Clone RE35228 Report

Search the DGRC for RE35228

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:352
Well:28
Vector:pFlc-1
Associated Gene/TranscriptLint-1-RA
Protein status:RE35228.pep: gold
Preliminary Size:2052
Sequenced Size:2274

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
CG1908 2001-12-17 Blastp of sequenced clone
CG1908 2002-01-01 Sim4 clustering to Release 2
CG1908 2003-01-01 Sim4 clustering to Release 3
CG1908 2008-04-29 Release 5.5 accounting
CG1908 2008-08-15 Release 5.9 accounting
CG1908 2008-12-18 5.12 accounting

Clone Sequence Records

RE35228.complete Sequence

2274 bp (2274 high quality bases) assembled on 2001-12-17

GenBank Submission: AY071333

> RE35228.complete
ATCTATCTGGCAACGCCACCAGTTGATGCAACACATTTTTATCTTAAATT
GCGAAGTTCCTCGGCCAGATATCAGTTACGAATGTAGTGATCAATCTATC
ACATTTTCTAGCCACATTCGGTTTCAATTCCCACCCCACTCCCTTTCGAA
AATTTGCCCAAAATTCCCACAAGTGCATCAATTGCAACGCATCCGAAATC
AGTCGCGTGCGTGATTCGTACGATAACCGTCGTTATATATATAGCGTCAA
TATAATCGGAACAAGATGAGCAAGTACCATAAGGAGCGCAAGTACGCCAA
GTTCAGGTACTACATGGAGAAGTACTACGTGCTGCCGCTGGAGCTGAAGA
ACGACATCATCTACTGCCAGCGATCGCTGCGCGATTTCCTCAAGGTTCAC
GCGTTGGTCTCGGAGGTCTTCGATGAGCAGGCGGATGCGGATCCAGTGCA
GATGCGTCGCATCTTGGACGAACTGGAGGAGGAGGTGTACGAGATCAATG
CCGAGCAGCAGTTCCTTCTGCTACGCCTCAACGATAGCCTACAGGAATTC
TCCGTGAAGCTGAAGGAGAACAACATCATGTTCCTGCCGGACATCGCCCA
TGAGTACGTTTCCGCCCAGGTAGTGCCTTTGATCGTCGATCCCAACTATA
AGATTATGCCACAGTCGGTGATGGCTCGTGATACCGAGGAGATGCTTATT
CGCAAGCACTTCCTGCTGAGCCAGGACGATGATTCTGGTATGCCGCCGCT
TAAGCTCAGCGAATTGGATGAGAATATACCATTGATGCTGGCTCCGCCGG
TTAGGGGATTGGGTCAGCAGATCGCCGCCGTTAAGCCGGAGCCAGAGTGG
CTCCAAGGCGATGAGGCGACAGTATCAGTGCCACCGCCGCCGCCACAATC
GAAGTCGAAGCTGATGAAAGGGTCGCTGGATTCGACCCCGGCCAAGCGAG
AGAATATCAGCCGCAGCTCACCGCCGCCCTTGGCGCCTATAACCCAAACC
GTAGTGGCTGAGTTGTCACAAGTACCTCCATCACCACAAGCAGAATCTCC
ACCAGTAAACTTTCACGTTGTGGCCCAGAGTCGCAAGAACTTGCAGCAGG
CATTGAGAAGGGCCAGAAAGACGAAGCAGCAGCCACGTTTGTTCGACGAC
GAGGAGGACCTGGAGATCACCAGTTTGCAGAACGATCGCAACAAGAACAG
AACCAGCGATGGCAAGGGGACACCGCCATCGCTGGAGCCAACGAATGCTG
CCGCCAATCAGGCAGCCAAGAAGACCATCCCACAAATGTCTAGTCAGGGG
ATGGCGAAGAATAATACCGCGAAGAGCAAAAACACGTGCAGGAAATCCTC
GCCAACGCCCACATCCAGTGGACAGTCGCAGCCAGCGGTATCGTCATCCG
GCAGCTCCGATGATTCCAGTGCCGAGCTGCAGCAGGAGCAGCAAAGACGC
GTCGCATCCGCCGCCCAGTGGCGCGATGAGCCGCGCGAGAGCCGCACCCA
GCCGGAGGAGTACGGCCAGGAGACGTTCCTCGGCCTCTTTGAGCTCTACT
CGCCGGAGGTGCTCAAGAAGCTCAGTCAGCGCCACTCGAAGCGCAAGCGT
CGCACCGTTCAGAATGCCAGCGGAGTGGATTTTCACTATGGCCAGCAGTT
GAATGCCGTGGACGCGTTAGTCATGGGCGTTCGTGGTCAGAAGAAGACCA
AGGAGAAGTCCGAATTCCTGCTCTCGCCGACGGAAAAACGTTTGCAGGCC
AACTCGAAGAGGACGTACACACGCAAGAGCAAGTCGCCGGACGAGATTTC
GGAGAAGAGCAGCGCAGGAGGAGGATCTGGCGCATCGGGAACTGCGTCTT
CATCAGCCTGTCAGCATAAAGACGGCGGTGCCTCCAAGTGCCGCAAATGC
CGCGAGTGCCGTGAATGCAAACGTCGTGTGGAAACCGAAGCGATGTACTG
CCACTTGTGCAGCGGATTATACCACATGGACTGCCACGAGTTCACCAAAA
ATCGCCAGCTGATGCAGCTGCAGAACTCTCGCTGCCCCCCATGCTTGCGC
GAAAAAGATAAGTTGGAGAAGTAGTGCGTTGCCAAGTGAGCCATTGATGT
TAAATGTTTCTCATTCTTGCATAAAGGATTGTATATATTTGAATCAACCC
TAGTTGGTATGCTGAGTTCGTGTTTTTATATTAAAATTTATTATTACTTA
AATGATTATATGATTATATAAATGATTATTATATTCTTATTTTATAAATA
TACTAATTAAAAAAAAAAAAAAAA

