VSJ267
Library VS
(Link to library)
Clone ID VSJ267
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U13793-1
Original site URL
Representative seq. ID VSJ267P
(Link to Original site)
Representative DNA sequence
>VSJ267 (VSJ267Q) /CSM/VS/VSJ2-C/VSJ267Q.Seq.d/
TCGACCCACGACGTCCGAATGTCAAAAGCACAAGCCGTCGGTAGTAACTACAGAGTATCA
CTCGGTCTTCCAGTTGGTGCTGTCATGAACAGTGCTGATAATTCTGGTGCCAAAAATTTA
TACGTCATTGCCGTCAAAGGTATCAAAGGTCGTTTAAATAGATTACCATCCGCAGGTGTT
GGTGATATGGTCATGGCTACCGTCAAAAAGGGTAAACCAGAATTAAGAAAGAAAGTTTGC
ACTGGTTTAGTTGTCAGACAAAGAAAACACTGGAAGAGAAAGGATGGTGTTTACATCTAT
TTCGAAGATAACGCTGGTGTTATGTGTAATCCAAAAGGTGAAGTCAAAGGTAACATTCTC
GGACCAGTCGCCAAGGAATGCTCCGATTTATGGCCAAAGGTTGCCACCAATGCCGGTACC
ATTGTTTAAATAAATACACATAAAGTTNAAXXXXXXXXXXAATGTCAAAAGCACAAGCCG
TCGGTAGTAACTACAGAGTATCACTCGGTCTTCCAGTTGGTGCTGTCATGAACAGTGCTG
ATAATTCTGGTGCCAAAAATTTATACGTCATTGCCGTCAAAGGTATCAAAGGTCGTTTAA
ATAGATTACCATCCGCAGGTGTTGGTGATATGGTCATGGCTACCGTCAAAAAGGGTAAAC
CAGAATTAAGAAAGAAAGTTTGCACTGGTTTAGTTGTCAGACAAAGAAAACACTGGAAGA
GAAAGGATGGTGTTTACATCTATTTCGAAGATAACGCTGGTGTTATGTGTAATCCAAAAG
GTGAAGTCAAAGGTAACATTCTCGGACCAGTCGCCAAGGAATGCTCCGATTTAGGCCAAA
GGTTGCCACCAATGCCGGTACCATNTTTAAATAAATACACATAAAG
sequence update 2001. 3.22
Translated Amino Acid sequence
sthdvrmskaqavgsnyrvslglpvgavmnsadnsgaknlyviavkgikgrlnrlpsagv
gdmvmatvkkgkpelrkkvctglvvrqrkhwkrkdgvyiyfednagvmcnpkgevkgnil
gpvakecsdlwpkvatnagtiv*INTHKVX---

---MSKAQAVGSNYRVSLGLPVGAVMNSADNSGAKNLYVIAVKGIKGRLNRLPSAGVGDM
VMATVKKGKPELRKKVCTGLVVRQRKHWKRKDGVYIYFEDNAGVMCNPKGEVKGNILGPV
AKECSDLGQRLPPMPVPXLNKYT*


Translated Amino Acid sequence (All Frames)
Frame A:
sthdvrmskaqavgsnyrvslglpvgavmnsadnsgaknlyviavkgikgrlnrlpsagv
gdmvmatvkkgkpelrkkvctglvvrqrkhwkrkdgvyiyfednagvmcnpkgevkgnil
gpvakecsdlwpkvatnagtiv*INTHKVX---

---nvkstsrr**lqsitrssswccheqc**fwcqkfirhcrqryqrsfk*itirrcw*y
ghgyrqkg*trikkeslhwfscqtkktleekgwclhlfrr*rwcyv*skr*sqr*hsrts
rqgmlrfrpkvatnagtxfk*ihik

