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Dicty_cDB
Contig List | Clone List | cDNA Library List
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NBDC - LSDB Archive
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
VSD213
Library VS
(Link to library)
Clone ID VSD213
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16229-1
Original site URL
Representative seq. ID VSD213P
(Link to Original site)
Representative DNA sequence 
>VSD213 (VSD213Q) /CSM/VS/VSD2-A/VSD213Q.Seq.d/
AAAATATAGAAAATGTCAGGTGCTTTAAAAAATTTAGTTAAATCAGTTATTAAAGTTGGT
GAAAAAGTTCCAATGGATGTTACTTTAGGTAAAGCACTCCCACCAGTCGATGGTGTTTGT
GCAATGGCACCAAAAGTTTTATCAGGTGAACTTTTCAAAGACCGTAAAGTTGTTTTATTC
GCTGTTCCAGGTGCTTTTACTCCAACTTGTTCAGCCAAACATTTACCAGGTTTTATTGAA
AAATCAGAAGAAATTAAAAAAAAAGGTATCTCTGAAATCTTTTGTATTGCCACCAATGAC
CCATTTGTTATGAGTGCTTGGGGTAAAGACGTTAATGCAGGTACTGCAGTTACTTTACTT
TCAGATGGTAACTCTGAATTCACTAAAAAGATTGGACTTGAAATGGATGGTAAGGCTTTC
TTACTTGGTGAAGACAGATCTCAAAGATATGCTATGATCCTTGACTCTGGTGTTGTCAAA
CATCTTGCAGTTGAAGAXXXXXXXXXXCCACGCGTCCCGAAAATATAGAAAATGTCAGGT
GCTTTAAAAAATTTAGTTAAATCAGTTATTAAAGTTGGTGAAAAAGTTCCAATGGATGTT
ACTTTAGGTAAAGCACTCCCACCAGTCGATGGTGTTTGTGCAATGGCACCAAAAGTTTTA
TCAGGTGAACTTTTCAAAGACCGTAAAGTTGTTTTATTCGCTGTTCCAGGTGCTTTTACT
CCAACTTGTTCAGCCAAACATTTACCAGGTTTTATTGAAAAATCAGAAGAAATTAAAAAA
AAAGGTATCTCTGAAATCTTTTGTATTGCCACCAATGACCCATTTGTTATGAGTGCTTGG
GGTAAAGACGTTAATGCAGGTACTGCAGTTACTTTACTTTCAGATGGTAACTCTGAATTC
ACTAAAAAGATTGGACTTGAAATGGATGGTAAGGCTTTCTTACTTGGTGAAGACAGATCT
CAAAGATATGCTATGATCCTTGACTCTGGTGTTGTCAAACATCTTGCAGTTGAAGAAGGT
GGTAAATTTGATGTATCATCTGCTGAAGCAATCTTAAAACAATTATAAACATAAAATCAA
TCTATAAATAATCAAAAAAGAANNAAAATAAAAAAATAAAAAATATAAAA
sequence update 2001. 3.22
Translated Amino Acid sequence 
ki*KMSGALKNLVKSVIKVGEKVPMDVTLGKALPPVDGVCAMAPKVLSGELFKDRKVVLF
AVPGAFTPTCSAKHLPGFIEKSEEIKKKGISEIFCIATNDPFVMSAWGKDVNAGTAVTLL
SDGNSEFTKKIGLEMDGKAFLLGEDRSQRYAMILDSGVVKHLAVE---

---TRPENIENVRCFKKFS*isy*sw*kssngcyfr*stptsrwclcngtksfir*tfqr
p*scfircsrcfysnlfsqtftrfy*kirrn*kkryl*nllychq*picyeclg*rr*cr
ycsyftfrw*l*ih*kdwt*ngw*gfltw*rqiskicydp*lwccqtscs*rrw*i*cii
c*snlktiiniksiyk*skkxxnkkiknik
Translated Amino Acid sequence (All Frames) 
Frame A:
ki*KMSGALKNLVKSVIKVGEKVPMDVTLGKALPPVDGVCAMAPKVLSGELFKDRKVVLF
AVPGAFTPTCSAKHLPGFIEKSEEIKKKGISEIFCIATNDPFVMSAWGKDVNAGTAVTLL
SDGNSEFTKKIGLEMDGKAFLLGEDRSQRYAMILDSGVVKHLAVE---

