Clone LD23842 Report

Search the DGRC for LD23842

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:238
Well:42
Vector:pOT2
Associated Gene/TranscriptTom40-RA
Protein status:LD23842.pep: gold
Preliminary Size:1300
Sequenced Size:1671

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
CG12157 2001-01-01 Release 2 assignment
CG12157 2002-05-16 Blastp of sequenced clone
CG12157 2003-01-01 Sim4 clustering to Release 3
Tom40 2008-04-29 Release 5.5 accounting
Tom40 2008-08-15 Release 5.9 accounting
Tom40 2008-12-18 5.12 accounting

Clone Sequence Records

LD23842.complete Sequence

1671 bp (1671 high quality bases) assembled on 2002-05-16

GenBank Submission: AY118926

> LD23842.complete
TCGAGACATAATAACCTCCGATATAGAAGTCCGATATCGAAACGTGTTGG
CTTTGAAATTACATAGATTACATCGGGACATTCGAAATGGGCAACGTGCT
AGCGGCTTCCTCCGGCGCCCCAGGCAGTGGCGCCTCAAATCTGGGCCTCG
GCCTACAGGAACCGGCTCCCCTGCCCTCTAATTCCGGCTCACTGACCGAA
TCCTCTTCGTCCGCCGAAGGCTTGGACTCACTTGCCGCCGCCAAGGACGC
AGCGCTGGAGAATCCCGGCACCGTTGAGGAGCTTCACAAAAAGTGCAAAG
ATATCCAGGCCATCACCTTCGAGGGCGCCAAGATCATGCTGAACAAGGGC
CTGAGCAACCACTTCCAGGTGTCGCACACCATCAACATGAGCAATGTGGT
ACCCAGTGGATATCGCTTCGGAGCCACCTATGTGGGCACCAAGGAGTTCA
GCCCCACGGAAGCTTTTCCCGTGCTCCTGGGCGACATCGATCCGGCTGGC
AACCTCAACGCCAATGTTATCCATCAGTTCTCTGCCCGTCTGCGCTGCAA
ATTCGCTTCGCAGATCCAGGAGTCCAAGGTGGTGGCCTCACAGCTGACGA
CCGACTATCGCGGTAGTGATTACACCCTCTCGCTGACGGTGGCCAATCCC
AGCATATTCACCAACTCCGGCGTGGTCGTTGGCCAATATCTCCAGTCAGT
CACTCCAGCCCTCGCCCTGGGCTCCGAACTGGCCTACCAGTTCGGTCCGA
ACGTCCCCGGCCGTCAGATAGCTATTATGTCCGTCGTGGGCCGCTATACG
GCTGGAAGCTCGGTGTGGTCGGGGACTCTGGGTCAGAGCGGTCTGCACGT
GTGCTACTACCAGAAGGCCAGCGACCAGCTGCAGATCGGTGCCGAGGTGG
AGACCAGTCTGCGGATGCAGGAGTCGGTGGCCACGTTAGCGTATCAGATC
GATCTGCCCAAAGCGAATCTGGTCTTCAGAGGCGGAATTGATTCCAACTG
GCAAATCTTTGGTGTTTTGGAGAAGCGTCTGGCTCCATTGCCATTCACAC
TAGCCCTGAGCGGACGCATGAACCACGTGAAGAACAACTTTAGACTCGGC
TGCGGGCTGATGATCGGCTAAGCCGGATCTTTGGACGGCCATTATCTACT
TCAGCCTCAGACCCCAAGCACACACCCATCCATTGTAACTTTTTCACATC
ATCCGCTAACAACAAGAAGAAGAACAACAACAAACAAAGAGATATATAAA
TCTGCTAACAAACTTTTTTTTATGATAATCTGTCTGTCGCTTGTGTGTAT
AAAAAATGCCTTGCATTGCAAAAGAGGCGGCCAGCAGGGATCTGGGATCC
TATGGAATGGCTTTTATTCTTTGATCCATTATGTACCAGTGTGCCACTGT
TTGTCGTCCGTTGTTAATCGATCAATTTAACCCACTGACAGAGTCATAAA
TGCGGAGTTCAAAATACAAGAATGAAAACTATTCCACAATTAGTATACAT
TTCTTCACTGAATACACACACACACACACACATCCAAAAGAAACATACAA
CAAGAAACTATCACTGTACATTTTATGTTGCTTCCTAAACGTACGCATTT
ATTTAGAACAACCAGCTATTTCCTCCAGACAAACAAAAATGAATTAAATA
ATTAAAAAAAAAAAAAAAAAA

LD23842.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 19:07:39
Subject Length Description Subject Range Query Range Score Percent Strand
Tom40.a 2030 Tom40.a 361..2030 1..1670 8335 99.9 Plus
Tom40-RA 1895 Tom40-RA 38..1707 1..1670 8335 99.9 Plus
Tom40.b 2120 Tom40.b 38..1707 1..1670 8335 99.9 Plus
Blast to d_melanogaster_OreR.fa performed 2019-03-16 21:50:10
Subject Length Description Subject Range Query Range Score Percent Strand
chrX 22417052 chrX 7630829..7631502 980..1653 3370 100 Plus
chrX 22417052 chrX 7630309..7630730 561..982 2110 100 Plus
chrX 22417052 chrX 7629314..7629617 1..304 1505 99.7 Plus
chrX 22417052 chrX 7629801..7630065 299..563 1325 100 Plus
chr2R 21145070 chr2R 2113066..2113765 303..1002 560 72 Plus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 19:14:07 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-16 21:50:08
Subject Length Description Subject Range Query Range Score Percent Strand
X 23542271 X 7738899..7739589 980..1670 3440 99.9 Plus
X 23542271 X 7738379..7738800 561..982 2110 100 Plus
X 23542271 X 7737384..7737687 1..304 1505 99.7 Plus
X 23542271 X 7737871..7738135 299..563 1325 100 Plus
2R 25286936 2R 6225929..6226628 303..1002 560 72 Plus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 20:38:43
Subject Length Description Subject Range Query Range Score Percent Strand
X 23527363 X 7746997..7747687 980..1670 3440 99.8 Plus
X 23527363 X 7746477..7746898 561..982 2110 100 Plus
X 23527363 X 7745482..7745785 1..304 1505 99.6 Plus
X 23527363 X 7745969..7746233 299..563 1325 100 Plus
2R 25260384 2R 6227128..6227215 303..390 290 88.6 Plus
2R 25260384 2R 6227680..6227827 855..1002 245 77.7 Plus
2R 25260384 2R 6227230..6227351 405..526 190 77 Plus
2R 25260384 2R 6227371..6227474 546..649 175 77.8 Plus
Blast to na_te.dros performed 2019-03-16 21:50:09
Subject Length Description Subject Range Query Range Score Percent Strand
Dvir\Tv1 6868 Dvir\Tv1 6868bp Derived from AF056940 (Rel. 62, Last updated, Version 4). 3944..4149 1429..1652 140 58.4 Plus

LD23842.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-16 21:50:55 Download gff for LD23842.complete
Subject Subject Range Query Range Percent Splice Strand
chrX 7629314..7629613 1..300 100 -> Plus
chrX 7629803..7630065 301..563 100 -> Plus
chrX 7630312..7630729 564..981 100 -> Plus
chrX 7630831..7631490 982..1641 100   Plus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2008-12-08 19:01:06 Download gff for LD23842.complete
Subject Subject Range Query Range Percent Splice Strand
Tom40-RB 1..1035 87..1121 100   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 17:50:51 Download gff for LD23842.complete
Subject Subject Range Query Range Percent Splice Strand
Tom40-RB 1..1035 87..1121 100   Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 18:06:20 Download gff for LD23842.complete
Subject Subject Range Query Range Percent Splice Strand
Tom40-RA 1..1035 87..1121 100   Plus
Sim4 to dmel-all-CDS-r5.9.fasta performed 2008-07-21 18:43:29 Download gff for LD23842.complete
Subject Subject Range Query Range Percent Splice Strand
Tom40-RB 1..1035 87..1121 100   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-27 16:33:31 Download gff for LD23842.complete
Subject Subject Range Query Range Percent Splice Strand
Tom40-RA 1..1035 87..1121 100   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2008-11-10 21:28:19 Download gff for LD23842.complete
Subject Subject Range Query Range Percent Splice Strand
Tom40-RA 32..1684 1..1653 100   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 17:50:51 Download gff for LD23842.complete
Subject Subject Range Query Range Percent Splice Strand
Tom40-RA 32..1684 1..1653 100   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 18:06:20 Download gff for LD23842.complete
Subject Subject Range Query Range Percent Splice Strand
Tom40-RA 32..1684 1..1653 100   Plus
Sim4 to dmel-all-transcript-r5.9.fasta performed 2008-07-21 18:43:29 Download gff for LD23842.complete
Subject Subject Range Query Range Percent Splice Strand
Tom40-RA 32..1684 1..1653 100   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-27 16:33:31 Download gff for LD23842.complete
Subject Subject Range Query Range Percent Splice Strand
Tom40-RA 24..1676 1..1653 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 21:50:55 Download gff for LD23842.complete
Subject Subject Range Query Range Percent Splice Strand
X 7737384..7737683 1..300 100 -> Plus
X 7737873..7738135 301..563 100 -> Plus
X 7738382..7738799 564..981 100 -> Plus
X 7738901..7739572 982..1653 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 21:50:55 Download gff for LD23842.complete
Subject Subject Range Query Range Percent Splice Strand
X 7737384..7737683 1..300 100 -> Plus
X 7737873..7738135 301..563 100 -> Plus
X 7738382..7738799 564..981 100 -> Plus
X 7738901..7739572 982..1653 100   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 21:50:55 Download gff for LD23842.complete
Subject Subject Range Query Range Percent Splice Strand
X 7737384..7737683 1..300 100 -> Plus
X 7737873..7738135 301..563 100 -> Plus
X 7738382..7738799 564..981 100 -> Plus
X 7738901..7739572 982..1653 100   Plus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 18:06:20 Download gff for LD23842.complete
Subject Subject Range Query Range Percent Splice Strand
arm_X 7631417..7631716 1..300 100 -> Plus
arm_X 7631906..7632168 301..563 100 -> Plus
arm_X 7632415..7632832 564..981 100 -> Plus
arm_X 7632934..7633605 982..1653 100   Plus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 15:15:45 Download gff for LD23842.complete
Subject Subject Range Query Range Percent Splice Strand
X 7745482..7745781 1..300 100 -> Plus
X 7745971..7746233 301..563 100 -> Plus
X 7746480..7746897 564..981 100 -> Plus
X 7746999..7747670 982..1653 100   Plus

