Clone LD28027 Report

Search the DGRC for LD28027

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:280
Well:27
Vector:pOT2
Associated Gene/TranscriptSnm1-RA
Protein status:LD28027.pep: gold
Preliminary Size:2512
Sequenced Size:2583

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
CG10018 2001-01-01 Release 2 assignment
CG10018 2001-09-19 Blastp of sequenced clone
CG10018 2003-01-01 Sim4 clustering to Release 3
Snm1 2008-04-29 Release 5.5 accounting
Snm1 2008-08-15 Release 5.9 accounting
Snm1 2008-12-18 5.12 accounting

Clone Sequence Records

LD28027.complete Sequence

2583 bp (2583 high quality bases) assembled on 2001-09-19

GenBank Submission: AY058585

> LD28027.complete
CCTATTTGTTATATGTAAACAGGATGTCCAATGTAGGGAAAATAAAGATA
AGATCCATTGCGGATCTGCAGGCCACAGTACGAGTAAATGTAGAACCGGA
CCCAACGCCCACGATCGAGAACAGAACGCCGGACAAGAAAAGAGCGGGAA
GAACTCGTGCGGCTTCCACGACAAAAAAGGTCCGACCAAAGACGGAAGCA
TGTCCAATCATAGCCAGCACTGCGTTCAAGCGTTCCAGCAAGAAGACTCC
GCTGCCAGGACAAATGCGCATCGATAGCTTTTTTACAAGTGCCGTCAAGA
ACTACAAAGTCAAGTCAAGTTCCTCTTGCAGGAAGGTGGATCCTCCGTTG
GACAAGCGAAAGGTATCTACCAAAGGGCGCAAGCGCCTCTTCGAGGAGTC
TACAACAACCTCATCTGCCTTTACGGGCAAGCTGGATGCAAAGCCGTCAG
AGAAGCGAGTGCAGCCTAGTCGCCGTGCGAAAGGCAAGGAGAACGCTAGC
CTCTCCGAAGTGCACGTAATTGACCTGTGCTCCGAGGACGAGCAGACCAT
AAAAAGAAAGCCATCCGCGATAGCCTCTCCCTGTGAAAAAAGCAGCGATG
TCCAAGCAACCAAGTTTAGAACTCCAGAGACTTCCATGCCAGAAGCCAAG
CTAAGCAATTCCAGCCTAGACCTAGTGGAAATCTCCCCCGGTCCCAACAA
ATCCCCAACGAATAACTTTTACCGGTCATCGCCGGCTGCAATCACAAAGG
AAAGCCCCCTGGGCAAAAACTCTAAAAAAGGAACTGTACGCAAACAAAGA
AAACCAAAGCCTTGTCCGCCCTATAAAGTAGTGGAGGGTACATCCTTCTG
CGTCGACGGCTTTCAGTTTGGGGAAATAGAGGGAGTCACACATTACTTTC
TCACGCACTTTCATGCGGATCACTACATCGGCCTGACTAAAAAGTTCTGC
CATCCCCTCTACGTGAGTCCTATTTCAGCGCGCTTGGTGCGAACGTTTAT
TAAACTCGATGAAACGCACATTCACGAAATTGATGTGGACCAGACCCTGG
ACGTAGATGGCGTCCAAGTAACCGCCTTAGAAGCTAACCACTGTCCTGGA
GCACTCATGTTCTTCTTCAAACTGAGCTCTGGCGAATGCATACTGCACAC
CGGGGACTTCCGAGCTAGCGCGGACATGGAATCCCTACCAATCTTCTGGA
ACCATTCAAACATCGACCTGCTTTATCTGGACACAACGTATATGAACAAA
AACTACGACTTCTGCCACCAAAGCGAGAGCGTTGACCGAGCGGTGGATCT
GGTGCGCGCCTTCCTAGAGAAAAATGCAGCCAAACGAATCCTTATCGTCT
GCGGCTCCTACGTGATAGGAAAGGAGAAGATATGGTTGGCCTTAGCGAAG
GAGTTCACAATGAGGGTTTGGACGGAAAGCAATCGCAGCACTGCAGTAAG
ATGCCTGAATTGGCCGGATCTAGACTCCGTGCTAACAGAAGATCGCAGCG
GAGCAAACTTGCACGTCATTGCAATGGGAAAAATCAGCTATCCGAGCCTA
GTCGATTACTTTACTGAATTCGAGGACCAATATGACATGTTGCTGGGCAT
AAGGCCCAGCGGTTGGGAAAAGAACTCAAAGCCTTCGTACGGCAAGCGAA
TTAGCACGATCGGCATTGAGTACTCAGAACACTCCAGCTACAAGGAGTTG
GAGCGCTTTGTTCGCTTCCTCAAGCCAAAGCGAGTCATAAGCACCGTTCC
CGTGGGCCGCGATCTCTATGTCACTGGAGAGGTGCCCATACGGTGGTACA
AGTACGAAGGTCGGGCATCTATGCTGCGTACTGGGTTTCAGCCTTCGATA
TCCACTTTCCTAGCTACGCCGAAGCGAGCTTTTGCAAAATTCAGTGCAGA
TACTGAAATGTTCTTGAGCCCCGTGGATGAGAATGCTTCCAAAGGGAGTG
AAGATAAGAAAGACGATGACCGGGAGTCCGTGGTGCCAACGAATCATGTA
ACTATTATATCCGACACTCCGGAAGAGTGTTTTCAAACTGATTCCAAGAT
ACCAGTTAAAAACGAGCCTCTGGCACCGGACACGTCACCGAATTCTGAAA
TAGTTGCACAACTCAATGCGATGGAATCCGAAATTCCATATGTTGAAATA
GACATTAAAAACGAAACTATCGCACCTGATGCAGTCCTCATACCTCGTGT
CCCAACGGAAGATACATTTCAAAGTACGGATTGCAATGTTATTGGTGTCC
AGAAAAGCCAGGCAGTCGTGGTTAGTAGACTGACATCCGATGCATCAGAC
GATTGGCTCCTGTAGTGATTAAATTTCGGATAAAAAAGTCCTTTGGATTT
AAGTATGGCTGCTAGTAGTTTTAAGATATTTTGTTATGAAATAATAAGGT
ATATACATACTTATGTTCGAAAAGGGCTTTAGTTTCTGTTAAACTTTTAT
AATGTTTTAATATCTTTTATATAAGGCTTGCCTTTTAAATACTTTACATA
TGTATTTTGGTTGATATATATATATATTCCCACACTATTTAGTTGCGAAC
CGTACATAATGAAAAAAAAAAAAAAAAAAAAAA

