAGCGGACCATCAGCATGGAGGCACCGC
ATATGACCAGGCAGCACTTCCTCGACCGCTTGGACTGGTGCTTGCGGCGA
CTGCTCGTCTCCTTGACGCAACTGGAAGGCAACGTGACCCCAGTCAAGAA
CCTAGAGGATCACTCCTTCGTTGAGCTCATGGACCTGGCTCTGGACCACT
TGGATGACTACATGGAGAAGCTGGCCCAGCAGAGAAACAACTCGCTGCAC
ATTCTAGAAGAGAGCTTCACGGAAGACACCTACCAGCTGGCCAGCATAGT
TAATCACATCGTTCGCCACGCCCTGGCCTTTGCCAATGTGGCCATTCATT
CGGACAAGAAGGCTTTGACGGCTTTGTGCGAGACCTTGCTCGCCGAATGT
GCCACTTTCCACGAGGAGGCGGGCGAGCCCAACAGTGGTCATCGGAAGCT
GGAGGCCCTCTCCCTGGAACGTGCCCTCTATGCCCTGGAATCCTTTCTCA
ATGAGGCGCTGCTGCACTTGCTGTTCGTCAGTCTGATAGATCTGGAAAAC
GCTTCGGTGGAGAAGCTAAAGGATGCACTGCAAAGGGATCCTGCGGGAGC
TCAGGAGCTAATCTCCGCATTCGACACGAACATGGATCGCATTCAGCAGA
TTGGGGTTCTGGCCATAGCCTTCTCGCAGGACATCAAAACGAAGACGATT
GTCAGGAGCTGCCTGGCCTCACTGGAATCCCTGGATGCGTGCATTGTGCC
CGCTCTCCAGCTGCCAGAGTCCACTTCATCCGCACACCACGCGGAGGTCT
TGCAGGAGCATTTTAACCAGGAGCTGCTGATCTTTAGGAACGTCATCCAC
GAAATCATCGATAGCTGCTCCCTGATCAACAACTACCTGGACATGCTGGG
CGAGAGGATCCACGTACAGGACAAAAGCCATCTGAAGCTGATTGTCCAGA
GGGGCGGAGTGGTGGTGGATCACTTTCGGCTGCCCGTCAATTACTCGGGA
CTCAGTGAAGATGGCAAGCGGGTGCACAAGGACCTCATTCTGATCCTGCG
CGAGTGCCAGGCCGTGGTCAACCTGGACGTCCCAGTGGATCCCAAGCGCA
TCGTGAAGCGCCTTAAGATACTGTACTCCGTGCTGGCCAAGCTGAGGGAC
TTGATATGCAGGGATAATCTGGAGCCCGATTCCTCAGTTGCTTCCGAAGC
TCAAGTGCCCTCAAGTGCAACCCGAACTTTTGTGCGGAGCAGTCGATCCT
TTGGCAAACGGCATCGATCCTTTGTAAAACAAACCGGAAATTGCTCAGTT
TTCGGGCCACAGGACTCACTTGCTGAATCCGGACACAGCGAAAGCGATCT
TATTAGTTTCCAAATCACTGAGATTCTTAGGTTAGATTGAGTGGGGCGAG
CCATATTCTAAATACGCGGGCTTATCTGTATGAGATTTTTTTTAATACTT
CATTGGCTTGAAGTGCTTAATTAAGATTAAACATATCCTTACAAAGATTC
TAATTAGCTACCTAAGTCAATTGTGTTCTTTACACTTATGTAATTACTTC
ATTAAGTTGAAGCCATTCGCATAATTTATATAAAATACAATTAAAACATA
CCATTACAAAAAAAAAAAAAAAAA

RE40347.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 19:43:14
Subject Length Description Subject Range Query Range Score Percent Strand
Sry-alpha-RA 1872 Sry-alpha-RA 1..1864 1..1864 9290 99.8 Plus
Sry-beta.c 5242 Sry-beta.c 1501..3364 1..1864 9290 99.8 Plus
Sry-beta.b 3347 Sry-beta.b 1501..3347 1..1847 9220 99.9 Plus
Blast to d_melanogaster_OreR.fa performed 2019-03-16 04:58:09
Subject Length Description Subject Range Query Range Score Percent Strand
chr3R 27901430 chr3R 25863630..25865485 1..1856 9265 99.9 Plus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 20:55:00 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-16 04:58:07
Subject Length Description Subject Range Query Range Score Percent Strand
3R 32079331 3R 30041215..30043078 1..1864 9290 99.9 Plus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 21:10:06
Subject Length Description Subject Range Query Range Score Percent Strand
3R 31820162 3R 29782046..29783909 1..1864 9290 99.8 Plus
Blast to na_te.dros performed on 2019-03-16 04:58:08 has no hits.

