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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
VHE341
Library VH
(Link to library)
Clone ID VHE341
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U12438-1
Original site URL
Representative seq. ID VHE341P
(Link to Original site)
Representative DNA sequence 
>VHE341 (VHE341Q) /CSM/VH/VHE3-B/VHE341Q.Seq.d/
ATTTTTATCTTAAAAAAAAAAACTATTGGGTTATCATTATTCAATTGCATTCTTTCTTTT
TTANACNCCGGAATAAAGATTTAATAAAACAATTTGTNCTAAAAAGAAAAAAAAAAAAAA
TTAACCGGNTTTTTTNTTTTCTNTNTNATTTNATTTTNATTTTTNCAANCAAAAAAAAAA
XXXXXXXXXXCNTTTTTTTTTNCNNCCAAAAAAAAAAAAAATAATACAAACAAAAGCGCA
AAAACCAAAACATAAATTAAACAAATTTAATAAATAAATAAATGCATAGGGNCAAAATA
sequence update 2002.10.25
Translated Amino Acid sequence 
FYLKKKNYWVIIIQLHSFFFXXRNKDLIKQFVLKRKKKKINRXFXFLXXXIXIFXXKKK-
--

---XFFXXPKKKKIIQTKAQKPKHKLNKFNK*ina*gqn
Translated Amino Acid sequence (All Frames) 
Frame A:
ifilkkktiglslfncilsflxxgiki**nnlx*kekkkkltgffxfxxixfxfxqxkkk
---

---XFFXXPKKKKIIQTKAQKPKHKLNKFNK*ina*gqn

Frame B:
fls*kkkllgyhysiafflfxtpe*rfnkticxkkkkkkn*pxfxfsxxfxfxfxxqkk-
--

---xffxxqkkkk*ykqkrknqnin*tnlink*mhrxki

Frame C:
FYLKKKNYWVIIIQLHSFFFXXRNKDLIKQFVLKRKKKKINRXFXFLXXXIXIFXXKKK-
--

---fffxxkkkknntnksaktkt*ikqi**inkcigxk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHP612 (VHP612Q) /CSM/VH/VHP6-A/VHP612Q.Seq.d/                        137   1e-31
VHI819 (VHI819Q) /CSM/VH/VHI8-A/VHI819Q.Seq.d/                        137   1e-31
VHE341 (VHE341Q) /CSM/VH/VHE3-B/VHE341Q.Seq.d/                        137   1e-31
VHC790 (VHC790Q) /CSM/VH/VHC7-D/VHC790Q.Seq.d/                        131   7e-30
SSD126 (SSD126Q) /CSM/SS/SSD1-B/SSD126Q.Seq.d/                         34   1.1
SHA773 (SHA773Q) /CSM/SH/SHA7-D/SHA773Q.Seq.d/                         34   1.1
VSI213 (VSI213Q) /CSM/VS/VSI2-A/VSI213Q.Seq.d/                         32   4.5
VSD859 (VSD859Q) /CSM/VS/VSD8-C/VSD859Q.Seq.d/                         32   4.5
VSD339 (VSD339Q) /CSM/VS/VSD3-B/VSD339Q.Seq.d/                         32   4.5
VSC743 (VSC743Q) /CSM/VS/VSC7-B/VSC743Q.Seq.d/                         32   4.5
own update 2002.12.26
Homology vs DNA 

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

EK311524|EK311524.1 1095462398873 Global-Ocean-Sampling_GS-31-01-01-1P3-1P8KB marine metagenome genomic clone 1061005799262 3', genomic survey sequence.    44   2.2    1
ED731040|ED731040.1 GM_WBb0088C10.f GM_WBb Glycine max genomic clone GM_WBb0088C10 5', genomic survey sequence.    44   2.2    1
ED478939|ED478939.1 AUAC-aav30g12.b1 Ascaris suum whole genome shotgun library (PMAJ_4 GSS) Ascaris suum genomic, genomic survey sequence.    44   2.2    1
CD793481|CD793481.1 EST664842 RAB Rhipicephalus appendiculatus cDNA clone RABBA90 5' end, mRNA sequence.    42   8.6    1
BQ546331|BQ546331.1 EST629958 TpMugugaSh01 Theileria parva cDNA clone TPFAV70, mRNA sequence.    42   8.6    1
BQ545459|BQ545459.1 EST629086 TpMugugaSh01 Theileria parva cDNA clone TPFAP62, mRNA sequence.    42   8.6    1
BQ544988|BQ544988.1 EST628615 TpMugugaSh01 Theileria parva cDNA clone TPFAM21, mRNA sequence.    42   8.6    1
EC366662|EC366662.1 G840P310FE3.T0 Oscarella carmela pSport1 Library I Oscarella carmela cDNA, mRNA sequence.    42   8.6    1
AC138212|AC138212.3 Mus musculus chromosome 1 clone RP23-22G13 map 1, WORKING DRAFT SEQUENCE, 2 ordered pieces.    42   8.6    1
EK048313|EK048313.1 1092959660786 Global-Ocean-Sampling_GS-31-01-01-1P3-1P8KB marine metagenome genomic clone 1061001982391 3', genomic survey sequence.    42   8.6    1
dna update 2007. 7.14
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: 3236559
Number of Hits to DB: 217,826,653
protein update 2009. 6.30
PSORT 

 psg: 0.88  gvh: 0.57  alm: 0.48  top: 0.43  tms: 0.00  mit: 0.30  mip: 0.00
 nuc: 0.37  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 

	 68.0 %: nuclear
	  8.0 %: mitochondrial
	  8.0 %: plasma membrane
	  4.0 %: cytoskeletal
	  4.0 %: vacuolar
	  4.0 %: vesicles of secretory system
	  4.0 %: cytoplasmic

>> prediction for VHE341 is nuc
5' end seq. ID VHE341F
5' end seq. 
>VHE341F.Seq
ATTTTTATCTTAAAAAAAAAAACTATTGGGTTATCATTATTCAATTGCATTCTTTCTTTT
TTANACNCCGGAATAAAGATTTAATAAAACAATTTGTNCTAAAAAGAAAAAAAAAAAAAA
TTAACCGGNTTTTTTNTTTTCTNTNTNATTTNATTTTNATTTTTNCAANCAAAAAAAAAA
NNNNNNNNNN
Length of 5' end seq. 190
3' end seq. ID VHE341Z
3' end seq. 
>VHE341Z.Seq
NNNNNNNNNNCNTTTTTTTTTNCNNCCAAAAAAAAAAAAAATAATACAAACAAAAGCGCA
AAAACCAAAACATAAATTAAACAAATTTAATAAATAAATAAATGCATAGGGNCAAAATA
Length of 3' end seq. 119
Connected seq. ID VHE341P
Connected seq. 
>VHE341P.Seq
ATTTTTATCTTAAAAAAAAAAACTATTGGGTTATCATTATTCAATTGCATTCTTTCTTTT
TTANACNCCGGAATAAAGATTTAATAAAACAATTTGTNCTAAAAAGAAAAAAAAAAAAAA
TTAACCGGNTTTTTTNTTTTCTNTNTNATTTNATTTTNATTTTTNCAANCAAAAAAAAAA
----------CNTTTTTTTTTNCNNCCAAAAAAAAAAAAAATAATACAAACAAAAGCGCA
AAAACCAAAACATAAATTAAACAAATTTAATAAATAAATAAATGCATAGGGNCAAAATA
Length of connected seq. 289
Full length Seq ID -
Full length Seq. -
Length of full length seq. -