VHF444
Library VH
(Link to library)
Clone ID VHF444
Atlas ID -
NBRP ID
dictyBase ID
Link to Contig Contig-U12392-1
Original site URL
Representative seq. ID VHF444P
(Link to Original site)
Representative DNA sequence
>VHF444 (VHF444Q) /CSM/VH/VHF4-B/VHF444Q.Seq.d/
CAAAAGAAATAAATAATTATGCCATCAATTAATGAAAATGAAGATATTATTAATAAATTA
AAGATGTCAACGATAACAGATGATATTATTATTCAACCAAGTATTGATGATTTACCATAT
GAAGAAGATGTTTCAAAGAATCCATACTCTGTTAATTGTTGGTTAAGATATTTAGAGTTT
AAACAAGGTTCACCACAAAAACAAAGAAATTATATATATGAAAGAGCCATTAGAGAATTA
CCAAGAAGTTATAAAATTTGGCATCAATATCTATTAGAAAGAACTTTAGCAATTAGAGGT
AAATGTATTTTAGAAAATTCATTTGAGGCTGTAAATACATTATTTGAAAGATCTTTAGTA
TTTTTAGATAAGATGCCAAGAATTTGGATTGAATATTGCGAATTTTTAATGATACAAGAA
AAGATAACATTAACTAGAAAAACATTTGATAGAGCATTAATAGCATTACCAGTTACACAA
CATTATAGAATTTGGAATGAATATACTAAATTCATATTGAAGAGATCTATACCATCATTA
ACATGTATTAGAGTTTATAAGAGATACTTXXXXXXXXXXTNTGATCCAAGAACTTCAATG
TTTTATTGGAATACTTGGAGTGATTTCGAAAAATTACATGGTAATGAAGATACATTCAAA
GAAATGTTAAGAATTCGTAGATCTGTTCAAGCAAGTTATATTACTCAAAATCCNACTTTA
GCTTTATTAAATAAATTAAATAATAAAGATGATAAAGATGATAAAAATCAACAACAAAAA
CA
sequence update 2002.10.25
Translated Amino Acid sequence
qkk*IIMPSINENEDIINKLKMSTITDDIIIQPSIDDLPYEEDVSKNPYSVNCWLRYLEF
KQGSPQKQRNYIYERAIRELPRSYKIWHQYLLERTLAIRGKCILENSFEAVNTLFERSLV
FLDKMPRIWIEYCEFLMIQEKITLTRKTFDRALIALPVTQHYRIWNEYTKFILKRSIPSL
TCIRVYKRY---

---XDPRTSMFYWNTWSDFEKLHGNEDTFKEMLRIRRSVQASYITQNPTLALLNKLNNKD
DKDDKNQQQK


Translated Amino Acid sequence (All Frames)
Frame A:
qkk*IIMPSINENEDIINKLKMSTITDDIIIQPSIDDLPYEEDVSKNPYSVNCWLRYLEF
KQGSPQKQRNYIYERAIRELPRSYKIWHQYLLERTLAIRGKCILENSFEAVNTLFERSLV
FLDKMPRIWIEYCEFLMIQEKITLTRKTFDRALIALPVTQHYRIWNEYTKFILKRSIPSL
TCIRVYKRY---

---XDPRTSMFYWNTWSDFEKLHGNEDTFKEMLRIRRSVQASYITQNPTLALLNKLNNKD
DKDDKNQQQK

Frame B:
krnk*lchqlmkmkillin*rcqr*qmillfnqvlmiyhmkkmfqrihtllivg*di*sl
nkvhhknkeiiymkeplenyqevikfginiy*kel*qlevnvf*kihlrl*ihylkdl*y
f*ircqefglnianf**ykkr*h*lekhlieh**hyqlhniiefgmnilnsy*rdlyhh*
hvlefirdt---

---xiqelqcfigilgvisknymvmkihskkc*efvdlfkqvillkixl*ly*in*iikm
ikmikinnkn

Frame C:
keinnyain**k*ryy**ikdvndnr*yyystky**fti*rrcfkesilc*llvkifrv*
trfttktkklyi*ksh*ritkkl*nlasisirknfsn*r*myfrkfi*gckyii*kifsi
fr*daknld*ilrifndtrkdnin*kni**sinsitsyttl*nle*iy*ihieeiytiin
my*sl*eil---

