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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
VFC458
Library VF
(Link to library)
Clone ID VFC458
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U09935-1
Original site URL
Representative seq. ID VFC458P
(Link to Original site)
Representative DNA sequence 
>VFC458 (VFC458Q) /CSM/VF/VFC4-C/VFC458Q.Seq.d/
ACTGTTGGCCTACTGGNATTATTTGTATTATCTGTGTGTTTATTATTAAAAGTCAATCAA
TCACATCAAATAATATATAAAACTATGGAAGATATGCANGTTGAAAAGAATACAGAAGGA
TCATCATCATCATCATCAAATAATAATAATAATAATTCAATTTCAAATGAATTCGATTTA
GNAAACTTATATCAATAATTATTCAGGATTTACAAAGGATTCATAGATTAATTNTCATTG
CTGATAATTGTAAACAATTAGAAGTTGAAGCATATAATATGGCATTGAAAGAAGTGCAAA
AAACACCAAATCTTGAACTCTACAATACAATCATCAATAXXXXXXXXXXCTTTTCACCAT
ACCAATCGGTCGATATGAATATTATGGCCAGTGCTTTCAATACCACTGTCACTCTTTTGG
AAAAGGAGATCAGTAAACTCATTATGGAAAATGAGATCCAAGCTCGTATCGATTCTCATA
ATAAACGTCTATACGCTAGAAAAGCCGATCAAAGAACATACCACCTTTGAAAAAACCGTT
CAAGTTGGTTCCGATTTCCAAAACTCTTCAAATTCTCNCCTCNTACGTTTAGANATGTTA
AATAATAATATCTCAACCGTTTCAAGATCGTAAAGATAATGAAAGAGGTAATTGGGAAAA
TCCACATCATCATCACCNAATGCAACATCAAATGTTTGGT
sequence update 2001. 6. 1
Translated Amino Acid sequence 
cwptgiiciicvfiiksqsitsnni*nygryax*keyrriiiiiik*****fnfk*IRFX
KLISIIIQDLQRIHRLIXIADNCKQLEVEAYNMALKEVQKTPNLELYNTIIN---

---FSPYQSVDMNIMASAFNTTVTLLEKEISKLIMENEIQARIDSHNKRLYARKADQRTY
HL*knrsswfrfpklfkfspxtfrxvk**ylnrfkivkimkevigkihiiitxcnikcl
Translated Amino Acid sequence (All Frames) 
Frame A:
tvgllxlfvlsvclllkvnqshqiiyktmedmxvekntegssssssnnnnnnsisnefdl
xnlyq*lfriykgfid*xslliivnn*klkhiiwh*kkckkhqilnstiqssi---

---lftipigryeyygqcfqyhchsfgkgdq*thygk*dpssyrfs**tsir*ksrskni
pplkkpfklvpisktlqilxsyv*xc*iiisqpfqdrkdnergnwenphhhhxmqhqmfg

Frame B:
llaywxylyylcvyy*ksinhik*yiklwkicxlkriqkdhhhhhqiiiiiiqfqmnsi*
xtyinnysgftkds*inxhc**l*tirs*si*ygiersakntks*tlqynhq---

---FSPYQSVDMNIMASAFNTTVTLLEKEISKLIMENEIQARIDSHNKRLYARKADQRTY
HL*knrsswfrfpklfkfspxtfrxvk**ylnrfkivkimkevigkihiiitxcnikcl

Frame C:
cwptgiiciicvfiiksqsitsnni*nygryax*keyrriiiiiik*****fnfk*IRFX
KLISIIIQDLQRIHRLIXIADNCKQLEVEAYNMALKEVQKTPNLELYNTIIN---