LD28027.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 20:19:23
Subject Length Description Subject Range Query Range Score Percent Strand
Snm1-RA 2790 Snm1-RA 156..2723 1..2568 12825 99.9 Plus
Pi4KIIalpha.d 3394 Pi4KIIalpha.d 3197..3394 2568..2371 975 99.4 Minus
Pi4KIIalpha-RC 3394 Pi4KIIalpha-RC 3197..3394 2568..2371 975 99.4 Minus
Blast to d_melanogaster_OreR.fa performed 2019-03-15 16:00:03
Subject Length Description Subject Range Query Range Score Percent Strand
chr3R 27901430 chr3R 1380771..1381860 1..1090 5450 100 Plus
chr3R 27901430 chr3R 1382428..1383445 1544..2561 5090 100 Plus
chr3R 27901430 chr3R 1381918..1382371 1091..1544 2270 100 Plus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 19:20:26 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-15 16:00:01
Subject Length Description Subject Range Query Range Score Percent Strand
3R 32079331 3R 5555112..5556201 1..1090 5450 100 Plus
3R 32079331 3R 5556769..5557793 1544..2568 5110 99.9 Plus
3R 32079331 3R 5556259..5556712 1091..1544 2270 100 Plus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 21:42:30
Subject Length Description Subject Range Query Range Score Percent Strand
3R 31820162 3R 5295943..5297032 1..1090 5450 100 Plus
3R 31820162 3R 5297600..5298624 1544..2568 5110 99.9 Plus
3R 31820162 3R 5297090..5297543 1091..1544 2270 100 Plus
Blast to na_te.dros performed on 2019-03-15 16:00:01 has no hits.