---prvpki*kmsgalknlvksvikvgekvpmdvtlgkalppvdgvcamapkvlsgelfk
drkvvlfavpgaftptcsakhlpgfiekseeikkkgiseifciatndpfvmsawgkdvna
gtavtllsdgnseftkkiglemdgkafllgedrsqryamildsgvvkhlaveeggkfdvs
saeailkql*t*nqsinnqkrxkikk*ki*

Frame B:
kyrkcqvl*ki*lnqllklvkkfqwmll*vkhshqsmvfvqwhqkfyqvnfsktvklfys
lfqvlllqlvqpniyqvllknqkklkkkvslksfvlppmthll*vlgvktlmqvlqllyf
qmvtlnslkrldlkwmvrlsylvktdlkdml*sltlvlsnilqlk---

---hasrkyrkcqvl*ki*lnqllklvkkfqwmll*vkhshqsmvfvqwhqkfyqvnfsk
tvklfyslfqvlllqlvqpniyqvllknqkklkkkvslksfvlppmthll*vlgvktlmq
vlqllyfqmvtlnslkrldlkwmvrlsylvktdlkdml*sltlvlsnilqlkkvvnlmyh
llkqs*nnykhkinl*iikkexk*knkkyk

Frame C:
nienvrcfkkfs*isy*sw*kssngcyfr*stptsrwclcngtksfir*tfqrp*scfir
csrcfysnlfsqtftrfy*kirrn*kkryl*nllychq*picyeclg*rr*crycsyftf
rw*l*ih*kdwt*ngw*gfltw*rqiskicydp*lwccqtscs*r---

---TRPENIENVRCFKKFS*isy*sw*kssngcyfr*stptsrwclcngtksfir*tfqr
p*scfircsrcfysnlfsqtftrfy*kirrn*kkryl*nllychq*picyeclg*rr*cr
ycsyftfrw*l*ih*kdwt*ngw*gfltw*rqiskicydp*lwccqtscs*rrw*i*cii
c*snlktiiniksiyk*skkxxnkkiknik
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSD213 (VSD213Q) /CSM/VS/VSD2-A/VSD213Q.Seq.d/                       1955   0.0
VHF501 (VHF501Q) /CSM/VH/VHF5-A/VHF501Q.Seq.d/                       1033   0.0
SSG643 (SSG643Q) /CSM/SS/SSG6-B/SSG643Q.Seq.d/                       1033   0.0
VSD185 (VSD185Q) /CSM/VS/VSD1-D/VSD185Q.Seq.d/                       1007   0.0
VSA450 (VSA450Q) /CSM/VS/VSA4-C/VSA450Q.Seq.d/                        969   0.0
SSF753 (SSF753Q) /CSM/SS/SSF7-C/SSF753Q.Seq.d/                        961   0.0
VSH776 (VSH776Q) /CSM/VS/VSH7-D/VSH776Q.Seq.d/                        955   0.0
SHJ382 (SHJ382Q) /CSM/SH/SHJ3-D/SHJ382Q.Seq.d/                        954   0.0
VHJ449 (VHJ449Q) /CSM/VH/VHJ4-C/VHJ449Q.Seq.d/                        926   0.0
SSE376 (SSE376Q) /CSM/SS/SSE3-D/SSE376Q.Seq.d/                        922   0.0
own update 2004.12.25
Homology vs DNA 

