Clone LD28419 Report

Search the DGRC for LD28419

Clone and Library Details

Library:LD
Tissue Source:Drosophila melanogaster embryo
Created by:Ling Hong
Date Registered:1997-12-04
Comments:Constructed using Stratagene ZAP-cDNA Synthesis kit. Oligo dT-primed and directionally cloned at EcoRI and XhoI in BlueScript SK(+/-)
Original Plate Number:284
Well:19
Vector:pOT2
Associated Gene/Transcriptrtet-RA
Protein status:LD28419.pep: gold
Preliminary Size:1715
Sequenced Size:1692

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
CG5760 2000-02-14 Blastp of sequenced clone
CG5806 2001-01-01 Release 2 assignment
CG5771 2001-01-01 Release 2 assignment
CG17299 2001-01-01 Release 2 assignment
CG5810 2001-01-01 Release 2 assignment
CG5802 2001-01-01 Release 2 assignment
CG10825 2001-01-01 Release 2 assignment
CG5760 2001-01-01 Release 2 assignment
CG5786 2001-01-01 Release 2 assignment
CG5793 2001-01-01 Release 2 assignment
CG5798 2001-01-01 Release 2 assignment
CG5760 2003-01-01 Sim4 clustering to Release 3
rtet 2008-04-29 Release 5.5 accounting
rtet 2008-08-15 Release 5.9 accounting
rtet 2008-12-18 5.12 accounting

Clone Sequence Records

LD28419.complete Sequence

1692 bp (1692 high quality bases) assembled on 2000-02-14

GenBank Submission: AF181656

> LD28419.complete
AGAGGGCCAAGAGTTGTCGGTGGAGTTGTGGTTCCGTTGATACAGTTATG
TTGCAGTAACACCCGTACACGCACGCAATCACGGCACAAGCTAAACACCC
GAAATCAGCAAAGATGGCCGACCTACGGAGTCGCCACAATGGAACCGCTG
CCATGGAGAAGCAAAGCCACAGCCAAACCGGAAGCCACCATCACAACAAC
AATAAAGCGCTGGATAAGGAAGCATCGGAGAATGGAAAGCCGGAGAAGAG
TGATCCCATGATATACATAATCTTCGTATCGCTGCTCTTCGACTTACTGG
CCTTCACCATCATTCTGCCGCTGCTGCCCTCGCTGTTGGAGCACTATCGC
CAGAACGACAGCTCCGGCTTGTATGCCGTGCTCACGGATCGGGTGCGCTG
GTTCCAGCAGCTCCTGGGCGCCCCGGATCGCTACATATCGGTGCTATTCG
GAGGCTTTCTCGGCTCCATGTTCAGCTTCCTGCAGTTCGTGGCCAGTCCG
ATTGTCGGAGGACTCTCGGACTACTACGGACGGAAACCAGTCCTGCTGGC
TTGTGCGAGTGGTATTGCGTTATCCTATCTGATCTGGGCCTGCTCCAGCA
ACTTTGCCCTGTTCGTTTTGGCCCGCTTCGTGGGCGGAATTAGCAAGGGC
AACATATCCCTGTGCATGTCCGTCATTACGGATGTGTCCAGCGTTAAGAC
CCGTGGACGCGGTATGGCCCTTGTGGGTGTGGCCTTCTCGCTGGGCTTTA
TTGTGGGGCCCATGATTGGAGCCCTGTTCGCCATATTCTCCGATAAAAGT
GGAAGTACTTGGTTTGTGTTGCCCTCTCTGCTGGCGTTTGGCCTGGCAGT
TGGAGATCTTGTGGTCCTGGCCTGCTGTCTGCGGGAAACGTTGCCCAAGG
AGAAACGTGTTAAGGAGATATCATCTGCACTGTCTTATGGCCTGCAGTTG
CTCAATTTTTCGGCCATATTTAGATTTGCTGCCATCAAAAATGTGCCTAA
GAAAGACATTGCGGCACTGCGATCCATTGGCCTGGTATACTTCTTGTATC
TCTTTCTGTATTCCGGCTTGGAGTTCACCGTCACATTTCTGATGTACCAC
AAATTCGGTTACACTTCGATGGATCAGGCGAAGATGTTTTTGACAACGGG
TGTAATCATGACTTTGCTGCAGGGATCGGTGGTCCGACGGCTGCCCGAGG
CGAAGATCAAAGGCTATGCCATCTTCAGTTTGTACCTGATTGTACCCGCC
TTCGTAGTAGTCGGCCTAGCCGAGGGCAGTCGGATGCTGTACGCCGGCAT
GACCCTGTTCGCAATCTCCACAGCCTTCGCTGTCACCTGTCTGACCACCC
TCGTATCCAAATACGGAAACGATGACCAGAAGGGTTCAGTACTGGGCATA
TTCCGCTCACTGGGAGCTTTGGCTCGAGCTCTGGGCCCCGTGGTGGGATG
CATTGCCTTCTGGTGCGTTGGCTCCAGGATCACCTATATAGCCGGCGGAC
TTCTGCTCATTTATCCAGCCATGGCCTTGCAACGCGCTCGCATTTAAGTG
CAATAGGAATAGAGTTTTTAAACTCACTAGAGATCAACGGAAGTATTAGC
TGCACATTATACTTAATTTATCGTTTTTTACAAGTATTTTATATTAAAAT
AAACACATTTTTACTCTGATTTGTAAAAAAAAAAAAAAAAAA

