Clone RT01004 Report

Search the DGRC for RT01004

Clone and Library Details

Library:RT
Tissue Source:D melanogaster pooled RNA
Created by:
Date Registered:2006-04-14
Comments:TA cloning vector from Invitrogen
Original Plate Number:10
Well:4
Vector:pCR2.1
Associated Gene/TranscriptbetaNACtes3-RA
Protein status:RT01004.pep: gold
Sequenced Size:821

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
CG32601 2006-05-19 RT target
CG32601 2008-04-29 Release 5.5 accounting

Clone Sequence Records

RT01004.complete Sequence

821 bp (821 high quality bases) assembled on 2008-07-29

GenBank Submission: BT028811

> RT01004.complete
GAAGTTATCAGTCGACATGGATTTCAAGAAGCTGAAGAAAATGGAGGAGG
CGGTGCGCATCGGCGGCAAGGGATCTATGCGCCGCAAGCACAAGAGAAAT
CCATCCCCGGCTGTGGTTGAGAAACGAGTGCAGGCCGAATTGGCCATGTT
ACCGTTGAGGAATATTGGAGAAATTCAAGAGGTGACCATCGAGTTCACCA
ATTCCAGGGAGGTTGTGTTAACCATGCCAAAGGTTCAGGGCACCCCTCCC
AATTCTTTCTTCGTGGTTAGTGGCGATCTCGTGCGCAAATCGTCAACAGC
TGGCCCATCGAAAGTGGCCAAGGCAGCCAATGCGCCCAAGGCACCCATGC
CACCTAAGCCACCCAAGCCGGAAGCTTTTTCCGACAAAAAGCCAGAATCA
GGGGAGTCCATTAAGGTGGCCAAGAAGCCCAAGAAGCCGCGCAATCGTGT
TCGTCCTCGCAACAAGAAGGTTCAAATGATGCTTTCCAAAAACAAAGAGG
AAGCAGCAATGGCTGGCGGGGATTCGGAGCCGAAGCTTAGCAATGGTAAA
TCAATTTTGATCTCCTCTGAAGATGGTAGCGATCCGAATAATGAGAAGGT
GCCATCGGATGAGTCTGATGTGGATCGGACCGTCGTCTGCGCCAAAGATT
CGCTGGGAAGTTTCGGCGATGATTCCGACGGCAAGGAGGACGATGACAGT
AAGGAGTCGATTTACCTATCTTCCTACTCCGATTACTATGATTCCGCGGA
TGAGCAGCTCAATCCGAAGACTTATCGCGCTCAGGTGTCAGAGGACGAAG
ATTAGAAGCTTTATCGACCAT

RT01004.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 21:05:44
Subject Length Description Subject Range Query Range Score Percent Strand
CG32601-RA 980 CG32601-RA 122..911 17..806 3950 100 Plus
CG32598-RA 988 CG32598-RA 122..911 17..806 3845 99.1 Plus
CG13402.a 1067 CG13402.a 98..883 17..805 2945 91.7 Plus
Blast to d_melanogaster_OreR.fa performed 2019-03-16 14:24:41
Subject Length Description Subject Range Query Range Score Percent Strand
chrX 22417052 chrX 14269558..14270347 17..806 3950 100 Plus
chrX 22417052 chrX 14206783..14207572 806..17 3860 99.2 Minus
chrX 22417052 chrX 14062239..14063024 805..17 3040 92.6 Minus
chrX 22417052 chrX 14271446..14271937 318..806 1915 93.1 Plus
chrX 22417052 chrX 14205294..14205614 806..486 1500 97.8 Minus
chrX 22417052 chrX 14271088..14271441 17..367 850 83.3 Plus
chrX 22417052 chrX 14205679..14206005 340..17 760 82.9 Minus
chrX 22417052 chrX 15466635..15466808 509..684 390 83.5 Plus
chrX 22417052 chrX 14205611..14205710 432..336 285 88 Minus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 21:39:47 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-16 14:24:39
Subject Length Description Subject Range Query Range Score Percent Strand
X 23542271 X 14378977..14379766 17..806 3950 100 Plus
X 23542271 X 14316190..14316979 806..17 3845 99.1 Minus
X 23542271 X 14171685..14172470 805..17 2935 91.8 Minus
X 23542271 X 14380865..14381356 318..806 1900 92.9 Plus
X 23542271 X 14314701..14315021 806..486 1500 97.8 Minus
X 23542271 X 14380507..14380860 17..367 850 83.3 Plus
X 23542271 X 14315096..14315412 330..17 755 83.3 Minus
X 23542271 X 15576748..15576921 509..684 390 83.5 Plus
X 23542271 X 14315018..14315117 432..336 270 87 Minus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 22:23:58
Subject Length Description Subject Range Query Range Score Percent Strand
X 23527363 X 14387075..14387864 17..806 3950 100 Plus
X 23527363 X 14324288..14325077 806..17 3845 99.1 Minus
X 23527363 X 14179783..14180568 805..17 2945 91.7 Minus
X 23527363 X 14388963..14389454 318..806 1910 92.8 Plus
X 23527363 X 14322799..14323119 806..486 1500 97.8 Minus
X 23527363 X 14388605..14388958 17..367 860 83.3 Plus
X 23527363 X 14323194..14323406 330..118 480 81.6 Minus
X 23527363 X 14323421..14323510 106..17 375 94.4 Minus
X 23527363 X 15584846..15584942 509..605 365 91.7 Plus
X 23527363 X 14323116..14323215 432..336 280 87 Minus
X 23527363 X 15584968..15585019 633..684 155 86.5 Plus
X 23527363 X 14388917..14388965 317..365 140 85.7 Plus
Blast to na_te.dros performed on 2019-03-16 14:24:39 has no hits.

RT01004.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-16 14:25:41 Download gff for RT01004.complete
Subject Subject Range Query Range Percent Splice Strand
chrX 14269558..14270352 17..814 99   Plus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2008-12-08 20:54:32 Download gff for RT01004.complete
Subject Subject Range Query Range Percent Splice Strand
CG32601-RA 1..789 17..805 100   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 21:08:17 Download gff for RT01004.complete
Subject Subject Range Query Range Percent Splice Strand
CG32601-RA 1..789 17..805 100   Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 16:35:49 Download gff for RT01004.complete
Subject Subject Range Query Range Percent Splice Strand
betaNACtes3-RA 1..789 17..805 100   Plus
Sim4 to dmel-all-CDS-r5.9.fasta performed 2008-11-04 14:48:18 Download gff for RT01004.complete
Subject Subject Range Query Range Percent Splice Strand
CG32601-RA 1..789 17..805 100   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-27 11:32:06 Download gff for RT01004.complete
Subject Subject Range Query Range Percent Splice Strand
betaNACtes3-RA 1..789 17..805 100   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2008-11-11 01:34:13 Download gff for RT01004.complete
Subject Subject Range Query Range Percent Splice Strand
CG32601-RA 47..841 17..814 99   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 21:08:17 Download gff for RT01004.complete
Subject Subject Range Query Range Percent Splice Strand
CG32601-RA 118..912 17..814 99   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 16:35:49 Download gff for RT01004.complete
Subject Subject Range Query Range Percent Splice Strand
betaNACtes3-RA 118..912 17..814 99   Plus
Sim4 to dmel-all-transcript-r5.9.fasta performed 2008-11-04 14:48:18 Download gff for RT01004.complete
Subject Subject Range Query Range Percent Splice Strand
CG32601-RA 47..841 17..814 99   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-27 11:32:06 Download gff for RT01004.complete
Subject Subject Range Query Range Percent Splice Strand
betaNACtes3-RA 118..912 17..814 99   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 14:25:41 Download gff for RT01004.complete
Subject Subject Range Query Range Percent Splice Strand
X 14378977..14379771 17..814 99   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 14:25:41 Download gff for RT01004.complete
Subject Subject Range Query Range Percent Splice Strand
X 14378977..14379771 17..814 99   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 14:25:41 Download gff for RT01004.complete
Subject Subject Range Query Range Percent Splice Strand
X 14378977..14379771 17..814 99   Plus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 16:35:49 Download gff for RT01004.complete
Subject Subject Range Query Range Percent Splice Strand
arm_X 14273010..14273804 17..814 99   Plus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 18:37:46 Download gff for RT01004.complete
Subject Subject Range Query Range Percent Splice Strand
X 14387075..14387869 17..814 99   Plus