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

BF779954|BF779954.1 3254-25 hindgut and Malpighian tubule cDNA library Ctenocephalides felis cDNA clone 3254-25, mRNA sequence.    48  8e-06  2
AE001102|AE001102.1 Archaeoglobus fulgidus section 5 of 172 of the complete genome.    46  0.95  1
AC132016|AC132016.3 Rattus norvegicus clone CH230-218A13, WORKING DRAFT SEQUENCE, 1 ordered piece.    46  0.95  1
BQ476622|BQ476622.1 curculio3e06.g Curculio glandium cDNA Curculio glandium cDNA clone curculio3e06 3', mRNA sequence.    46  0.95  1
BQ476340|BQ476340.1 curculio3e06.b Curculio glandium cDNA Curculio glandium cDNA clone curculio3e06 5', mRNA sequence.    46  0.95  1
AP004589|AP004589.2 Oryza sativa (japonica cultivar-group) genomic DNA, chromosome 8, PAC clone:P0556A11.    42  0.97  3
BU039073|BU039073.1 PP_LEa0001C12f Peach developing fruit mesocarp Prunus persica cDNA clone PP_LEa0001C12f, mRNA sequence.    34  1.4  2
M25314|M25314.1 Owl monkey involucrin (small allele) gene, partial cds.    34  1.8  2
AF000191|AF000191.1 Caenorhabditis elegans cosmid T23C6.    30  3.1  6
M25313|M25313.1 Owl monkey involucrin (large allele) gene, complete cds.    34  3.2  2
dna update 2003. 8.21
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CP000655_172(CP000655|pid:none) Polynucleobacter necessarius sub...   140   6e-32
CP001010_161(CP001010|pid:none) Polynucleobacter necessarius sub...   139   1e-31
CP000613_3568(CP000613|pid:none) Rhodospirillum centenum SW, com...   138   4e-31
AE005673_3368(AE005673|pid:none) Caulobacter crescentus CB15, co...   135   2e-30
AE017282_41(AE017282|pid:none) Methylococcus capsulatus str. Bat...   135   3e-30
CP000248_1994(CP000248|pid:none) Novosphingobium aromaticivorans...   134   6e-30
GN105579_1(GN105579|pid:none) Sequence 10360 from Patent WO20090...   134   8e-30
AE015451_2674(AE015451|pid:none) Pseudomonas putida KT2440 compl...   134   8e-30
BX640426_146(BX640426|pid:none) Bordetella parapertussis strain ...   133   1e-29
CP000712_3003(CP000712|pid:none) Pseudomonas putida F1, complete...   132   3e-29
protein update 2009. 7.29
PSORT 

 psg: 0.59  gvh: 0.46  alm: 0.42  top: 0.53  tms: 0.00  mit: 0.26  mip: 0.00
 nuc: 0.00  erl: 0.00  erm: 0.40  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 

	 44.0 %: cytoplasmic
	 32.0 %: nuclear
	 16.0 %: mitochondrial
	  4.0 %: peroxisomal
	  4.0 %: endoplasmic reticulum

