Clone RT01008 Report

Search the DGRC for RT01008

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:8
Vector:pCR2.1
Associated Gene/TranscriptCG9879-RA
Protein status:RT01008.pep: gold
Sequenced Size:1028

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
CG9879 2006-05-19 RT target
CG9879 2008-04-29 Release 5.5 accounting
CG9879 2008-08-15 Release 5.9 accounting
CG9879 2008-12-18 5.12 accounting

Clone Sequence Records

RT01008.complete Sequence

1028 bp (1028 high quality bases) assembled on 2008-07-29

GenBank Submission: BT028812

> RT01008.complete
GAAGTTATCAGTCGACATGGATTCCGTGATCAAAAGGTTTAAGGCGCTAA
ACCACGGGGATGACTATGAGGAAAATGACGCACGATTTGATGGGGTCAAG
TTGAAGGAAGGGACGTCAGCTAAACTATCCAGTCTGGATAAACTTTTTGA
AGAACTCAAAATAAGTAAAGAAAGTTCAGCAAAAGAAGATTTGGTCACGG
AGCCGATGAAGACGGAGAGTTACCTTTATAAGGATTACTTTAACAAGAGT
CCCATCGATTTCCCGTGGGAGAAGGCCTATGAGAAGGGCAGTTCCCTGGG
ACCCGACTTTTACATCGACTATGAGAACATCTTCGACAATGTGGCCAATC
TTGCCGAAATAGAAGAAAAACTGGAATTGCACTTCAGACCCTTTACCTGT
GTAATGGACTTCAACTGCCGTTTCAGTATGTACGAACTGTGCCTGCTGTT
GGCCGAATCCCGATTCGATCCAAGTAGTCATCCCTCCGTGGTCGTGAAGA
TCACCCATCCCTCTGCCCAGGTGAAGATCCATGCGGGTGGAAAGATTTCC
TCCACCGCCTTGAACGCCGATTCTGCCAGAAGTGGTCTGTTCAAGGTGAT
CAGGATCCTGCAGGATCTCGACTATAAGGTGGACATCATGAACTTCAGCA
AGAACATCGTGAATGCCTCCTTCAGCATGCCATTCAAAATCGATTTGGAT
CTGATGAGCCGCCGCCATGTGGTCGAGGTGGCCCAGAACAGGAGCCGGCG
ACCCTTTATCACATACACCACCGAGAATTTGGGCGTGAGATTTGCCGTCT
TTCCCACAGGATTCGTTTTGGTCCTTCACTCGACCAGTCACTGCGAGACA
CGAGAGGCTATAGCCAACTTCCTGCCGATCCTGGCCAAACTCAAGAATGG
ATATCCCACGGCAGAGGAGAAACTTGGACAACTGGTAGGGGATATTTCCT
ACAAGTTGTTTTGGGAAAAGCAATTGGAAGACGACAAGGAGGGCATGTTG
CTTTACTCTTAAAAGCTTTATCGACCAT

RT01008.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 21:05:12
Subject Length Description Subject Range Query Range Score Percent Strand
CG9879-RA 1147 CG9879-RA 82..1077 17..1012 4965 99.8 Plus
Blast to d_melanogaster_OreR.fa performed 2019-03-16 02:41:15
Subject Length Description Subject Range Query Range Score Percent Strand
chr2L 23010047 chr2L 2665047..2665986 73..1012 4610 99.4 Plus
chr2L 23010047 chr2L 2664934..2664989 17..72 280 100 Plus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 21:39:48 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-16 02:41:13
Subject Length Description Subject Range Query Range Score Percent Strand
2L 23513712 2L 2665256..2666195 73..1012 4685 99.9 Plus
2L 23513712 2L 2665143..2665198 17..72 280 100 Plus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 22:23:30
Subject Length Description Subject Range Query Range Score Percent Strand
2L 23513712 2L 2665256..2666195 73..1012 4685 99.8 Plus
2L 23513712 2L 2665143..2665198 17..72 280 100 Plus
Blast to na_te.dros performed 2019-03-16 02:41:13
Subject Length Description Subject Range Query Range Score Percent Strand
rooA 7621 rooA ROOA_LTR 7621bp 6973..7035 690..629 114 66.7 Minus

