Clone LD40489 Report

Search the DGRC for LD40489

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:404
Well:89
Vector:pOT2
Associated Gene/TranscriptSF2-RA
Protein status:LD40489.pep: gold
Preliminary Size:1474
Sequenced Size:1395

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
CG6987 2001-01-01 Release 2 assignment
CG6987 2001-07-04 Blastp of sequenced clone
CG6987 2003-01-01 Sim4 clustering to Release 3
SF2 2008-04-29 Release 5.5 accounting
SF2 2008-08-15 Release 5.9 accounting
SF2 2008-12-18 5.12 accounting

Clone Sequence Records

LD40489.complete Sequence

1395 bp (1395 high quality bases) assembled on 2001-07-04

GenBank Submission: AY051919

> LD40489.complete
CCATTTGTCATTGTGAGCGTGACAAAAATAAGTTCTCTGAAAATCGAAAT
AGATCGAAGCGTCTGATTTAAACTGGAGAAAATGGGATCACGCAACGAGT
GCCGTATATATGTGGGCAACCTTCCCCCAGATATACGCACCAAGGATATC
CAGGACCTGTTCCACAAGTTCGGCAAAGTAACTTTCGTCGATCTGAAAAA
TCGGCGTGGGCCGCCATTTGCTTTTGTTGAGTTCGAAGATGCGCGGGATG
CCGACGATGCGGTGAAGGCGCGCGACGGCTACGACTACGATGGGTATCGT
CTGCGCGTGGAGTTCCCGCGGGGCGGTGGTCCTGGAAGCTACCGCGGCGG
CAACCGCAATGACCGAAGCCGCGACGGTGGGGGACGGATGGGCGGACGCG
GACCGCCAGCCAAGCGCTCGCAGTACCGCGTCATGGTTACTGGACTGCCC
GCCTCCGGATCGTGGCAAGATCTCAAGGATCACATGCGCGAGGCCGGCGA
CGTCTGCTTCGCGGACACTTACAAGGATGGTTCCGGCGTCGTTGAGTTCC
TGCGCCACGAGGACATGAAGTACGCAATCAAAAAATTGGACGACTCTCGC
TTCCGATCGCATGAGGGCGAGGTTGCCTACATTCGCGTACGCGAGGATAG
CGGTGATAACGACAGAGGCGGTGGTGGTGGCGGCAGCGGTGGAGGTGGTG
GCGGCAGCGGCGGAGGTGGAAGCCGTGACTACCGCGACAGATCCCGTTCG
CGCTCATTCTCGTCGAGGCCGCGCCGTCGTGGCACTCCCACATACTCCCC
AGTGCGACGTCAATCTTATTCCAGGTCTCGCTCACGTTCTAACTATTAAA
CACAACCAAGCATTATCCATTAATCTATAATATTTTAATGAGCAGGAAAC
AGGAAAAGCAAGCTATATTAGGAAATACCAATCAATATTTGTTCAAGACC
CCTCAAATACCCCAATTGTAAATTGATTTGTAAAATGAAATCAACGACCA
ATCAAGTTTGTTCAGTCAAGTTCCGAACTCTCACCGAAGCCAACATACTT
AAAAAAGAAAAACACTTGCTTTTCCAACTTATCACACGTTCTAAGAAGCA
GAAATGTTCTCTTAAGTTATAATCCACCGGGCAAAATTTGACAAAAACAG
TTCTAAAATGACAACTGTAAACCAAGGAATTCTCTTTGGCCAAAAGCACT
CGGCATTCCTTGATTTGCTTTTGATTATCTTTTGAGCCTTTGCTCAGTCT
GCTTCCTACATATTATATTATAACTCTTATTTTGGCTGCACGTTTTCCAA
GCTAATTTATTAGAATCTACCTTAACGAAAACAAGAAACATCGATACAGA
ATAAATATGTTTGTAATGAGATAAAGAAAAAAAAAAAAAAAAAAA

