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Dicty_cDB
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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
VSD233
Library VS
(Link to library)
Clone ID VSD233
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U14699-1
Original site URL
Representative seq. ID VSD233Z
(Link to Original site)
Representative DNA sequence 
>VSD233 (VSD233Q) /CSM/VS/VSD2-B/VSD233Q.Seq.d/
XXXXXXXXXXTAAAAAAAAAAAAAAAAAAATGTTTGATTATTTTTTCGGTAGTAAAACAG
AAAACAAAAAATTAAAAGTAAATCAGGTTTTAAAAAAATACAAAGATTTATATGCAATAA
CAATTGAAAATGTTTTTACAAAAGAAGAATGTGAAGAATTAATTAGATTATCAGAAGAAA
AAGGATATGAACCTGCATTGGTAAATACCGGAAATGGTCAACAAGAATTAATGACAGATG
TAAGAAATAATGATAGATGCATAATAGATACAGAAGAATTATCAAATAAAATTTATGAGA
GAATTAAGGAATTTATCCCACAAGATTTTAGAGGGTCACCCAGTTGTATCATTANAT
sequence update 2001. 3.22
Translated Amino Acid sequence 
---KKKKKKMFDYFFGSKTENKKLKVNQVLKKYKDLYAITIENVFTKEECEELIRLSEEK
GYEPALVNTGNGQQELMTDVRNNDRCIIDTEELSNKIYERIKEFIPQDFRGSPSCIIX
Translated Amino Acid sequence (All Frames) 
Frame A:
---KKKKKKMFDYFFGSKTENKKLKVNQVLKKYKDLYAITIENVFTKEECEELIRLSEEK
GYEPALVNTGNGQQELMTDVRNNDRCIIDTEELSNKIYERIKEFIPQDFRGSPSCIIX


Frame B:
---kkkkkkcliifsvvkqktkn*k*irf*kntkiymq*qlkmflqkknvkn*ldyqkkk
dmnlhw*ipemvnkn**qm*eimida**iqknyqikfmrelrnlshkileghpvvslx


Frame C:
---kkkkknv*lffr**nrkqkiksksgfkkiqrficnnn*kcfykrrm*rin*iirrkr
i*tcigkyrkwstrindrckk***mhnryrriik*nl*en*giyptrf*rvtqlyhx
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSD233 (VSD233Q) /CSM/VS/VSD2-B/VSD233Q.Seq.d/                        496   e-139
VSD223 (VSD223Q) /CSM/VS/VSD2-A/VSD223Q.Seq.d/                        496   e-139
VSH596 (VSH596Q) /CSM/VS/VSH5-D/VSH596Q.Seq.d/                        464   e-130
VHD170 (VHD170Q) /CSM/VH/VHD1-C/VHD170Q.Seq.d/                        464   e-130
SSL176 (SSL176Q) /CSM/SS/SSL1-D/SSL176Q.Seq.d/                        464   e-130
SSF288 (SSF288Q) /CSM/SS/SSF2-D/SSF288Q.Seq.d/                        464   e-130
SSA448 (SSA448Q) /CSM/SS/SSA4-B/SSA448Q.Seq.d/                        464   e-130
SSI483 (SSI483Q) /CSM/SS/SSI4-D/SSI483Q.Seq.d/                        230   1e-59
VHP263 (VHP263Q) /CSM/VH/VHP2-C/VHP263Q.Seq.d/                         42   0.006
VHO869 (VHO869Q) /CSM/VH/VHO8-C/VHO869Q.Seq.d/                         42   0.006
own update 2003. 1. 9
Homology vs DNA 