RT01008.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-16 02:42:00 Download gff for RT01008.complete
Subject Subject Range Query Range Percent Splice Strand
chr2L 2664930..2664989 12..72 96 -> Plus
chr2L 2665047..2665986 73..1012 99   Plus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2008-12-08 20:54:34 Download gff for RT01008.complete
Subject Subject Range Query Range Percent Splice Strand
CG9879-RA 1..996 17..1012 99   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 21:07:27 Download gff for RT01008.complete
Subject Subject Range Query Range Percent Splice Strand
CG9879-RA 1..996 17..1012 99   Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 07:21:39 Download gff for RT01008.complete
Subject Subject Range Query Range Percent Splice Strand
CG9879-RA 1..996 17..1012 99   Plus
Sim4 to dmel-all-CDS-r5.9.fasta performed 2008-11-04 14:47:30 Download gff for RT01008.complete
Subject Subject Range Query Range Percent Splice Strand
CG9879-RA 1..996 17..1012 99   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-27 05:16:53 Download gff for RT01008.complete
Subject Subject Range Query Range Percent Splice Strand
CG9879-RA 1..996 17..1012 99   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2008-11-11 01:32:39 Download gff for RT01008.complete
Subject Subject Range Query Range Percent Splice Strand
CG9879-RA 30..1029 12..1012 99   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 21:07:27 Download gff for RT01008.complete
Subject Subject Range Query Range Percent Splice Strand
CG9879-RA 30..1029 12..1012 99   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 07:21:39 Download gff for RT01008.complete
Subject Subject Range Query Range Percent Splice Strand
CG9879-RA 78..1077 12..1012 99   Plus
Sim4 to dmel-all-transcript-r5.9.fasta performed 2008-11-04 14:47:30 Download gff for RT01008.complete
Subject Subject Range Query Range Percent Splice Strand
CG9879-RA 30..1029 12..1012 99   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-27 05:16:53 Download gff for RT01008.complete
Subject Subject Range Query Range Percent Splice Strand
CG9879-RA 78..1077 12..1012 99   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 02:42:00 Download gff for RT01008.complete
Subject Subject Range Query Range Percent Splice Strand
2L 2665139..2665198 12..72 96 -> Plus
2L 2665256..2666195 73..1012 99   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 02:42:00 Download gff for RT01008.complete
Subject Subject Range Query Range Percent Splice Strand
2L 2665139..2665198 12..72 96 -> Plus
2L 2665256..2666195 73..1012 99   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 02:42:00 Download gff for RT01008.complete
Subject Subject Range Query Range Percent Splice Strand
2L 2665139..2665198 12..72 96 -> Plus
2L 2665256..2666195 73..1012 99   Plus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 07:21:39 Download gff for RT01008.complete
Subject Subject Range Query Range Percent Splice Strand
arm_2L 2665139..2665198 12..72 96 -> Plus
arm_2L 2665256..2666195 73..1012 99   Plus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 18:36:44 Download gff for RT01008.complete
Subject Subject Range Query Range Percent Splice Strand
2L 2665256..2666195 73..1012 99   Plus
2L 2665139..2665198 12..72 96 -> Plus

RT01008.pep Sequence

Translation from 1 to 1011

> RT01008.pep
KLSVDMDSVIKRFKALNHGDDYEENDARFDGVKLKEGTSAKLSSLDKLFE
ELKISKESSAKEDLVTEPMKTESYLYKDYFNKSPIDFPWEKAYEKGSSLG
PDFYIDYENIFDNVANLAEIEEKLELHFRPFTCVMDFNCRFSMYELCLLL
AESRFDPSSHPSVVVKITHPSAQVKIHAGGKISSTALNADSARSGLFKVI
RILQDLDYKVDIMNFSKNIVNASFSMPFKIDLDLMSRRHVVEVAQNRSRR
PFITYTTENLGVRFAVFPTGFVLVLHSTSHCETREAIANFLPILAKLKNG
YPTAEEKLGQLVGDISYKLFWEKQLEDDKEGMLLYS*