LD23842.pep Sequence

Translation from 86 to 1120

> LD23842.pep
MGNVLAASSGAPGSGASNLGLGLQEPAPLPSNSGSLTESSSSAEGLDSLA
AAKDAALENPGTVEELHKKCKDIQAITFEGAKIMLNKGLSNHFQVSHTIN
MSNVVPSGYRFGATYVGTKEFSPTEAFPVLLGDIDPAGNLNANVIHQFSA
RLRCKFASQIQESKVVASQLTTDYRGSDYTLSLTVANPSIFTNSGVVVGQ
YLQSVTPALALGSELAYQFGPNVPGRQIAIMSVVGRYTAGSSVWSGTLGQ
SGLHVCYYQKASDQLQIGAEVETSLRMQESVATLAYQIDLPKANLVFRGG
IDSNWQIFGVLEKRLAPLPFTLALSGRMNHVKNNFRLGCGLMIG*

LD23842.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-15 23:23:53
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF11050-PA 337 GF11050-PA 1..337 1..344 1265 68.6 Plus
Dana\GF21026-PA 347 GF21026-PA 51..347 46..344 1142 71.9 Plus
Dana\GF20781-PA 328 GF20781-PA 1..327 1..343 366 28.1 Plus
Dana\GF18535-PA 320 GF18535-PA 31..311 58..343 194 23.8 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-15 23:23:53
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG19657-PA 344 GG19657-PA 1..344 1..344 1643 93 Plus
Dere\GG23200-PA 340 GG23200-PA 1..340 1..344 1248 69 Plus
Dere\GG16943-PA 322 GG16943-PA 33..313 58..343 226 24.9 Plus
Blast to dgri-all-translation-r1.3.fasta performed 2019-03-15 23:23:54
Subject Length Description Subject Range Query Range Score Percent Strand
Dgri\GH12583-PA 344 GH12583-PA 1..344 1..344 1400 74.7 Plus
Dgri\GH18215-PA 317 GH18215-PA 28..308 58..343 216 25.3 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 10:10:04
Subject Length Description Subject Range Query Range Score Percent Strand
Tom40-PC 344 CG12157-PC 1..344 1..344 1748 100 Plus
Tom40-PB 344 CG12157-PB 1..344 1..344 1748 100 Plus
Tom40-PA 344 CG12157-PA 1..344 1..344 1748 100 Plus
tomboy40-PA 340 CG8330-PA 1..340 1..344 1211 68.7 Plus
CG4520-PB 320 CG4520-PB 32..306 58..338 204 24.8 Plus
CG4520-PA 320 CG4520-PA 32..306 58..338 204 24.8 Plus
Blast to dmoj-all-translation-r1.3.fasta performed 2019-03-15 23:23:54
Subject Length Description Subject Range Query Range Score Percent Strand
Dmoj\GI16206-PA 344 GI16206-PA 1..344 1..344 1433 77.3 Plus
Dmoj\GI16403-PA 382 GI16403-PA 93..382 57..344 560 38.3 Plus
Dmoj\GI10168-PA 317 GI10168-PA 28..308 58..343 226 24.7 Plus
Blast to dper-all-translation-r1.3.fasta performed 2019-03-15 23:23:55
Subject Length Description Subject Range Query Range Score Percent Strand
Dper\GL14724-PA 334 GL14724-PA 1..334 1..344 1450 79.1 Plus
Dper\GL16251-PA 325 GL16251-PA 31..325 50..344 805 53 Plus
Blast to dpse-all-translation-r3.2.fasta performed 2019-03-15 23:23:56
Subject Length Description Subject Range Query Range Score Percent Strand
