Clone RE53210 Report

Search the DGRC for RE53210

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:532
Well:10
Vector:pFlc-1
Associated Gene/Transcriptsqu-RA
Protein status:RE53210.pep: gold
Sequenced Size:1051

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
squ 2009-06-08 Manual selection by Joe Carlson

Clone Sequence Records

RE53210.complete Sequence

1051 bp assembled on 2009-08-05

GenBank Submission: BT089046.1

> RE53210.complete
AGTCTCAGATTCTGAGAACTTGTTGACAGTGTAGCTGTTCAATTGTTTTC
ATGGCGAGTTCTCGGAGTATTTTTTGTTAGACAACGCACGATCATGGCAT
GGGTTCCCAATTCGCAGTTCGAGGATGATCTGGTCGACATGGAGCCGGAT
TTCAATTTTGTCCATGGTCAACTGGCCTACGACATGAAGAAGCAAGGGGA
GTTTTGGCCGCGACCGAAATGCACATATGAATATCTGAAGTCCCGGGAAA
AGAGGAATTCCGAGCTCGAAAATATCCATGGAAGCAGAGGCGGAACTGGT
CGTGATATTCGGCAAAGCCTTCAGCTAATGGAGAACATACAGAAGATAGC
AGGCACAAGGCCGCTGGGCGAGCACGCCACTATGAAAGATTGGGAGGATG
AAAGCACAAATGAGCTAGAGGCGTTAGCCATGATGCGTCACTTCGGAATG
ATGTCCATGGCAACAGATTCGCTGCCCGTTCTGCCCGAAGTAAAACCACC
AGAAGGACCCATTAAAATTATAAGAAACGGACGGAAACAATTTCCCCTCA
TCACAGACCCCGAATTTTTTAAACCACGCAAGATTCCCCGAACGAAGAAT
TCCAGTTCCAGTAGTTCGTATCATACTGCCAATAGTTCAATCAGTTCCTT
CAGCCTTTATGAATCTGCCGCTTCAGATTTGGACAGCAGCAAGAAGCAGG
GCGAGATCAAGGCGTCAAAGTCGGAGAAATACCTCGAAGTACCTTACAAA
CAGCTTGCGGAGAGTTACGACCAGGAAGTGGAATCACCAGTCCAATTTGG
AAACCAATTCAATGAATGAAGGAGGAACCAACGGGGAATGCAATTATTAG
AACCAAAAAATCAATCACTTTTTATATATAAGCTTCTGTAACATGTAAAT
AAACGGCTTAAACGTCGTTTAGAAAACCGAATTTATATTGGATGCAGTTC
TACAAATAGAAAGAAAAATACTTGATATCATAGGGTAAACAAAATATTTA
TCTATTTTAATAAATTAAATGCGAAAGGAAAAAACAAAAAAAAAAAAAAA
A

RE53210.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 16:27:58
Subject Length Description Subject Range Query Range Score Percent Strand
squ-RA 1407 squ-RA 348..1377 1..1030 5150 100 Plus
Blast to d_melanogaster_OreR.fa performed 2019-03-16 17:22:16
Subject Length Description Subject Range Query Range Score Percent Strand
chr2L 23010047 chr2L 16679401..16680352 79..1030 4760 100 Plus
chr2L 23010047 chr2L 16679268..16679347 1..80 400 100 Plus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 21:02:08 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-16 17:22:14
Subject Length Description Subject Range Query Range Score Percent Strand
2L 23513712 2L 16680704..16681655 79..1030 4760 100 Plus
2L 23513712 2L 16680571..16680650 1..80 400 100 Plus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 18:23:27
Subject Length Description Subject Range Query Range Score Percent Strand
2L 23513712 2L 16680704..16681655 79..1030 4760 100 Plus
2L 23513712 2L 16680571..16680650 1..80 400 100 Plus
Blast to na_te.dros performed 2019-03-16 17:22:14
Subject Length Description Subject Range Query Range Score Percent Strand
jockey2 3428 jockey2 JOCKEY2 3428bp 3245..3428 842..1032 137 58.7 Plus

RE53210.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-16 17:23:06 Download gff for RE53210.complete
Subject Subject Range Query Range Percent Splice Strand
chr2L 16679268..16679347 1..80 100 -> Plus
chr2L 16679403..16680306 81..984 100 -> Plus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2009-10-19 18:12:46 Download gff for RE53210.complete
Subject Subject Range Query Range Percent Splice Strand
squ-RA 1..726 94..819 100   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 13:54:41 Download gff for RE53210.complete
Subject Subject Range Query Range Percent Splice Strand
squ-RA 1..726 94..819 100   Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 17:33:15 Download gff for RE53210.complete
Subject Subject Range Query Range Percent Splice Strand
squ-RA 1..726 94..819 100   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-27 12:57:39 Download gff for RE53210.complete
Subject Subject Range Query Range Percent Splice Strand
squ-RA 1..726 94..819 100   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2009-08-05 09:38:35 Download gff for RE53210.complete
Subject Subject Range Query Range Percent Splice Strand
squ-RA 343..1161 1..819 100   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 13:54:41 Download gff for RE53210.complete
Subject Subject Range Query Range Percent Splice Strand
squ-RA 343..1370 1..1028 100   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 17:33:15 Download gff for RE53210.complete
Subject Subject Range Query Range Percent Splice Strand
squ-RA 345..1372 1..1028 100   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-27 12:57:39 Download gff for RE53210.complete
Subject Subject Range Query Range Percent Splice Strand
squ-RA 345..1372 1..1028 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 17:23:06 Download gff for RE53210.complete
Subject Subject Range Query Range Percent Splice Strand
2L 16680571..16680650 1..80 100 -> Plus
2L 16680706..16681655 81..1030 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 17:23:06 Download gff for RE53210.complete
Subject Subject Range Query Range Percent Splice Strand
2L 16680571..16680650 1..80 100 -> Plus
2L 16680706..16681655 81..1030 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 17:23:06 Download gff for RE53210.complete
Subject Subject Range Query Range Percent Splice Strand
2L 16680571..16680650 1..80 100 -> Plus
2L 16680706..16681655 81..1030 100   Plus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 17:33:15 Download gff for RE53210.complete
Subject Subject Range Query Range Percent Splice Strand
arm_2L 16680571..16680650 1..80 100 -> Plus
arm_2L 16680706..16681655 81..1030 100   Plus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 11:46:24 Download gff for RE53210.complete
Subject Subject Range Query Range Percent Splice Strand
2L 16680706..16681655 81..1030 100   Plus
2L 16680571..16680650 1..80 100 -> Plus

