Clone RE54049 Report

Search the DGRC for RE54049

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:540
Well:49
Vector:pFlc-1
Associated Gene/TranscriptReg-5-RA
Protein status:RE54049.pep: gold
Preliminary Size:1646
Sequenced Size:1667

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
CG2928 2001-12-14 Blastp of sequenced clone
CG2928 2002-01-01 Sim4 clustering to Release 2
CG2928 2003-01-01 Sim4 clustering to Release 3
Reg-5 2008-04-29 Release 5.5 accounting
Reg-5 2008-08-15 Release 5.9 accounting
Reg-5 2008-12-18 5.12 accounting

Clone Sequence Records

RE54049.complete Sequence

1667 bp (1667 high quality bases) assembled on 2001-12-14

GenBank Submission: AY071459

> RE54049.complete
TGGGAGACGACTCACTGACATCGCCGCGATCGGTTGTTCGACATAGTACT
GCAAGATTATAGTGCTCGCTCCGTTTCCGTTTCGCTTGGAATTCGCCGTT
TTCGTGATCGACTGGTGGGCGCCCCTCTCCCTAGACCGACTGACTCCCCC
ATCTTGCCGAGAAACCGATGTGTGAAACAAGCTTTTGCGTTTCAAGCTGA
GACACACGTACACCCGAAAACAGCGATAATACGAATTGGCCACGCTCGTT
GTTTGGTTAATTCAATTAAGTGCGTCGGACAGAAGAAAGCCACTTGGCTA
GCCACCGAAACCAAGTGATAATCTATCAAGCCGCCACAAAAGCGCTTTTA
TTGGGCCCTAAAAAAAAAGAAAGTCGCCACACGAAGGTTACACAACCGAA
CCGTGCAATTGACCCACGGAACACGGATCACAGATCACGGAGCACGAATC
CCCTGAACTCTCCGTGTAGTGCGGAGTACGCAACATAAAAGCAGCAACGA
CGCCATGACGACTGCGGCGAAAGTAATCTTGGCCTGCTGCCTGCTGGGCG
CCTTCCACATTCAGATCAGCTCGTCATCGGCCATTCCCATCTGGGAGTTC
CTGACCCGCAACGAGAAGATGTCCCACCTCTACTCAACATTCGCTCAATT
GGTAAGCGTGCACTGCAAGTCAACAGCCGCCGTCGGAGGCCTCCCAGTGA
ACCAGTGCAAGCACAACCTGCTCGGTTACGGGTCCGCCAAGCTGCAGACG
CTCTCCGACGTACAGCTGGAGGCACTAGATCCGTATCAGCGCGATGCCAA
CGAGCTGATCTGGTCATCGATTATGGGGGACCATCCGAGCGGAGCCAGCC
TGGTGACAACGAGGCAGCCGCTCCAACAGCCCCTGCCAACTCCTCCTGCG
TCCTCTCTGATCATCCTAACGCGCCAGCAACTTCCGCACGGAGCATCCCA
TGCCCACCCCATCCAGAGCTCCGGCTCCGCCACCAATCCAATCTTCGAGA
GCGGCGAGCAGAAGCACAAATACGCCATGGACATGGACAAGGCCTACGGC
TACGGGCCGCAGTCCAGCAGTGAGCTCCCAATGGCCGCCGCACTGACTTC
AGAACCGTCCAAAAGATTCCTCACCGGACCTTTGGTGATCCGGGTGCGAC
CCGATGGCTCCCCGGTGGAGGAGGACAAGATGATGCCACTGCCGCGGGAC
GAAGACCTGCCCTACTTTCATCTTGGTCTGGCCGCCGCTCAGCCCAACAG
GCACCGCAAGATCGCCACAATCAGCTCCTTAAAGCAGCAGCACTTCGCCT
CTATCCTGCAGAGCGACCTCCAGCCACCCCACCAGACGCAGAGGCGTCTG
TTCCGCCAGCAACAGGCGTAAGATCGCGGTCAGAGGATCCGCAGGCCTAG
ACCTAAGTCCTTGTGTGAATGTGATAGAGCAGATGAGGAGATCCTGCATC
ATAGAGTGCGAGAGTGAACGTGTGAGTCTTCTAGTTGTAGCCGTTTGAGG
AGTTTTCTTGAATGCACTTGAGCTTTAATGGAATTTCGTATCGTATTCGT
TTAAGTTTTTTTAATTTTATTTATTCGCGTGCATTAGTCGTAAGATCACA
TAGAGATTCTTGAGTAATAAACCGCATGATGATTATCATTGTTACGAACG
CAAAAAAAAAAAAAAAA

