Clone RE31408 Report

Search the DGRC for RE31408

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:314
Well:8
Vector:pFlc-1
Associated Gene/TranscriptCpsf73-RA
Protein status:RE31408.pep: gold
Preliminary Size:2118
Sequenced Size:2182

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
CG7698 2002-01-01 Sim4 clustering to Release 2
CG7698 2002-05-18 Blastp of sequenced clone
CG7698 2003-01-01 Sim4 clustering to Release 3
CG7698 2008-04-29 Release 5.5 accounting
CG7698 2008-08-15 Release 5.9 accounting
CG7698 2008-12-18 5.12 accounting

Clone Sequence Records

RE31408.complete Sequence

2182 bp (2182 high quality bases) assembled on 2002-05-18

GenBank Submission: AY119128

> RE31408.complete
ACTGCCGTGCACAGCGTTTTGTTGCCGGCGATTTGTAAAAAAGTTTGTTA
TTGATTACATTATTTTAGACATCATGACGCAGGCAACAGGTGATGCACGC
ATGCCAGACGAGGAAAGCGACCTGCTGCAGATCAAGCCACTTGGTGCTGG
CCAGGAAGTGGGACGCTCCTGCATCATGTTGGAATTTAAGGGCAAGAAGA
TAATGCTGGACTGCGGAATCCATCCGGGATTGTCCGGCATGGATGCCCTG
CCCTACGTAGATCTAATAGAGGCGGATGAGATTGATCTGCTGTTTATATC
ACATTTCCACTTGGATCACTGCGGTGCCTTGCCTTGGTTTCTCATGAAGA
CCAGCTTTAAAGGCCGCTGCTTTATGACCCATGCCACGAAAGCCATTTAC
CGATGGATGCTGTCCGATTACATCAAGATCAGTAACATATCCACCGAACA
GATGCTATACACGGAAGCCGATCTGGAGGCCTCCATGGAGAAGATCGAGA
CGATCAATTTCCACGAGGAGCGCGATGTGATGGGCGTACGCTTTTGTGCC
TATATTGCTGGTCATGTTTTGGGTGCCGCCATGTTCATGATCGAGATTGC
TGGCATCAAGATCTTGTATACTGGTGACTTTTCGCGCCAGGAGGATCGAC
ATTTGATGGCTGCCGAAGTGCCACCGATGAAGCCGGATGTTCTTATCACA
GAGTCCACCTACGGCACTCACATTCACGAGAAAAGAGAGGATCGAGAGAA
TCGATTTACCTCGCTGGTGCAGAAAATTGTTCAGCAAGGCGGGAGATGCT
TAATTCCAGTATTTGCTTTGGGCCGTGCCCAAGAACTGCTACTTATTCTG
GATGAATTCTGGTCGCAGAACCCGGATCTGCACGAGATTCCCATCTACTA
TGCCTCCTCTTTGGCCAAGAAGTGCATGGCTGTCTACCAGACGTACATCA
ATGCTATGAACGATCGAATTCGACGACAGATAGCTGTGAACAATCCCTTC
GTTTTCCGCCACATTTCCAACCTGAAGGGTATCGATCACTTCGAGGATAT
CGGACCCTGCGTAATCATGGCGTCGCCGGGTATGATGCAGTCGGGATTGT
CGCGAGAGCTCTTCGAGAGCTGGTGCACAGATCCCAAGAACGGAGTGATT
ATAGCCGGTTACTGCGTGGAGGGCACTTTGGCCAAAGCCGTTCTCTCCGA
GCCGGAGGAGATCACCACACTGTCGGGCCAGAAGCTGCCGCTCAACATGT
CCGTCGACTACATATCGTTTTCGGCTCACACGGACTACCAGCAGACCAGT
GAATTCATCCGCCTACTAAAGCCAACGCATGTCGTGCTCGTCCACGGCGA
GCAGAACGAGATGTCGCGTCTGAAGTTGGCCCTGCAGCGGGAATACGAAG
CAGATGCAAGCACGGATATAAAATTCTACAACCCGCGAAACACACATGCC
GTGGATCTTTATTTCCGTGGCGAGAAAACCGCCAAGGTGATGGGAAGCCT
CGCAGCCAAGAACTCGGAGGTGGGAAGCAAACTCTCAGGTGTTCTGGTTA
AGCGCGACTTTAAGTACCACCTCTTGGCTCCTTCTGATCTGGGCAAATAC
ACGGATATGAGCATGTCTGTTGTAACCCAACGCCAGTCGATTCCCTGGGG
CAGCTCGCTGAGCACTCTAGAGCTACTGCTGGATCGCATTGGAGCCGGAT
GCGTTGAGGTGCTGGAGGCGGAGCGAAAGCTGCGCGTGTTCGGCTGCATC
GAGCTAACTGTGGAGCAGAAAATCATTGTGATGGAGTGGCAAGCGACGCA
TGTGAATGATGTGTACGCCGATGCCGTTCTTGCCTGCATCATGCAATCGG
AGTTGGGCGGAACAAATCTGAAGGGTGCCACAAAGCAAACCAAGTCAGAG
GACTCGCGCTTTCGGGAGTGCCTAATCGAGACGCTACAGGACACCTTCGG
CGACAACTGCGTGCCAAAAATGTTCGAGGGCGATCTGCTGCCAGTGACGG
TGAGCGGTAAACGTGCGGAAATAAATCTGGAAACCCTGGCCATCAGCTGT
GCCGAGGATGATGTGCTGCGACAAATGCTCAATACGACGGTTCAGAAGTT
ACACCAGACCCTAGTCTCCGCTCTTTGAAAACCATTCTATTCCGCTTAAT
AAATCTCCTTGTGTCGAAAAAAAAAAAAAAAA

RE31408.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 19:05:37
Subject Length Description Subject Range Query Range Score Percent Strand
Cpsf73-RA 2208 Cpsf73-RA 26..2194 1..2169 10830 99.9 Plus
Cpsf73.a 2158 Cpsf73.a 1..2038 1..2038 10190 100 Plus
Cpsf73.a 2158 Cpsf73.a 2038..2156 2046..2164 595 100 Plus
Blast to d_melanogaster_OreR.fa performed 2019-03-16 05:20:15
Subject Length Description Subject Range Query Range Score Percent Strand
chr3R 27901430 chr3R 14485939..14487230 1595..304 6415 99.8 Minus
chr3R 27901430 chr3R 14485434..14485877 2039..1596 2145 98.9 Minus
chr3R 27901430 chr3R 14487293..14487454 303..142 810 100 Minus
chr3R 27901430 chr3R 14487511..14487651 141..1 705 100 Minus
chr3R 27901430 chr3R 14485246..14485372 2164..2038 620 99.2 Minus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 20:49:12 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-16 05:20:13
Subject Length Description Subject Range Query Range Score Percent Strand
3R 32079331 3R 18661816..18663107 1595..304 6460 100 Minus
3R 32079331 3R 18661311..18661754 2039..1596 2220 100 Minus
3R 32079331 3R 18663170..18663331 303..142 810 100 Minus
3R 32079331 3R 18663388..18663528 141..1 705 100 Minus
3R 32079331 3R 18661118..18661249 2169..2038 645 99.2 Minus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 20:36:58
Subject Length Description Subject Range Query Range Score Percent Strand
3R 31820162 3R 18402647..18403938 1595..304 6460 100 Minus
3R 31820162 3R 18402142..18402585 2039..1596 2220 100 Minus
3R 31820162 3R 18404001..18404162 303..142 810 100 Minus
3R 31820162 3R 18404219..18404359 141..1 705 100 Minus
3R 31820162 3R 18401949..18402080 2169..2038 645 99.2 Minus
Blast to na_te.dros performed on 2019-03-16 05:20:13 has no hits.