LD40489.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 20:29:19
Subject Length Description Subject Range Query Range Score Percent Strand
SF2.c 2351 SF2.c 56..1439 1..1384 6905 99.9 Plus
SF2-RA 1683 SF2-RA 56..1439 1..1384 6905 99.9 Plus
SF2.b 2622 SF2.b 56..1439 1..1384 6905 99.9 Plus
Blast to d_melanogaster_OreR.fa performed 2019-03-16 03:07:53
Subject Length Description Subject Range Query Range Score Percent Strand
chr3R 27901430 chr3R 12164822..12165461 1376..737 3200 100 Minus
chr3R 27901430 chr3R 12165923..12166294 616..245 1860 100 Minus
chr3R 27901430 chr3R 12166422..12166667 246..1 1230 100 Minus
chr3R 27901430 chr3R 12165517..12165643 740..614 635 100 Minus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 19:35:18 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-16 03:07:51
Subject Length Description Subject Range Query Range Score Percent Strand
3R 32079331 3R 16340119..16340766 1384..737 3225 99.8 Minus
3R 32079331 3R 16341228..16341599 616..245 1860 100 Minus
3R 32079331 3R 16341727..16341972 246..1 1230 100 Minus
3R 32079331 3R 16340822..16340948 740..614 635 100 Minus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 21:51:39
Subject Length Description Subject Range Query Range Score Percent Strand
3R 31820162 3R 16080950..16081597 1384..737 3225 99.8 Minus
3R 31820162 3R 16082059..16082430 616..245 1860 100 Minus
3R 31820162 3R 16082558..16082803 246..1 1230 100 Minus
3R 31820162 3R 16081653..16081779 740..614 635 100 Minus
Blast to na_te.dros performed on 2019-03-16 03:07:52 has no hits.

LD40489.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-16 03:08:56 Download gff for LD40489.complete
Subject Subject Range Query Range Percent Splice Strand
chr3R 12164822..12165457 741..1376 100 <- Minus
chr3R 12165517..12165641 616..740 62 <- Minus
chr3R 12165924..12166293 246..615 100 <- Minus
chr3R 12166423..12166667 1..245 100   Minus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2008-12-08 19:22:53 Download gff for LD40489.complete
Subject Subject Range Query Range Percent Splice Strand
SF2-RA 1..768 82..849 100   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 20:17:00 Download gff for LD40489.complete
Subject Subject Range Query Range Percent Splice Strand
SF2-RB 1..768 82..849 100   Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 06:38:23 Download gff for LD40489.complete
Subject Subject Range Query Range Percent Splice Strand
SF2-RA 1..768 82..849 100   Plus
Sim4 to dmel-all-CDS-r5.9.fasta performed 2008-07-21 20:48:30 Download gff for LD40489.complete
Subject Subject Range Query Range Percent Splice Strand
SF2-RA 1..768 82..849 100   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-27 05:31:26 Download gff for LD40489.complete
Subject Subject Range Query Range Percent Splice Strand
SF2-RA 1..768 82..849 100   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2008-11-11 00:11:30 Download gff for LD40489.complete
Subject Subject Range Query Range Percent Splice Strand
SF2-RA 13..1388 1..1376 100   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 20:17:00 Download gff for LD40489.complete
Subject Subject Range Query Range Percent Splice Strand
SF2-RB 13..1388 1..1376 100   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 06:38:23 Download gff for LD40489.complete
Subject Subject Range Query Range Percent Splice Strand
SF2-RA 17..1392 1..1376 100   Plus
Sim4 to dmel-all-transcript-r5.9.fasta performed 2008-07-21 20:48:30 Download gff for LD40489.complete
Subject Subject Range Query Range Percent Splice Strand
SF2-RA 13..1388 1..1376 100   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-27 05:31:26 Download gff for LD40489.complete
Subject Subject Range Query Range Percent Splice Strand
SF2-RA 17..1392 1..1376 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 03:08:56 Download gff for LD40489.complete
Subject Subject Range Query Range Percent Splice Strand
3R 16340127..16340762 741..1376 100 <- Minus
3R 16340822..16340946 616..740 100 <- Minus
3R 16341229..16341598 246..615 100 <- Minus
3R 16341728..16341972 1..245 100   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 03:08:56 Download gff for LD40489.complete
Subject Subject Range Query Range Percent Splice Strand
3R 16340127..16340762 741..1376 100 <- Minus
3R 16340822..16340946 616..740 100 <- Minus
3R 16341229..16341598 246..615 100 <- Minus
3R 16341728..16341972 1..245 100   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 03:08:56 Download gff for LD40489.complete
Subject Subject Range Query Range Percent Splice Strand
3R 16340127..16340762 741..1376 100 <- Minus
3R 16340822..16340946 616..740 100 <- Minus
3R 16341229..16341598 246..615 100 <- Minus
3R 16341728..16341972 1..245 100   Minus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 06:38:23 Download gff for LD40489.complete
Subject Subject Range Query Range Percent Splice Strand
arm_3R 12165849..12166484 741..1376 100 <- Minus
arm_3R 12166544..12166668 616..740 100 <- Minus
arm_3R 12166951..12167320 246..615 100 <- Minus
arm_3R 12167450..12167694 1..245 100   Minus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 17:26:34 Download gff for LD40489.complete
Subject Subject Range Query Range Percent Splice Strand
3R 16082060..16082429 246..615 100 <- Minus
3R 16082559..16082803 1..245 100   Minus
3R 16080958..16081593 741..1376 100 <- Minus
3R 16081653..16081777 616..740 100 <- Minus

