Clone RE04143 Report

Search the DGRC for RE04143

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:41
Well:43
Vector:pFlc-1
Associated Gene/TranscriptCHORD-RA
Protein status:RE04143.pep: gold
Preliminary Size:1225
Sequenced Size:1253

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
CG6198 2001-12-14 Blastp of sequenced clone
CG6198 2002-01-01 Sim4 clustering to Release 2
CG6198 2003-01-01 Sim4 clustering to Release 3
CHORD 2008-04-29 Release 5.5 accounting
CHORD 2008-08-15 Release 5.9 accounting
CHORD 2008-12-18 5.12 accounting

Clone Sequence Records

RE04143.complete Sequence

1253 bp (1253 high quality bases) assembled on 2001-12-14

GenBank Submission: AY070947

> RE04143.complete
AAAAACGTATGGAACACATCTGCTTATAGAGGAATATTCTCGATTTTAAG
CGAAATTTGTACACATTTAGTTAAACCAAAACATACATAATTAGTTCAAC
CGAAACTTAATAATCATGGAACAATGCTATAACAGAGGCTGTGGCCAACT
CTTCGATCCGCAGACCAACAATGATGAATCTTGTCGGCACCATCCGGGTG
AACCTTTCTTCCACGACGCCTATAAGGGTTGGTCCTGCTGCAACAAGAAG
TCGGTCGACTTCACCGAGTTCCTCAACATCAAGGGCTGCACCTTGGCAAA
GCACTCGAATGTGAAGCCACCAGAGCCGGAGAAACCTGTTAAAGATGAGT
CCGACAAGGATGAGGTAATTGAGGTGCGGGCACCCATCCGGGAAGCCCTG
CCGCGTCCGCCCATTGATTCGCCGCTAACCGTTATACAGCCCACCGTGGC
TCCTGCCCTGAAAGACATGGTTTTTGCAGTCAAAACGCCGGCTGCTCAAA
AGTCCAGCGACGCCATTGAGGTGGGAACCACTTGCAAGAATAACGGCTGC
ACCTACTCCTTTACGGGTAACAGCAGCGACTTTGGCGAGTGCACCTACCA
TCCGGGCGTGCCAATCTTTCACGAGGGCATGAAATTCTGGTCCTGCTGCC
AGAAACGAACCTCGGACTTTTCCCAGTTTATGGCGCAAAAGGGCTGTACC
TACGGTGAGCACAAATGGGTCAAGGAGAACGACGACAAAAAGGTTGTGCA
ATGTCGCTACGACTGGCACCAGACGGCCACCAATGTGGTGATGGCCATTT
ATGCTAAAAAATACGATTACAGTCAGAGCGTGATAGAGCTGAACCCCATC
AGGCTGCACGTCAACCTGGTATTTCCCGAGCAGGACAACGCCAGGTTTGA
CCTGGACCTGGAATTGCGCGGAATTGTGAATGTGAGCAATGCAAGCGCGC
ATATGTATGGCACCAAAGTGGAGATTAAACTGCCCAAGCTGGAGCCCGGC
TCTTGGTCCAACCTAAATTTTCCCAACAAGAAACTGCCAGTGGTTAAGAA
AAGCCAGGTGGAAGAGAAGAAAAAGCAGGAGGAGAGCGATGAGGAGTTCT
TCGACCTGGATGACATTAAAGCGGAGACCAGTTTCCGTCTTTCCGAAATG
AGCATGCAAAGCCCAAACAACTTAGATTAATAAAGAAGTTGGCATTTAAT
GTTATATAAAATACACGAATTTGCCTTTGAGTAGTCGAAAAAAAAAAAAA
AAA

RE04143.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 19:39:28
Subject Length Description Subject Range Query Range Score Percent Strand
CHORD-RA 1370 CHORD-RA 105..1339 1..1235 6175 100 Plus
CG5515.b 1029 CG5515.b 926..1029 1235..1132 520 100 Minus
CG5515-RB 1077 CG5515-RB 974..1077 1235..1132 520 100 Minus
Blast to d_melanogaster_OreR.fa performed 2019-03-15 14:02:16
Subject Length Description Subject Range Query Range Score Percent Strand
chr3R 27901430 chr3R 20009924..20010475 176..727 2700 99.3 Plus
chr3R 27901430 chr3R 20010798..20011110 923..1235 1565 100 Plus
chr3R 27901430 chr3R 20010543..20010739 726..922 985 100 Plus
chr3R 27901430 chr3R 20009681..20009856 1..176 880 100 Plus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 20:27:27 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-15 14:02:14
Subject Length Description Subject Range Query Range Score Percent Strand
3R 32079331 3R 24186599..24187150 176..727 2760 100 Plus
3R 32079331 3R 24187473..24187785 923..1235 1565 100 Plus
3R 32079331 3R 24187218..24187414 726..922 985 100 Plus
3R 32079331 3R 24186365..24186540 1..176 880 100 Plus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 21:06:41
Subject Length Description Subject Range Query Range Score Percent Strand
3R 31820162 3R 23927430..23927981 176..727 2760 100 Plus
3R 31820162 3R 23928304..23928616 923..1235 1565 100 Plus
3R 31820162 3R 23928049..23928245 726..922 985 100 Plus
3R 31820162 3R 23927196..23927371 1..176 880 100 Plus
Blast to na_te.dros performed on 2019-03-15 14:02:14 has no hits.

RE04143.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-15 14:03:22 Download gff for RE04143.complete
Subject Subject Range Query Range Percent Splice Strand
chr3R 20009681..20009856 1..176 100 -> Plus
chr3R 20009925..20010475 177..727 99 -> Plus
chr3R 20010545..20010739 728..922 100 -> Plus
chr3R 20010798..20011110 923..1237 99   Plus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2008-12-08 19:48:14 Download gff for RE04143.complete
Subject Subject Range Query Range Percent Splice Strand
CHORD-RA 1..1065 116..1180 100   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 19:03:46 Download gff for RE04143.complete
Subject Subject Range Query Range Percent Splice Strand
CHORD-RA 1..1065 116..1180 100   Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 00:15:39 Download gff for RE04143.complete
Subject Subject Range Query Range Percent Splice Strand
CHORD-RA 1..1065 116..1180 100   Plus
Sim4 to dmel-all-CDS-r5.9.fasta performed 2008-07-21 19:28:24 Download gff for RE04143.complete
Subject Subject Range Query Range Percent Splice Strand
CHORD-RA 1..1065 116..1180 100   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-26 20:47:36 Download gff for RE04143.complete
Subject Subject Range Query Range Percent Splice Strand
CHORD-RA 1..1065 116..1180 100   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2008-11-10 22:31:01 Download gff for RE04143.complete
Subject Subject Range Query Range Percent Splice Strand
CHORD-RA 1..1235 1..1237 99   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 19:03:45 Download gff for RE04143.complete
Subject Subject Range Query Range Percent Splice Strand
CHORD-RA 1..1235 1..1237 99   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 00:15:39 Download gff for RE04143.complete
Subject Subject Range Query Range Percent Splice Strand
CHORD-RA 7..1241 1..1235 100   Plus
Sim4 to dmel-all-transcript-r5.9.fasta performed 2008-07-21 19:28:24 Download gff for RE04143.complete
Subject Subject Range Query Range Percent Splice Strand
CHORD-RA 1..1235 1..1237 99   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-26 20:47:36 Download gff for RE04143.complete
Subject Subject Range Query Range Percent Splice Strand
CHORD-RA 7..1241 1..1235 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-15 14:03:22 Download gff for RE04143.complete
Subject Subject Range Query Range Percent Splice Strand
3R 24186365..24186540 1..176 100 -> Plus
3R 24186600..24187150 177..727 100 -> Plus
3R 24187220..24187414 728..922 100 -> Plus
3R 24187473..24187785 923..1237 99   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-15 14:03:22 Download gff for RE04143.complete
Subject Subject Range Query Range Percent Splice Strand
3R 24186365..24186540 1..176 100 -> Plus
3R 24186600..24187150 177..727 100 -> Plus
3R 24187220..24187414 728..922 100 -> Plus
3R 24187473..24187785 923..1237 99   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-15 14:03:22 Download gff for RE04143.complete
Subject Subject Range Query Range Percent Splice Strand
3R 24186365..24186540 1..176 100 -> Plus
3R 24186600..24187150 177..727 100 -> Plus
3R 24187220..24187414 728..922 100 -> Plus
3R 24187473..24187785 923..1237 99   Plus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 00:15:39 Download gff for RE04143.complete
Subject Subject Range Query Range Percent Splice Strand
arm_3R 20012087..20012262 1..176 100 -> Plus
arm_3R 20012322..20012872 177..727 100 -> Plus
arm_3R 20012942..20013136 728..922 100 -> Plus
arm_3R 20013195..20013507 923..1237 99   Plus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 16:04:17 Download gff for RE04143.complete
Subject Subject Range Query Range Percent Splice Strand
3R 23927431..23927981 177..727 100 -> Plus
3R 23928051..23928245 728..922 100 -> Plus
3R 23928304..23928616 923..1237 99   Plus
3R 23927196..23927371 1..176 100 -> Plus

RE04143.hyp Sequence

Translation from 115 to 1179

> RE04143.hyp
MEQCYNRGCGQLFDPQTNNDESCRHHPGEPFFHDAYKGWSCCNKKSVDFT
EFLNIKGCTLAKHSNVKPPEPEKPVKDESDKDEVIEVRAPIREALPRPPI
DSPLTVIQPTVAPALKDMVFAVKTPAAQKSSDAIEVGTTCKNNGCTYSFT
GNSSDFGECTYHPGVPIFHEGMKFWSCCQKRTSDFSQFMAQKGCTYGEHK
WVKENDDKKVVQCRYDWHQTATNVVMAIYAKKYDYSQSVIELNPIRLHVN
LVFPEQDNARFDLDLELRGIVNVSNASAHMYGTKVEIKLPKLEPGSWSNL
NFPNKKLPVVKKSQVEEKKKQEESDEEFFDLDDIKAETSFRLSEMSMQSP
NNLD*

RE04143.hyp Blast Records

Blast to dmel-all-translation-r6.02.fasta performed 2014-11-28 17:29:13
Subject Length Description Subject Range Query Range Score Percent Strand
CHORD-PA 354 CG6198-PA 1..354 1..354 1928 100 Plus

RE04143.pep Sequence

Translation from 115 to 1179

> RE04143.pep
MEQCYNRGCGQLFDPQTNNDESCRHHPGEPFFHDAYKGWSCCNKKSVDFT
EFLNIKGCTLAKHSNVKPPEPEKPVKDESDKDEVIEVRAPIREALPRPPI
DSPLTVIQPTVAPALKDMVFAVKTPAAQKSSDAIEVGTTCKNNGCTYSFT
GNSSDFGECTYHPGVPIFHEGMKFWSCCQKRTSDFSQFMAQKGCTYGEHK
WVKENDDKKVVQCRYDWHQTATNVVMAIYAKKYDYSQSVIELNPIRLHVN
LVFPEQDNARFDLDLELRGIVNVSNASAHMYGTKVEIKLPKLEPGSWSNL
NFPNKKLPVVKKSQVEEKKKQEESDEEFFDLDDIKAETSFRLSEMSMQSP
NNLD*

RE04143.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-15 20:28:26
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF16113-PA 360 GF16113-PA 1..360 1..354 1605 81.2 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-15 20:28:27
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG11265-PA 353 GG11265-PA 1..353 1..352 1771 91.5 Plus
Blast to dgri-all-translation-r1.3.fasta performed 2019-03-15 20:28:28
Subject Length Description Subject Range Query Range Score Percent Strand
Dgri\GH18665-PA 364 GH18665-PA 1..364 1..354 1402 70.3 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 10:53:17
Subject Length Description Subject Range Query Range Score Percent Strand
CHORD-PA 354 CG6198-PA 1..354 1..354 1928 100 Plus
Blast to dmoj-all-translation-r1.3.fasta performed 2019-03-15 20:28:28
Subject Length Description Subject Range Query Range Score Percent Strand
Dmoj\GI24177-PA 364 GI24177-PA 1..364 1..354 1427 73.6 Plus
Blast to dper-all-translation-r1.3.fasta performed 2019-03-15 20:28:29
Subject Length Description Subject Range Query Range Score Percent Strand
Dper\GL23415-PA 366 GL23415-PA 1..366 1..354 1412 73.8 Plus
Blast to dpse-all-translation-r3.2.fasta performed 2019-03-15 20:28:29
Subject Length Description Subject Range Query Range Score Percent Strand
Dpse\GA19433-PA 365 GA19433-PA 1..365 1..354 1411 74 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-15 20:28:30
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\GM26571-PA 364 GM26571-PA 1..353 1..353 1816 94.1 Plus
Blast to dsim-all-translation-r1.4.fasta performed 2019-03-15 20:28:31
Subject Length Description Subject Range Query Range Score Percent Strand
Dsim\GD21075-PA 354 GD21075-PA 1..354 1..354 1866 96 Plus
Blast to dvir-all-translation-r1.2.fasta performed 2019-03-15 20:28:31
Subject Length Description Subject Range Query Range Score Percent Strand
Dvir\GJ14211-PA 367 GJ14211-PA 1..367 1..354 1466 72.8 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-15 20:28:32
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK11385-PA 366 GK11385-PA 1..366 1..354 1435 72.1 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-15 20:28:32
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\GE23458-PA 353 GE23458-PA 1..353 1..352 1795 92.6 Plus