RE35228.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 19:35:23
Subject Length Description Subject Range Query Range Score Percent Strand
CG1908-RA 2446 CG1908-RA 127..2388 1..2262 11295 99.9 Plus
CG1908.d 2320 CG1908.d 471..2296 437..2262 9130 100 Plus
CG1908.a 2179 CG1908.a 333..2155 440..2262 9115 100 Plus
CG1908.d 2320 CG1908.d 71..473 1..403 2000 99.7 Plus
CG1908.a 2179 CG1908.a 1..179 262..440 895 100 Plus
Blast to d_melanogaster_OreR.fa performed 2019-03-15 20:15:53
Subject Length Description Subject Range Query Range Score Percent Strand
chrX 22417052 chrX 11041884..11043376 439..1931 7225 98.9 Plus
chrX 22417052 chrX 11040699..11041101 1..403 1970 99.3 Plus
chrX 22417052 chrX 11043490..11043817 1931..2258 1610 99.4 Plus
chrU 10048995 chrU 3540677..3540732 2155..2210 250 96.4 Plus
chr2LHet 368865 chr2LHet 133032..133087 2155..2210 250 96.4 Plus
chr3L 24539361 chr3L 24519425..24519481 2155..2211 240 94.7 Plus
chr3LHet 2555433 chr3LHet 379714..379769 2210..2155 235 94.6 Minus
chr3L 24539361 chr3L 23585676..23585731 2155..2210 220 92.9 Plus
chr3L 24539361 chr3L 23724690..23724745 2210..2155 220 92.9 Minus
chr3LHet 2555433 chr3LHet 2392834..2392889 2155..2210 220 92.9 Plus
chr2RHet 3288813 chr2RHet 466267..466322 2210..2155 220 92.9 Minus
chrX 22417052 chrX 11041174..11041211 403..440 190 100 Plus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 20:51:40 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-15 20:15:51
Subject Length Description Subject Range Query Range Score Percent Strand
X 23542271 X 11150635..11152127 439..1931 7465 100 Plus
X 23542271 X 11149449..11149851 1..403 2000 99.8 Plus
X 23542271 X 11152237..11152568 1931..2262 1660 100 Plus
2L 23513712 2L 23246425..23246480 2155..2210 250 96.4 Plus
2L 23513712 2L 23262230..23262285 2155..2210 250 96.4 Plus
2L 23513712 2L 23277500..23277555 2155..2210 250 96.4 Plus
3L 28110227 3L 24530520..24530576 2155..2211 240 94.7 Plus
3L 28110227 3L 24896384..24896439 2210..2155 235 94.6 Minus
3L 28110227 3L 23596764..23596819 2155..2210 220 92.9 Plus
3L 28110227 3L 23735784..23735839 2210..2155 220 92.9 Minus
3L 28110227 3L 27262336..27262391 2155..2210 220 92.9 Plus
2R 25286936 2R 1339572..1339627 2210..2155 220 92.9 Minus
X 23542271 X 11149924..11149961 403..440 190 100 Plus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 21:03:08
Subject Length Description Subject Range Query Range Score Percent Strand
X 23527363 X 11158733..11160225 439..1931 7465 100 Plus
X 23527363 X 11157547..11157949 1..403 2000 99.7 Plus
X 23527363 X 11160335..11160666 1931..2262 1660 100 Plus
2L 23513712 2L 23277500..23277555 2155..2210 250 96.4 Plus
2L 23513712 2L 23262230..23262285 2155..2210 250 96.4 Plus
2L 23513712 2L 23246425..23246480 2155..2210 250 96.4 Plus
3L 28103327 3L 24523620..24523676 2155..2211 240 94.7 Plus
3L 28103327 3L 24889484..24889539 2210..2155 235 94.6 Minus
3L 28103327 3L 27255436..27255491 2155..2210 220 92.8 Plus
3L 28103327 3L 23589864..23589919 2155..2210 220 92.8 Plus
3L 28103327 3L 23728884..23728939 2210..2155 220 92.8 Minus
2R 25260384 2R 1339572..1339627 2210..2155 220 92.8 Minus
X 23527363 X 11158022..11158059 403..440 190 100 Plus
2R 25260384 2R 4618879..4618932 2157..2210 180 88.8 Plus
2R 25260384 2R 4618934..4618964 2228..2258 155 100 Plus
2R 25260384 2R 1339540..1339570 2258..2228 155 100 Minus
3L 28103327 3L 24523676..24523707 2227..2258 145 96.8 Plus
Blast to na_te.dros performed on 2019-03-15 20:15:51 has no hits.