LD28419.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 20:42:54
Subject Length Description Subject Range Query Range Score Percent Strand
rtet-RA 1797 rtet-RA 124..1797 1..1674 8370 100 Plus
Blast to d_melanogaster_OreR.fa performed 2019-03-16 04:09:20
Subject Length Description Subject Range Query Range Score Percent Strand
chr3R 27901430 chr3R 16932364..16932920 1..557 2740 99.5 Plus
chr3R 27901430 chr3R 16933109..16933452 557..900 1705 99.7 Plus
chr3R 27901430 chr3R 16934113..16934419 1149..1455 1535 100 Plus
chr3R 27901430 chr3R 16934477..16934696 1455..1674 1055 98.6 Plus
chr3R 27901430 chr3R 16933880..16934059 972..1151 855 98.3 Plus
chr3R 27901430 chr3R 16933513..16933588 898..973 380 100 Plus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 19:20:59 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-16 04:09:18
Subject Length Description Subject Range Query Range Score Percent Strand
3R 32079331 3R 21108494..21109050 1..557 2785 100 Plus
3R 32079331 3R 21109246..21109589 557..900 1720 100 Plus
3R 32079331 3R 21110251..21110557 1149..1455 1535 100 Plus
3R 32079331 3R 21110615..21110836 1455..1676 1110 100 Plus
3R 32079331 3R 21110017..21110196 972..1151 900 100 Plus
3R 32079331 3R 21109650..21109725 898..973 380 100 Plus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 22:03:48
Subject Length Description Subject Range Query Range Score Percent Strand
3R 31820162 3R 20849325..20849881 1..557 2785 100 Plus
3R 31820162 3R 20850077..20850420 557..900 1720 100 Plus
3R 31820162 3R 20851082..20851388 1149..1455 1535 100 Plus
3R 31820162 3R 20851446..20851667 1455..1676 1110 100 Plus
3R 31820162 3R 20850848..20851027 972..1151 900 100 Plus
3R 31820162 3R 20850481..20850556 898..973 380 100 Plus
Blast to na_te.dros performed on 2019-03-16 04:09:19 has no hits.