---fhhtnrsi*ilwpvlsiplslfwkrrsvnslwkmrsklvsiliinvytlekpikeht
tfektvqvgsdfqnssnsxlxrlxmlnnnistvsrs*r**kr*lgkstssspnatsnvw
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VFC458 (VFC458Q) /CSM/VF/VFC4-C/VFC458Q.Seq.d/                        983   0.0
VSF853 (VSF853Q) /CSM/VS/VSF8-C/VSF853Q.Seq.d/                        640   0.0
AFN309 (AFN309Q) /CSM/AF/AFN3-A/AFN309Q.Seq.d/                        632   e-180
AFG409 (AFG409Q) /CSM/AF/AFG4-A/AFG409Q.Seq.d/                        630   e-180
VFC358 (VFC358Q) /CSM/VF/VFC3-C/VFC358Q.Seq.d/                        626   e-178
AFJ190 (AFJ190Q) /CSM/AF/AFJ1-D/AFJ190Q.Seq.d/                        626   e-178
VSF618 (VSF618Q) /CSM/VS/VSF6-A/VSF618Q.Seq.d/                        622   e-177
VFL450 (VFL450Q) /CSM/VF/VFL4-C/VFL450Q.Seq.d/                        622   e-177
AFI130 (AFI130Q) /CSM/AF/AFI1-B/AFI130Q.Seq.d/                        618   e-176
VSH465 (VSH465Q) /CSM/VS/VSH4-C/VSH465Q.Seq.d/                        617   e-175
own update 2009. 4. 4
Homology vs DNA 

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

BI488306|BI488306.1 gc77f04.y1 Moss EST library PPN Physcomitrella patens cDNA clone PEP_SOURCE_ID:PPN241207 5' similar to SW:FUS6_ARATH P45432 FUSCA PROTEIN FUS6. ;, mRNA sequence.    46  0.008  2
AC108605|AC108605.4 Rattus norvegicus clone CH230-267P22, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    52  0.059  4
AC122671|AC122671.5 Rattus norvegicus clone CH230-87H4, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    52  0.16  2
AF125214|AF125214.1 Helicobacter pylori cag pathogenicity island CagA (cagA) gene, partial cds; and urease-enhancing factor Lpp (lpp), urease-enhancing factor helB (helB), and HelA (helA) genes, complete cds.    40  0.53  2
BD061986|BD061986.1 Antigenic composition and method of detection for Helicobacter Pylori.    40  0.53  2
BD061673|BD061673.1 Antigenic composition and method of detection for Helicobacter Pylori.    40  0.53  2
BX169914|BX169914.1 Danio rerio genomic clone DKEY-171F7, genomic survey sequence.    42  0.56  2
AC112048|AC112048.3 Rattus norvegicus clone CH230-27O21, *** SEQUENCING IN PROGRESS ***, 4 unordered pieces.    38  2.2  2
AC101510|AC101510.3 Mus musculus clone RP23-190B7, WORKING DRAFT SEQUENCE, 8 unordered pieces.    44  2.3  1
AC068056|AC068056.7 Homo sapiens BAC clone RP11-84M3 from 2, complete sequence.    44  2.3  1
dna update 2003. 9.12
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54QX3) RecName: Full=COP9 signalosome complex subunit 1;      ...   111   5e-40
BX897685_6(BX897685|pid:none) Zebrafish DNA sequence from clone ...    75   4e-16
(Q6NRT5) RecName: Full=COP9 signalosome complex subunit 1;      ...    74   1e-15
BC080478_1(BC080478|pid:none) Xenopus tropicalis MGC89799 protei...    73   2e-15
AL663090_4(AL663090|pid:none) Mouse DNA sequence from clone RP23...    74   4e-15
AK088490_1(AK088490|pid:none) Mus musculus 2 days neonate thymus...    74   4e-15
AK093283_1(AK093283|pid:none) Homo sapiens cDNA FLJ35964 fis, cl...    74   5e-15
BC064503_1(BC064503|pid:none) Homo sapiens G protein pathway sup...    74   5e-15
U20285_1(U20285|pid:none) Human Gps1 (GPS1) mRNA, complete cds.        74   5e-15
CR861104_1(CR861104|pid:none) Pongo abelii mRNA; cDNA DKFZp459M2...    74   5e-15
protein update 2009. 6.17
PSORT 

 psg: 0.78  gvh: 0.33  alm: 0.44  top: 0.53  tms: 0.00  mit: 0.32  mip: 0.02
 nuc: 0.00  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 