RE54049.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 19:39:51
Subject Length Description Subject Range Query Range Score Percent Strand
Reg-5.a 2027 Reg-5.a 283..1928 5..1650 8215 99.9 Plus
Reg-5-RA 1819 Reg-5-RA 75..1720 5..1650 8215 99.9 Plus
Blast to d_melanogaster_OreR.fa performed 2019-03-16 13:43:49
Subject Length Description Subject Range Query Range Score Percent Strand
chr2R 21145070 chr2R 20673950..20674791 1650..809 4180 99.8 Minus
chr2R 21145070 chr2R 20678733..20679346 618..5 3055 99.8 Minus
chr2R 21145070 chr2R 20674920..20675111 808..617 960 100 Minus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 21:02:42 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-16 13:43:47
Subject Length Description Subject Range Query Range Score Percent Strand
2R 25286936 2R 24788009..24788850 1650..809 4210 100 Minus
2R 25286936 2R 24792791..24793404 618..5 3055 99.8 Minus
2R 25286936 2R 24788979..24789170 808..617 960 100 Minus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 21:07:02
Subject Length Description Subject Range Query Range Score Percent Strand
2R 25260384 2R 24789208..24790049 1650..809 4210 100 Minus
2R 25260384 2R 24793990..24794603 618..5 3055 99.8 Minus
2R 25260384 2R 24790178..24790369 808..617 960 100 Minus
Blast to na_te.dros performed 2019-03-16 13:43:47
Subject Length Description Subject Range Query Range Score Percent Strand
Ivk 5402 Ivk IVK 5402bp 1578..1674 1575..1483 113 62.9 Minus

RE54049.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-16 13:44:25 Download gff for RE54049.complete
Subject Subject Range Query Range Percent Splice Strand
chr2R 20673949..20674791 809..1651 99 <- Minus
chr2R 20674920..20675109 619..808 100 <- Minus
chr2R 20678733..20679348 1..618 99   Minus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2008-12-08 20:23:01 Download gff for RE54049.complete
Subject Subject Range Query Range Percent Splice Strand
Reg-5-RA 1..867 505..1371 100   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 19:04:20 Download gff for RE54049.complete
Subject Subject Range Query Range Percent Splice Strand
Reg-5-RA 1..867 505..1371 100   Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 12:14:00 Download gff for RE54049.complete
Subject Subject Range Query Range Percent Splice Strand
Reg-5-RA 1..867 505..1371 100   Plus
Sim4 to dmel-all-CDS-r5.9.fasta performed 2008-07-21 19:29:02 Download gff for RE54049.complete
Subject Subject Range Query Range Percent Splice Strand
Reg-5-RA 1..867 505..1371 100   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-27 11:19:20 Download gff for RE54049.complete
Subject Subject Range Query Range Percent Splice Strand
Reg-5-RA 1..867 505..1371 100   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2008-11-10 22:31:47 Download gff for RE54049.complete
Subject Subject Range Query Range Percent Splice Strand
Reg-5-RA 1..1648 4..1651 99   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 19:04:19 Download gff for RE54049.complete
Subject Subject Range Query Range Percent Splice Strand
Reg-5-RA 1..1648 4..1651 99   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 12:14:00 Download gff for RE54049.complete
Subject Subject Range Query Range Percent Splice Strand
Reg-5-RA 2..1652 1..1651 99   Plus
Sim4 to dmel-all-transcript-r5.9.fasta performed 2008-07-21 19:29:02 Download gff for RE54049.complete
Subject Subject Range Query Range Percent Splice Strand
Reg-5-RA 1..1648 4..1651 99   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-27 11:19:20 Download gff for RE54049.complete
Subject Subject Range Query Range Percent Splice Strand
Reg-5-RA 2..1652 1..1651 99   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 13:44:25 Download gff for RE54049.complete
Subject Subject Range Query Range Percent Splice Strand
2R 24788008..24788850 809..1651 99 <- Minus
2R 24788979..24789168 619..808 100 <- Minus
2R 24792791..24793406 1..618 99   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 13:44:25 Download gff for RE54049.complete
Subject Subject Range Query Range Percent Splice Strand
2R 24788008..24788850 809..1651 99 <- Minus
2R 24788979..24789168 619..808 100 <- Minus
2R 24792791..24793406 1..618 99   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 13:44:25 Download gff for RE54049.complete
Subject Subject Range Query Range Percent Splice Strand
2R 24788008..24788850 809..1651 99 <- Minus
2R 24788979..24789168 619..808 100 <- Minus
2R 24792791..24793406 1..618 99   Minus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 12:14:00 Download gff for RE54049.complete
Subject Subject Range Query Range Percent Splice Strand
arm_2R 20675531..20676373 809..1651 99 <- Minus
arm_2R 20676502..20676691 619..808 100 <- Minus
arm_2R 20680314..20680929 1..618 99   Minus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 16:04:57 Download gff for RE54049.complete
Subject Subject Range Query Range Percent Splice Strand
2R 24790196..24790385 619..808 100 <- Minus
2R 24789225..24790067 809..1651 99 <- Minus
2R 24794008..24794623 1..618 99   Minus