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

AL357080|AL357080.13 Human DNA sequence from clone RP11-432L12 on chromosome 6 Contains  STSs and GSSs.    40  0.013  4
BU781135|BU781135.1 kb24b03.y1 Brugia malayi L3 pAMP1 v2 Brugia malayi cDNA 5' similar to TR:O01849 O01849 SIMILARITY TO RAT AND MOUSE SPERM OUTER DENSE FIBER PROTEIN. [1] ;, mRNA sequence.    46  0.29  1
BZ686927|BZ686927.1 PUBKD40TD ZM_0.6_1.0_KB Zea mays genomic clone ZMMBTa073H08, DNA sequence.    46  0.29  1
AQ841446|AQ841446.1 T136791b shotgun sub-library of BAC clone 16K14 Medicago truncatula genomic clone 16-K-14-095, genomic survey sequence.    46  0.29  1
AC137509|AC137509.9 Medicago truncatula clone mth2-20l21, WORKING DRAFT SEQUENCE, 12 unordered pieces.    46  0.82  6
BU917567|BU917567.1 kb30e03.y1 Brugia malayi 2D L3 pAMP1 v2 Brugia malayi cDNA 5' similar to TR:O01849 O01849 SIMILARITY TO RAT AND MOUSE SPERM OUTER DENSE FIBER PROTEIN. [1] ;, mRNA sequence.    44  1.1  1
BU917819|BU917819.1 kb35a03.y1 Brugia malayi 2D L3 pAMP1 v2 Brugia malayi cDNA 5' similar to TR:O01849 O01849 SIMILARITY TO RAT AND MOUSE SPERM OUTER DENSE FIBER PROTEIN. [1] ;, mRNA sequence.    44  1.1  1
BU781381|BU781381.1 kb18e03.y1 Brugia malayi L3 pAMP1 v2 Brugia malayi cDNA 5' similar to TR:O01849 O01849 SIMILARITY TO RAT AND MOUSE SPERM OUTER DENSE FIBER PROTEIN. [1] ;, mRNA sequence.    44  1.1  1
CB338487|CB338487.1 kb56c04.y1 Brugia malayi 2D L3 pAMP1 v2 Brugia malayi cDNA 5' similar to TR:O01849 O01849 SIMILARITY TO RAT AND MOUSE SPERM OUTER DENSE FIBER PROTEIN. [1] ;, mRNA sequence.    44  1.1  1
CB329014|CB329014.1 kb46f07.y1 Brugia malayi 2D L3 irradiated pAMP1 v2 Brugia malayi cDNA 5' similar to TR:O01849 O01849 SIMILARITY TO RAT AND MOUSE SPERM OUTER DENSE FIBER PROTEIN. [1] ;, mRNA sequence.    44  1.1  1
dna update 2003. 8.21
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CP000155_6431(CP000155|pid:none) Hahella chejuensis KCTC 2396, c...    47   3e-04
AM920428_695(AM920428|pid:none) Penicillium chrysogenum Wisconsi...    45   6e-04
CP000828_4690(CP000828|pid:none) Acaryochloris marina MBIC11017,...    37   0.17
AL513411_12(AL513411|pid:none) Neurospora crassa DNA linkage gro...    34   1.9
protein update 2009. 3.20
PSORT 

 psg: 0.68  gvh: 0.26  alm: 0.56  top: 0.53  tms: 0.00  mit: 0.22  mip: 0.00
 nuc: 0.12  erl: 0.00  erm: 0.00  pox: 0.00  px2: 0.00  vac: 0.00  rnp: 0.00
 act: 0.00  caa: 1.00  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 

	 36.0 %: nuclear
	 20.0 %: plasma membrane
	 12.0 %: cytoskeletal
	  8.0 %: extracellular, including cell wall
	  8.0 %: Golgi
	  8.0 %: vesicles of secretory system
	  4.0 %: mitochondrial
	  4.0 %: cytoplasmic

>> prediction for VSD233 is nuc
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID VSD233Z
3' end seq. 
>VSD233Z.Seq
----------TAAAAAAAAAAAAAAAAAAATGTTTGATTATTTTTTCGGTAGTAAAACAG
AAAACAAAAAATTAAAAGTAAATCAGGTTTTAAAAAAATACAAAGATTTATATGCAATAA
CAATTGAAAATGTTTTTACAAAAGAAGAATGTGAAGAATTAATTAGATTATCAGAAGAAA
AAGGATATGAACCTGCATTGGTAAATACCGGAAATGGTCAACAAGAATTAATGACAGATG
TAAGAAATAATGATAGATGCATAATAGATACAGAAGAATTATCAAATAAAATTTATGAGA
GAATTAAGGAATTTATCCCACAAGATTTTAGAGGGTCACCCAGTTGTATCATTANAT
Length of 3' end seq. 347
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -