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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
VSF338
Library VS
(Link to library)
Clone ID VSF338
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U11305-1
Original site URL
Representative seq. ID VSF338P
(Link to Original site)
Representative DNA sequence 
>VSF338 (VSF338Q) /CSM/VS/VSF3-B/VSF338Q.Seq.d/
AAACTGGTGCCACGGAAACTTTTGGAAACCCATGTTTGAATGATAAAGATCAACATACTT
TCCAAACTATTGTTTTAGAAGCATTCACAATTGAACAATAAAAAAATATAATAACATGTA
ATTATAACAACAAATACCAACAATAGTAAATAATTTTTTAGAATAACCTATTTTATTTTT
CTGGAAAAAAAAAAAAAAAAAANCNCCCGGGGAAAAAAAANNTTTTTTAAATNNTTNNTT
TTTTTTTCCCAGGTTAAAAAAAAAAXXXXXXXXXXAACTGGTGCCACGGAAACTTTTGGA
AACCCATGTTTGAATGATAAAGATCNACATACTTTCCAAACTATTGTTTTAGAAGCATTC
TCNATTGAACAATAAA
sequence update 2001. 3.22
Translated Amino Acid sequence 
klvprkllethv*mikinilskllf*khsqlnnkki**hviittntnnsk*FFRITYFIF
LEKKKKKXXRGKKXFFKXXXFFSQVKKK---

---TGATETFGNPCLNDKDXHTFQTIVLEAFSIEQ*
Translated Amino Acid sequence (All Frames) 
Frame A:
klvprkllethv*mikinilskllf*khsqlnnkki**hviittntnnsk*FFRITYFIF
LEKKKKKXXRGKKXFFKXXXFFSQVKKK---

---nwchgnfwkpmfe**rstyfpnycfrsilx*ti

Frame B:
nwchgnfwkpmfe**rstyfpnycfrsihn*tikkynnm*l*qqiptivnnfle*pilff
wkkkkkkxpgekkxflnxxfffprlkkk---

---TGATETFGNPCLNDKDXHTFQTIVLEAFSIEQ*

Frame C:
tgatetfgnpclndkdqhtfqtivleaftieq*kniitcnynnkyqq**iif*nnlfyfs
gkkkkkxxpgkkxxf*xxxfffpg*kk---

---lvprkllethv*mikixilskllf*khsxlnnk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSF338 (VSF338Q) /CSM/VS/VSF3-B/VSF338Q.Seq.d/                        323   1e-87
SSH756 (SSH756Q) /CSM/SS/SSH7-C/SSH756Q.Seq.d/                        313   1e-84
SSB351 (SSB351Q) /CSM/SS/SSB3-C/SSB351Q.Seq.d/                        309   2e-83
CHQ878 (CHQ878Q) /CSM/CH/CHQ8-D/CHQ878Q.Seq.d/                        276   2e-73
VHP122 (VHP122Q) /CSM/VH/VHP1-A/VHP122Q.Seq.d/                        254   8e-67
AHE595 (AHE595Q) /CSM/AH/AHE5-D/AHE595Q.Seq.d/                        242   3e-63
VHO696 (VHO696Q) /CSM/VH/VHO6-D/VHO696Q.Seq.d/                         44   0.001
VHI226 (VHI226Q) /CSM/VH/VHI2-B/VHI226Q.Seq.d/                         44   0.001
VHH501 (VHH501Q) /CSM/VH/VHH5-A/VHH501Q.Seq.d/                         44   0.001
VHD785 (VHD785Q) /CSM/VH/VHD7-D/VHD785Q.Seq.d/                         44   0.001
own update 2003. 1. 9
Homology vs DNA 