RE54049.pep Sequence

Translation from 504 to 1370

> RE54049.pep
MTTAAKVILACCLLGAFHIQISSSSAIPIWEFLTRNEKMSHLYSTFAQLV
SVHCKSTAAVGGLPVNQCKHNLLGYGSAKLQTLSDVQLEALDPYQRDANE
LIWSSIMGDHPSGASLVTTRQPLQQPLPTPPASSLIILTRQQLPHGASHA
HPIQSSGSATNPIFESGEQKHKYAMDMDKAYGYGPQSSSELPMAAALTSE
PSKRFLTGPLVIRVRPDGSPVEEDKMMPLPRDEDLPYFHLGLAAAQPNRH
RKIATISSLKQQHFASILQSDLQPPHQTQRRLFRQQQA*

RE54049.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-15 20:32:44
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF11541-PA 271 GF11541-PA 1..271 1..287 1133 79 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-15 20:32:45
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG19888-PA 286 GG19888-PA 1..286 1..288 1361 94.4 Plus
Blast to dgri-all-translation-r1.3.fasta performed 2019-03-15 20:32:45
Subject Length Description Subject Range Query Range Score Percent Strand
Dgri\GH21535-PA 298 GH21535-PA 1..283 1..288 948 65.1 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 11:18:46
Subject Length Description Subject Range Query Range Score Percent Strand
Reg-5-PA 288 CG2928-PA 1..288 1..288 1494 100 Plus
Reg-5-PB 182 CG2928-PB 1..182 107..288 947 100 Plus
Blast to dmoj-all-translation-r1.3.fasta performed 2019-03-15 20:32:46
Subject Length Description Subject Range Query Range Score Percent Strand
Dmoj\GI19507-PA 295 GI19507-PA 6..283 3..287 940 65.3 Plus
Blast to dper-all-translation-r1.3.fasta performed 2019-03-15 20:32:46
Subject Length Description Subject Range Query Range Score Percent Strand
Dper\GL17695-PA 298 GL17695-PA 1..298 1..288 982 70.1 Plus
Blast to dpse-all-translation-r3.2.fasta performed 2019-03-15 20:32:47
Subject Length Description Subject Range Query Range Score Percent Strand
Dpse\GA15525-PA 298 GA15525-PA 1..298 1..288 976 69.8 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-15 20:32:47
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\GM11788-PA 288 GM11788-PA 1..288 1..288 1464 96.2 Plus
Blast to dsim-all-translation-r1.4.fasta performed 2019-03-15 20:32:48
Subject Length Description Subject Range Query Range Score Percent Strand
Dsim\GD24916-PA 288 GD24916-PA 1..288 1..288 1471 96.5 Plus
Blast to dvir-all-translation-r1.2.fasta performed 2019-03-15 20:32:48
Subject Length Description Subject Range Query Range Score Percent Strand
Dvir\GJ21077-PA 310 GJ21077-PA 1..290 1..287 939 66.8 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-15 20:32:49
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK21646-PA 303 GK21646-PA 1..285 1..285 1018 71.3 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-15 20:32:49
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\GE11412-PA 288 GE11412-PA 1..288 1..288 1351 93.8 Plus

RE54049.hyp Sequence

Translation from 504 to 1370

> RE54049.hyp
MTTAAKVILACCLLGAFHIQISSSSAIPIWEFLTRNEKMSHLYSTFAQLV
SVHCKSTAAVGGLPVNQCKHNLLGYGSAKLQTLSDVQLEALDPYQRDANE
LIWSSIMGDHPSGASLVTTRQPLQQPLPTPPASSLIILTRQQLPHGASHA
HPIQSSGSATNPIFESGEQKHKYAMDMDKAYGYGPQSSSELPMAAALTSE
PSKRFLTGPLVIRVRPDGSPVEEDKMMPLPRDEDLPYFHLGLAAAQPNRH
RKIATISSLKQQHFASILQSDLQPPHQTQRRLFRQQQA*

RE54049.hyp Blast Records

Blast to dmel-all-translation-r6.02.fasta performed 2014-11-28 14:46:23
Subject Length Description Subject Range Query Range Score Percent Strand
Reg-5-PA 288 CG2928-PA 1..288 1..288 1494 100 Plus
Reg-5-PB 182 CG2928-PB 1..182 107..288 947 100 Plus