Clone RE55542 Report

Search the DGRC for RE55542

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:555
Well:42
Vector:pFlc-1
Associated Gene/Transcriptyellow-e-RA
Protein status:RE55542.pep: gold
Preliminary Size:1695
Sequenced Size:1857

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
CG9792 2001-12-14 Blastp of sequenced clone
CG9792 2002-01-01 Sim4 clustering to Release 2
CG9792 2003-01-01 Sim4 clustering to Release 3
yellow-e 2008-04-29 Release 5.5 accounting
yellow-e 2008-08-15 Release 5.9 accounting
yellow-e 2008-12-18 5.12 accounting

Clone Sequence Records

RE55542.complete Sequence

1857 bp (1857 high quality bases) assembled on 2001-12-14

GenBank Submission: AY071489

> RE55542.complete
ACGCAGTCGCAAAACGGCAACCGCTACGCTCGGACGTGTCGCGCGATCAG
TAAAAAGAAAAAGAGCAGTAATTTAGGATTAAGTAAAATATAAAGCAGCC
ACTACTACTCAACAACCAGCTCCAGCAAGCTCAAAGTGTATCAAAAACCT
CCTCTTGCCATGATTCGCATCCTAGTTGGAGTGATTTGTGCGGTCCTTTG
GTCGCCGGTTAGCCAGGCTCTAACCCCTGGCTTGCAGGTGGCCAAGCAGT
GGAAACTCCTGCGCTATAACTTCGAACCTCAGGCTCCGGTCTCCGATCCT
AATTTCTATAATCCTCAAAATGTTCTCATCACCGGCCTGGCTGTTACGGA
TGATCGGATATTTGTGGCCACACCAAAGCTCTTCTCAGGAGTGCCCTCGA
CTGTGAGCTGGGTTTCCAAGGCCCAGTTTGGGGATTCCCCCACCCTGAAC
GCCTTTCCCGATTGGACATTCTCCAACACAGGACGCAGTGACTTCAACTG
CAGCGATCTCATCCTGACTTCGGTTTACCGCCTGCGTGTGGATTCCTGCA
ATCGCATTTGGCTGCTGGATGCTGGAATATCGAGATCCCTGGAGGATTAC
GAAATCACTTGCCCGCCAAAGATCTTGGTCGTGGATCTGGCGACGGATCG
AGTGGTGAGACGTATTGATTTTCCTCCGGAGGTCCTGCGAGGAGAGTCCC
TGTTCACCAACATGGTGATTGATGAGACGACGGCCAAGGGATGCGATGAT
GTGTTCGTCTATATTACCGACACCGTGGAGCCGGGAATTATTGTGTACGA
CAGTGGAAAGGACGTCACCTGGCGGGTATCCCATCCAGCCATGTATCCTG
ATCCGGACTTCGCACAGTCCGAGATTCATGAGCACCGCTTTGTTCTGATG
GATGGAGTGGTCGGTTTGACTTTCGATGAGCGCACCGGTGTGGTTTACTT
CCAGCCATTGGCCACGGATAGAGTTTTCTCCGTGCATAAGAATGTCCTGC
GTGCGGGTCCTTTGCCAGATGGCAAAATGCTGGATGTGAAGCTGGTGGGC
AAGAAGAGCTCCCAGGGCATTGGCCTCGCCGTATCCCCGTTCGACAGCAG
CCTGATCTTCAGTCCCCTGAGTGAAACAGCCATCGCCTCGTGGAATCCAA
CGACAAACCAGCAATCGGTATTGGCCTTCGATCGCGATCAGTTGCAGTTT
GTGGCCGATATCACCACCACAAAATCGGAGCCGGGTGTAATCTATGCCAT
AGCCTCGAAGTTCCATCGCTTCTTCCTCAAGAACCTGAATCCCAATGAGT
TTAACAATCGCATTGTTAGGCTAGAACTGCCCGCTGGGAACTCGCTGCTG
GGTCATCGAGTCGCCCTACCCGCACCACCCACTCACAATAGTTTGTTGAA
CTACGGCGTTTTCAATACTCACGGTCAGGCCTCGACGAATGCCCTGCAAA
CGTACTTCACCAGTCCGGCGCTGACCACGCCCTTTACGACCAAATCGCCC
TTTAAGTTCGAGACCGGCGGCATTGTCAACTATTCTGCTCGCAATCCGTT
TACCGCTTTGAATCAGGGAGAGGCCTTCCCGCCCAGCAAGGCGACCAGGG
ACAACTTCCAGCGGTCCTATTTGGACACCCTGGTGGGCACCACCTCTCCG
GCGGCCACCACCCGAGTGGTTTCGGTGCCACCCACCGCCTTCAGCGGCCG
CCACAGTGGTTACTACTATCAGCGGACCACGAGGTCGGTGGATCAGCAGT
GAAAGACAACTCGCGTACACTCTGCGTATACGCAATGCTCGCATCAGCTG
ATGTAAATATAAAATGTAAATTGAATAAATTATTTTTATGACAAAAAAAA
AAAAAAA