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

CB482652|CB482652.1 jns95_E12.f jns Sus scrofa cDNA 5', mRNA sequence.    50  0.020  1
AC135219|AC135219.2 Sus scrofa clone RP44-286K24, WORKING DRAFT SEQUENCE, 3 ordered pieces.    50  0.54  2
AC105874|AC105874.3 Rattus norvegicus clone CH230-238L12, *** SEQUENCING IN PROGRESS ***, 7 unordered pieces.    44  1.2  1
AC022838|AC022838.2 Homo sapiens clone RP11-185F22, WORKING DRAFT SEQUENCE, 21 unordered pieces.    42  1.4  6
AX348897|AX348897.1 Sequence 355 from Patent WO0202807.           40  1.9  3
AX252160|AX252160.1 Sequence 421 from Patent WO0168911.           40  1.9  3
AC024176|AC024176.6 Homo sapiens chromosome 11 clone RP11-5O22, WORKING DRAFT SEQUENCE, 47 unordered pieces.    42  4.8  1
AC116856|AC116856.4 Mus musculus clone RP24-403P16, WORKING DRAFT SEQUENCE, 16 unordered pieces.    42  4.8  1
AC025487|AC025487.3 Homo sapiens chromosome 17 clone RP11-773J17 map 17, WORKING DRAFT SEQUENCE, 14 unordered pieces.    42  4.8  1
AC124705|AC124705.3 Mus musculus chromosome UNK clone RP24-68G21, WORKING DRAFT SEQUENCE, 3 unordered pieces.    42  4.8  1
dna update 2003. 8.23
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: 3019103
Number of Hits to DB: 492,474,020
protein update 2009. 3.22
PSORT 

 psg: 0.17  gvh: 0.32  alm: 0.59  top: 0.53  tms: 0.00  mit: 0.29  mip: 0.04
 nuc: 0.27  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 

	 60.0 %: nuclear
	 28.0 %: cytoplasmic
	  8.0 %: mitochondrial
	  4.0 %: cytoskeletal

>> prediction for VSF338 is nuc
5' end seq. ID VSF338F
5' end seq. 
>VSF338F.Seq
AAACTGGTGCCACGGAAACTTTTGGAAACCCATGTTTGAATGATAAAGATCAACATACTT
TCCAAACTATTGTTTTAGAAGCATTCACAATTGAACAATAAAAAAATATAATAACATGTA
ATTATAACAACAAATACCAACAATAGTAAATAATTTTTTAGAATAACCTATTTTATTTTT
CTGGAAAAAAAAAAAAAAAAAANCNCCCGGGGAAAAAAAANNTTTTTTAAATNNTTNNTT
TTTTTTTCCCAGGTTAAAAAAAAAA----------
Length of 5' end seq. 265
3' end seq. ID VSF338Z
3' end seq. 
>VSF338Z.Seq
----------AACTGGTGCCACGGAAACTTTTGGAAACCCATGTTTGAATGATAAAGATC
NACATACTTTCCAAACTATTGTTTTAGAAGCATTCTCNATTGAACAATAAA
Length of 3' end seq. 101
Connected seq. ID VSF338P
Connected seq. 
>VSF338P.Seq
AAACTGGTGCCACGGAAACTTTTGGAAACCCATGTTTGAATGATAAAGATCAACATACTT
TCCAAACTATTGTTTTAGAAGCATTCACAATTGAACAATAAAAAAATATAATAACATGTA
ATTATAACAACAAATACCAACAATAGTAAATAATTTTTTAGAATAACCTATTTTATTTTT
CTGGAAAAAAAAAAAAAAAAAANCNCCCGGGGAAAAAAAANNTTTTTTAAATNNTTNNTT
TTTTTTTCCCAGGTTAAAAAAAAAA----------AACTGGTGCCACGGAAACTTTTGGA
AACCCATGTTTGAATGATAAAGATCNACATACTTTCCAAACTATTGTTTTAGAAGCATTC
TCNATTGAACAATAAA
Length of connected seq. 366
Full length Seq ID -
Full length Seq. -
Length of full length seq. -