Clone RE50040 Report

Search the DGRC for RE50040

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:500
Well:40
Vector:pFlc-1
Associated Gene/TranscriptCG5510-RA
Protein status:RE50040.pep: gold
Preliminary Size:1055
Sequenced Size:1391

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
CG5510 2002-01-01 Sim4 clustering to Release 2
CG5510 2002-04-26 Blastp of sequenced clone
CG5510 2003-01-01 Sim4 clustering to Release 3
CG5510 2008-04-29 Release 5.5 accounting
CG5510 2008-08-15 Release 5.9 accounting
CG5510 2008-12-18 5.12 accounting

Clone Sequence Records

RE50040.complete Sequence

1391 bp (1391 high quality bases) assembled on 2002-04-26

GenBank Submission: AY113492

> RE50040.complete
AAGTGACTCACAATTGCCCACCACTAATAGGCCGGCGAAAAAAAATTTGT
CTGCAAATATTATTTTCCGTGTATGTAGTTTCATCCAAGTGGGCCACCGA
ATGCAGCCATGACCAAACCGACGCGCGAACACTGTTCCCTGGCCCTGCTG
GCGCTTCTCGTCGCCCCGTTCGTGGTGCTCGGTGAGGATATGCCCAGGGA
GCCGGACTACATGAAGCGGGAGCACAGTTTGGTGCGTCCATTCCAAGGCG
TAGGCGTGATCCTGCCACACTGGGACTTCCTGGGTAACACGATGGTGACC
AGCAACTATATAAGACTGACGCCGGACTTACAGTCCAAGAGCGGTGCACT
TTGGAACTACTCGCCCGTGATGACTCGCAATTGGGAAGTGCACGTTGGCT
TTAAGGTGCACGGCAAGGGAACTGAACTGTTCGGCGACGGATTTGCCATT
TGGTACACAAAGGAGCGCATGCAAACCGGGCCGGTCTTTGGCAGCAAGGA
TCACTTCTCCGGACTGGCCATCATTCTGGACACCTATAGCAATCACAATG
GTCCACACAACCACCAACATCCATATCTCAGCGCCATGGTGAACAATGGC
AGCTGGAGCTACGACCACGATCGCGATGGAACGCACACTCAGCTGGCCGG
CTGCGAAGTTCGTTTCCGCAATGTGGAGTACGAGACGCTGGTTAGCATTC
GATACGAAAACGACATTCTGTCGGTTTCCACAGATCTGGAGAACCGCAAC
GAATGGAAGAACTGCTTTGTAGTGGCCAACGTTGAGCTACCCACGGGCTA
CCACTTCGGCATGTCTGCGACGACGGGTGATCTGTCCGACAATCACGATA
TTCACAGTTTCAAGTTCTATGACCTGGACTTGAACGTAAATCACGATGAG
ATTATCCGGCGCTCCAATATCATACCGAATGCCAAGACATTCGAGCCCCC
GCGCGAGCACAAAGAAGATCCCAAGCCGGGAATGTCCAACGCCAAGATCT
TCTTCATCCTTCTCTTCGTGGTTGTCGTGGCGGCTGCAGTGGCCATCTTC
GCCATCTCCTACTTCAAGGATCGCAACGCGCGAAAACGTTTCTACTGAGC
TCTCTAGCTAGTTCATCACAGTAGCATCATGTTAGGAGTTACCCGGACCT
CAGTTGATCGCAACTTTTATTTATATTTATACCGCGACTGTATCCCATTT
CTTATCACCCTTTTTAGTTTCCTTAATTGTTTAGTGAGAGGGTAAACATA
ATATTACACGTGTTGGAGAGTTAAATTTAAGTGCAAATTTTTAATCTGAA
CTATAGGAAAATTGAGACCGTGAGAATATTATTGCGTAGACAAGATTAAA
AGCCACTAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