RE55542.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 19:42:10
Subject Length Description Subject Range Query Range Score Percent Strand
yellow-e-RA 2022 yellow-e-RA 57..1899 1..1843 9215 100 Plus
yellow-e.a 1768 yellow-e.a 70..1766 147..1843 8485 100 Plus
Blast to d_melanogaster_OreR.fa performed 2019-03-15 22:47:47
Subject Length Description Subject Range Query Range Score Percent Strand
chr3R 27901430 chr3R 9234775..9235647 1842..970 4365 100 Minus
chr3R 27901430 chr3R 9236023..9236847 971..147 4110 99.9 Minus
chr3R 27901430 chr3R 9240372..9240517 146..1 730 100 Minus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 21:03:51 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-15 22:47:45
Subject Length Description Subject Range Query Range Score Percent Strand
3R 32079331 3R 13409542..13410415 1843..970 4370 100 Minus
3R 32079331 3R 13410791..13411615 971..147 4125 100 Minus
3R 32079331 3R 13415139..13415284 146..1 730 100 Minus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 21:09:11
Subject Length Description Subject Range Query Range Score Percent Strand
3R 31820162 3R 13150373..13151246 1843..970 4370 100 Minus
3R 31820162 3R 13151622..13152446 971..147 4125 100 Minus
3R 31820162 3R 13155970..13156115 146..1 730 100 Minus
Blast to na_te.dros performed on 2019-03-15 22:47:45 has no hits.

RE55542.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-15 22:48:35 Download gff for RE55542.complete
Subject Subject Range Query Range Percent Splice Strand
chr3R 9240372..9240517 1..146 100   Minus
chr3R 9234814..9235645 972..1803 100 <- Minus
chr3R 9236023..9236847 147..971 99 <- Minus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2008-12-08 20:24:10 Download gff for RE55542.complete
Subject Subject Range Query Range Percent Splice Strand
yellow-e-RA 1..1593 160..1752 100   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 19:07:48 Download gff for RE55542.complete
Subject Subject Range Query Range Percent Splice Strand
yellow-e-RA 1..1593 160..1752 100   Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 06:32:39 Download gff for RE55542.complete
Subject Subject Range Query Range Percent Splice Strand
yellow-e-RA 1..1593 160..1752 100   Plus
Sim4 to dmel-all-CDS-r5.9.fasta performed 2008-07-21 19:32:06 Download gff for RE55542.complete
Subject Subject Range Query Range Percent Splice Strand
yellow-e-RA 1..1593 160..1752 100   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-27 01:35:13 Download gff for RE55542.complete
Subject Subject Range Query Range Percent Splice Strand
yellow-e-RA 1..1593 160..1752 100   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2008-11-10 22:36:30 Download gff for RE55542.complete
Subject Subject Range Query Range Percent Splice Strand
yellow-e-RA 1..1842 1..1842 100   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 19:07:47 Download gff for RE55542.complete
Subject Subject Range Query Range Percent Splice Strand
yellow-e-RA 1..1842 1..1842 100   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 06:32:39 Download gff for RE55542.complete
Subject Subject Range Query Range Percent Splice Strand
yellow-e-RA 1..1842 1..1842 100   Plus
Sim4 to dmel-all-transcript-r5.9.fasta performed 2008-07-21 19:32:06 Download gff for RE55542.complete
Subject Subject Range Query Range Percent Splice Strand
yellow-e-RA 1..1842 1..1842 100   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-27 01:35:13 Download gff for RE55542.complete
Subject Subject Range Query Range Percent Splice Strand
yellow-e-RA 3..1844 1..1842 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-15 22:48:35 Download gff for RE55542.complete
Subject Subject Range Query Range Percent Splice Strand
3R 13409543..13410413 972..1842 100 <- Minus
3R 13410791..13411615 147..971 100 <- Minus
3R 13415139..13415284 1..146 100   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-15 22:48:35 Download gff for RE55542.complete
Subject Subject Range Query Range Percent Splice Strand
3R 13409543..13410413 972..1842 100 <- Minus
3R 13410791..13411615 147..971 100 <- Minus
3R 13415139..13415284 1..146 100   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-15 22:48:35 Download gff for RE55542.complete
Subject Subject Range Query Range Percent Splice Strand
3R 13409543..13410413 972..1842 100 <- Minus
3R 13410791..13411615 147..971 100 <- Minus
3R 13415139..13415284 1..146 100   Minus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 06:32:39 Download gff for RE55542.complete
Subject Subject Range Query Range Percent Splice Strand
arm_3R 9235265..9236135 972..1842 100 <- Minus
arm_3R 9236513..9237337 147..971 100 <- Minus
arm_3R 9240861..9241006 1..146 100   Minus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 16:08:55 Download gff for RE55542.complete
Subject Subject Range Query Range Percent Splice Strand
3R 13150374..13151244 972..1842 100 <- Minus
3R 13151622..13152446 147..971 100 <- Minus
3R 13155970..13156115 1..146 100   Minus