RE35228.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-15 20:16:35 Download gff for RE35228.complete
Subject Subject Range Query Range Percent Splice Strand
chrX 11040699..11041101 1..403 99 -> Plus
chrX 11041175..11041210 404..439 100 -> Plus
chrX 11041885..11043376 440..1931 98 -> Plus
chrX 11043491..11043728 1932..2169 99 -> Plus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2008-12-08 20:11:45 Download gff for RE35228.complete
Subject Subject Range Query Range Percent Splice Strand
CG1908-RA 1..1809 266..2074 100   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 18:58:02 Download gff for RE35228.complete
Subject Subject Range Query Range Percent Splice Strand
CG1908-RA 1..1809 266..2074 100   Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 05:10:00 Download gff for RE35228.complete
Subject Subject Range Query Range Percent Splice Strand
Lint-1-RA 1..1809 266..2074 100   Plus
Sim4 to dmel-all-CDS-r5.9.fasta performed 2008-07-21 19:22:46 Download gff for RE35228.complete
Subject Subject Range Query Range Percent Splice Strand
CG1908-RA 1..1809 266..2074 100   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-26 22:18:58 Download gff for RE35228.complete
Subject Subject Range Query Range Percent Splice Strand
Lint-1-RA 1..1809 266..2074 100   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2008-11-10 22:22:53 Download gff for RE35228.complete
Subject Subject Range Query Range Percent Splice Strand
CG1908-RA 1..2258 1..2258 99   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 18:58:02 Download gff for RE35228.complete
Subject Subject Range Query Range Percent Splice Strand
CG1908-RA 1..2258 1..2258 99   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 05:10:00 Download gff for RE35228.complete
Subject Subject Range Query Range Percent Splice Strand
Lint-1-RA 6..2263 1..2258 99   Plus
Sim4 to dmel-all-transcript-r5.9.fasta performed 2008-07-21 19:22:46 Download gff for RE35228.complete
Subject Subject Range Query Range Percent Splice Strand
CG1908-RA 1..2258 1..2258 99   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-26 22:18:58 Download gff for RE35228.complete
Subject Subject Range Query Range Percent Splice Strand
Lint-1-RA 6..2263 1..2258 99   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-15 20:16:35 Download gff for RE35228.complete
Subject Subject Range Query Range Percent Splice Strand
X 11149449..11149851 1..403 99 -> Plus
X 11149925..11149960 404..439 100 -> Plus
X 11150636..11152127 440..1931 100 -> Plus
X 11152238..11152564 1932..2258 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-15 20:16:35 Download gff for RE35228.complete
Subject Subject Range Query Range Percent Splice Strand
X 11149449..11149851 1..403 99 -> Plus
X 11149925..11149960 404..439 100 -> Plus
X 11150636..11152127 440..1931 100 -> Plus
X 11152238..11152564 1932..2258 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-15 20:16:35 Download gff for RE35228.complete
Subject Subject Range Query Range Percent Splice Strand
X 11149449..11149851 1..403 99 -> Plus
X 11149925..11149960 404..439 100 -> Plus
X 11150636..11152127 440..1931 100 -> Plus
X 11152238..11152564 1932..2258 100   Plus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 05:10:00 Download gff for RE35228.complete
Subject Subject Range Query Range Percent Splice Strand
arm_X 11043482..11043884 1..403 99 -> Plus
arm_X 11043958..11043993 404..439 100 -> Plus
arm_X 11044669..11046160 440..1931 100 -> Plus
arm_X 11046271..11046597 1932..2258 100   Plus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 15:57:47 Download gff for RE35228.complete
Subject Subject Range Query Range Percent Splice Strand
X 11157547..11157949 1..403 99 -> Plus
X 11158023..11158058 404..439 100 -> Plus
X 11158734..11160225 440..1931 100 -> Plus
X 11160336..11160662 1932..2258 100   Plus