RE31408.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-16 05:21:04 Download gff for RE31408.complete
Subject Subject Range Query Range Percent Splice Strand
chr3R 14487511..14487651 1..141 100   Minus
chr3R 14485244..14485371 2039..2166 98 <- Minus
chr3R 14485435..14485877 1596..2038 98 <- Minus
chr3R 14485939..14487230 304..1595 99 <- Minus
chr3R 14487293..14487454 142..303 100 <- Minus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2008-12-08 20:09:16 Download gff for RE31408.complete
Subject Subject Range Query Range Percent Splice Strand
CG7698-RA 1..2055 74..2128 100   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 17:48:02 Download gff for RE31408.complete
Subject Subject Range Query Range Percent Splice Strand
Cpsf73-RA 1..2055 74..2128 100   Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 08:26:36 Download gff for RE31408.complete
Subject Subject Range Query Range Percent Splice Strand
Cpsf73-RA 1..2055 74..2128 100   Plus
Sim4 to dmel-all-CDS-r5.9.fasta performed 2008-07-21 18:40:28 Download gff for RE31408.complete
Subject Subject Range Query Range Percent Splice Strand
CG7698-RA 1..2055 74..2128 100   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-27 06:00:56 Download gff for RE31408.complete
Subject Subject Range Query Range Percent Splice Strand
Cpsf73-RA 1..2055 74..2128 100   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2008-11-10 21:24:24 Download gff for RE31408.complete
Subject Subject Range Query Range Percent Splice Strand
CG7698-RA 1..2166 1..2166 99   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 17:48:02 Download gff for RE31408.complete
Subject Subject Range Query Range Percent Splice Strand
Cpsf73-RA 1..2166 1..2166 99   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 08:26:36 Download gff for RE31408.complete
Subject Subject Range Query Range Percent Splice Strand
Cpsf73-RA 1..2166 1..2166 99   Plus
Sim4 to dmel-all-transcript-r5.9.fasta performed 2008-07-21 18:40:28 Download gff for RE31408.complete
Subject Subject Range Query Range Percent Splice Strand
CG7698-RA 1..2166 1..2166 99   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-27 06:00:56 Download gff for RE31408.complete
Subject Subject Range Query Range Percent Splice Strand
Cpsf73-RA 25..2190 1..2166 99   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 05:21:04 Download gff for RE31408.complete
Subject Subject Range Query Range Percent Splice Strand
3R 18661121..18661248 2039..2166 99 <- Minus
3R 18661312..18661754 1596..2038 100 <- Minus
3R 18661816..18663107 304..1595 100 <- Minus
3R 18663170..18663331 142..303 100 <- Minus
3R 18663388..18663528 1..141 100   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 05:21:04 Download gff for RE31408.complete
Subject Subject Range Query Range Percent Splice Strand
3R 18661121..18661248 2039..2166 99 <- Minus
3R 18661312..18661754 1596..2038 100 <- Minus
3R 18661816..18663107 304..1595 100 <- Minus
3R 18663170..18663331 142..303 100 <- Minus
3R 18663388..18663528 1..141 100   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 05:21:04 Download gff for RE31408.complete
Subject Subject Range Query Range Percent Splice Strand
3R 18661121..18661248 2039..2166 99 <- Minus
3R 18661312..18661754 1596..2038 100 <- Minus
3R 18661816..18663107 304..1595 100 <- Minus
3R 18663170..18663331 142..303 100 <- Minus
3R 18663388..18663528 1..141 100   Minus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 08:26:36 Download gff for RE31408.complete
Subject Subject Range Query Range Percent Splice Strand
arm_3R 14489110..14489250 1..141 100   Minus
arm_3R 14488892..14489053 142..303 100 <- Minus
arm_3R 14486843..14486970 2039..2166 99 <- Minus
arm_3R 14487034..14487476 1596..2038 100 <- Minus
arm_3R 14487538..14488829 304..1595 100 <- Minus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 15:12:48 Download gff for RE31408.complete
Subject Subject Range Query Range Percent Splice Strand
3R 18402143..18402585 1596..2038 100 <- Minus
3R 18402647..18403938 304..1595 100 <- Minus
3R 18404001..18404162 142..303 100 <- Minus
3R 18404219..18404359 1..141 100   Minus
3R 18401952..18402079 2039..2166 99 <- Minus

RE31408.hyp Sequence

Translation from 0 to 2127

> RE31408.hyp
LPCTAFCCRRFVKKFVIDYIILDIMTQATGDARMPDEESDLLQIKPLGAG
QEVGRSCIMLEFKGKKIMLDCGIHPGLSGMDALPYVDLIEADEIDLLFIS
HFHLDHCGALPWFLMKTSFKGRCFMTHATKAIYRWMLSDYIKISNISTEQ
MLYTEADLEASMEKIETINFHEERDVMGVRFCAYIAGHVLGAAMFMIEIA
GIKILYTGDFSRQEDRHLMAAEVPPMKPDVLITESTYGTHIHEKREDREN
RFTSLVQKIVQQGGRCLIPVFALGRAQELLLILDEFWSQNPDLHEIPIYY
ASSLAKKCMAVYQTYINAMNDRIRRQIAVNNPFVFRHISNLKGIDHFEDI
GPCVIMASPGMMQSGLSRELFESWCTDPKNGVIIAGYCVEGTLAKAVLSE
PEEITTLSGQKLPLNMSVDYISFSAHTDYQQTSEFIRLLKPTHVVLVHGE
QNEMSRLKLALQREYEADASTDIKFYNPRNTHAVDLYFRGEKTAKVMGSL
AAKNSEVGSKLSGVLVKRDFKYHLLAPSDLGKYTDMSMSVVTQRQSIPWG
SSLSTLELLLDRIGAGCVEVLEAERKLRVFGCIELTVEQKIIVMEWQATH
VNDVYADAVLACIMQSELGGTNLKGATKQTKSEDSRFRECLIETLQDTFG
DNCVPKMFEGDLLPVTVSGKRAEINLETLAISCAEDDVLRQMLNTTVQKL
HQTLVSAL*