RE50040.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 19:11:04
Subject Length Description Subject Range Query Range Score Percent Strand
CG5510-RA 1690 CG5510-RA 227..1590 1..1364 6820 100 Plus
CG5510.a 1362 CG5510.a 6..1362 1..1363 6700 99.5 Plus
Apc2.a 4032 Apc2.a 3385..3857 1364..892 2365 100 Minus
Blast to d_melanogaster_OreR.fa performed 2019-03-16 13:41:54
Subject Length Description Subject Range Query Range Score Percent Strand
chr3R 27901430 chr3R 19991005..19991474 1361..892 2350 100 Minus
chr3R 27901430 chr3R 19991804..19992133 891..562 1650 100 Minus
chr3R 27901430 chr3R 19992644..19992891 248..1 1240 100 Minus
chr3R 27901430 chr3R 19992187..19992385 561..363 995 100 Minus
chr3R 27901430 chr3R 19992461..19992578 363..246 590 100 Minus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 21:00:15 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-16 13:41:52
Subject Length Description Subject Range Query Range Score Percent Strand
3R 32079331 3R 24167672..24168144 1364..892 2365 100 Minus
3R 32079331 3R 24168474..24168803 891..562 1650 100 Minus
3R 32079331 3R 24169314..24169561 248..1 1240 100 Minus
3R 32079331 3R 24168857..24169055 561..363 995 100 Minus
3R 32079331 3R 24169131..24169248 363..246 590 100 Minus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 20:41:43
Subject Length Description Subject Range Query Range Score Percent Strand
3R 31820162 3R 23908503..23908975 1364..892 2365 100 Minus
3R 31820162 3R 23909305..23909634 891..562 1650 100 Minus
3R 31820162 3R 23910145..23910392 248..1 1240 100 Minus
3R 31820162 3R 23909688..23909886 561..363 995 100 Minus
3R 31820162 3R 23909962..23910079 363..246 590 100 Minus
Blast to na_te.dros performed on 2019-03-16 13:41:52 has no hits.

RE50040.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-16 13:42:31 Download gff for RE50040.complete
Subject Subject Range Query Range Percent Splice Strand
chr3R 19991005..19991474 892..1361 100 <- Minus
chr3R 19991804..19992133 562..891 100 <- Minus
chr3R 19992187..19992384 364..561 100 <- Minus
chr3R 19992461..19992576 248..363 100 <- Minus
chr3R 19992645..19992891 1..247 100   Minus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2008-12-08 20:20:33 Download gff for RE50040.complete
Subject Subject Range Query Range Percent Splice Strand
CG5510-RA 1..990 109..1098 100   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 17:55:49 Download gff for RE50040.complete
Subject Subject Range Query Range Percent Splice Strand
CG5510-RA 1..990 109..1098 100   Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 12:11:28 Download gff for RE50040.complete
Subject Subject Range Query Range Percent Splice Strand
CG5510-RA 1..990 109..1098 100   Plus
Sim4 to dmel-all-CDS-r5.9.fasta performed 2008-07-21 18:49:10 Download gff for RE50040.complete
Subject Subject Range Query Range Percent Splice Strand
CG5510-RA 1..990 109..1098 100   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-27 11:18:20 Download gff for RE50040.complete