LD28419.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-16 04:10:20 Download gff for LD28419.complete
Subject Subject Range Query Range Percent Splice Strand
chr3R 16932364..16932920 1..557 99 -> Plus
chr3R 16933110..16933451 558..899 99 -> Plus
chr3R 16933515..16933588 900..973 100 -> Plus
chr3R 16933882..16934057 974..1149 98 -> Plus
chr3R 16934114..16934419 1150..1455 100 -> Plus
chr3R 16934478..16934696 1456..1674 98   Plus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2008-12-08 19:08:08 Download gff for LD28419.complete
Subject Subject Range Query Range Percent Splice Strand
rtet-RA 1..1434 114..1547 100   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 20:36:12 Download gff for LD28419.complete
Subject Subject Range Query Range Percent Splice Strand
rtet-RA 1..1434 114..1547 100   Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 07:18:44 Download gff for LD28419.complete
Subject Subject Range Query Range Percent Splice Strand
rtet-RA 1..1434 114..1547 100   Plus
Sim4 to dmel-all-CDS-r5.9.fasta performed 2008-07-21 21:12:07 Download gff for LD28419.complete
Subject Subject Range Query Range Percent Splice Strand
rtet-RA 1..1434 114..1547 100   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-27 05:28:54 Download gff for LD28419.complete
Subject Subject Range Query Range Percent Splice Strand
rtet-RA 1..1434 114..1547 100   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2008-11-11 00:39:26 Download gff for LD28419.complete
Subject Subject Range Query Range Percent Splice Strand
rtet-RA 47..1718 1..1672 100   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 20:36:12 Download gff for LD28419.complete
Subject Subject Range Query Range Percent Splice Strand
rtet-RA 47..1718 1..1672 100   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 07:18:44 Download gff for LD28419.complete
Subject Subject Range Query Range Percent Splice Strand
rtet-RA 49..1722 1..1674 100   Plus
Sim4 to dmel-all-transcript-r5.9.fasta performed 2008-07-21 21:12:07 Download gff for LD28419.complete
Subject Subject Range Query Range Percent Splice Strand
rtet-RA 47..1718 1..1672 100   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-27 05:28:54 Download gff for LD28419.complete
Subject Subject Range Query Range Percent Splice Strand
rtet-RA 49..1722 1..1674 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 04:10:20 Download gff for LD28419.complete
Subject Subject Range Query Range Percent Splice Strand
3R 21108494..21109050 1..557 100 -> Plus
3R 21109247..21109588 558..899 100 -> Plus
3R 21109652..21109725 900..973 100 -> Plus
3R 21110019..21110194 974..1149 100 -> Plus
3R 21110252..21110557 1150..1455 100 -> Plus
3R 21110616..21110834 1456..1674 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 04:10:20 Download gff for LD28419.complete
Subject Subject Range Query Range Percent Splice Strand
3R 21108494..21109050 1..557 100 -> Plus
3R 21109247..21109588 558..899 100 -> Plus
3R 21109652..21109725 900..973 100 -> Plus
3R 21110019..21110194 974..1149 100 -> Plus
3R 21110252..21110557 1150..1455 100 -> Plus
3R 21110616..21110834 1456..1674 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 04:10:20 Download gff for LD28419.complete
Subject Subject Range Query Range Percent Splice Strand
3R 21108494..21109050 1..557 100 -> Plus
3R 21109247..21109588 558..899 100 -> Plus
3R 21109652..21109725 900..973 100 -> Plus
3R 21110019..21110194 974..1149 100 -> Plus
3R 21110252..21110557 1150..1455 100 -> Plus
3R 21110616..21110834 1456..1674 100   Plus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 07:18:44 Download gff for LD28419.complete
Subject Subject Range Query Range Percent Splice Strand
arm_3R 16934216..16934772 1..557 100 -> Plus
arm_3R 16934969..16935310 558..899 100 -> Plus
arm_3R 16935374..16935447 900..973 100 -> Plus
arm_3R 16935741..16935916 974..1149 100 -> Plus
arm_3R 16935974..16936279 1150..1455 100 -> Plus
arm_3R 16936338..16936556 1456..1674 100   Plus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 17:48:37 Download gff for LD28419.complete
Subject Subject Range Query Range Percent Splice Strand
3R 20849325..20849881 1..557 100 -> Plus
3R 20850078..20850419 558..899 100 -> Plus
3R 20850483..20850556 900..973 100 -> Plus
3R 20850850..20851025 974..1149 100 -> Plus
3R 20851083..20851388 1150..1455 100 -> Plus
3R 20851447..20851665 1456..1674 100   Plus

LD28419.pep Sequence

Translation from 113 to 1546

> LD28419.pep
MADLRSRHNGTAAMEKQSHSQTGSHHHNNNKALDKEASENGKPEKSDPMI
YIIFVSLLFDLLAFTIILPLLPSLLEHYRQNDSSGLYAVLTDRVRWFQQL
LGAPDRYISVLFGGFLGSMFSFLQFVASPIVGGLSDYYGRKPVLLACASG
IALSYLIWACSSNFALFVLARFVGGISKGNISLCMSVITDVSSVKTRGRG
MALVGVAFSLGFIVGPMIGALFAIFSDKSGSTWFVLPSLLAFGLAVGDLV
VLACCLRETLPKEKRVKEISSALSYGLQLLNFSAIFRFAAIKNVPKKDIA
ALRSIGLVYFLYLFLYSGLEFTVTFLMYHKFGYTSMDQAKMFLTTGVIMT
LLQGSVVRRLPEAKIKGYAIFSLYLIVPAFVVVGLAEGSRMLYAGMTLFA
ISTAFAVTCLTTLVSKYGNDDQKGSVLGIFRSLGALARALGPVVGCIAFW
CVGSRITYIAGGLLLIYPAMALQRARI*