RE35228.hyp Sequence

Translation from 265 to 2073

> RE35228.hyp
MSKYHKERKYAKFRYYMEKYYVLPLELKNDIIYCQRSLRDFLKVHALVSE
VFDEQADADPVQMRRILDELEEEVYEINAEQQFLLLRLNDSLQEFSVKLK
ENNIMFLPDIAHEYVSAQVVPLIVDPNYKIMPQSVMARDTEEMLIRKHFL
LSQDDDSGMPPLKLSELDENIPLMLAPPVRGLGQQIAAVKPEPEWLQGDE
ATVSVPPPPPQSKSKLMKGSLDSTPAKRENISRSSPPPLAPITQTVVAEL
SQVPPSPQAESPPVNFHVVAQSRKNLQQALRRARKTKQQPRLFDDEEDLE
ITSLQNDRNKNRTSDGKGTPPSLEPTNAAANQAAKKTIPQMSSQGMAKNN
TAKSKNTCRKSSPTPTSSGQSQPAVSSSGSSDDSSAELQQEQQRRVASAA
QWRDEPRESRTQPEEYGQETFLGLFELYSPEVLKKLSQRHSKRKRRTVQN
ASGVDFHYGQQLNAVDALVMGVRGQKKTKEKSEFLLSPTEKRLQANSKRT
YTRKSKSPDEISEKSSAGGGSGASGTASSSACQHKDGGASKCRKCRECRE
CKRRVETEAMYCHLCSGLYHMDCHEFTKNRQLMQLQNSRCPPCLREKDKL
EK*

RE35228.hyp Blast Records

Blast to dmel-all-translation-r6.02.fasta performed 2014-11-28 16:42:49
Subject Length Description Subject Range Query Range Score Percent Strand
Lint-1-PE 602 CG1908-PE 1..602 1..602 3109 100 Plus
Lint-1-PA 602 CG1908-PA 1..602 1..602 3109 100 Plus
Lint-1-PD 540 CG1908-PD 1..540 63..602 2782 100 Plus
Lint-1-PC 540 CG1908-PC 1..540 63..602 2782 100 Plus