---*sknfnvlleyle*frkitw**ryiqrnvkns*icssklyysksxfsfik*ik**r*
*r**ksttkt

Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

VHF444 (VHF444Q) /CSM/VH/VHF4-B/VHF444Q.Seq.d/ 1479 0.0
VHA836 (VHA836Q) /CSM/VH/VHA8-B/VHA836Q.Seq.d/ 926 0.0
VHD870 (VHD870Q) /CSM/VH/VHD8-C/VHD870Q.Seq.d/ 894 0.0
VSE273 (VSE273Q) /CSM/VS/VSE2-D/VSE273Q.Seq.d/ 46 8e-04
VHJ685 (VHJ685Q) /CSM/VH/VHJ6-D/VHJ685Q.Seq.d/ 42 0.013
SSI695 (SSI695Q) /CSM/SS/SSI6-D/SSI695Q.Seq.d/ 40 0.050
SSG836 (SSG836Q) /CSM/SS/SSG8-B/SSG836Q.Seq.d/ 40 0.050
SSD742 (SSD742Q) /CSM/SS/SSD7-B/SSD742Q.Seq.d/ 40 0.050
SSC795 (SSC795Q) /CSM/SS/SSC7-D/SSC795Q.Seq.d/ 40 0.050
SLH650 (SLH650Q) /CSM/SL/SLH6-C/SLH650Q.Seq.d/ 40 0.050

own update 2004.12.24
Homology vs DNA

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

(BJ420993) Dictyostelium discoideum cDNA clone:ddv41h12, 5' ... 1128 0.0 1
(BJ418315) Dictyostelium discoideum cDNA clone:ddv32h10, 5' ... 926 0.0 1
(BJ420236) Dictyostelium discoideum cDNA clone:ddv38l18, 5' ... 894 0.0 1
(BJ439711) Dictyostelium discoideum cDNA clone:ddv41h12, 3' ... 283 5e-72 1
(BJ436824) Dictyostelium discoideum cDNA clone:ddv32h10, 3' ... 283 5e-72 1
(BJ438849) Dictyostelium discoideum cDNA clone:ddv38l18, 3' ... 272 2e-68 1
(FC725106) CBBG2604.fwd CBBG Lottia gigantea 12,15,18h embry... 44 5e-09 3
(FC575796) CAXP11926.fwd CAXP Lottia gigantea from head, foo... 44 8e-09 3
(FC726236) CBBG3372.fwd CBBG Lottia gigantea 12,15,18h embry... 40 1e-06 3
(DY885161) CeleSEQ358 Cunninghamella elegans pBluescript (Ec... 44 3e-06 4
dna update 2008.10.29
Homology vs Protein

Score E
Sequences producing significant alignments: (bits) Value

(Q54Z08) RecName: Full=Pre-mRNA-splicing factor SYF1; AltName: F... 377 e-103
BC056771_1(BC056771|pid:none) Danio rerio XPA binding protein 2,... 193 5e-48
BC054579_1(BC054579|pid:none) Danio rerio XPA binding protein 2,... 193 5e-48
BC127432_1(BC127432|pid:none) Xenopus laevis hypothetical protei... 189 7e-47
(Q9HCS7) RecName: Full=Pre-mRNA-splicing factor SYF1; AltName: F... 184 4e-45
BC114736_1(BC114736|pid:none) Bos taurus XPA binding protein 2, ... 184 4e-45
AF272147_1(AF272147|pid:none) Homo sapiens crn-related protein k... 184 4e-45
(Q9DCD2) RecName: Full=Pre-mRNA-splicing factor SYF1; AltName: F... 184 4e-45
BC021341_1(BC021341|pid:none) Mus musculus XPA binding protein 2... 184 4e-45
AB026111_1(AB026111|pid:none) Homo sapiens mRNA for XAB2, comple... 183 6e-45
protein update 2009. 7. 4
PSORT

psg: 0.75 gvh: 0.32 alm: 0.49 top: 0.53 tms: 0.00 mit: 0.22 mip: 0.00
nuc: 0.00 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