LD40489.pep Sequence

Translation from 81 to 848

> LD40489.pep
MGSRNECRIYVGNLPPDIRTKDIQDLFHKFGKVTFVDLKNRRGPPFAFVE
FEDARDADDAVKARDGYDYDGYRLRVEFPRGGGPGSYRGGNRNDRSRDGG
GRMGGRGPPAKRSQYRVMVTGLPASGSWQDLKDHMREAGDVCFADTYKDG
SGVVEFLRHEDMKYAIKKLDDSRFRSHEGEVAYIRVREDSGDNDRGGGGG
GSGGGGGGSGGGGSRDYRDRSRSRSFSSRPRRRGTPTYSPVRRQSYSRSR
SRSNY*

LD40489.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-16 14:49:55
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF16525-PA 253 GF16525-PA 1..253 1..255 1229 97.3 Plus
Dana\GF17608-PA 350 GF17608-PA 4..175 7..174 288 41 Plus
Dana\GF17902-PA 163 GF17902-PA 11..80 7..77 149 48.6 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-16 14:49:56
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG20059-PA 255 GG20059-PA 1..255 1..255 1287 100 Plus
Dere\GG19772-PA 135 GG19772-PA 5..131 8..131 162 37 Plus
Dere\GG17683-PA 144 GG17683-PA 11..81 7..78 148 47.9 Plus
Dere\GG19507-PA 159 GG19507-PA 11..81 7..78 144 46.6 Plus
Blast to dgri-all-translation-r1.3.fasta performed 2019-03-16 14:49:57
Subject Length Description Subject Range Query Range Score Percent Strand
Dgri\GH18077-PA 252 GH18077-PA 1..252 1..255 1222 96.1 Plus
Dgri\GH18528-PA 360 GH18528-PA 4..203 7..202 262 39.7 Plus
Dgri\GH24472-PA 163 GH24472-PA 11..81 7..78 144 46.6 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 11:26:46
Subject Length Description Subject Range Query Range Score Percent Strand
SF2-PB 255 CG6987-PB 1..255 1..255 1375 100 Plus
SF2-PA 255 CG6987-PA 1..255 1..255 1375 100 Plus
B52-PN 350 CG10851-PN 5..232 8..253 405 43.2 Plus
B52-PC 350 CG10851-PC 5..232 8..253 405 43.2 Plus
B52-PA 350 CG10851-PA 5..232 8..253 405 43.2 Plus
B52-PB 329 CG10851-PB 5..237 8..253 400 43.1 Plus
B52-PO 355 CG10851-PO 5..237 8..253 400 43.1 Plus
B52-PM 355 CG10851-PM 5..237 8..253 400 43.1 Plus
B52-PI 135 CG10851-PI 5..131 8..131 199 39.3 Plus
B52-PD 135 CG10851-PD 5..131 8..131 199 39.3 Plus
x16-PB 257 CG10203-PB 9..255 8..253 196 31.2 Plus
B52-PK 147 CG10851-PK 5..129 8..129 195 39.1 Plus
B52-PF 147 CG10851-PF 5..129 8..129 195 39.1 Plus
x16-PA 258 CG10203-PA 9..256 8..253 195 31.5 Plus
rump-PB 214 CG9373-PB 33..207 90..249 194 34.6 Plus
rump-PA 632 CG9373-PA 33..187 90..229 193 34.6 Plus
Rbp1-like-PC 158 CG1987-PC 11..142 7..116 184 37.6 Plus
Rbp1-like-PA 158 CG1987-PA 11..142 7..116 184 37.6 Plus
Rbp1-like-PB 247 CG1987-PB 11..116 7..110 184 43 Plus
Rbp1-PA 135 CG17136-PA 11..115 7..113 179 42.1 Plus
Rbp1-PD 144 CG17136-PD 11..101 7..107 165 41.6 Plus
Rsf1-PB 200 CG5655-PB 4..193 1..221 165 30.2 Plus
Rsf1-PA 200 CG5655-PA 4..193 1..221 165 30.2 Plus
SC35-PD 195 CG5442-PD 27..136 11..116 156 38.2 Plus
SC35-PC 195 CG5442-PC 27..136 11..116 156 38.2 Plus
SC35-PB 195 CG5442-PB 27..136 11..116 156 38.2 Plus
Blast to dmoj-all-translation-r1.3.fasta performed 2019-03-16 14:49:58
Subject Length Description Subject Range Query Range Score Percent Strand
Dmoj\GI24651-PA 246 GI24651-PA 1..246 1..255 1218 95.3 Plus
Dmoj\GI23736-PA 137 GI23736-PA 11..81 7..78 151 47.9 Plus
Dmoj\GI15337-PA 151 GI15337-PA 11..81 7..78 144 46.6 Plus
Blast to dper-all-translation-r1.3.fasta performed 2019-03-16 14:49:59
Subject Length Description Subject Range Query Range Score Percent Strand
Dper\GL22249-PA 263 GL22249-PA 1..263 1..255 1193 92.8 Plus
Dper\GL23543-PA 358 GL23543-PA 4..175 7..174 288 41.5 Plus
Dper\GL26725-PA 174 GL26725-PA 11..81 7..78 143 46.6 Plus
Dper\GL18979-PA 196 GL18979-PA 10..93 7..91 140 40.7 Plus
Blast to dpse-all-translation-r3.2.fasta performed 2019-03-16 14:50:00
Subject Length Description Subject Range Query Range Score Percent Strand
Dpse\GA20008-PA 263 GA20008-PA 1..263 1..255 1193 92.8 Plus
Dpse\GA10599-PA 357 GA10599-PA 4..175 7..174 289 41 Plus
Dpse\GA30013-PA 259 GA30013-PA 9..81 8..81 145 45.3 Plus
Dpse\GA15173-PA 161 GA15173-PA 11..81 7..78 144 46.6 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-16 14:50:01
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\GM15444-PA 255 GM15444-PA 1..255 1..255 1287 100 Plus
Dsec\GM24118-PA 135 GM24118-PA 5..131 8..131 162 37.4 Plus
Dsec\GM23896-PA 144 GM23896-PA 11..81 7..78 148 47.9 Plus
Blast to dsim-all-translation-r1.4.fasta performed 2019-03-16 14:50:02
Subject Length Description Subject Range Query Range Score Percent Strand
Dsim\GD18917-PA 135 GD18917-PA 5..131 8..131 162 37.4 Plus
Dsim\GD18708-PA 144 GD18708-PA 11..81 7..78 148 47.9 Plus
Blast to dvir-all-translation-r1.2.fasta performed 2019-03-16 14:50:03
Subject Length Description Subject Range Query Range Score Percent Strand
Dvir\GJ23504-PA 247 GJ23504-PA 1..247 1..255 1221 95.7 Plus
Dvir\GJ24113-PA 347 GJ24113-PA 4..175 7..174 286 41 Plus
Dvir\GJ10582-PA 140 GJ10582-PA 11..84 7..81 159 47.4 Plus
Dvir\GJ14774-PA 155 GJ14774-PA 11..81 7..78 146 46.6 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-16 14:50:05
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK13511-PA 263 GK13511-PA 1..263 1..255 1241 95.4 Plus
Dwil\GK13948-PA 362 GK13948-PA 4..180 7..174 296 40.9 Plus
Dwil\GK13897-PA 140 GK13897-PA 11..81 7..78 156 47.9 Plus
Dwil\GK16401-PA 176 GK16401-PA 11..81 7..78 146 46.6 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-16 14:50:06
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\GE26323-PA 254 GE26323-PA 1..254 1..255 1262 98.8 Plus
Dyak\GE26284-PA 135 GE26284-PA 5..131 8..131 162 37 Plus
Dyak\GE26048-PA 135 GE26048-PA 11..81 7..78 146 47.9 Plus
Dyak\GE16161-PA 160 GE16161-PA 11..81 7..78 144 46.6 Plus