>> prediction for VSD213 is cyt
5' end seq. ID VSD213F
5' end seq. 
>VSD213F.Seq
AAAATATAGAAAATGTCAGGTGCTTTAAAAAATTTAGTTAAATCAGTTATTAAAGTTGGT
GAAAAAGTTCCAATGGATGTTACTTTAGGTAAAGCACTCCCACCAGTCGATGGTGTTTGT
GCAATGGCACCAAAAGTTTTATCAGGTGAACTTTTCAAAGACCGTAAAGTTGTTTTATTC
GCTGTTCCAGGTGCTTTTACTCCAACTTGTTCAGCCAAACATTTACCAGGTTTTATTGAA
AAATCAGAAGAAATTAAAAAAAAAGGTATCTCTGAAATCTTTTGTATTGCCACCAATGAC
CCATTTGTTATGAGTGCTTGGGGTAAAGACGTTAATGCAGGTACTGCAGTTACTTTACTT
TCAGATGGTAACTCTGAATTCACTAAAAAGATTGGACTTGAAATGGATGGTAAGGCTTTC
TTACTTGGTGAAGACAGATCTCAAAGATATGCTATGATCCTTGACTCTGGTGTTGTCAAA
CATCTTGCAGTTGAAGA----------
Length of 5' end seq. 497
3' end seq. ID VSD213Z
3' end seq. 
>VSD213Z.Seq
----------CCACGCGTCCCGAAAATATAGAAAATGTCAGGTGCTTTAAAAAATTTAGT
TAAATCAGTTATTAAAGTTGGTGAAAAAGTTCCAATGGATGTTACTTTAGGTAAAGCACT
CCCACCAGTCGATGGTGTTTGTGCAATGGCACCAAAAGTTTTATCAGGTGAACTTTTCAA
AGACCGTAAAGTTGTTTTATTCGCTGTTCCAGGTGCTTTTACTCCAACTTGTTCAGCCAA
ACATTTACCAGGTTTTATTGAAAAATCAGAAGAAATTAAAAAAAAAGGTATCTCTGAAAT
CTTTTGTATTGCCACCAATGACCCATTTGTTATGAGTGCTTGGGGTAAAGACGTTAATGC
AGGTACTGCAGTTACTTTACTTTCAGATGGTAACTCTGAATTCACTAAAAAGATTGGACT
TGAAATGGATGGTAAGGCTTTCTTACTTGGTGAAGACAGATCTCAAAGATATGCTATGAT
CCTTGACTCTGGTGTTGTCAAACATCTTGCAGTTGAAGAAGGTGGTAAATTTGATGTATC
ATCTGCTGAAGCAATCTTAAAACAATTATAAACATAAAATCAATCTATAAATAATCAAAA
AAGAANNAAAATAAAAAAATAAAAAATATAAAA
Length of 3' end seq. 623
Connected seq. ID VSD213P
Connected seq. 
>VSD213P.Seq
AAAATATAGAAAATGTCAGGTGCTTTAAAAAATTTAGTTAAATCAGTTATTAAAGTTGGT
GAAAAAGTTCCAATGGATGTTACTTTAGGTAAAGCACTCCCACCAGTCGATGGTGTTTGT
GCAATGGCACCAAAAGTTTTATCAGGTGAACTTTTCAAAGACCGTAAAGTTGTTTTATTC
GCTGTTCCAGGTGCTTTTACTCCAACTTGTTCAGCCAAACATTTACCAGGTTTTATTGAA
AAATCAGAAGAAATTAAAAAAAAAGGTATCTCTGAAATCTTTTGTATTGCCACCAATGAC
CCATTTGTTATGAGTGCTTGGGGTAAAGACGTTAATGCAGGTACTGCAGTTACTTTACTT
TCAGATGGTAACTCTGAATTCACTAAAAAGATTGGACTTGAAATGGATGGTAAGGCTTTC
TTACTTGGTGAAGACAGATCTCAAAGATATGCTATGATCCTTGACTCTGGTGTTGTCAAA
CATCTTGCAGTTGAAGA----------CCACGCGTCCCGAAAATATAGAAAATGTCAGGT
GCTTTAAAAAATTTAGTTAAATCAGTTATTAAAGTTGGTGAAAAAGTTCCAATGGATGTT
ACTTTAGGTAAAGCACTCCCACCAGTCGATGGTGTTTGTGCAATGGCACCAAAAGTTTTA
TCAGGTGAACTTTTCAAAGACCGTAAAGTTGTTTTATTCGCTGTTCCAGGTGCTTTTACT
CCAACTTGTTCAGCCAAACATTTACCAGGTTTTATTGAAAAATCAGAAGAAATTAAAAAA
AAAGGTATCTCTGAAATCTTTTGTATTGCCACCAATGACCCATTTGTTATGAGTGCTTGG
GGTAAAGACGTTAATGCAGGTACTGCAGTTACTTTACTTTCAGATGGTAACTCTGAATTC
ACTAAAAAGATTGGACTTGAAATGGATGGTAAGGCTTTCTTACTTGGTGAAGACAGATCT
CAAAGATATGCTATGATCCTTGACTCTGGTGTTGTCAAACATCTTGCAGTTGAAGAAGGT
GGTAAATTTGATGTATCATCTGCTGAAGCAATCTTAAAACAATTATAAACATAAAATCAA
TCTATAAATAATCAAAAAAGAANNAAAATAAAAAAATAAAAAATATAAAA
Length of connected seq. 1120
Full length Seq ID -
Full length Seq. -
Length of full length seq. -