RT01008.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-15 18:03:43
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF13882-PA 327 GF13882-PA 1..327 6..336 887 52.1 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-15 18:03:43
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG24871-PA 334 GG24871-PA 1..334 6..336 1461 81.5 Plus
Dere\GG24500-PA 251 GG24500-PA 23..246 106..330 357 35 Plus
Blast to dgri-all-translation-r1.3.fasta performed 2019-03-15 18:03:43
Subject Length Description Subject Range Query Range Score Percent Strand
Dgri\GH11160-PA 371 GH11160-PA 136..371 101..336 765 56.4 Plus
Dgri\GH23390-PA 259 GH23390-PA 27..252 106..326 331 29.8 Plus
Dgri\GH10573-PA 149 GH10573-PA 27..129 106..208 156 26.2 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 11:24:32
Subject Length Description Subject Range Query Range Score Percent Strand
CG9879-PA 331 CG9879-PA 1..331 6..336 1711 100 Plus
CG15398-PB 305 CG15398-PB 77..296 106..326 335 33.9 Plus
Blast to dmoj-all-translation-r1.3.fasta performed 2019-03-15 18:03:44
Subject Length Description Subject Range Query Range Score Percent Strand
Dmoj\GI17871-PA 444 GI17871-PA 199..444 91..336 804 56.1 Plus
Dmoj\GI22955-PA 315 GI22955-PA 86..314 106..336 344 29.4 Plus
Blast to dper-all-translation-r1.3.fasta performed 2019-03-15 18:03:44
Subject Length Description Subject Range Query Range Score Percent Strand
Dper\GL26573-PA 754 GL26573-PA 505..754 87..336 756 52.4 Plus
Dper\GL26452-PA 240 GL26452-PA 12..235 106..330 410 36.9 Plus
Blast to dpse-all-translation-r3.2.fasta performed 2019-03-15 18:03:45
Subject Length Description Subject Range Query Range Score Percent Strand
Dpse\GA13701-PA 240 GA13701-PA 12..240 106..335 410 36.5 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-15 18:03:46
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\GM18355-PA 330 GM18355-PA 1..330 6..336 1598 90 Plus
Dsec\GM18207-PA 283 GM18207-PA 55..276 106..328 356 36.2 Plus
Blast to dsim-all-translation-r1.4.fasta performed 2019-03-15 18:03:46
Subject Length Description Subject Range Query Range Score Percent Strand
Dsim\GD23169-PA 331 GD23169-PA 1..331 6..336 1621 90.6 Plus
Dsim\GD22812-PA 283 GD22812-PA 55..276 106..328 342 35.7 Plus
Blast to dvir-all-translation-r1.2.fasta performed 2019-03-15 18:03:46
Subject Length Description Subject Range Query Range Score Percent Strand
Dvir\GJ17371-PA 512 GJ17371-PA 224..512 42..336 782 49.8 Plus
Dvir\GJ23502-PA 298 GJ23502-PA 69..297 106..336 371 31.6 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-15 18:03:47
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK24570-PA 202 GK24570-PA 1..201 135..335 617 52.7 Plus
Dwil\GK24486-PA 254 GK24486-PA 38..159 102..221 209 33.6 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-15 18:03:47
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\GE18169-PA 329 GE18169-PA 1..329 6..336 1476 83.1 Plus
Dyak\GE15057-PA 282 GE15057-PA 54..273 106..326 347 37.4 Plus

RT01008.hyp Sequence

Translation from 12 to 1011

> RT01008.hyp
QMDSVIKRFKALNHGDDYEENDARFDGVKLKEGTSAKLSSLDKLFEELKI
SKESSAKEDLVTEPMKTESYLYKDYFNKSPIDFPWEKAYEKGSSLGPDFY
IDYENIFDNVANLAEIEEKLELHFRPFTCVMDFNCRFSMYELCLLLAESR
FDPSSHPSVVVKITHPSAQVKIHAGGKISSTALNADSARSGLFKVIRILQ
DLDYKVDIMNFSKNIVNASFSMPFKIDLDLMSRRHVVEVAQNRSRRPFIT
YTTENLGVRFAVFPTGFVLVLHSTSHCETREAIANFLPILAKLKNGYPTA
EEKLGQLVGDISYKLFWEKQLEDDKEGMLLYS*

RT01008.hyp Blast Records

Blast to dmel-all-translation-r6.02.fasta performed 2014-11-28 14:10:20
Subject Length Description Subject Range Query Range Score Percent Strand
CG9879-PA 331 CG9879-PA 1..331 2..332 1711 100 Plus
CG15398-PB 305 CG15398-PB 77..296 102..322 335 33.9 Plus