Clone RE04029 Report

Search the DGRC for RE04029

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:40
Well:29
Vector:pFlc-1
Associated Gene/Transcripthd-RA
Protein status:RE04029.pep: gold
Preliminary Size:1782
Sequenced Size:1940

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
CG2669 2002-01-01 Sim4 clustering to Release 2
CG2669 2002-06-10 Blastp of sequenced clone
CG2669 2003-01-01 Sim4 clustering to Release 3
hd 2008-04-29 Release 5.5 accounting
hd 2008-08-15 Release 5.9 accounting
hd 2008-12-18 5.12 accounting

Clone Sequence Records

RE04029.complete Sequence

1940 bp (1940 high quality bases) assembled on 2002-06-10

GenBank Submission: AY121655

> RE04029.complete
AATCGAAAGATTTCACACCCCTAGTTGCGCGCCATAATTTTTTGTGATAT
TTGCAAACGTTTTGAAGATATTTGCAGTTCACAAAGTACTTAAATAATCC
GTGAAGGTCCTGTGCGCGAACCAAGACATTGAACATGTCCACCGAAGCGA
GTGTGGCTTCCAAATGGACGCGCCCAGATGACTTCATCAAACTGCAGCGG
CTCAAGCAGAAGAAGAACAAATTGGCAGCCCGCGTGAGCAACAACAACAA
TAGGCGGCCAAGACACCAAGTGGATGAGACGGATAAAAGCAAGCTACTGG
AGGCTAAGCTCGCCCAGAAGCGAAAAAATCCGTTTGCGAAATCCACAGCT
GATGCCAAGAAACTGCGCGTTGATCCGCAACTGGCGGACCTCGAACCAGT
GGTCACTGCCTCCTCCTGCTTTGTGCGGGAAACGCCCACGCGCCCGGCGC
CCGCCAAATTCGTGCTCCAGAAGTACGACCCGCAGGCCTTTGCCAAGCTC
TTCCAGCATCCCCAAATCAACGCTGAGGACGAGGACGATGCGGAGTTGGC
CGCCCGGCAGAAGCACACCGCCCACCTACCTGTGGACTGGTCCCTGAAGA
CGCGAGCCCGTTTCTTCTGTCCCACGGAACTGCCTGCCATCCAACTGAAG
ACCTCGCAGCTGGCCAGCGGACTCACCAGCTTCGTGCGCTGCATGGACCC
GCAGCGAACGGAGAGCACGCTGGATATCTCGGACGCAACGCGGTTCAACC
AATGCAATTACTACTGGCAGCACCCGCACCTGCCCTGGCTGACGCTCTAC
CCGCGCACCGCCAAGGAGAACGTGGGCGTGGTGGTGGGTGAGCGGGAGCG
CAAGGCCCTGGCCGAGGAGTGGGACTTCAGCTTCCGGGGCCTATTTCAGC
TGCTGCGTGCCCGCCAGTGCCCGTACTTCTACCTGTGTGCCAACACTTTT
ACGGTGCTGTTCCGAGCTGCCGGAGTTGGCGGTCGGCCGGAGAGCCACGC
CTTGGTCACGCCGTCGACTCGGGGAATGCGGCAAGCTCTGCGACAGGAGG
GGATCGAGTTCAGCATGCCTCTTAAGAGCGATAACAGTGGAAACGCGCAC
GACAACAGTTTTAACGAGGAGAGCACTACCACCTCGCTAGGTCCAGAAGC
GGGCGAAGATGCTCCTCCGCCGGCACAGGAAGATGAAGACGACGACGAGG
ACTGGCTGGAGAGCTTGGGCGTGGATGAGCGTGAGCTGCGACGTATCCAG
TCCTCCCATGCCAGGAAGCAACAAGCTGCCGAAATGCGAGAGGACTTTAG
CGACAACTCCTTGCTGCTGGTCGATGGCGTGGAGTGCCAGGGATTCTTTA
GCTATCTGCTAAATGCCAAGAGTGCCATCAGCACAGTGGGCCGTCTGGCC
GGAGTGCCTCCCACTCTGCTGTCGCCAGTGGCCTTCCCCAAGGCCACCAT
GCAGCACTTGGTTCCGCGGTCCAAGAAAGTGCGTCTGGATGGCGTCGACT
ACTTTAGCATAGACATTAAGGGCCTAATCCTACCTACATTCCTGCCCAGT
GTGGCGGAGCTGCTGTCCGAGACGCGCCAGATGTTTAGCTCCACGCTGGC
CAGCAGCATCAATACGCTGGCCTTTAGCAAGGCCACCCAAAAGCTGCTTG
AAACTCCGGAGACGCCACAGTCAGATGCGGAAGGAGAAGATGCCGCCGGG
CAGGTCTTTGGCGAGCAGAATCTTTCGGAGTGTGGTCTGCTGCCGGCAGT
AGTTGGCTCCATCTGCCGCACGGGCCAACATGCCGTAGGTCTTTTAGAGC
GCGTTTGCTATCAAAGAGATGAGGGATATGCTTGGAGCTAGACACCAAGT
GCTCCTCACACTAGAGCAGCTTTGTTTTCCTAATCTGTACGTCTGTTATG
TGAAATAAAATATTGTAGTAGAATAAAAAAAAAAAAAAAA

