VSD559
Library VS
(Link to library)
Clone ID VSD559
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U12167-1
Original site URL
Representative seq. ID VSD559P
(Link to Original site)
Representative DNA sequence
>VSD559 (VSD559Q) /CSM/VS/VSD5-C/VSD559Q.Seq.d/
ATTCATACACACATAGCATATAAATTAACAACAATGGAAGGAGAACAATTACAAACTGCA
CCATACAACCCAAGATTCCCACAACAAAACCAAACTAAACATTGTTGGGCTAACTACGTT
GATTACTATGGTTGTGTCAAACATTACAATGGTGACAACTCAAAATGTCAAACTTTTTTC
AACTCAATGAACTCATTATGTCCAGCTGCCTGGATTTCAGAATGGGATGAACAAAAAGCC
GCTGATCTCTTCCCATCAGACAGAGTTTAAATATATAATATAAATAATTAATAGTAGTAT
CAATAATTTATTCAAAAAAAAAGAAAAAAAAAAAGGAXXXXXXXXXXCAANAATTTATTC
NAAAAAAAAGAAAAAAAAAAAAGAACATAANATATAAATAAAAAAAATAGNAAAATTTTA
AAAAAAA
sequence update 2001. 3.22
Translated Amino Acid sequence
fiht*hin*qqwkennyklhhttqdshnktklnivglttlitmvvsnitmvttqnvklfs
tq*thyvqlpgfqngmnkkplisshqtefkyii*IINSSINNLFKKKEKKKG---

---QXFIXKKRKKKKNIXYK*kk*xnfkk


Translated Amino Acid sequence (All Frames)
Frame A:
ihthiayklttmegeqlqtapynprfpqqnqtkhcwanyvdyygcvkhyngdnskcqtff
nsmnslcpaawisewdeqkaadlfpsdrv*iyninn***yq*fiqkkrkkkr---

---QXFIXKKRKKKKNIXYK*kk*xnfkk

Frame B:
fiht*hin*qqwkennyklhhttqdshnktklnivglttlitmvvsnitmvttqnvklfs
tq*thyvqlpgfqngmnkkplisshqtefkyii*IINSSINNLFKKKEKKKG---

---xnlfxkkekkkrt*xinkknxkilkk

Frame C:
sythsi*innngrrtitnctiqpkipttkpn*tllg*lr*llwlcqtlqw*qlkmsnffq
lnelimsscldfrmg*tksr*slpirqslni*yk*livvsiiyskkkkkkk---

---xiyskkkkkkkehxi*ikkixkf*kk

Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

VSD559 (VSD559Q) /CSM/VS/VSD5-C/VSD559Q.Seq.d/ 620 e-177
VHK558 (VHK558Q) /CSM/VH/VHK5-C/VHK558Q.Seq.d/ 620 e-177
VSH265 (VSH265Q) /CSM/VS/VSH2-C/VSH265Q.Seq.d/ 613 e-175
VSA196 (VSA196Q) /CSM/VS/VSA1-D/VSA196Q.Seq.d/ 605 e-172
VSI263 (VSI263Q) /CSM/VS/VSI2-C/VSI263Q.Seq.d/ 603 e-172
SSF773 (SSF773Q) /CSM/SS/SSF7-D/SSF773Q.Seq.d/ 589 e-167
VSH131 (VSH131Q) /CSM/VS/VSH1-B/VSH131Q.Seq.d/ 587 e-167
SSE738 (SSE738Q) /CSM/SS/SSE7-B/SSE738Q.Seq.d/ 583 e-166
VSJ228 (VSJ228Q) /CSM/VS/VSJ2-B/VSJ228Q.Seq.d/ 565 e-160
VSF762 (VSF762Q) /CSM/VS/VSF7-C/VSF762Q.Seq.d/ 565 e-160