LD28027.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-15 16:01:23 Download gff for LD28027.complete
Subject Subject Range Query Range Percent Splice Strand
chr3R 1380771..1381860 1..1090 100 -> Plus
chr3R 1381918..1382371 1091..1544 100 -> Plus
chr3R 1382429..1383445 1545..2561 100   Plus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2008-12-08 19:07:37 Download gff for LD28027.complete
Subject Subject Range Query Range Percent Splice Strand
Snm1-RA 1..2292 24..2315 100   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 20:02:26 Download gff for LD28027.complete
Subject Subject Range Query Range Percent Splice Strand
Snm1-RA 1..2292 24..2315 100   Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 01:47:50 Download gff for LD28027.complete
Subject Subject Range Query Range Percent Splice Strand
Snm1-RA 1..2292 24..2315 100   Plus
Sim4 to dmel-all-CDS-r5.9.fasta performed 2008-07-21 20:32:57 Download gff for LD28027.complete
Subject Subject Range Query Range Percent Splice Strand
Snm1-RA 1..2292 24..2315 100   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-26 21:22:31 Download gff for LD28027.complete
Subject Subject Range Query Range Percent Splice Strand
Snm1-RA 1..2292 24..2315 100   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2008-11-10 23:50:44 Download gff for LD28027.complete
Subject Subject Range Query Range Percent Splice Strand
Snm1-RA 23..2583 1..2561 100   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 20:02:25 Download gff for LD28027.complete
Subject Subject Range Query Range Percent Splice Strand
Snm1-RA 23..2583 1..2561 100   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 01:47:50 Download gff for LD28027.complete
Subject Subject Range Query Range Percent Splice Strand
Snm1-RA 29..2589 1..2561 100   Plus
Sim4 to dmel-all-transcript-r5.9.fasta performed 2008-07-21 20:32:57 Download gff for LD28027.complete
Subject Subject Range Query Range Percent Splice Strand
Snm1-RA 23..2583 1..2561 100   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-26 21:22:31 Download gff for LD28027.complete
Subject Subject Range Query Range Percent Splice Strand
Snm1-RA 29..2589 1..2561 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-15 16:01:23 Download gff for LD28027.complete
Subject Subject Range Query Range Percent Splice Strand
3R 5555112..5556201 1..1090 100 -> Plus
3R 5556259..5556712 1091..1544 100 -> Plus
3R 5556770..5557786 1545..2561 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-15 16:01:23 Download gff for LD28027.complete
Subject Subject Range Query Range Percent Splice Strand
3R 5555112..5556201 1..1090 100 -> Plus
3R 5556259..5556712 1091..1544 100 -> Plus
3R 5556770..5557786 1545..2561 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-15 16:01:23 Download gff for LD28027.complete
Subject Subject Range Query Range Percent Splice Strand
3R 5555112..5556201 1..1090 100 -> Plus
3R 5556259..5556712 1091..1544 100 -> Plus
3R 5556770..5557786 1545..2561 100   Plus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 01:47:50 Download gff for LD28027.complete
Subject Subject Range Query Range Percent Splice Strand
arm_3R 1380834..1381923 1..1090 100 -> Plus
arm_3R 1381981..1382434 1091..1544 100 -> Plus
arm_3R 1382492..1383508 1545..2561 100   Plus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 17:09:40 Download gff for LD28027.complete
Subject Subject Range Query Range Percent Splice Strand
3R 5295943..5297032 1..1090 100 -> Plus
3R 5297090..5297543 1091..1544 100 -> Plus
3R 5297601..5298617 1545..2561 100   Plus

LD28027.hyp Sequence

Translation from 2 to 2314

> LD28027.hyp
YLLYVNRMSNVGKIKIRSIADLQATVRVNVEPDPTPTIENRTPDKKRAGR
TRAASTTKKVRPKTEACPIIASTAFKRSSKKTPLPGQMRIDSFFTSAVKN
YKVKSSSSCRKVDPPLDKRKVSTKGRKRLFEESTTTSSAFTGKLDAKPSE
KRVQPSRRAKGKENASLSEVHVIDLCSEDEQTIKRKPSAIASPCEKSSDV
QATKFRTPETSMPEAKLSNSSLDLVEISPGPNKSPTNNFYRSSPAAITKE
SPLGKNSKKGTVRKQRKPKPCPPYKVVEGTSFCVDGFQFGEIEGVTHYFL
THFHADHYIGLTKKFCHPLYVSPISARLVRTFIKLDETHIHEIDVDQTLD
VDGVQVTALEANHCPGALMFFFKLSSGECILHTGDFRASADMESLPIFWN
HSNIDLLYLDTTYMNKNYDFCHQSESVDRAVDLVRAFLEKNAAKRILIVC
GSYVIGKEKIWLALAKEFTMRVWTESNRSTAVRCLNWPDLDSVLTEDRSG
ANLHVIAMGKISYPSLVDYFTEFEDQYDMLLGIRPSGWEKNSKPSYGKRI
STIGIEYSEHSSYKELERFVRFLKPKRVISTVPVGRDLYVTGEVPIRWYK
YEGRASMLRTGFQPSISTFLATPKRAFAKFSADTEMFLSPVDENASKGSE
DKKDDDRESVVPTNHVTIISDTPEECFQTDSKIPVKNEPLAPDTSPNSEI
VAQLNAMESEIPYVEIDIKNETIAPDAVLIPRVPTEDTFQSTDCNVIGVQ
KSQAVVVSRLTSDASDDWLL*

