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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
VSD330
Library VS
(Link to library)
Clone ID VSD330
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16270-1
Original site URL
Representative seq. ID VSD330P
(Link to Original site)
Representative DNA sequence 
>VSD330 (VSD330Q) /CSM/VS/VSD3-B/VSD330Q.Seq.d/
AATCATTTATTTTTTTATTTTTTAAAAAAGCAGTACAAATCAACTTAAAAAAAGTTTTTT
TTTTATATTCAATAGTCAATTAATATAATTCAAAATGGTATTCGTTAAAGGTCAAAAGAA
AGCAACCAAAGGTTCAACTCAATCTGGTGAAGAGAAAACCGCTTCAACCACCCCAAAAGT
AACCAAAACCCCAACTGAAGGTGGTGAAAAGAAGAGAAAGAAGAGAAAGTCTGACTACAC
CTCATTCTCAACCTACATCCACAAGTTATTGAAACAAATTACTCCACCAACCAATGCCAA
GAGTAATGAAAAAGGTGATAGAAAATTCACTATCTCATCCAAAGCCATGTCTGTAATGAA
CTCCTTTGTCCACGATATCTTTGACAGAATCGCCACCGAAGCTTCTGGTTTAGCCAAAAA
GAAGAAGAGACAAACTTTACACTCAAGAGATATTCAAGTTGCCGGTTCGTATCATTCTCA
CTGGGTGAGTTAGCTAAACATGCCATCTTACAAGGTATGACTGCTGTCAACAAGXXXXXX
XXXXCCCCCCCCAAAGTAACCCAAACCCCAAGTTAAGGT
sequence update 2001. 3.22
Translated Amino Acid sequence 
nhlffyflkkqykst*kkfffyiq*siniiqngir*rskesnqrfnsiw*renrfnhpks
nqnpn*rw*keekeekv*lhlilnlhpqvietnystnqcqe**kr**kihyliqshvcne
llcpryl*QNRHRSFWFSQKEEETNFTLKRYSSCRFVSFSLGELAKHAILQGMTAVNK--
-

---PPQSNPNPKLR
Translated Amino Acid sequence (All Frames) 
Frame A:
nhlffyflkkqykst*kkfffyiq*siniiqngir*rskesnqrfnsiw*renrfnhpks
nqnpn*rw*keekeekv*lhlilnlhpqvietnystnqcqe**kr**kihyliqshvcne
llcpryl*QNRHRSFWFSQKEEETNFTLKRYSSCRFVSFSLGELAKHAILQGMTAVNK--
-

---pppk*pkpqvk

Frame B:
iiyffif*ksstnqlkksfffifnsqli*fkmvfvkgqkkatkgstqsgeektasttpkv
tktpteggekkrkkrksdytsfstyihkllkqitpptnaksnekgdrkftisskamsvmn
sfvhdifdriateasglakkkkrqtlhsrdiqvagsyhshwvs*lnmpsykv*llst---

---PPQSNPNPKLR

Frame C:
sfiflffkkavqinlkkvfflysivn*ynskwyslkvkrkqpkvqlnlvkrkplqppqk*
pkpqlkvvkrrerreslttphsqptstsy*nkllhqpmprvmkkvienslshpkpcl**t
plstisltesppkllv*pkrrrdklytqeifklpvriiltg*vs*tchltrydccqq---

---ppkvtqtps*g
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSD330 (VSD330Q) /CSM/VS/VSD3-B/VSD330Q.Seq.d/                        999   0.0
VSD276 (VSD276Q) /CSM/VS/VSD2-D/VSD276Q.Seq.d/                        983   0.0
VSJ511 (VSJ511Q) /CSM/VS/VSJ5-A/VSJ511Q.Seq.d/                        969   0.0
VSF711 (VSF711Q) /CSM/VS/VSF7-A/VSF711Q.Seq.d/                        969   0.0
VSJ495 (VSJ495Q) /CSM/VS/VSJ4-D/VSJ495Q.Seq.d/                        967   0.0
VSF693 (VSF693Q) /CSM/VS/VSF6-D/VSF693Q.Seq.d/                        967   0.0
VSK396 (VSK396Q) /CSM/VS/VSK3-D/VSK396Q.Seq.d/                        959   0.0
VSD374 (VSD374Q) /CSM/VS/VSD3-D/VSD374Q.Seq.d/                        959   0.0
VSH334 (VSH334Q) /CSM/VS/VSH3-B/VSH334Q.Seq.d/                        952   0.0
VSF704 (VSF704Q) /CSM/VS/VSF7-A/VSF704Q.Seq.d/                        952   0.0
own update 2004.12.25
Homology vs DNA 