RE55542.pep Sequence

Translation from 159 to 1751

> RE55542.pep
MIRILVGVICAVLWSPVSQALTPGLQVAKQWKLLRYNFEPQAPVSDPNFY
NPQNVLITGLAVTDDRIFVATPKLFSGVPSTVSWVSKAQFGDSPTLNAFP
DWTFSNTGRSDFNCSDLILTSVYRLRVDSCNRIWLLDAGISRSLEDYEIT
CPPKILVVDLATDRVVRRIDFPPEVLRGESLFTNMVIDETTAKGCDDVFV
YITDTVEPGIIVYDSGKDVTWRVSHPAMYPDPDFAQSEIHEHRFVLMDGV
VGLTFDERTGVVYFQPLATDRVFSVHKNVLRAGPLPDGKMLDVKLVGKKS
SQGIGLAVSPFDSSLIFSPLSETAIASWNPTTNQQSVLAFDRDQLQFVAD
ITTTKSEPGVIYAIASKFHRFFLKNLNPNEFNNRIVRLELPAGNSLLGHR
VALPAPPTHNSLLNYGVFNTHGQASTNALQTYFTSPALTTPFTTKSPFKF
ETGGIVNYSARNPFTALNQGEAFPPSKATRDNFQRSYLDTLVGTTSPAAT
TRVVSVPPTAFSGRHSGYYYQRTTRSVDQQ*