Subject Subject Range Query Range Percent Splice Strand
CG5510-RA 1..990 109..1098 100   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2008-11-10 21:35:07 Download gff for RE50040.complete
Subject Subject Range Query Range Percent Splice Strand
CG5510-RA 1..1361 1..1361 100   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 17:55:49 Download gff for RE50040.complete
Subject Subject Range Query Range Percent Splice Strand
CG5510-RA 1..1361 1..1361 100   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 12:11:28 Download gff for RE50040.complete
Subject Subject Range Query Range Percent Splice Strand
CG5510-RA 2..1362 1..1361 100   Plus
Sim4 to dmel-all-transcript-r5.9.fasta performed 2008-07-21 18:49:11 Download gff for RE50040.complete
Subject Subject Range Query Range Percent Splice Strand
CG5510-RA 1..1361 1..1361 100   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-27 11:18:20 Download gff for RE50040.complete
Subject Subject Range Query Range Percent Splice Strand
CG5510-RA 2..1362 1..1361 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 13:42:31 Download gff for RE50040.complete
Subject Subject Range Query Range Percent Splice Strand
3R 24167675..24168144 892..1361 100 <- Minus
3R 24168474..24168803 562..891 100 <- Minus
3R 24168857..24169054 364..561 100 <- Minus
3R 24169131..24169246 248..363 100 <- Minus
3R 24169315..24169561 1..247 100   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 13:42:31 Download gff for RE50040.complete
Subject Subject Range Query Range Percent Splice Strand
3R 24167675..24168144 892..1361 100 <- Minus
3R 24168474..24168803 562..891 100 <- Minus
3R 24168857..24169054 364..561 100 <- Minus
3R 24169131..24169246 248..363 100 <- Minus
3R 24169315..24169561 1..247 100   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 13:42:31 Download gff for RE50040.complete
Subject Subject Range Query Range Percent Splice Strand
3R 24167675..24168144 892..1361 100 <- Minus
3R 24168474..24168803 562..891 100 <- Minus
3R 24168857..24169054 364..561 100 <- Minus
3R 24169131..24169246 248..363 100 <- Minus
3R 24169315..24169561 1..247 100   Minus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 12:11:28 Download gff for RE50040.complete
Subject Subject Range Query Range Percent Splice Strand
arm_3R 19993397..19993866 892..1361 100 <- Minus
arm_3R 19994196..19994525 562..891 100 <- Minus
arm_3R 19994579..19994776 364..561 100 <- Minus
arm_3R 19994853..19994968 248..363 100 <- Minus
arm_3R 19995037..19995283 1..247 100   Minus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 15:20:59 Download gff for RE50040.complete
Subject Subject Range Query Range Percent Splice Strand
3R 23909962..23910077 248..363 100 <- Minus
3R 23910146..23910392 1..247 100   Minus
3R 23908506..23908975 892..1361 100 <- Minus
3R 23909305..23909634 562..891 100 <- Minus
3R 23909688..23909885 364..561 100 <- Minus