RE35228.pep Sequence

Translation from 265 to 2073

> RE35228.pep
MSKYHKERKYAKFRYYMEKYYVLPLELKNDIIYCQRSLRDFLKVHALVSE
VFDEQADADPVQMRRILDELEEEVYEINAEQQFLLLRLNDSLQEFSVKLK
ENNIMFLPDIAHEYVSAQVVPLIVDPNYKIMPQSVMARDTEEMLIRKHFL
LSQDDDSGMPPLKLSELDENIPLMLAPPVRGLGQQIAAVKPEPEWLQGDE
ATVSVPPPPPQSKSKLMKGSLDSTPAKRENISRSSPPPLAPITQTVVAEL
SQVPPSPQAESPPVNFHVVAQSRKNLQQALRRARKTKQQPRLFDDEEDLE
ITSLQNDRNKNRTSDGKGTPPSLEPTNAAANQAAKKTIPQMSSQGMAKNN
TAKSKNTCRKSSPTPTSSGQSQPAVSSSGSSDDSSAELQQEQQRRVASAA
QWRDEPRESRTQPEEYGQETFLGLFELYSPEVLKKLSQRHSKRKRRTVQN
ASGVDFHYGQQLNAVDALVMGVRGQKKTKEKSEFLLSPTEKRLQANSKRT
YTRKSKSPDEISEKSSAGGGSGASGTASSSACQHKDGGASKCRKCRECRE
CKRRVETEAMYCHLCSGLYHMDCHEFTKNRQLMQLQNSRCPPCLREKDKL
EK*

RE35228.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-16 03:04:01
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF22586-PA 600 GF22586-PA 4..588 10..595 1723 62 Plus
Dana\GF25297-PA 276 GF25297-PA 38..191 13..164 293 39.7 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-16 03:04:02
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG18396-PA 603 GG18396-PA 1..603 1..602 2284 79 Plus
Dere\GG15536-PA 278 GG15536-PA 42..180 13..151 300 41.8 Plus
Blast to dgri-all-translation-r1.3.fasta performed 2019-03-16 03:04:03
Subject Length Description Subject Range Query Range Score Percent Strand
Dgri\GH12507-PA 692 GH12507-PA 38..200 13..176 632 68.9 Plus
Dgri\GH12507-PA 692 GH12507-PA 528..678 369..513 392 60.3 Plus
Dgri\GH16720-PA 503 GH16720-PA 239..389 13..163 242 32.7 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 10:11:59
Subject Length Description Subject Range Query Range Score Percent Strand
Lint-1-PE 602 CG1908-PE 1..602 1..602 3109 100 Plus
Lint-1-PA 602 CG1908-PA 1..602 1..602 3109 100 Plus
Lint-1-PD 540 CG1908-PD 1..540 63..602 2782 100 Plus
Lint-1-PC 540 CG1908-PC 1..540 63..602 2782 100 Plus
Blast to dmoj-all-translation-r1.3.fasta performed 2019-03-16 03:04:04
Subject Length Description Subject Range Query Range Score Percent Strand
Dmoj\GI14860-PA 613 GI14860-PA 16..600 13..596 1169 46 Plus
Blast to dper-all-translation-r1.3.fasta performed 2019-03-16 03:04:05
Subject Length Description Subject Range Query Range Score Percent Strand
Dper\GL20251-PA 629 GL20251-PA 14..625 8..594 1230 46.6 Plus
Dper\GL25101-PA 261 GL25101-PA 38..186 13..164 271 37.5 Plus
Blast to dpse-all-translation-r3.2.fasta performed 2019-03-16 03:04:06
Subject Length Description Subject Range Query Range Score Percent Strand
Dpse\GA15124-PA 653 GA15124-PA 14..627 8..596 1241 47.8 Plus
Dpse\GA23681-PA 261 GA23681-PA 38..186 13..164 271 37.5 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-16 03:04:07
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\GM11462-PA 602 GM11462-PA 1..602 1..602 2706 92 Plus
Blast to dvir-all-translation-r1.2.fasta performed 2019-03-16 03:04:09
Subject Length Description Subject Range Query Range Score Percent Strand
Dvir\GJ19523-PA 691 GJ19523-PA 18..207 13..202 663 64.9 Plus
Dvir\GJ19523-PA 691 GJ19523-PA 478..678 387..596 498 50.2 Plus
Dvir\GJ11669-PA 303 GJ11669-PA 38..179 13..154 289 40.1 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-16 03:04:10
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK25209-PA 626 GK25209-PA 32..598 8..546 1163 47.6 Plus
Dwil\GK25211-PA 292 GK25211-PA 38..177 13..152 269 37.9 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-16 03:04:11
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\GE15914-PA 601 GE15914-PA 1..601 1..602 2343 79.4 Plus
Dyak\GE21856-PA 279 GE21856-PA 42..180 13..151 306 42.7 Plus