48.0 %: cytoplasmic
32.0 %: nuclear
12.0 %: cytoskeletal
4.0 %: vacuolar
4.0 %: mitochondrial

>> prediction for VHF444 is cyt

5' end seq. ID VHF444F
5' end seq.
>VHF444F.Seq
CAAAAGAAATAAATAATTATGCCATCAATTAATGAAAATGAAGATATTATTAATAAATTA
AAGATGTCAACGATAACAGATGATATTATTATTCAACCAAGTATTGATGATTTACCATAT
GAAGAAGATGTTTCAAAGAATCCATACTCTGTTAATTGTTGGTTAAGATATTTAGAGTTT
AAACAAGGTTCACCACAAAAACAAAGAAATTATATATATGAAAGAGCCATTAGAGAATTA
CCAAGAAGTTATAAAATTTGGCATCAATATCTATTAGAAAGAACTTTAGCAATTAGAGGT
AAATGTATTTTAGAAAATTCATTTGAGGCTGTAAATACATTATTTGAAAGATCTTTAGTA
TTTTTAGATAAGATGCCAAGAATTTGGATTGAATATTGCGAATTTTTAATGATACAAGAA
AAGATAACATTAACTAGAAAAACATTTGATAGAGCATTAATAGCATTACCAGTTACACAA
CATTATAGAATTTGGAATGAATATACTAAATTCATATTGAAGAGATCTATACCATCATTA
ACATGTATTAGAGTTTATAAGAGATACTTNNNNNNNNNN
Length of 5' end seq. 579
3' end seq. ID VHF444Z
3' end seq.
>VHF444Z.Seq
NNNNNNNNNNTNTGATCCAAGAACTTCAATGTTTTATTGGAATACTTGGAGTGATTTCGA
AAAATTACATGGTAATGAAGATACATTCAAAGAAATGTTAAGAATTCGTAGATCTGTTCA
AGCAAGTTATATTACTCAAAATCCNACTTTAGCTTTATTAAATAAATTAAATAATAAAGA
TGATAAAGATGATAAAAATCAACAACAAAAACA
Length of 3' end seq. 213
Connected seq. ID VHF444P
Connected seq.
>VHF444P.Seq
CAAAAGAAATAAATAATTATGCCATCAATTAATGAAAATGAAGATATTATTAATAAATTA
AAGATGTCAACGATAACAGATGATATTATTATTCAACCAAGTATTGATGATTTACCATAT
GAAGAAGATGTTTCAAAGAATCCATACTCTGTTAATTGTTGGTTAAGATATTTAGAGTTT
AAACAAGGTTCACCACAAAAACAAAGAAATTATATATATGAAAGAGCCATTAGAGAATTA
CCAAGAAGTTATAAAATTTGGCATCAATATCTATTAGAAAGAACTTTAGCAATTAGAGGT
AAATGTATTTTAGAAAATTCATTTGAGGCTGTAAATACATTATTTGAAAGATCTTTAGTA
TTTTTAGATAAGATGCCAAGAATTTGGATTGAATATTGCGAATTTTTAATGATACAAGAA
AAGATAACATTAACTAGAAAAACATTTGATAGAGCATTAATAGCATTACCAGTTACACAA
CATTATAGAATTTGGAATGAATATACTAAATTCATATTGAAGAGATCTATACCATCATTA
ACATGTATTAGAGTTTATAAGAGATACTT----------TNTGATCCAAGAACTTCAATG
TTTTATTGGAATACTTGGAGTGATTTCGAAAAATTACATGGTAATGAAGATACATTCAAA
GAAATGTTAAGAATTCGTAGATCTGTTCAAGCAAGTTATATTACTCAAAATCCNACTTTA
GCTTTATTAAATAAATTAAATAATAAAGATGATAAAGATGATAAAAATCAACAACAAAAA
CA
Length of connected seq. 772
Full length Seq ID -
Full length Seq. -
Length of full length seq. -