RE55542.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-15 20:58:19
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF17380-PA 524 GF17380-PA 1..524 1..524 2499 90.8 Plus
Dana\GF11856-PA 428 GF11856-PA 1..406 1..390 418 29.1 Plus
Dana\GF11858-PA 411 GF11858-PA 48..398 49..387 387 29.2 Plus
Dana\GF15359-PA 453 GF15359-PA 22..388 25..385 379 28.1 Plus
Dana\GF14904-PA 438 GF14904-PA 12..423 8..386 371 26.4 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-15 20:58:19
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG17050-PA 530 GG17050-PA 1..530 1..530 2649 95.3 Plus
Dere\GG16380-PA 459 GG16380-PA 38..444 14..414 416 27.3 Plus
Dere\GG22849-PA 429 GG22849-PA 79..406 66..390 402 30.4 Plus
Dere\GG22769-PA 453 GG22769-PA 14..389 17..386 371 27.2 Plus
Dere\GG22850-PA 412 GG22850-PA 1..409 1..400 369 27.1 Plus
Blast to dgri-all-translation-r1.3.fasta performed 2019-03-15 20:58:20
Subject Length Description Subject Range Query Range Score Percent Strand
Dgri\GH18542-PA 554 GH18542-PA 1..552 1..521 2052 72.7 Plus
Dgri\GH21214-PA 428 GH21214-PA 22..418 5..390 425 29.4 Plus
Dgri\GH21215-PA 446 GH21215-PA 53..424 30..390 399 28.8 Plus
Dgri\GH21216-PA 431 GH21216-PA 8..421 2..390 380 28.1 Plus
Dgri\GH23996-PA 455 GH23996-PA 46..420 25..387 368 26.2 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 10:37:31
Subject Length Description Subject Range Query Range Score Percent Strand
yellow-e-PA 530 CG9792-PA 1..530 1..530 2773 100 Plus
yellow-b-PB 453 CG17914-PB 1..389 1..386 381 27.6 Plus
yellow-b-PA 453 CG17914-PA 1..389 1..386 381 27.6 Plus
yellow-h-PA 463 CG1629-PA 53..448 25..414 378 27.1 Plus
yellow-d-PA 432 CG9889-PA 83..410 66..390 375 28.2 Plus
yellow-c-PB 438 CG4182-PB 20..423 18..386 368 27.3 Plus
yellow-c-PA 438 CG4182-PA 20..423 18..386 368 27.3 Plus
yellow-d2-PA 412 CG9891-PA 73..397 67..385 341 27.9 Plus
y-PA 541 CG3757-PA 25..391 25..385 330 26.9 Plus
yellow-f2-PA 452 CG8063-PA 86..437 41..385 312 26.8 Plus
yellow-f-PC 413 CG18550-PC 54..400 47..387 298 27.1 Plus
yellow-f-PA 429 CG18550-PA 53..416 44..387 297 26.7 Plus
yellow-f-PB 418 CG18550-PB 78..405 66..387 296 27.7 Plus
yellow-e2-PB 435 CG17044-PB 46..425 30..390 295 24.9 Plus
yellow-g2-PA 382 CG13804-PA 65..318 52..329 240 29.1 Plus
yellow-e3-PA 409 CG17045-PA 1..384 1..386 229 25.9 Plus
yellow-g-PA 393 CG5717-PA 73..370 50..371 227 28.5 Plus
Blast to dmoj-all-translation-r1.3.fasta performed 2019-03-15 20:58:21
Subject Length Description Subject Range Query Range Score Percent Strand
Dmoj\GI23241-PA 533 GI23241-PA 5..532 4..520 2105 75.3 Plus
Dmoj\GI20501-PA 443 GI20501-PA 21..421 6..390 425 29.7 Plus
Dmoj\GI13248-PA 432 GI13248-PA 1..417 1..386 392 26.8 Plus
Dmoj\GI20502-PA 429 GI20502-PA 63..416 48..387 386 30.1 Plus
Dmoj\GI17054-PA 454 GI17054-PA 23..387 25..385 360 26.1 Plus
Blast to dper-all-translation-r1.3.fasta performed 2019-03-15 20:58:21
Subject Length Description Subject Range Query Range Score Percent Strand
Dper\GL23985-PA 533 GL23985-PA 1..527 1..530 2418 86.8 Plus
Dper\GL18156-PA 466 GL18156-PA 55..457 25..429 396 26 Plus
Dper\GL17570-PA 434 GL17570-PA 40..411 30..390 393 29.9 Plus
Dper\GL17571-PA 418 GL17571-PA 35..414 36..393 381 29.8 Plus
Dper\GL26025-PA 438 GL26025-PA 4..423 2..386 373 27.2 Plus
Blast to dpse-all-translation-r3.2.fasta performed 2019-03-15 20:58:22
Subject Length Description Subject Range Query Range Score Percent Strand
Dpse\GA22039-PA 533 GA22039-PA 1..527 1..530 2420 87 Plus
Dpse\GA22103-PA 434 GA22103-PA 40..411 30..390 393 29.9 Plus
Dpse\GA27858-PA 427 GA27858-PA 16..407 25..405 390 26.4 Plus
Dpse\GA22105-PA 422 GA22105-PA 39..418 36..393 375 29.5 Plus
Dpse\GA18010-PA 438 GA18010-PA 4..423 2..386 373 27.2 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-15 20:58:23
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\GM25935-PA 530 GM25935-PA 1..530 1..530 2787 98.9 Plus
Dsec\GM16007-PA 430 GM16007-PA 81..408 66..390 400 29.3 Plus
Dsec\GM17203-PA 453 GM17203-PA 14..389 17..386 378 27.5 Plus
Dsec\GM16008-PA 412 GM16008-PA 5..399 4..387 374 27 Plus
Dsec\GM15882-PA 438 GM15882-PA 12..423 8..386 368 27.1 Plus
Blast to dsim-all-translation-r1.4.fasta performed 2019-03-15 20:58:23
Subject Length Description Subject Range Query Range Score Percent Strand
Dsim\GD20497-PA 530 GD20497-PA 1..530 1..530 2802 99.2 Plus
Dsim\GD11758-PA 432 GD11758-PA 83..410 66..390 400 29.3 Plus
Dsim\GD24079-PA 453 GD24079-PA 14..389 17..386 378 27.5 Plus
Dsim\GD11759-PA 412 GD11759-PA 5..399 4..387 369 26.7 Plus
Dsim\GD23989-PA 438 GD23989-PA 12..423 8..386 369 27.1 Plus
Blast to dvir-all-translation-r1.2.fasta performed 2019-03-15 20:58:24
Subject Length Description Subject Range Query Range Score Percent Strand
Dvir\GJ10736-PA 531 GJ10736-PA 1..531 1..521 2146 78.8 Plus
Dvir\GJ14923-PA 455 GJ14923-PA 40..425 23..392 411 27.8 Plus
Dvir\GJ22351-PA 453 GJ22351-PA 41..431 18..390 408 29 Plus
Dvir\GJ22352-PA 430 GJ22352-PA 55..417 39..387 375 29.3 Plus
Dvir\GJ11869-PA 435 GJ11869-PA 30..420 31..386 363 26.8 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-15 20:58:25
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK13342-PA 538 GK13342-PA 1..532 1..530 2359 83.2 Plus
Dwil\GK23284-PA 446 GK23284-PA 48..424 25..390 414 29.4 Plus
Dwil\GK13672-PA 468 GK13672-PA 43..431 13..387 408 28.5 Plus
Dwil\GK18310-PA 436 GK18310-PA 9..421 6..386 373 26.6 Plus
Dwil\GK18231-PA 415 GK18231-PA 6..392 5..388 371 26.9 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-15 20:58:25
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\GE24438-PA 530 GE24438-PA 1..530 1..530 2773 97.7 Plus
Dyak\GE14284-PA 430 GE14284-PA 81..408 66..390 401 29.6 Plus
Dyak\GE14541-PA 463 GE14541-PA 40..442 18..404 388 26.9 Plus
Dyak\GE12764-PA 453 GE12764-PA 14..389 17..386 378 27.5 Plus
Dyak\GE14285-PA 412 GE14285-PA 1..410 1..395 371 26.3 Plus