LD40489.hyp Sequence

Translation from 81 to 848

> LD40489.hyp
MGSRNECRIYVGNLPPDIRTKDIQDLFHKFGKVTFVDLKNRRGPPFAFVE
FEDARDADDAVKARDGYDYDGYRLRVEFPRGGGPGSYRGGNRNDRSRDGG
GRMGGRGPPAKRSQYRVMVTGLPASGSWQDLKDHMREAGDVCFADTYKDG
SGVVEFLRHEDMKYAIKKLDDSRFRSHEGEVAYIRVREDSGDNDRGGGGG
GSGGGGGGSGGGGSRDYRDRSRSRSFSSRPRRRGTPTYSPVRRQSYSRSR
SRSNY*

LD40489.hyp Blast Records

Blast to dmel-all-translation-r6.02.fasta performed 2014-11-28 15:27:55
Subject Length Description Subject Range Query Range Score Percent Strand
SF2-PB 255 CG6987-PB 1..255 1..255 1375 100 Plus
SF2-PA 255 CG6987-PA 1..255 1..255 1375 100 Plus
B52-PN 350 CG10851-PN 5..232 8..253 405 43.2 Plus
B52-PC 350 CG10851-PC 5..232 8..253 405 43.2 Plus
B52-PA 350 CG10851-PA 5..232 8..253 405 43.2 Plus