LD28027.hyp Blast Records

Blast to dmel-all-translation-r6.02.fasta performed 2014-11-28 14:26:31
Subject Length Description Subject Range Query Range Score Percent Strand
Snm1-PA 763 CG10018-PA 1..763 8..770 3962 100 Plus

LD28027.pep Sequence

Translation from 23 to 2314

> LD28027.pep
MSNVGKIKIRSIADLQATVRVNVEPDPTPTIENRTPDKKRAGRTRAASTT
KKVRPKTEACPIIASTAFKRSSKKTPLPGQMRIDSFFTSAVKNYKVKSSS
SCRKVDPPLDKRKVSTKGRKRLFEESTTTSSAFTGKLDAKPSEKRVQPSR
RAKGKENASLSEVHVIDLCSEDEQTIKRKPSAIASPCEKSSDVQATKFRT
PETSMPEAKLSNSSLDLVEISPGPNKSPTNNFYRSSPAAITKESPLGKNS
KKGTVRKQRKPKPCPPYKVVEGTSFCVDGFQFGEIEGVTHYFLTHFHADH
YIGLTKKFCHPLYVSPISARLVRTFIKLDETHIHEIDVDQTLDVDGVQVT
ALEANHCPGALMFFFKLSSGECILHTGDFRASADMESLPIFWNHSNIDLL
YLDTTYMNKNYDFCHQSESVDRAVDLVRAFLEKNAAKRILIVCGSYVIGK
EKIWLALAKEFTMRVWTESNRSTAVRCLNWPDLDSVLTEDRSGANLHVIA
MGKISYPSLVDYFTEFEDQYDMLLGIRPSGWEKNSKPSYGKRISTIGIEY
SEHSSYKELERFVRFLKPKRVISTVPVGRDLYVTGEVPIRWYKYEGRASM
LRTGFQPSISTFLATPKRAFAKFSADTEMFLSPVDENASKGSEDKKDDDR
ESVVPTNHVTIISDTPEECFQTDSKIPVKNEPLAPDTSPNSEIVAQLNAM
ESEIPYVEIDIKNETIAPDAVLIPRVPTEDTFQSTDCNVIGVQKSQAVVV
SRLTSDASDDWLL*

LD28027.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-16 11:03:42
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF11594-PA 676 GF11594-PA 1..665 1..639 2132 64.6 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-16 11:03:42
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG12882-PA 637 GG12882-PA 136..637 254..763 2174 79.1 Plus
Dere\GG12882-PA 637 GG12882-PA 1..160 1..158 602 75 Plus
Blast to dgri-all-translation-r1.3.fasta performed 2019-03-16 11:03:43
Subject Length Description Subject Range Query Range Score Percent Strand
Dgri\GH22402-PA 623 GH22402-PA 3..621 2..643 1650 52.2 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 10:20:25
Subject Length Description Subject Range Query Range Score Percent Strand
Snm1-PA 763 CG10018-PA 1..763 1..763 3962 100 Plus
Blast to dmoj-all-translation-r1.3.fasta performed 2019-03-16 11:03:44
Subject Length Description Subject Range Query Range Score Percent Strand
Dmoj\GI24489-PA 662 GI24489-PA 3..623 2..647 1721 52.6 Plus
Blast to dper-all-translation-r1.3.fasta performed 2019-03-16 11:03:44
Subject Length Description Subject Range Query Range Score Percent Strand
Dper\GL21672-PA 637 GL21672-PA 25..634 115..762 1737 54.7 Plus
Blast to dpse-all-translation-r3.2.fasta performed 2019-03-16 11:03:45
Subject Length Description Subject Range Query Range Score Percent Strand
Dpse\GA10012-PB 787 GA10012-PB 332..784 256..762 1646 61.3 Plus
Dpse\GA10012-PB 787 GA10012-PB 1..180 1..169 351 47 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-16 11:03:46
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\GM10813-PA 1332 GM10813-PA 926..1332 357..763 2077 94.1 Plus
Blast to dsim-all-translation-r1.4.fasta performed 2019-03-16 11:03:46
Subject Length Description Subject Range Query Range Score Percent Strand
Dsim\GD19792-PA 768 GD19792-PA 1..768 1..763 3610 90.5 Plus
Blast to dvir-all-translation-r1.2.fasta performed 2019-03-16 11:03:47
Subject Length Description Subject Range Query Range Score Percent Strand
Dvir\GJ24554-PA 654 GJ24554-PA 3..622 2..649 1734 53.5 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-16 11:03:48
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK13503-PA 652 GK13503-PA 1..613 81..647 1587 52.7 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-16 11:03:49
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\GE10135-PA 740 GE10135-PA 1..740 1..763 3033 76 Plus