RT01004.pep Sequence

Translation from 1 to 804

> RT01004.pep
KLSVDMDFKKLKKMEEAVRIGGKGSMRRKHKRNPSPAVVEKRVQAELAML
PLRNIGEIQEVTIEFTNSREVVLTMPKVQGTPPNSFFVVSGDLVRKSSTA
GPSKVAKAANAPKAPMPPKPPKPEAFSDKKPESGESIKVAKKPKKPRNRV
RPRNKKVQMMLSKNKEEAAMAGGDSEPKLSNGKSILISSEDGSDPNNEKV
PSDESDVDRTVVCAKDSLGSFGDDSDGKEDDDSKESIYLSSYSDYYDSAD
EQLNPKTYRAQVSEDED*

RT01004.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-15 18:14:25
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF22559-PA 538 GF22559-PA 1..303 6..254 287 35.1 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-15 18:14:25
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG17843-PA 262 GG17843-PA 1..262 6..267 614 54.7 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 10:11:44
Subject Length Description Subject Range Query Range Score Percent Strand
betaNACtes3-PA 262 CG32601-PA 1..262 6..267 1337 100 Plus
betaNACtes6-PA 262 CG32598-PA 1..262 6..267 1313 98.9 Plus
betaNACtes1-PA 261 CG13402-PA 1..261 6..267 1137 87 Plus
betaNACtes4-PA 263 CG18313-PA 1..263 6..248 945 76.4 Plus
betaNACtes2-PA 197 CG18157-PA 1..197 6..228 725 70.7 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-15 18:14:28
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\GM17676-PA 263 GM17676-PA 1..263 6..267 867 74.2 Plus
Dsec\GM17553-PA 216 GM17553-PA 1..200 6..218 668 71.5 Plus
Dsec\GM24659-PA 144 GM24659-PA 1..128 75..218 448 72.4 Plus
Blast to dsim-all-translation-r1.4.fasta performed 2019-03-15 18:14:29
Subject Length Description Subject Range Query Range Score Percent Strand
Dsim\GD17171-PA 257 GD17171-PA 1..257 6..267 897 73.9 Plus
Dsim\GD24509-PA 252 GD24509-PA 1..206 6..225 719 71.9 Plus
Dsim\GD17170-PA 252 GD17170-PA 1..206 6..225 694 72.4 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-15 18:14:30
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK10317-PA 260 GK10317-PA 5..151 10..157 191 36.8 Plus
Dwil\GK10318-PA 341 GK10318-PA 2..90 6..93 182 42.7 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-15 18:14:31
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\GE17140-PA 248 GE17140-PA 1..248 6..267 587 57 Plus

RT01004.hyp Sequence

Translation from 17 to 804

> RT01004.hyp
MDFKKLKKMEEAVRIGGKGSMRRKHKRNPSPAVVEKRVQAELAMLPLRNI
GEIQEVTIEFTNSREVVLTMPKVQGTPPNSFFVVSGDLVRKSSTAGPSKV
AKAANAPKAPMPPKPPKPEAFSDKKPESGESIKVAKKPKKPRNRVRPRNK
KVQMMLSKNKEEAAMAGGDSEPKLSNGKSILISSEDGSDPNNEKVPSDES
DVDRTVVCAKDSLGSFGDDSDGKEDDDSKESIYLSSYSDYYDSADEQLNP
KTYRAQVSEDED*

RT01004.hyp Blast Records

Blast to dmel-all-translation-r6.02.fasta performed 2014-11-28 16:33:13
Subject Length Description Subject Range Query Range Score Percent Strand
betaNACtes3-PA 262 CG32601-PA 1..262 1..262 1337 100 Plus
betaNACtes6-PA 262 CG32598-PA 1..262 1..262 1313 98.9 Plus
betaNACtes1-PA 261 CG13402-PA 1..261 1..262 1137 87 Plus
betaNACtes4-PA 263 CG18313-PA 1..263 1..243 945 76.4 Plus
betaNACtes2-PA 197 CG18157-PA 1..197 1..223 725 70.7 Plus