Clone RE28720 Report

Search the DGRC for RE28720

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:287
Well:20
Vector:pFlc-1
Associated Gene/TranscriptCG12643-RA
Protein status:RE28720.pep: gold
Sequenced Size:1080

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
CG12643 2002-01-01 Sim4 clustering to Release 2
CG12643 2003-01-01 Sim4 clustering to Release 3
CG12643 2008-04-29 Stopped prior to 5.5
CG12643-RA 2009-01-21 est gleaning

Clone Sequence Records

RE28720.complete Sequence

1080 bp assembled on 2009-06-05

GenBank Submission: BT088771.1

> RE28720.complete
AGTTCGCATCGAGACTCCGAACAGAGCGGCAGTCGCTCCAGTTGCAGTTG
CAGATAGAGATACAAATACAGATACAACTACAGATATAGATACAGACTTA
AGCGGATCGAGGCTACATATACAAAATATAGCTTCTTTGGCCAACTATAA
ACCACAACCAGTGCAAGAAAAAGAAGTGCGAAAATGCCGTTCCCCATCCA
TCCGCCCAAGCAGATGCCCTGCCCCCACTGGCAGCACTTCCCCATCAGTC
CCGTGGACAGTAAGCCGAATCCATTCGATTCCGTCGGCGGAGCGGCAGCA
GCGGCCACCCAGGTCAACATAGGGGTTAACAAGCCACCGGAGCCGGTATC
CTATCGCTATTGTTTGCAGTGCAAGAACTCCGGCAAGGAGCCAATAAACC
CCGCCGACAGGGAGTAGCCCCAAAACCATGGAGGTGACCCATCAATCCAC
ACAATCAGCCATCACCTGTAATCAGCCACTTCAATAGAGGACGCACTTGG
AGAGCCAATTGAAACGGGAAATAATCATAAAAATCACCGAACACAGTTTT
GAATTCAAGAGACAAACACATGTTTCCTTTATCAAACCATTTTTTCTGTG
CTGCTACTCATATTTTTCTATTCAAAAGGATCTGAATTTAAAGGTTACAC
ATAAAACGATATAATAATATTCAGTTGAATGTGAATAACCGGTCAGACAT
TATTTTAAAGTCATTTAAATGCACCATTGGTCTACTAAAAGCAGGCCAGA
AAGTAACTATGTATAAGCAGGCATTTGATAATTTAATATCAGGTCCAAAC
GCAGCCCAATTTTTTTCTGTGTTGTTATTATTTAACCTAAACTAAGCACA
TGTTCCATTCATTTTTTTGTTGCCCATTTAAGCAGTGTTTTTTTCGATAT
AATTAAGCTAAGCATTTTGTACGTATTTAATTTGTATTTAGAGCTAAAGA
CTACAGTTTATACATTTTATGAATTTTTTTTATATATTTGTATAAGAGAA
GAGCAAATAAACGCACGACGCATTTTAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAGAAAAAAAAAAAAAAAA

RE28720.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 21:31:19
Subject Length Description Subject Range Query Range Score Percent Strand
CG12643-RA 1034 CG12643-RA 1..1031 1..1031 5140 99.9 Plus
Blast to d_melanogaster_OreR.fa performed 2019-03-16 04:17:03
Subject Length Description Subject Range Query Range Score Percent Strand
chrX 22417052 chrX 10155808..10156841 1031..1 4975 99.4 Minus
chrX 22417052 chrX 15846176..15846233 96..39 185 87.9 Minus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 20:47:07 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-16 04:17:01
Subject Length Description Subject Range Query Range Score Percent Strand
X 23542271 X 10264227..10265257 1031..1 5140 99.9 Minus
X 23542271 X 15956333..15956390 96..39 185 87.9 Minus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 22:47:45
Subject Length Description Subject Range Query Range Score Percent Strand
X 23527363 X 10272325..10273355 1031..1 5140 99.9 Minus
Blast to na_te.dros performed on 2019-03-16 04:17:02 has no hits.