LD28419.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-16 21:08:14
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF16496-PA 472 GF16496-PA 1..472 1..477 2144 88.8 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-16 21:08:14
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG24354-PA 476 GG24354-PA 1..476 1..477 2335 96 Plus
Blast to dgri-all-translation-r1.3.fasta performed 2019-03-16 21:08:15
Subject Length Description Subject Range Query Range Score Percent Strand
Dgri\GH18255-PA 469 GH18255-PA 1..469 1..477 1958 83.9 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 11:03:29
Subject Length Description Subject Range Query Range Score Percent Strand
rtet-PA 477 CG5760-PA 1..477 1..477 2409 100 Plus
CG5078-PA 447 CG5078-PA 59..376 111..450 182 23.3 Plus
Blast to dmoj-all-translation-r1.3.fasta performed 2019-03-16 21:08:15
Subject Length Description Subject Range Query Range Score Percent Strand
Dmoj\GI23654-PA 476 GI23654-PA 1..476 1..477 1912 83.5 Plus
Blast to dper-all-translation-r1.3.fasta performed 2019-03-16 21:08:16
Subject Length Description Subject Range Query Range Score Percent Strand
Dper\GL21785-PA 477 GL21785-PA 6..477 5..477 1986 86.8 Plus
Dper\GL12795-PA 440 GL12795-PA 73..380 125..451 159 24 Plus
Blast to dpse-all-translation-r3.2.fasta performed 2019-03-16 21:08:17
Subject Length Description Subject Range Query Range Score Percent Strand
Dpse\GA19110-PA 477 GA19110-PA 1..477 1..477 1998 86.7 Plus
Dpse\GA28643-PA 442 GA28643-PA 71..380 123..451 161 23.1 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-16 21:08:17
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\GM15064-PA 477 GM15064-PA 1..477 1..477 2465 99.2 Plus
Blast to dsim-all-translation-r1.4.fasta performed 2019-03-16 21:08:18
Subject Length Description Subject Range Query Range Score Percent Strand
Dsim\GD19396-PA 477 GD19396-PA 1..477 1..477 2457 98.5 Plus
Blast to dvir-all-translation-r1.2.fasta performed 2019-03-16 21:08:18
Subject Length Description Subject Range Query Range Score Percent Strand
Dvir\GJ23498-PA 471 GJ23498-PA 1..471 1..477 1922 82.9 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-16 21:08:19
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK14183-PA 483 GK14183-PA 1..483 1..477 1880 82.2 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-16 21:08:20
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\GE25706-PA 476 GE25706-PA 1..476 1..477 2328 95.8 Plus

LD28419.hyp Sequence

Translation from 113 to 1546

> LD28419.hyp
MADLRSRHNGTAAMEKQSHSQTGSHHHNNNKALDKEASENGKPEKSDPMI
YIIFVSLLFDLLAFTIILPLLPSLLEHYRQNDSSGLYAVLTDRVRWFQQL
LGAPDRYISVLFGGFLGSMFSFLQFVASPIVGGLSDYYGRKPVLLACASG
IALSYLIWACSSNFALFVLARFVGGISKGNISLCMSVITDVSSVKTRGRG
MALVGVAFSLGFIVGPMIGALFAIFSDKSGSTWFVLPSLLAFGLAVGDLV
VLACCLRETLPKEKRVKEISSALSYGLQLLNFSAIFRFAAIKNVPKKDIA
ALRSIGLVYFLYLFLYSGLEFTVTFLMYHKFGYTSMDQAKMFLTTGVIMT
LLQGSVVRRLPEAKIKGYAIFSLYLIVPAFVVVGLAEGSRMLYAGMTLFA
ISTAFAVTCLTTLVSKYGNDDQKGSVLGIFRSLGALARALGPVVGCIAFW
CVGSRITYIAGGLLLIYPAMALQRARI*

LD28419.hyp Blast Records

Blast to dmel-all-translation-r6.02.fasta performed 2014-11-28 17:33:45
Subject Length Description Subject Range Query Range Score Percent Strand
rtet-PA 477 CG5760-PA 1..477 1..477 2409 100 Plus
CG5078-PA 447 CG5078-PA 59..376 111..450 182 23.3 Plus