Frame B:
rpttsecqkhkpsvvtteyhsvfqlvls*tvliilvpkiytslpskvskvv*idyhpqvl
viwswlpskrvnqn*erkfalv*lsdkentgrermvftsiskitlvlcviqkvkskvtfs
dqsprnapiygqrlppmpvplfk*ihikx---

---MSKAQAVGSNYRVSLGLPVGAVMNSADNSGAKNLYVIAVKGIKGRLNRLPSAGVGDM
VMATVKKGKPELRKKVCTGLVVRQRKHWKRKDGVYIYFEDNAGVMCNPKGEVKGNILGPV
AKECSDLGQRLPPMPVPXLNKYT*

Frame C:
dprrpnvkstsrr**lqsitrssswccheqc**fwcqkfirhcrqryqrsfk*itirrcw
*yghgyrqkg*trikkeslhwfscqtkktleekgwclhlfrr*rwcyv*skr*sqr*hsr
tsrqgmlrfmakgchqcryhclnkyt*sx---

---cqkhkpsvvtteyhsvfqlvls*tvliilvpkiytslpskvskvv*idyhpqvlviw
swlpskrvnqn*erkfalv*lsdkentgrermvftsiskitlvlcviqkvkskvtfsdqs
prnapi*akgchqcryhx*inthk

Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

VSJ267 (VSJ267Q) /CSM/VS/VSJ2-C/VSJ267Q.Seq.d/ 1685 0.0
VSK191 (VSK191Q) /CSM/VS/VSK1-D/VSK191Q.Seq.d/ 852 0.0
VSJ725 (VSJ725Q) /CSM/VS/VSJ7-B/VSJ725Q.Seq.d/ 852 0.0
VSJ286 (VSJ286Q) /CSM/VS/VSJ2-D/VSJ286Q.Seq.d/ 852 0.0
VSJ211 (VSJ211Q) /CSM/VS/VSJ2-A/VSJ211Q.Seq.d/ 852 0.0
VSJ195 (VSJ195Q) /CSM/VS/VSJ1-D/VSJ195Q.Seq.d/ 852 0.0
VSJ186 (VSJ186Q) /CSM/VS/VSJ1-D/VSJ186Q.Seq.d/ 852 0.0
VSI870 (VSI870Q) /CSM/VS/VSI8-C/VSI870Q.Seq.d/ 852 0.0
VSI206 (VSI206Q) /CSM/VS/VSI2-A/VSI206Q.Seq.d/ 852 0.0
VSI106 (VSI106Q) /CSM/VS/VSI1-A/VSI106Q.Seq.d/ 852 0.0

own update 2004.12.25
Homology vs DNA

Score E
Sequences producing significant alignments: (bits) Value N

BG661762|BG661762.1 kx06a08.y1 Parastrongyloides trichosuri IL SL1 TOPO v2 Parastrongyloides trichosuri cDNA similar to SW:RL23_CAEEL P48158 PROBABLE 60S RIBOSOMAL PROTEIN L23. [1] ;, mRNA sequence. 64 5e-32 5
BG301543|BG301543.1 kt02d05.y1 Strongyloides ratti L1 SL1 Topo1 Chiapelli McCarter Strongyloides ratti cDNA 5' similar to SW:RL23_CAEEL P48158 PROBABLE 60S RIBOSOMAL PROTEIN L23. [1] ;, mRNA sequence. 66 2e-21 4
BG301842|BG301842.1 kt06b05.y1 Strongyloides ratti L3 adult SL1 Topo1 Chiapelli McCarter Strongyloides ratti cDNA 5' similar to SW:RL23_CAEEL P48158 PROBABLE 60S RIBOSOMAL PROTEIN L23. [1] ;, mRNA sequence. 66 2e-21 4
BG301372|BG301372.1 kt04f05.y1 Strongyloides ratti L1 SL1 Topo1 Chiapelli McCarter Strongyloides ratti cDNA 5' similar to SW:RL23_CAEEL P48158 PROBABLE 60S RIBOSOMAL PROTEIN L23. [1] ;, mRNA sequence. 66 6e-21 4
BG661420|BG661420.1 kx01f05.y1 Parastrongyloides trichosuri IL SL1 TOPO v2 Parastrongyloides trichosuri cDNA similar to SW:RL23_CAEEL P48158 PROBABLE 60S RIBOSOMAL PROTEIN L23. [1] ;, mRNA sequence. 50 4e-19 4
AV536650|AV536650.1 Arabidopsis thaliana cDNA clone:pAZNII0387R, 5' end. 52 3e-16 3
Z47587|Z47587.1 A. thaliana transcribed sequence; clone FAI235; 5' end; Similar to 60S ribosomal protein L1 ; Nicotiana tabacum. 48 6e-15 3
AY081677|AY081677.1 Arabidopsis thaliana similar to 60S ribosomal protein L17 (At1g04480) mRNA, complete cds. 48 2e-14 3
CD821332|CD821332.1 BN25.041I11F011127 BN25 Brassica napus cDNA clone BN25041I11, mRNA sequence. 54 2e-14 4
AX507764|AX507764.1 Sequence 2459 from Patent WO0216655. 48 2e-14 3
dna update 2003. 7.18
Homology vs Protein

