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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
VSD310
Library VS
(Link to library)
Clone ID VSD310
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U14135-1
Original site URL
Representative seq. ID VSD310P
(Link to Original site)
Representative DNA sequence 
>VSD310 (VSD310Q) /CSM/VS/VSD3-A/VSD310Q.Seq.d/
ATTCCAAAATAAACAAAAAGAAGAAGCTAAGGCATTAAAAGCAATGGCTGATAAAGCAAA
GGGAGGTGGTCCATTAGGTGGAAGTGGAATTAAAAAATCAGGAAAAAAATAAACAATTTA
AATAATATAATATAATAATAATTTTGATTTTTTTTTTTAAAAAAACCTCAAGGTGTGTGA
AAACTTTTTTTTTTTGGAAATAAAATAATTTTAGATGATTTTAATAATATCTTTAAAATC
TTATTTTAAAAAAAAAAAAAAATTTTTTTTAAAAAAAAAAXXXXXXXXXXAAAAAAATAA
ACAATTTNTTGTTNTTTTTTTTTNAAAAAACCNNNANNTNTNTTTNAAAA
sequence update 2001. 3.22
Translated Amino Acid sequence 
fqnkqkeeakalkamadkakgggplggsgikksgkk*ti*ii*ynnnfdfff*knlkvce
nfffleik*f*MILIISLKSYFKKKKKFFLKKK---

---KKINNXLXFFFXKTXXXXXK
Translated Amino Acid sequence (All Frames) 
Frame A:
ipk*tkrrs*giksng**skgrwsirwkwn*kirkkinnlnnii***f*ffflkkpqgv*
klfffgnkiilddfnnifkilf*kkkkiffkkk---

---KKINNXLXFFFXKTXXXXXK

Frame B:
fqnkqkeeakalkamadkakgggplggsgikksgkk*ti*ii*ynnnfdfff*knlkvce
nfffleik*f*MILIISLKSYFKKKKKFFLKKK---

---kk*tixcxffxkkpxxxfx

Frame C:
skinkkkklrh*kqwlikqrevvh*vevelknqeknkqfk*yniiiilifffkktsrcvk
tfffwk*nnfr*f**yl*nlilkkkknff*kk---

---knkqfxvxffxknxxxxxk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSE714 (VSE714Q) /CSM/VS/VSE7-A/VSE714Q.Seq.d/                        258   5e-68
VSD310 (VSD310Q) /CSM/VS/VSD3-A/VSD310Q.Seq.d/                        258   5e-68
VSF339 (VSF339Q) /CSM/VS/VSF3-B/VSF339Q.Seq.d/                        252   3e-66
SSK648 (SSK648Q) /CSM/SS/SSK6-B/SSK648Q.Seq.d/                        252   3e-66
AHN752 (AHN752Q) /CSM/AH/AHN7-C/AHN752Q.Seq.d/                        252   3e-66
SSB103 (SSB103Q) /CSM/SS/SSB1-A/SSB103Q.Seq.d/                        226   2e-58
VHL850 (VHL850Q) /CSM/VH/VHL8-C/VHL850Q.Seq.d/                         44   0.001
VSF765 (VSF765Q) /CSM/VS/VSF7-C/VSF765Q.Seq.d/                         42   0.005
VSF727 (VSF727Q) /CSM/VS/VSF7-B/VSF727Q.Seq.d/                         42   0.005
VSF273 (VSF273Q) /CSM/VS/VSF2-D/VSF273Q.Seq.d/                         42   0.005
own update 2004.12.25
Homology vs DNA 

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

AC098704|AC098704.2 Danio rerio clone 55A1, complete sequence.    46  0.001  2
BE908128|BE908128.1 601500363F1 NIH_MGC_70 Homo sapiens cDNA clone IMAGE:3902391 5', mRNA sequence.    50  0.018  1
BX548162|BX548162.3 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone DKEYP-90D11.    54  0.034  2
BM394157|BM394157.1 50072-2-2-C06.r.1 Chilcoat/Turkewitz cDNA (large fraction) Tetrahymena thermophila cDNA, mRNA sequence.    48  0.072  1
BX248089|BX248089.5 Zebrafish DNA sequence from clone DKEY-21K10 in linkage group 20.    48  0.072  1
AL929343|AL929343.7 Zebrafish DNA sequence from clone CH211-144G12.    48  0.072  1
BX005186|BX005186.8 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone  DKEY-11N4.    48  0.072  1
BX005302|BX005302.5 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone DKEY-237I15.    48  0.072  1
CC154322|CC154322.1 CSU-K34.122J1.SP6 CSU-K34 Aedes aegypti genomic clone CSU-K34-122J1 , DNA sequence.    48  0.072  1
BZ704994|BZ704994.1 PUCEP23TD ZM_0.6_1.0_KB Zea mays genomic clone ZMMBTa128D22, DNA sequence.    48  0.072  1
dna update 2003. 8.21
Homology vs Protein 

 ***** No hits found ******

Lambda     K      H
   0.318    0.134    0.401

Gapped
Lambda     K      H
   0.267   0.0410    0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3268448
Number of Hits to DB: 191,047,121
protein update 2009. 7.29
PSORT 

 psg: 0.34  gvh: 0.46  alm: 0.57  top: 0.53  tms: 0.00  mit: 0.39  mip: 0.00
 nuc: 0.41  erl: 0.00  erm: 0.00  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 

	 72.0 %: nuclear
	 12.0 %: cytoplasmic
	  8.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: plasma membrane

>> prediction for VSD310 is nuc
5' end seq. ID VSD310F
5' end seq. 
>VSD310F.Seq
ATTCCAAAATAAACAAAAAGAAGAAGCTAAGGCATTAAAAGCAATGGCTGATAAAGCAAA
GGGAGGTGGTCCATTAGGTGGAAGTGGAATTAAAAAATCAGGAAAAAAATAAACAATTTA
AATAATATAATATAATAATAATTTTGATTTTTTTTTTTAAAAAAACCTCAAGGTGTGTGA
AAACTTTTTTTTTTTGGAAATAAAATAATTTTAGATGATTTTAATAATATCTTTAAAATC
TTATTTTAAAAAAAAAAAAAAATTTTTTTTAAAAAAAAAA----------
Length of 5' end seq. 280
3' end seq. ID VSD310Z
3' end seq. 
>VSD310Z.Seq
----------AAAAAAATAAACAATTTNTTGTTNTTTTTTTTTNAAAAAACCNNNANNTN
TNTTTNAAAA
Length of 3' end seq. 60
Connected seq. ID VSD310P
Connected seq. 
>VSD310P.Seq
ATTCCAAAATAAACAAAAAGAAGAAGCTAAGGCATTAAAAGCAATGGCTGATAAAGCAAA
GGGAGGTGGTCCATTAGGTGGAAGTGGAATTAAAAAATCAGGAAAAAAATAAACAATTTA
AATAATATAATATAATAATAATTTTGATTTTTTTTTTTAAAAAAACCTCAAGGTGTGTGA
AAACTTTTTTTTTTTGGAAATAAAATAATTTTAGATGATTTTAATAATATCTTTAAAATC
TTATTTTAAAAAAAAAAAAAAATTTTTTTTAAAAAAAAAA----------AAAAAAATAA
ACAATTTNTTGTTNTTTTTTTTTNAAAAAACCNNNANNTNTNTTTNAAAA
Length of connected seq. 340
Full length Seq ID -
Full length Seq. -
Length of full length seq. -