RE28720.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-16 04:17:46 Download gff for RE28720.complete
Subject Subject Range Query Range Percent Splice Strand
chrX 10155813..10156841 1..1026 99   Minus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2009-10-19 18:09:58 Download gff for RE28720.complete
Subject Subject Range Query Range Percent Splice Strand
CG12643-RA 1..234 184..417 100   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 21:46:54 Download gff for RE28720.complete
Subject Subject Range Query Range Percent Splice Strand
CG12643-RA 1..234 184..417 100   Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 07:24:39 Download gff for RE28720.complete
Subject Subject Range Query Range Percent Splice Strand
CG12643-RA 1..234 184..417 100   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-27 05:34:32 Download gff for RE28720.complete
Subject Subject Range Query Range Percent Splice Strand
CG12643-RA 1..234 184..417 100   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2009-06-05 11:24:04 Download gff for RE28720.complete
Subject Subject Range Query Range Percent Splice Strand
CG12643-RA 1..1025 1..1026 99   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 21:46:53 Download gff for RE28720.complete
Subject Subject Range Query Range Percent Splice Strand
CG12643-RA 1..1025 1..1026 99   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 07:24:39 Download gff for RE28720.complete
Subject Subject Range Query Range Percent Splice Strand
CG12643-RA 7..1031 1..1025 100   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-27 05:34:32 Download gff for RE28720.complete
Subject Subject Range Query Range Percent Splice Strand
CG12643-RA 7..1031 1..1025 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 04:17:46 Download gff for RE28720.complete
Subject Subject Range Query Range Percent Splice Strand
X 10264232..10265257 1..1026 99   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 04:17:46 Download gff for RE28720.complete
Subject Subject Range Query Range Percent Splice Strand
X 10264232..10265257 1..1026 99   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 04:17:46 Download gff for RE28720.complete
Subject Subject Range Query Range Percent Splice Strand
X 10264232..10265257 1..1026 99   Minus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 07:24:39 Download gff for RE28720.complete
Subject Subject Range Query Range Percent Splice Strand
arm_X 10158265..10159290 1..1026 99   Minus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 19:22:17 Download gff for RE28720.complete
Subject Subject Range Query Range Percent Splice Strand
X 10272330..10273355 1..1026 99   Minus

RE28720.hyp Sequence

Translation from 0 to 321

> RE28720.hyp
VRIETPNRAAVAPVAVADRDTNTDTTTDIDTDLSGSRLHIQNIASLANYK
PQPVQEKEVRKCRSPSIRPSRCPAPTGSTSPSVPWTVSRIHSIPSAERQQ
RPPRST*
Sequence RE28720.hyp has no blast hits.

RE28720.pep Sequence

Translation from 183 to 416

> RE28720.pep
MPFPIHPPKQMPCPHWQHFPISPVDSKPNPFDSVGGAAAAATQVNIGVNK
PPEPVSYRYCLQCKNSGKEPINPADRE*

RE28720.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-16 18:08:36
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF22634-PA 78 GF22634-PA 1..78 1..77 271 81 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-16 18:08:37
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG18935-PA 77 GG18935-PA 1..77 1..77 396 98.7 Plus
Blast to dgri-all-translation-r1.3.fasta performed 2019-03-16 18:08:37
Subject Length Description Subject Range Query Range Score Percent Strand
Dgri\GH17782-PA 71 GH17782-PA 1..71 1..77 266 67.5 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 10:48:06
Subject Length Description Subject Range Query Range Score Percent Strand
CG12643-PA 77 CG12643-PA 1..77 1..77 440 100 Plus
Blast to dmoj-all-translation-r1.3.fasta performed 2019-03-16 18:08:38
Subject Length Description Subject Range Query Range Score Percent Strand
Dmoj\GI15127-PA 80 GI15127-PA 1..73 1..69 226 64.4 Plus
Blast to dper-all-translation-r1.3.fasta performed 2019-03-16 18:08:38
Subject Length Description Subject Range Query Range Score Percent Strand
Dper\GL15937-PA 76 GL15937-PA 1..76 1..77 273 77.9 Plus
Blast to dpse-all-translation-r3.2.fasta performed 2019-03-16 18:08:39
Subject Length Description Subject Range Query Range Score Percent Strand
Dpse\GA11736-PA 75 GA11736-PA 1..75 1..77 261 74 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-16 18:08:39
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\GM11327-PA 77 GM11327-PA 1..77 1..77 398 98.7 Plus
Blast to dsim-all-translation-r1.4.fasta performed 2019-03-16 18:08:40
Subject Length Description Subject Range Query Range Score Percent Strand
Dsim\GD24647-PA 77 GD24647-PA 1..77 1..77 398 98.7 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-16 18:08:41
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK25497-PA 77 GK25497-PA 1..68 1..67 253 80.9 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-16 18:08:41
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\GE15406-PA 77 GE15406-PA 1..77 1..77 394 97.4 Plus