RE04029.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 18:50:38
Subject Length Description Subject Range Query Range Score Percent Strand
hd-RA 2065 hd-RA 83..2007 1..1925 9625 100 Plus
hd.a 1934 hd.a 1..1929 1..1925 9560 99.7 Plus
Blast to d_melanogaster_OreR.fa performed 2019-03-16 04:43:37
Subject Length Description Subject Range Query Range Score Percent Strand
chr3R 27901430 chr3R 1198251..1199834 1924..341 7920 100 Minus
chr3R 27901430 chr3R 1200109..1200290 182..1 910 100 Minus
chr3R 27901430 chr3R 1199892..1200049 340..183 790 100 Minus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 20:27:17 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-16 04:43:35
Subject Length Description Subject Range Query Range Score Percent Strand
3R 32079331 3R 5372591..5374175 1925..341 7925 100 Minus
3R 32079331 3R 5374450..5374631 182..1 910 100 Minus
3R 32079331 3R 5374233..5374390 340..183 790 100 Minus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 20:23:18
Subject Length Description Subject Range Query Range Score Percent Strand
3R 31820162 3R 5113422..5115006 1925..341 7925 100 Minus
3R 31820162 3R 5115281..5115462 182..1 910 100 Minus
3R 31820162 3R 5115064..5115221 340..183 790 100 Minus
Blast to na_te.dros performed 2019-03-16 04:43:36
Subject Length Description Subject Range Query Range Score Percent Strand
invader2 5124 invader2 INVADER2 5124bp 639..693 196..249 119 70.9 Plus

RE04029.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-16 04:44:44 Download gff for RE04029.complete
Subject Subject Range Query Range Percent Splice Strand
chr3R 1199892..1200049 183..340 100 <- Minus
chr3R 1200109..1200290 1..182 100   Minus
chr3R 1198251..1199834 341..1924 100 <- Minus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2008-12-08 19:48:03 Download gff for RE04029.complete
Subject Subject Range Query Range Percent Splice Strand
hd-RA 1..1707 135..1841 100   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 17:26:40 Download gff for RE04029.complete
Subject Subject Range Query Range Percent Splice Strand
hd-RA 1..1707 135..1841 100   Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 07:40:21 Download gff for RE04029.complete
Subject Subject Range Query Range Percent Splice Strand
hd-RA 1..1707 135..1841 100   Plus
Sim4 to dmel-all-CDS-r5.9.fasta performed 2008-07-21 18:17:07 Download gff for RE04029.complete
Subject Subject Range Query Range Percent Splice Strand
hd-RA 1..1707 135..1841 100   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-27 05:49:18 Download gff for RE04029.complete
Subject Subject Range Query Range Percent Splice Strand
hd-RA 1..1707 135..1841 100   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2008-11-10 20:55:06 Download gff for RE04029.complete
Subject Subject Range Query Range Percent Splice Strand
hd-RA 1..1924 1..1924 100   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 17:26:40 Download gff for RE04029.complete
Subject Subject Range Query Range Percent Splice Strand
hd-RA 1..1924 1..1924 100   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 07:40:21 Download gff for RE04029.complete
Subject Subject Range Query Range Percent Splice Strand
hd-RA 4..1927 1..1924 100   Plus
Sim4 to dmel-all-transcript-r5.9.fasta performed 2008-07-21 18:17:07 Download gff for RE04029.complete
Subject Subject Range Query Range Percent Splice Strand
hd-RA 1..1924 1..1924 100   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-27 05:49:18 Download gff for RE04029.complete
Subject Subject Range Query Range Percent Splice Strand
hd-RA 4..1927 1..1924 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 04:44:44 Download gff for RE04029.complete
Subject Subject Range Query Range Percent Splice Strand
3R 5372592..5374175 341..1924 100 <- Minus
3R 5374233..5374390 183..340 100 <- Minus
3R 5374450..5374631 1..182 100   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 04:44:44 Download gff for RE04029.complete
Subject Subject Range Query Range Percent Splice Strand
3R 5372592..5374175 341..1924 100 <- Minus
3R 5374233..5374390 183..340 100 <- Minus
3R 5374450..5374631 1..182 100   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 04:44:44 Download gff for RE04029.complete
Subject Subject Range Query Range Percent Splice Strand
3R 5372592..5374175 341..1924 100 <- Minus
3R 5374233..5374390 183..340 100 <- Minus
3R 5374450..5374631 1..182 100   Minus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 07:40:21 Download gff for RE04029.complete
Subject Subject Range Query Range Percent Splice Strand
arm_3R 1198314..1199897 341..1924 100 <- Minus
arm_3R 1199955..1200112 183..340 100 <- Minus
arm_3R 1200172..1200353 1..182 100   Minus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 14:50:28 Download gff for RE04029.complete
Subject Subject Range Query Range Percent Splice Strand
3R 5113423..5115006 341..1924 100 <- Minus
3R 5115064..5115221 183..340 100 <- Minus
3R 5115281..5115462 1..182 100   Minus

RE04029.hyp Sequence

Translation from 134 to 1840

> RE04029.hyp
MSTEASVASKWTRPDDFIKLQRLKQKKNKLAARVSNNNNRRPRHQVDETD
KSKLLEAKLAQKRKNPFAKSTADAKKLRVDPQLADLEPVVTASSCFVRET
PTRPAPAKFVLQKYDPQAFAKLFQHPQINAEDEDDAELAARQKHTAHLPV
DWSLKTRARFFCPTELPAIQLKTSQLASGLTSFVRCMDPQRTESTLDISD
ATRFNQCNYYWQHPHLPWLTLYPRTAKENVGVVVGERERKALAEEWDFSF
RGLFQLLRARQCPYFYLCANTFTVLFRAAGVGGRPESHALVTPSTRGMRQ
ALRQEGIEFSMPLKSDNSGNAHDNSFNEESTTTSLGPEAGEDAPPPAQED
EDDDEDWLESLGVDERELRRIQSSHARKQQAAEMREDFSDNSLLLVDGVE
CQGFFSYLLNAKSAISTVGRLAGVPPTLLSPVAFPKATMQHLVPRSKKVR
LDGVDYFSIDIKGLILPTFLPSVAELLSETRQMFSSTLASSINTLAFSKA
TQKLLETPETPQSDAEGEDAAGQVFGEQNLSECGLLPAVVGSICRTGQHA
VGLLERVCYQRDEGYAWS*

RE04029.hyp Blast Records

Blast to dmel-all-translation-r6.02.fasta performed 2014-11-28 13:54:54
Subject Length Description Subject Range Query Range Score Percent Strand
hd-PA 568 CG2669-PA 1..568 1..568 2949 100 Plus

RE04029.pep Sequence

Translation from 134 to 1840

> RE04029.pep
MSTEASVASKWTRPDDFIKLQRLKQKKNKLAARVSNNNNRRPRHQVDETD
KSKLLEAKLAQKRKNPFAKSTADAKKLRVDPQLADLEPVVTASSCFVRET
PTRPAPAKFVLQKYDPQAFAKLFQHPQINAEDEDDAELAARQKHTAHLPV
DWSLKTRARFFCPTELPAIQLKTSQLASGLTSFVRCMDPQRTESTLDISD
ATRFNQCNYYWQHPHLPWLTLYPRTAKENVGVVVGERERKALAEEWDFSF
RGLFQLLRARQCPYFYLCANTFTVLFRAAGVGGRPESHALVTPSTRGMRQ
ALRQEGIEFSMPLKSDNSGNAHDNSFNEESTTTSLGPEAGEDAPPPAQED
EDDDEDWLESLGVDERELRRIQSSHARKQQAAEMREDFSDNSLLLVDGVE
CQGFFSYLLNAKSAISTVGRLAGVPPTLLSPVAFPKATMQHLVPRSKKVR
LDGVDYFSIDIKGLILPTFLPSVAELLSETRQMFSSTLASSINTLAFSKA
TQKLLETPETPQSDAEGEDAAGQVFGEQNLSECGLLPAVVGSICRTGQHA
VGLLERVCYQRDEGYAWS*

RE04029.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-16 06:26:40
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF17717-PA 571 GF17717-PA 1..571 1..568 2554 85.8 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-16 06:26:40
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG11051-PA 568 GG11051-PA 1..568 1..568 2813 94.2 Plus
Blast to dgri-all-translation-r1.3.fasta performed 2019-03-16 06:26:41
Subject Length Description Subject Range Query Range Score Percent Strand
Dgri\GH22630-PA 569 GH22630-PA 1..569 1..568 2100 73.2 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 10:35:15
Subject Length Description Subject Range Query Range Score Percent Strand
hd-PA 568 CG2669-PA 1..568 1..568 2949 100 Plus
hd-PB 568 CG2669-PB 1..568 1..568 2949 100 Plus
Blast to dmoj-all-translation-r1.3.fasta performed 2019-03-16 06:26:42
Subject Length Description Subject Range Query Range Score Percent Strand
Dmoj\GI10205-PA 581 GI10205-PA 1..581 1..568 2100 72.8 Plus
Blast to dper-all-translation-r1.3.fasta performed 2019-03-16 06:26:42
Subject Length Description Subject Range Query Range Score Percent Strand
Dper\GL22185-PA 566 GL22185-PA 1..566 1..568 2388 83.3 Plus
Blast to dpse-all-translation-r3.2.fasta performed 2019-03-16 06:26:43
Subject Length Description Subject Range Query Range Score Percent Strand
Dpse\GA15418-PA 566 GA15418-PA 1..566 1..568 2388 83.3 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-16 06:26:44
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\GM10642-PA 1816 GM10642-PA 1623..1786 26..189 805 93.9 Plus
Blast to dsim-all-translation-r1.4.fasta performed 2019-03-16 06:26:44
Subject Length Description Subject Range Query Range Score Percent Strand
Dsim\GD19621-PA 568 GD19621-PA 1..568 1..568 2937 97 Plus
Blast to dvir-all-translation-r1.2.fasta performed 2019-03-16 06:26:45
Subject Length Description Subject Range Query Range Score Percent Strand
Dvir\GJ24723-PA 580 GJ24723-PA 1..580 1..568 2117 71.6 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-16 06:26:46
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK11227-PA 565 GK11227-PA 1..565 1..568 2155 70.7 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-16 06:26:46
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\GE25290-PA 565 GE25290-PA 1..565 1..568 2755 92.3 Plus