RE40347.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-16 04:59:06 Download gff for RE40347.complete
Subject Subject Range Query Range Percent Splice Strand
chr3R 25863630..25865449 1..1820 99   Plus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2008-12-08 20:15:05 Download gff for RE40347.complete
Subject Subject Range Query Range Percent Splice Strand
Sry-alpha-RA 1..1593 48..1640 100   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 19:09:19 Download gff for RE40347.complete
Subject Subject Range Query Range Percent Splice Strand
Sry-alpha-RA 1..1593 48..1640 100   Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 07:47:09 Download gff for RE40347.complete
Subject Subject Range Query Range Percent Splice Strand
Sry-alpha-RA 1..1593 48..1640 100   Plus
Sim4 to dmel-all-CDS-r5.9.fasta performed 2008-07-21 19:33:33 Download gff for RE40347.complete
Subject Subject Range Query Range Percent Splice Strand
Sry-alpha-RA 1..1593 48..1640 100   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-27 05:55:44 Download gff for RE40347.complete
Subject Subject Range Query Range Percent Splice Strand
Sry-alpha-RA 1..1593 48..1640 100   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2008-11-10 22:38:39 Download gff for RE40347.complete
Subject Subject Range Query Range Percent Splice Strand
Sry-alpha-RA 1..1856 1..1857 99   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 19:09:19 Download gff for RE40347.complete
Subject Subject Range Query Range Percent Splice Strand
Sry-alpha-RA 1..1856 1..1857 99   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 07:47:09 Download gff for RE40347.complete
Subject Subject Range Query Range Percent Splice Strand
Sry-alpha-RA 1..1854 4..1857 99   Plus
Sim4 to dmel-all-transcript-r5.9.fasta performed 2008-07-21 19:33:33 Download gff for RE40347.complete
Subject Subject Range Query Range Percent Splice Strand
Sry-alpha-RA 1..1856 1..1857 99   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-27 05:55:44 Download gff for RE40347.complete
Subject Subject Range Query Range Percent Splice Strand
Sry-alpha-RB 1497..3352 1..1857 99   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 04:59:06 Download gff for RE40347.complete
Subject Subject Range Query Range Percent Splice Strand
3R 30041215..30043070 1..1857 99   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 04:59:06 Download gff for RE40347.complete
Subject Subject Range Query Range Percent Splice Strand
3R 30041215..30043070 1..1857 99   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 04:59:06 Download gff for RE40347.complete
Subject Subject Range Query Range Percent Splice Strand
3R 30041215..30043070 1..1857 99   Plus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 07:47:09 Download gff for RE40347.complete
Subject Subject Range Query Range Percent Splice Strand
arm_3R 25866937..25868792 1..1857 99   Plus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 16:10:37 Download gff for RE40347.complete
Subject Subject Range Query Range Percent Splice Strand
3R 29782046..29783901 1..1857 99   Plus

RE40347.pep Sequence

Translation from 47 to 1639

> RE40347.pep
MEQLLAQLHTCSELIAEGYSSTGNIGWLNEFCATFLDFASDLKARLPEVA
PSGANLDVETIFLCLTQVVTCITHLERTISMEAPHMTRQHFLDRLDWCLR
RLLVSLTQLEGNVTPVKNLEDHSFVELMDLALDHLDDYMEKLAQQRNNSL
HILEESFTEDTYQLASIVNHIVRHALAFANVAIHSDKKALTALCETLLAE
CATFHEEAGEPNSGHRKLEALSLERALYALESFLNEALLHLLFVSLIDLE
NASVEKLKDALQRDPAGAQELISAFDTNMDRIQQIGVLAIAFSQDIKTKT
IVRSCLASLESLDACIVPALQLPESTSSAHHAEVLQEHFNQELLIFRNVI
HEIIDSCSLINNYLDMLGERIHVQDKSHLKLIVQRGGVVVDHFRLPVNYS
GLSEDGKRVHKDLILILRECQAVVNLDVPVDPKRIVKRLKILYSVLAKLR
DLICRDNLEPDSSVASEAQVPSSATRTFVRSSRSFGKRHRSFVKQTGNCS
VFGPQDSLAESGHSESDLISFQITEILRLD*