Score E
Sequences producing significant alignments: (bits) Value

BC102556_1(BC102556|pid:none) Bos taurus ribosomal protein L23, ... 206 8e-52
(Q6PC14) RecName: Full=60S ribosomal protein L23; &AY684289_1(A... 206 8e-52
AK012694_1(AK012694|pid:none) Mus musculus 10, 11 days embryo wh... 206 1e-51
BT058333_1(BT058333|pid:none) Salmo salar clone Contig3997 60S r... 205 2e-51
EU042114_1(EU042114|pid:none) Epinephelus coioides ribosomal pro... 205 2e-51
BC003518_1(BC003518|pid:none) Homo sapiens, Similar to ribosomal... 205 2e-51
BC073541_1(BC073541|pid:none) Xenopus laevis MGC82808 protein, m... 203 5e-51
CP000498_170(CP000498|pid:none) Pichia stipitis CBS 6054 chromos... 203 5e-51
(Q5REU2) RecName: Full=60S ribosomal protein L23; &CR857424_1(C... 203 5e-51
CR382130_420(CR382130|pid:none) Yarrowia lipolytica strain CLIB1... 203 5e-51
protein update 2009. 3.25
PSORT

psg: 0.73 gvh: 0.37 alm: 0.47 top: 0.53 tms: 0.00 mit: 0.30 mip: 0.10
nuc: 0.17 erl: 0.00 erm: 0.20 pox: 0.00 px2: 0.00 vac: 0.00 rnp: 0.00
act: 0.00 caa: 0.00 yqr: 0.00 tyr: 0.00 leu: 0.00 gpi: 0.00 myr: 0.00
dna: 0.00 rib: 0.00 bac: 0.00 m1a: 0.00 m1b: 0.00 m2 : 0.00 mNt: 0.00
m3a: 0.00 m3b: 0.00 m_ : 1.00

52.0 %: nuclear
32.0 %: cytoplasmic
8.0 %: mitochondrial
4.0 %: cytoskeletal
4.0 %: vacuolar