RE50040.pep Sequence

Translation from 108 to 1097

> RE50040.pep
MTKPTREHCSLALLALLVAPFVVLGEDMPREPDYMKREHSLVRPFQGVGV
ILPHWDFLGNTMVTSNYIRLTPDLQSKSGALWNYSPVMTRNWEVHVGFKV
HGKGTELFGDGFAIWYTKERMQTGPVFGSKDHFSGLAIILDTYSNHNGPH
NHQHPYLSAMVNNGSWSYDHDRDGTHTQLAGCEVRFRNVEYETLVSIRYE
NDILSVSTDLENRNEWKNCFVVANVELPTGYHFGMSATTGDLSDNHDIHS
FKFYDLDLNVNHDEIIRRSNIIPNAKTFEPPREHKEDPKPGMSNAKIFFI
LLFVVVVAAAVAIFAISYFKDRNARKRFY*

RE50040.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-16 01:14:30
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF18890-PA 327 GF18890-PA 19..327 19..329 1458 91 Plus
Dana\GF24333-PA 513 GF24333-PA 54..253 52..251 413 41.2 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-16 01:14:31
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG12366-PA 329 GG12366-PA 1..329 1..329 1748 98.5 Plus
Dere\GG14323-PA 512 GG14323-PA 53..252 52..251 396 39.2 Plus
Blast to dgri-all-translation-r1.3.fasta performed 2019-03-16 01:14:31
Subject Length Description Subject Range Query Range Score Percent Strand
Dgri\GH19087-PA 325 GH19087-PA 29..325 33..329 1485 89.9 Plus
Dgri\GH22518-PA 528 GH22518-PA 17..261 11..251 397 35.6 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 10:22:35
Subject Length Description Subject Range Query Range Score Percent Strand
CG5510-PA 329 CG5510-PA 1..329 1..329 1780 100 Plus
ergic53-PB 512 CG6822-PB 53..252 52..251 404 39.7 Plus
ergic53-PA 512 CG6822-PA 53..252 52..251 404 39.7 Plus
Blast to dmoj-all-translation-r1.3.fasta performed 2019-03-16 01:14:32
Subject Length Description Subject Range Query Range Score Percent Strand
Dmoj\GI23425-PA 325 GI23425-PA 10..325 11..329 1511 86.5 Plus
Dmoj\GI12907-PA 527 GI12907-PA 17..261 11..251 408 36.4 Plus
Blast to dper-all-translation-r1.3.fasta performed 2019-03-16 01:14:32
Subject Length Description Subject Range Query Range Score Percent Strand
Dper\GL24136-PA 325 GL24136-PA 1..325 1..329 1467 84.5 Plus
Dper\GL22531-PA 210 GL22531-PA 54..181 52..182 294 42.4 Plus
Blast to dpse-all-translation-r3.2.fasta performed 2019-03-16 01:14:33
Subject Length Description Subject Range Query Range Score Percent Strand
Dpse\GA18939-PA 325 GA18939-PA 1..325 1..329 1479 84.8 Plus
Dpse\GA27650-PA 465 GA27650-PA 54..253 52..251 401 39.7 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-16 01:14:33
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\GM23505-PA 329 GM23505-PA 1..329 1..329 1760 98.8 Plus
Blast to dsim-all-translation-r1.4.fasta performed 2019-03-16 01:14:34
Subject Length Description Subject Range Query Range Score Percent Strand
Dsim\GD18315-PA 329 GD18315-PA 1..329 1..329 1763 98.8 Plus
Dsim\GD14102-PA 508 GD14102-PA 53..252 52..251 399 39.7 Plus
Blast to dvir-all-translation-r1.2.fasta performed 2019-03-16 01:14:34
Subject Length Description Subject Range Query Range Score Percent Strand
Dvir\GJ14528-PA 325 GJ14528-PA 4..325 5..329 1524 85.8 Plus
Dvir\GJ13048-PA 527 GJ13048-PA 62..261 52..251 401 39.7 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-16 01:14:35
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK11718-PA 330 GK11718-PA 1..330 1..329 1446 82.5 Plus
Dwil\GK13314-PA 524 GK13314-PA 60..259 52..251 407 40.2 Plus
Dwil\GK23131-PA 421 GK23131-PA 60..238 52..251 344 37.4 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-16 01:14:35
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\GE10821-PA 329 GE10821-PA 1..329 1..329 1750 97.9 Plus
Dyak\GE20751-PA 512 GE20751-PA 53..252 52..251 400 39.7 Plus

RE50040.hyp Sequence

Translation from 108 to 1097

> RE50040.hyp
MTKPTREHCSLALLALLVAPFVVLGEDMPREPDYMKREHSLVRPFQGVGV
ILPHWDFLGNTMVTSNYIRLTPDLQSKSGALWNYSPVMTRNWEVHVGFKV
HGKGTELFGDGFAIWYTKERMQTGPVFGSKDHFSGLAIILDTYSNHNGPH
NHQHPYLSAMVNNGSWSYDHDRDGTHTQLAGCEVRFRNVEYETLVSIRYE
NDILSVSTDLENRNEWKNCFVVANVELPTGYHFGMSATTGDLSDNHDIHS
FKFYDLDLNVNHDEIIRRSNIIPNAKTFEPPREHKEDPKPGMSNAKIFFI
LLFVVVVAAAVAIFAISYFKDRNARKRFY*

RE50040.hyp Blast Records

Blast to dmel-all-translation-r6.02.fasta performed 2014-11-28 16:24:45
Subject Length Description Subject Range Query Range Score Percent Strand
CG5510-PA 329 CG5510-PA 1..329 1..329 1780 100 Plus
ergic53-PB 512 CG6822-PB 53..252 52..251 404 39.7 Plus
ergic53-PA 512 CG6822-PA 53..252 52..251 404 39.7 Plus