RE40347.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-15 21:07:28
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF19985-PA 527 GF19985-PA 1..527 1..530 1939 70.5 Plus
Dana\GF12990-PA 597 GF12990-PA 1..466 1..453 703 36.1 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-15 21:07:28
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG11723-PA 530 GG11723-PA 1..530 1..530 2610 93.4 Plus
Dere\GG10607-PA 594 GG10607-PA 1..457 1..449 720 36.3 Plus
Blast to dgri-all-translation-r1.3.fasta performed 2019-03-15 21:07:29
Subject Length Description Subject Range Query Range Score Percent Strand
Dgri\GH19171-PA 538 GH19171-PA 1..538 1..530 1245 49.6 Plus
Dgri\GH22684-PA 564 GH22684-PA 1..462 1..451 685 37.8 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 10:26:16
Subject Length Description Subject Range Query Range Score Percent Strand
Sry-alpha-PB 530 CG17957-PB 1..530 1..530 2684 100 Plus
Sry-alpha-PA 530 CG17957-PA 1..530 1..530 2684 100 Plus
Spt-PB 591 CG8247-PB 1..457 1..449 715 36.6 Plus
Blast to dmoj-all-translation-r1.3.fasta performed 2019-03-15 21:07:29
Subject Length Description Subject Range Query Range Score Percent Strand
Dmoj\GI24207-PA 521 GI24207-PA 1..520 1..529 1265 52.4 Plus
Dmoj\GI20612-PA 586 GI20612-PA 1..460 1..460 720 37.8 Plus
Blast to dper-all-translation-r1.3.fasta performed 2019-03-15 21:07:30
Subject Length Description Subject Range Query Range Score Percent Strand
Dper\GL14022-PA 551 GL14022-PA 1..551 1..530 1699 62.8 Plus
Dper\GL10405-PA 596 GL10405-PA 1..466 1..453 702 36 Plus
Blast to dpse-all-translation-r3.2.fasta performed 2019-03-15 21:07:31
Subject Length Description Subject Range Query Range Score Percent Strand
Dpse\Sry-alpha-PA 551 GA14740-PA 1..551 1..530 1699 63.1 Plus
Dpse\GA20927-PA 596 GA20927-PA 1..466 1..453 712 36.2 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-15 21:07:31
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\Sry-alpha-PA 529 GM12854-PA 1..529 1..530 2697 97 Plus
Dsec\GM20652-PA 591 GM20652-PA 1..457 1..449 726 36.8 Plus
Blast to dsim-all-translation-r1.4.fasta performed 2019-03-15 21:07:32
Subject Length Description Subject Range Query Range Score Percent Strand
Dsim\Sry-alpha-PA 530 GD21496-PA 1..530 1..530 2714 97 Plus
Dsim\GD10125-PA 591 GD10125-PA 1..457 1..449 732 37.7 Plus
Blast to dvir-all-translation-r1.2.fasta performed 2019-03-15 21:07:33
Subject Length Description Subject Range Query Range Score Percent Strand
Dvir\Sry-alpha-PA 537 GJ10776-PA 1..536 1..529 1293 50.9 Plus
Dvir\GJ21052-PA 596 GJ21052-PA 1..468 1..460 742 37.5 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-15 21:07:33
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK13866-PA 526 GK13866-PA 1..525 1..529 1354 54.2 Plus
Dwil\GK10752-PA 604 GK10752-PA 8..461 1..449 736 36.8 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-15 21:07:34
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\Sry-alpha-PA 530 GE10852-PA 1..530 1..530 2639 94.2 Plus
Dyak\GE22704-PA 593 GE22704-PA 1..457 1..449 727 37.3 Plus

RE40347.hyp Sequence

Translation from 47 to 1639

> RE40347.hyp
MEQLLAQLHTCSELIAEGYSSTGNIGWLNEFCATFLDFASDLKARLPEVA
PSGANLDVETIFLCLTQVVTCITHLERTISMEAPHMTRQHFLDRLDWCLR
RLLVSLTQLEGNVTPVKNLEDHSFVELMDLALDHLDDYMEKLAQQRNNSL
HILEESFTEDTYQLASIVNHIVRHALAFANVAIHSDKKALTALCETLLAE
CATFHEEAGEPNSGHRKLEALSLERALYALESFLNEALLHLLFVSLIDLE
NASVEKLKDALQRDPAGAQELISAFDTNMDRIQQIGVLAIAFSQDIKTKT
IVRSCLASLESLDACIVPALQLPESTSSAHHAEVLQEHFNQELLIFRNVI
HEIIDSCSLINNYLDMLGERIHVQDKSHLKLIVQRGGVVVDHFRLPVNYS
GLSEDGKRVHKDLILILRECQAVVNLDVPVDPKRIVKRLKILYSVLAKLR
DLICRDNLEPDSSVASEAQVPSSATRTFVRSSRSFGKRHRSFVKQTGNCS
VFGPQDSLAESGHSESDLISFQITEILRLD*

RE40347.hyp Blast Records

Blast to dmel-all-translation-r6.02.fasta performed 2014-11-28 14:22:33
Subject Length Description Subject Range Query Range Score Percent Strand
Sry-alpha-PB 530 CG17957-PB 1..530 1..530 2684 100 Plus
Sry-alpha-PA 530 CG17957-PA 1..530 1..530 2684 100 Plus
Spt-PB 591 CG8247-PB 1..457 1..449 715 36.6 Plus