RE31408.hyp Blast Records

Blast to dmel-all-translation-r6.02.fasta performed 2014-11-28 17:08:11
Subject Length Description Subject Range Query Range Score Percent Strand
Cpsf73-PA 684 CG7698-PA 1..684 25..708 3540 100 Plus
IntS11-PA 597 CG1972-PA 1..440 34..480 817 38.8 Plus
Cpsf100-PA 756 CG1957-PA 2..366 39..394 301 24.4 Plus
IntS9-PA 654 CG5222-PA 9..471 52..446 205 20.7 Plus

RE31408.pep Sequence

Translation from 73 to 2127

> RE31408.pep
MTQATGDARMPDEESDLLQIKPLGAGQEVGRSCIMLEFKGKKIMLDCGIH
PGLSGMDALPYVDLIEADEIDLLFISHFHLDHCGALPWFLMKTSFKGRCF
MTHATKAIYRWMLSDYIKISNISTEQMLYTEADLEASMEKIETINFHEER
DVMGVRFCAYIAGHVLGAAMFMIEIAGIKILYTGDFSRQEDRHLMAAEVP
PMKPDVLITESTYGTHIHEKREDRENRFTSLVQKIVQQGGRCLIPVFALG
RAQELLLILDEFWSQNPDLHEIPIYYASSLAKKCMAVYQTYINAMNDRIR
RQIAVNNPFVFRHISNLKGIDHFEDIGPCVIMASPGMMQSGLSRELFESW
CTDPKNGVIIAGYCVEGTLAKAVLSEPEEITTLSGQKLPLNMSVDYISFS
AHTDYQQTSEFIRLLKPTHVVLVHGEQNEMSRLKLALQREYEADASTDIK
FYNPRNTHAVDLYFRGEKTAKVMGSLAAKNSEVGSKLSGVLVKRDFKYHL
LAPSDLGKYTDMSMSVVTQRQSIPWGSSLSTLELLLDRIGAGCVEVLEAE
RKLRVFGCIELTVEQKIIVMEWQATHVNDVYADAVLACIMQSELGGTNLK
GATKQTKSEDSRFRECLIETLQDTFGDNCVPKMFEGDLLPVTVSGKRAEI
NLETLAISCAEDDVLRQMLNTTVQKLHQTLVSAL*

RE31408.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-15 22:17:41
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF18101-PA 684 GF18101-PA 1..683 1..683 3590 96.6 Plus
Dana\GF23370-PA 597 GF23370-PA 1..440 10..456 844 39.2 Plus
Dana\GF16269-PA 756 GF16269-PA 2..366 15..370 309 23.8 Plus
Dana\GF10658-PA 655 GF10658-PA 9..471 28..422 221 21.2 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-15 22:17:41
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG16362-PA 684 GG16362-PA 1..684 1..684 3676 99 Plus
Dere\GG11690-PA 597 GG11690-PA 1..440 10..456 840 39 Plus
Dere\GG11633-PA 756 GG11633-PA 2..366 15..370 312 24.1 Plus
Dere\GG13497-PA 654 GG13497-PA 9..471 28..422 218 20.7 Plus
Blast to dgri-all-translation-r1.3.fasta performed 2019-03-15 22:17:42
Subject Length Description Subject Range Query Range Score Percent Strand
Dgri\GH19212-PA 686 GH19212-PA 5..685 3..683 3451 93.8 Plus
Dgri\GH14325-PA 597 GH14325-PA 1..440 10..456 839 39 Plus
Dgri\GH10247-PA 754 GH10247-PA 2..383 15..392 305 23 Plus
Dgri\GH14706-PA 657 GH14706-PA 9..471 28..422 208 20.3 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 10:49:00
Subject Length Description Subject Range Query Range Score Percent Strand
Cpsf73-PA 684 CG7698-PA 1..684 1..684 3540 100 Plus
IntS11-PA 597 CG1972-PA 1..440 10..456 817 38.8 Plus
Cpsf100-PA 756 CG1957-PA 2..366 15..370 301 24.4 Plus
IntS9-PA 654 CG5222-PA 9..471 28..422 205 20.7 Plus
Blast to dmoj-all-translation-r1.3.fasta performed 2019-03-15 22:17:43
Subject Length Description Subject Range Query Range Score Percent Strand
Dmoj\GI24246-PA 686 GI24246-PA 5..684 3..682 3507 94 Plus
Dmoj\GI10422-PA 597 GI10422-PA 1..440 10..456 849 39.4 Plus
Dmoj\GI23051-PA 754 GI23051-PA 2..366 15..370 308 23.6 Plus
Dmoj\GI12252-PA 659 GI12252-PA 9..471 28..422 219 21 Plus
Blast to dper-all-translation-r1.3.fasta performed 2019-03-15 22:17:43
Subject Length Description Subject Range Query Range Score Percent Strand
Dper\GL23169-PA 684 GL23169-PA 1..683 1..683 3562 95.9 Plus
Dper\GL23717-PA 597 GL23717-PA 1..440 10..456 839 39 Plus
Dper\GL25097-PA 657 GL25097-PA 9..471 28..422 213 21 Plus
Dper\GL24248-PA 583 GL24248-PA 1..192 185..370 205 26.6 Plus
Blast to dpse-all-translation-r3.2.fasta performed 2019-03-15 22:17:44
Subject Length Description Subject Range Query Range Score Percent Strand
Dpse\GA20526-PA 684 GA20526-PA 1..683 1..683 3570 96.2 Plus
Dpse\GA15164-PA 597 GA15164-PA 1..440 10..456 839 39 Plus
Dpse\GA26549-PA 731 GA26549-PA 2..366 15..370 300 23.8 Plus
Dpse\GA18747-PA 657 GA18747-PA 9..471 28..422 213 21 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-15 22:17:45
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\GM18692-PA 684 GM18692-PA 1..684 1..684 3684 99.7 Plus
Dsec\GM12816-PA 597 GM12816-PA 1..440 10..456 843 39 Plus
Dsec\GM12754-PA 743 GM12754-PA 2..366 15..370 313 24.1 Plus
Dsec\GM24446-PA 654 GM24446-PA 9..471 28..422 216 20.7 Plus
Blast to dsim-all-translation-r1.4.fasta performed 2019-03-15 22:17:45
Subject Length Description Subject Range Query Range Score Percent Strand
Dsim\GD20157-PA 684 GD20157-PA 1..684 1..684 3685 99.7 Plus
Dsim\GD21460-PA 597 GD21460-PA 1..440 10..456 843 39 Plus
Dsim\GD21403-PA 664 GD21403-PA 21..274 128..370 276 26 Plus
Dsim\GD12515-PA 654 GD12515-PA 9..471 28..422 215 20.7 Plus
Blast to dvir-all-translation-r1.2.fasta performed 2019-03-15 22:17:46
Subject Length Description Subject Range Query Range Score Percent Strand
Dvir\GJ10819-PA 686 GJ10819-PA 5..685 3..683 3507 94.3 Plus
Dvir\GJ10637-PA 597 GJ10637-PA 1..440 10..456 851 39.4 Plus
Dvir\GJ24636-PA 693 GJ24636-PA 2..366 15..370 307 23.8 Plus
Dvir\GJ11484-PA 658 GJ11484-PA 9..471 28..422 220 21 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-15 22:17:46
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK13096-PA 684 GK13096-PA 1..684 1..684 3453 93.3 Plus
Dwil\GK11920-PA 597 GK11920-PA 1..440 10..456 838 39 Plus
Dwil\GK22564-PA 757 GK22564-PA 2..383 15..392 327 24.6 Plus
Dwil\GK23916-PA 659 GK23916-PA 9..471 28..422 215 20.7 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-15 22:17:47
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\GE25184-PA 684 GE25184-PA 1..684 1..684 3684 99.4 Plus
Dyak\GE23879-PA 597 GE23879-PA 1..440 10..456 839 39 Plus
Dyak\GE26465-PA 756 GE23822-PA 2..366 15..370 313 24.1 Plus
Dyak\GE26465-PB 548 GE26465-PB 2..366 15..370 311 24.1 Plus
Dyak\GE19796-PA 654 GE19796-PA 9..471 28..422 215 20.7 Plus