RE55542.hyp Sequence

Translation from 159 to 1751

> RE55542.hyp
MIRILVGVICAVLWSPVSQALTPGLQVAKQWKLLRYNFEPQAPVSDPNFY
NPQNVLITGLAVTDDRIFVATPKLFSGVPSTVSWVSKAQFGDSPTLNAFP
DWTFSNTGRSDFNCSDLILTSVYRLRVDSCNRIWLLDAGISRSLEDYEIT
CPPKILVVDLATDRVVRRIDFPPEVLRGESLFTNMVIDETTAKGCDDVFV
YITDTVEPGIIVYDSGKDVTWRVSHPAMYPDPDFAQSEIHEHRFVLMDGV
VGLTFDERTGVVYFQPLATDRVFSVHKNVLRAGPLPDGKMLDVKLVGKKS
SQGIGLAVSPFDSSLIFSPLSETAIASWNPTTNQQSVLAFDRDQLQFVAD
ITTTKSEPGVIYAIASKFHRFFLKNLNPNEFNNRIVRLELPAGNSLLGHR
VALPAPPTHNSLLNYGVFNTHGQASTNALQTYFTSPALTTPFTTKSPFKF
ETGGIVNYSARNPFTALNQGEAFPPSKATRDNFQRSYLDTLVGTTSPAAT
TRVVSVPPTAFSGRHSGYYYQRTTRSVDQQ*

RE55542.hyp Blast Records

Blast to dmel-all-translation-r6.02.fasta performed 2014-11-28 17:27:26
Subject Length Description Subject Range Query Range Score Percent Strand
yellow-e-PA 530 CG9792-PA 1..530 1..530 2773 100 Plus
yellow-b-PB 453 CG17914-PB 1..389 1..386 381 27.6 Plus
yellow-b-PA 453 CG17914-PA 1..389 1..386 381 27.6 Plus
yellow-h-PA 463 CG1629-PA 53..448 25..414 378 27.1 Plus
yellow-d-PA 432 CG9889-PA 83..410 66..390 375 28.2 Plus