	 36.0 %: nuclear
	 32.0 %: cytoplasmic
	 20.0 %: cytoskeletal
	  4.0 %: mitochondrial
	  4.0 %: extracellular, including cell wall
	  4.0 %: peroxisomal

>> prediction for VFC458 is nuc
5' end seq. ID VFC458F
5' end seq. 
>VFC458F.Seq
ACTGTTGGCCTACTGGNATTATTTGTATTATCTGTGTGTTTATTATTAAAAGTCAATCAA
TCACATCAAATAATATATAAAACTATGGAAGATATGCANGTTGAAAAGAATACAGAAGGA
TCATCATCATCATCATCAAATAATAATAATAATAATTCAATTTCAAATGAATTCGATTTA
GNAAACTTATATCAATAATTATTCAGGATTTACAAAGGATTCATAGATTAATTNTCATTG
CTGATAATTGTAAACAATTAGAAGTTGAAGCATATAATATGGCATTGAAAGAAGTGCAAA
AAACACCAAATCTTGAACTCTACAATACAATCATCAATA----------
Length of 5' end seq. 339
3' end seq. ID VFC458Z
3' end seq. 
>VFC458Z.Seq
----------CTTTTCACCATACCAATCGGTCGATATGAATATTATGGCCAGTGCTTTCA
ATACCACTGTCACTCTTTTGGAAAAGGAGATCAGTAAACTCATTATGGAAAATGAGATCC
AAGCTCGTATCGATTCTCATAATAAACGTCTATACGCTAGAAAAGCCGATCAAAGAACAT
ACCACCTTTGAAAAAACCGTTCAAGTTGGTTCCGATTTCCAAAACTCTTCAAATTCTCNC
CTCNTACGTTTAGANATGTTAAATAATAATATCTCAACCGTTTCAAGATCGTAAAGATAA
TGAAAGAGGTAATTGGGAAAATCCACATCATCATCACCNAATGCAACATCAAATGTTTGG
T
Length of 3' end seq. 351
Connected seq. ID VFC458P
Connected seq. 
>VFC458P.Seq
ACTGTTGGCCTACTGGNATTATTTGTATTATCTGTGTGTTTATTATTAAAAGTCAATCAA
TCACATCAAATAATATATAAAACTATGGAAGATATGCANGTTGAAAAGAATACAGAAGGA
TCATCATCATCATCATCAAATAATAATAATAATAATTCAATTTCAAATGAATTCGATTTA
GNAAACTTATATCAATAATTATTCAGGATTTACAAAGGATTCATAGATTAATTNTCATTG
CTGATAATTGTAAACAATTAGAAGTTGAAGCATATAATATGGCATTGAAAGAAGTGCAAA
AAACACCAAATCTTGAACTCTACAATACAATCATCAATA----------CTTTTCACCAT
ACCAATCGGTCGATATGAATATTATGGCCAGTGCTTTCAATACCACTGTCACTCTTTTGG
AAAAGGAGATCAGTAAACTCATTATGGAAAATGAGATCCAAGCTCGTATCGATTCTCATA
ATAAACGTCTATACGCTAGAAAAGCCGATCAAAGAACATACCACCTTTGAAAAAACCGTT
CAAGTTGGTTCCGATTTCCAAAACTCTTCAAATTCTCNCCTCNTACGTTTAGANATGTTA
AATAATAATATCTCAACCGTTTCAAGATCGTAAAGATAATGAAAGAGGTAATTGGGAAAA
TCCACATCATCATCACCNAATGCAACATCAAATGTTTGGT
Length of connected seq. 690
Full length Seq ID -
Full length Seq. -
Length of full length seq. -