Dpse\GA11443-PA 334 GA11443-PA 1..334 1..344 1450 79.1 Plus
Dpse\GA25108-PA 328 GA25108-PA 34..328 50..344 814 53.7 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-15 23:23:56
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\GM17536-PA 344 GM17536-PA 1..344 1..344 1776 97.1 Plus
Dsec\GM16540-PA 340 GM16540-PA 1..340 1..344 1244 69.3 Plus
Dsec\GM24251-PA 321 GM24251-PA 32..312 58..343 215 24.2 Plus
Blast to dsim-all-translation-r1.4.fasta performed 2019-03-15 23:23:57
Subject Length Description Subject Range Query Range Score Percent Strand
Dsim\GD16856-PA 344 GD16856-PA 1..344 1..344 1776 97.1 Plus
Dsim\GD10402-PA 340 GD10402-PA 1..340 1..344 1244 69.3 Plus
Dsim\GD19040-PA 321 GD19040-PA 32..312 58..343 215 24.2 Plus
Blast to dvir-all-translation-r1.2.fasta performed 2019-03-15 23:23:57
Subject Length Description Subject Range Query Range Score Percent Strand
Dvir\GJ15896-PA 343 GJ15896-PA 1..343 1..344 1447 78.2 Plus
Dvir\GJ17024-PA 388 GJ17024-PA 92..388 50..344 541 36.4 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-15 23:23:58
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK25006-PA 346 GK25006-PA 1..346 1..344 1469 79.8 Plus
Dwil\GK19497-PA 341 GK19497-PA 1..341 1..344 1219 66.9 Plus
Dwil\GK15603-PA 386 GK15603-PA 99..385 58..343 598 40.8 Plus
Dwil\GK11414-PA 319 GK11414-PA 30..310 58..343 206 25.3 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-15 23:23:59
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\GE15731-PA 344 GE15731-PA 1..344 1..344 1640 93.6 Plus
Dyak\GE20769-PA 340 GE20769-PA 1..340 1..344 1254 67.5 Plus
Dyak\GE24330-PA 322 GE24330-PA 33..313 58..343 219 24.6 Plus

LD23842.hyp Sequence

Translation from 86 to 1120

> LD23842.hyp
MGNVLAASSGAPGSGASNLGLGLQEPAPLPSNSGSLTESSSSAEGLDSLA
AAKDAALENPGTVEELHKKCKDIQAITFEGAKIMLNKGLSNHFQVSHTIN
MSNVVPSGYRFGATYVGTKEFSPTEAFPVLLGDIDPAGNLNANVIHQFSA
RLRCKFASQIQESKVVASQLTTDYRGSDYTLSLTVANPSIFTNSGVVVGQ
YLQSVTPALALGSELAYQFGPNVPGRQIAIMSVVGRYTAGSSVWSGTLGQ
SGLHVCYYQKASDQLQIGAEVETSLRMQESVATLAYQIDLPKANLVFRGG
IDSNWQIFGVLEKRLAPLPFTLALSGRMNHVKNNFRLGCGLMIG*

LD23842.hyp Blast Records

Blast to dmel-all-translation-r6.02.fasta performed 2014-11-28 17:10:14
Subject Length Description Subject Range Query Range Score Percent Strand
Tom40-PC 344 CG12157-PC 1..344 1..344 1748 100 Plus
Tom40-PB 344 CG12157-PB 1..344 1..344 1748 100 Plus
Tom40-PA 344 CG12157-PA 1..344 1..344 1748 100 Plus
tomboy40-PA 340 CG8330-PA 1..340 1..344 1211 68.7 Plus
CG4520-PB 320 CG4520-PB 32..306 58..338 204 24.8 Plus