own update 2003. 1. 9
Homology vs DNA

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

AC122291|AC122291.4 Mus musculus chromosome 15 clone RP23-255N20, complete sequence. 42 0.013 2
AX537130|AX537130.1 Sequence 731 from Patent WO02064766. 44 0.021 2
AL404156|AL404156.1 T7 end of clone AT0AA013E12 of library AT0AA from strain CBS 4311 of Saccharomyces servazzii. 40 0.069 2
AC102601|AC102601.6 Mus musculus clone RP23-379D23, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces. 54 0.13 5
AC118594|AC118594.3 Mus musculus clone RP24-479J20, WORKING DRAFT SEQUENCE, 7 unordered pieces. 54 0.14 3
AC117576|AC117576.3 Mus musculus clone RP23-34E15, WORKING DRAFT SEQUENCE, 14 unordered pieces. 50 0.16 4
BF298705|BF298705.1 020PbC11 Pb cDNA #20, Charles Yowell and Jane Carlton Plasmodium berghei cDNA 5', mRNA sequence. 44 0.20 2
BF294945|BF294945.1 010PbE09 Pb cDNA #17, Tommaso Pace, Marta Ponzi, and Clara Frontali Plasmodium berghei cDNA 5', mRNA sequence. 44 0.21 2
BF294944|BF294944.1 010PbE08 Pb cDNA #17, Tommaso Pace, Marta Ponzi, and Clara Frontali Plasmodium berghei cDNA 5', mRNA sequence. 44 0.22 2
AX537066|AX537066.1 Sequence 667 from Patent WO02064766. 44 0.27 3
dna update 2003. 8.22
Homology vs Protein

Score E
Sequences producing significant alignments: (bits) Value

(Q54P95) RecName: Full=Probable cytochrome c oxidase subunit 6B; 178 6e-44
FN392322_439(FN392322|pid:none) Pichia pastoris GS115 chromosome... 91 1e-17
(Q01519) RecName: Full=Cytochrome c oxidase subunit 6B; AltName:... 89 5e-17
AM920427_744(AM920427|pid:none) Penicillium chrysogenum Wisconsi... 87 1e-16
AM269997_1(AM269997|pid:none) Aspergillus niger contig An02c0020... 87 2e-16
CR382131_683(CR382131|pid:none) Yarrowia lipolytica strain CLIB1... 86 4e-16
CR382126_746(CR382126|pid:none) Kluyveromyces lactis strain NRRL... 86 4e-16
CP000497_298(CP000497|pid:none) Pichia stipitis CBS 6054 chromos... 84 2e-15
AE017346_138(AE017346|pid:none) Cryptococcus neoformans var. neo... 84 2e-15
(P14854) RecName: Full=Cytochrome c oxidase subunit 6B1; AltName... 82 6e-15
protein update 2009. 7.29
PSORT

psg: 0.18 gvh: -0.09 alm: 0.78 top: 0.53 tms: 0.00 mit: 0.35 mip: 0.00
nuc: 0.87 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

76.0 %: nuclear
16.0 %: cytoplasmic
4.0 %: mitochondrial
4.0 %: plasma membrane

>> prediction for VSD559 is nuc

5' end seq. ID VSD559F
5' end seq.
>VSD559F.Seq
ATTCATACACACATAGCATATAAATTAACAACAATGGAAGGAGAACAATTACAAACTGCA
CCATACAACCCAAGATTCCCACAACAAAACCAAACTAAACATTGTTGGGCTAACTACGTT
GATTACTATGGTTGTGTCAAACATTACAATGGTGACAACTCAAAATGTCAAACTTTTTTC
AACTCAATGAACTCATTATGTCCAGCTGCCTGGATTTCAGAATGGGATGAACAAAAAGCC
GCTGATCTCTTCCCATCAGACAGAGTTTAAATATATAATATAAATAATTAATAGTAGTAT
CAATAATTTATTCAAAAAAAAAGAAAAAAAAAAAGGA----------
Length of 5' end seq. 337
3' end seq. ID VSD559Z
3' end seq.
>VSD559Z.Seq
----------CAANAATTTATTCNAAAAAAAAGAAAAAAAAAAAAGAACATAANATATAA
ATAAAAAAAATAGNAAAATTTTAAAAAAAA
Length of 3' end seq. 80
Connected seq. ID VSD559P
Connected seq.
>VSD559P.Seq
ATTCATACACACATAGCATATAAATTAACAACAATGGAAGGAGAACAATTACAAACTGCA
CCATACAACCCAAGATTCCCACAACAAAACCAAACTAAACATTGTTGGGCTAACTACGTT
GATTACTATGGTTGTGTCAAACATTACAATGGTGACAACTCAAAATGTCAAACTTTTTTC
AACTCAATGAACTCATTATGTCCAGCTGCCTGGATTTCAGAATGGGATGAACAAAAAGCC
GCTGATCTCTTCCCATCAGACAGAGTTTAAATATATAATATAAATAATTAATAGTAGTAT
CAATAATTTATTCAAAAAAAAAGAAAAAAAAAAAGGA----------CAANAATTTATTC
NAAAAAAAAGAAAAAAAAAAAAGAACATAANATATAAATAAAAAAAATAGNAAAATTTTA
AAAAAAA
Length of connected seq. 417
Full length Seq ID -
Full length Seq. -
Length of full length seq. -