RE53210.pep Sequence

Translation from 93 to 818

> RE53210.pep
MAWVPNSQFEDDLVDMEPDFNFVHGQLAYDMKKQGEFWPRPKCTYEYLKS
REKRNSELENIHGSRGGTGRDIRQSLQLMENIQKIAGTRPLGEHATMKDW
EDESTNELEALAMMRHFGMMSMATDSLPVLPEVKPPEGPIKIIRNGRKQF
PLITDPEFFKPRKIPRTKNSSSSSSYHTANSSISSFSLYESAASDLDSSK
KQGEIKASKSEKYLEVPYKQLAESYDQEVESPVQFGNQFNE*

RE53210.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-16 16:33:06
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF14004-PA 282 GF14004-PA 1..246 1..229 637 52.6 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-16 16:33:06
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG22758-PA 271 GG22758-PA 1..247 1..240 987 76.5 Plus
Dere\GG10241-PA 237 GG10241-PA 1..192 1..191 500 51.2 Plus
Blast to dgri-all-translation-r1.3.fasta performed 2019-03-16 16:33:07
Subject Length Description Subject Range Query Range Score Percent Strand
Dgri\GH25198-PA 206 GH25198-PA 1..160 1..161 521 57.9 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 10:35:00
Subject Length Description Subject Range Query Range Score Percent Strand
squ-PC 241 CG4711-PC 1..241 1..241 1264 100 Plus
squ-PB 241 CG4711-PB 1..241 1..241 1264 100 Plus
squ-PA 241 CG4711-PA 1..241 1..241 1264 100 Plus
CG15484-PA 206 CG15484-PA 1..182 1..181 457 49.7 Plus
Blast to dmoj-all-translation-r1.3.fasta performed 2019-03-16 16:33:08
Subject Length Description Subject Range Query Range Score Percent Strand
Dmoj\GI17267-PA 232 GI17267-PA 1..213 1..228 562 49.6 Plus
Blast to dper-all-translation-r1.3.fasta performed 2019-03-16 16:33:08
Subject Length Description Subject Range Query Range Score Percent Strand
Dper\GL12351-PA 278 GL12351-PA 1..209 1..199 526 48.8 Plus
Dper\GL19649-PA 149 GL19649-PA 1..149 1..147 437 53 Plus
Blast to dpse-all-translation-r3.2.fasta performed 2019-03-16 16:33:09
Subject Length Description Subject Range Query Range Score Percent Strand
Dpse\GA13764-PA 278 GA13764-PA 1..209 1..199 527 47.9 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-16 16:33:09
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\GM17192-PA 242 GM17192-PA 1..212 1..205 933 87.3 Plus
Dsec\GM26009-PA 125 GM26009-PA 1..111 1..133 283 45.5 Plus
Blast to dsim-all-translation-r1.4.fasta performed 2019-03-16 16:33:10
Subject Length Description Subject Range Query Range Score Percent Strand
Dsim\GD24068-PA 242 GD24068-PA 1..212 1..205 937 87.3 Plus
Dsim\GD22100-PA 143 GD22100-PA 1..129 1..133 359 51.5 Plus
Blast to dvir-all-translation-r1.2.fasta performed 2019-03-16 16:33:11
Subject Length Description Subject Range Query Range Score Percent Strand
Dvir\GJ22736-PA 260 GJ22736-PA 1..230 1..232 544 46.9 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-16 16:33:11
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK18923-PA 266 GK18923-PA 1..234 1..224 569 49.8 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-16 16:33:12
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\GE12753-PA 262 GE12753-PA 1..248 1..241 928 71.8 Plus
Dyak\GE12077-PA 137 GE12077-PA 1..87 1..91 256 56.5 Plus

RE53210.hyp Sequence

Translation from 93 to 818

> RE53210.hyp
MAWVPNSQFEDDLVDMEPDFNFVHGQLAYDMKKQGEFWPRPKCTYEYLKS
REKRNSELENIHGSRGGTGRDIRQSLQLMENIQKIAGTRPLGEHATMKDW
EDESTNELEALAMMRHFGMMSMATDSLPVLPEVKPPEGPIKIIRNGRKQF
PLITDPEFFKPRKIPRTKNSSSSSSYHTANSSISSFSLYESAASDLDSSK
KQGEIKASKSEKYLEVPYKQLAESYDQEVESPVQFGNQFNE*

RE53210.hyp Blast Records

Blast to dmel-all-translation-r6.02.fasta performed 2014-11-28 16:16:03
Subject Length Description Subject Range Query Range Score Percent Strand
squ-PC 241 CG4711-PC 1..241 1..241 1264 100 Plus
squ-PB 241 CG4711-PB 1..241 1..241 1264 100 Plus
squ-PA 241 CG4711-PA 1..241 1..241 1264 100 Plus
CG15484-PA 206 CG15484-PA 1..182 1..181 457 49.7 Plus