>> prediction for VSJ267 is nuc

5' end seq. ID VSJ267F
5' end seq.
>VSJ267F.Seq
TCGACCCACGACGTCCGAATGTCAAAAGCACAAGCCGTCGGTAGTAACTACAGAGTATCA
CTCGGTCTTCCAGTTGGTGCTGTCATGAACAGTGCTGATAATTCTGGTGCCAAAAATTTA
TACGTCATTGCCGTCAAAGGTATCAAAGGTCGTTTAAATAGATTACCATCCGCAGGTGTT
GGTGATATGGTCATGGCTACCGTCAAAAAGGGTAAACCAGAATTAAGAAAGAAAGTTTGC
ACTGGTTTAGTTGTCAGACAAAGAAAACACTGGAAGAGAAAGGATGGTGTTTACATCTAT
TTCGAAGATAACGCTGGTGTTATGTGTAATCCAAAAGGTGAAGTCAAAGGTAACATTCTC
GGACCAGTCGCCAAGGAATGCTCCGATTTATGGCCAAAGGTTGCCACCAATGCCGGTACC
ATTGTTTAAATAAATACACATAAAGTTNAA----------
Length of 5' end seq. 450
3' end seq. ID VSJ267Z
3' end seq.
>VSJ267Z.Seq
----------AATGTCAAAAGCACAAGCCGTCGGTAGTAACTACAGAGTATCACTCGGTC
TTCCAGTTGGTGCTGTCATGAACAGTGCTGATAATTCTGGTGCCAAAAATTTATACGTCA
TTGCCGTCAAAGGTATCAAAGGTCGTTTAAATAGATTACCATCCGCAGGTGTTGGTGATA
TGGTCATGGCTACCGTCAAAAAGGGTAAACCAGAATTAAGAAAGAAAGTTTGCACTGGTT
TAGTTGTCAGACAAAGAAAACACTGGAAGAGAAAGGATGGTGTTTACATCTATTTCGAAG
ATAACGCTGGTGTTATGTGTAATCCAAAAGGTGAAGTCAAAGGTAACATTCTCGGACCAG
TCGCCAAGGAATGCTCCGATTTAGGCCAAAGGTTGCCACCAATGCCGGTACCATNTTTAA
ATAAATACACATAAAG
Length of 3' end seq. 426
Connected seq. ID VSJ267P
Connected seq.
>VSJ267P.Seq
TCGACCCACGACGTCCGAATGTCAAAAGCACAAGCCGTCGGTAGTAACTACAGAGTATCA
CTCGGTCTTCCAGTTGGTGCTGTCATGAACAGTGCTGATAATTCTGGTGCCAAAAATTTA
TACGTCATTGCCGTCAAAGGTATCAAAGGTCGTTTAAATAGATTACCATCCGCAGGTGTT
GGTGATATGGTCATGGCTACCGTCAAAAAGGGTAAACCAGAATTAAGAAAGAAAGTTTGC
ACTGGTTTAGTTGTCAGACAAAGAAAACACTGGAAGAGAAAGGATGGTGTTTACATCTAT
TTCGAAGATAACGCTGGTGTTATGTGTAATCCAAAAGGTGAAGTCAAAGGTAACATTCTC
GGACCAGTCGCCAAGGAATGCTCCGATTTATGGCCAAAGGTTGCCACCAATGCCGGTACC
ATTGTTTAAATAAATACACATAAAGTTNAA----------AATGTCAAAAGCACAAGCCG
TCGGTAGTAACTACAGAGTATCACTCGGTCTTCCAGTTGGTGCTGTCATGAACAGTGCTG
ATAATTCTGGTGCCAAAAATTTATACGTCATTGCCGTCAAAGGTATCAAAGGTCGTTTAA
ATAGATTACCATCCGCAGGTGTTGGTGATATGGTCATGGCTACCGTCAAAAAGGGTAAAC
CAGAATTAAGAAAGAAAGTTTGCACTGGTTTAGTTGTCAGACAAAGAAAACACTGGAAGA
GAAAGGATGGTGTTTACATCTATTTCGAAGATAACGCTGGTGTTATGTGTAATCCAAAAG
GTGAAGTCAAAGGTAACATTCTCGGACCAGTCGCCAAGGAATGCTCCGATTTAGGCCAAA
GGTTGCCACCAATGCCGGTACCATNTTTAAATAAATACACATAAAG
Length of connected seq. 876
Full length Seq ID -
Full length Seq. -
Length of full length seq. -