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

AL395901|AL395901.1 T3 end of clone AR0AA026H03 of library AR0AA from strain CBS 732 of Zygosaccharomyces rouxii.    60  3e-05  1
BI743954|BI743954.1 kx54a04.y1 Parastrongyloides trichosuri PA pAMP1 v1 Chiapelli McCarter Parastrongyloides trichosuri cDNA 5' similar to TR:Q9U373 Q9U373 T10C6.11 PROTEIN. [1] ;, mRNA sequence.    48  3e-04  2
AC079369|AC079369.2 Mus musculus chromosome 12 clone RP23-348L1 strain C57BL6/J, WORKING DRAFT SEQUENCE, 18 unordered pieces.    44  5e-04  3
AL440801|AL440801.1 T7 end of clone BD0AA014H06 of library BD0AA from strain CBS 94 of  Candida tropicalis.    52  7e-04  2
Z83245|Z83245.4 Caenorhabditis elegans cosmid ZK131.              48  0.001  2
AL418813|AL418813.1 T7 end of clone AX0AA034F12 of library AX0AA from strain CBS 7064 of Pichia farinosa.    54  0.002  1
AJ494852|AJ494852.1 Oikopleura dioica partial H2A.4 gene for histone H2A.4.    54  0.002  1
BE889804|BE889804.1 601512049F1 NIH_MGC_71 Homo sapiens cDNA clone IMAGE:3913261 5', mRNA sequence.    38  0.009  3
AX537068|AX537068.1 Sequence 669 from Patent WO02064766.          40  0.009  2
AC091094|AC091094.2 Felis catus clone RP86-317G18, complete sequence.    40  0.013  4
dna update 2003. 8.21
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AJ238321_1(AJ238321|pid:none) Asellus aquaticus 5S rRNA gene, hi...    73   7e-14
EZ000286_1(EZ000286|pid:none) TSA: Amblyomma americanum Contig39...    73   9e-14
(P83863) RecName: Full=Histone H2B; Flags: Fragments;                  73   1e-13
(P19374) RecName: Full=Histone H2B;  &S11313(S11313) &X53330_2(X...    73   1e-13
BC066243_1(BC066243|pid:none) Homo sapiens histone cluster 1, H2...    72   2e-13
(Q96A08) RecName: Full=Histone H2B type 1-A; AltName: Full=Histo...    72   2e-13
FB334670_1(FB334670|pid:none) Sequence 2196 from Patent WO200711...    72   2e-13
(P02284) RecName: Full=Histone H2B, gonadal;                           72   2e-13
(P70696) RecName: Full=Histone H2B type 1-A; AltName: Full=Histo...    72   2e-13
(P35069) RecName: Full=Histone H2B.3;  &D56612(D56612) &FB334712...    72   2e-13
protein update 2009. 7.29
PSORT 

 psg: 0.64  gvh: 0.41  alm: 0.47  top: 0.53  tms: 0.00  mit: 0.27  mip: 0.02
 nuc: 0.00  erl: 0.00  erm: 0.60  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 

	 44.0 %: nuclear
	 28.0 %: cytoplasmic
	 24.0 %: mitochondrial
	  4.0 %: peroxisomal

>> prediction for VSD330 is nuc
5' end seq. ID VSD330F
5' end seq. 
>VSD330F.Seq
AATCATTTATTTTTTTATTTTTTAAAAAAGCAGTACAAATCAACTTAAAAAAAGTTTTTT
TTTTATATTCAATAGTCAATTAATATAATTCAAAATGGTATTCGTTAAAGGTCAAAAGAA
AGCAACCAAAGGTTCAACTCAATCTGGTGAAGAGAAAACCGCTTCAACCACCCCAAAAGT
AACCAAAACCCCAACTGAAGGTGGTGAAAAGAAGAGAAAGAAGAGAAAGTCTGACTACAC
CTCATTCTCAACCTACATCCACAAGTTATTGAAACAAATTACTCCACCAACCAATGCCAA
GAGTAATGAAAAAGGTGATAGAAAATTCACTATCTCATCCAAAGCCATGTCTGTAATGAA
CTCCTTTGTCCACGATATCTTTGACAGAATCGCCACCGAAGCTTCTGGTTTAGCCAAAAA
GAAGAAGAGACAAACTTTACACTCAAGAGATATTCAAGTTGCCGGTTCGTATCATTCTCA
CTGGGTGAGTTAGCTAAACATGCCATCTTACAAGGTATGACTGCTGTCAACAAG------
----
Length of 5' end seq. 534
3' end seq. ID VSD330Z
3' end seq. 
>VSD330Z.Seq
----------CCCCCCCCAAAGTAACCCAAACCCCAAGTTAAGGT
Length of 3' end seq. 35
Connected seq. ID VSD330P
Connected seq. 
>VSD330P.Seq
AATCATTTATTTTTTTATTTTTTAAAAAAGCAGTACAAATCAACTTAAAAAAAGTTTTTT
TTTTATATTCAATAGTCAATTAATATAATTCAAAATGGTATTCGTTAAAGGTCAAAAGAA
AGCAACCAAAGGTTCAACTCAATCTGGTGAAGAGAAAACCGCTTCAACCACCCCAAAAGT
AACCAAAACCCCAACTGAAGGTGGTGAAAAGAAGAGAAAGAAGAGAAAGTCTGACTACAC
CTCATTCTCAACCTACATCCACAAGTTATTGAAACAAATTACTCCACCAACCAATGCCAA
GAGTAATGAAAAAGGTGATAGAAAATTCACTATCTCATCCAAAGCCATGTCTGTAATGAA
CTCCTTTGTCCACGATATCTTTGACAGAATCGCCACCGAAGCTTCTGGTTTAGCCAAAAA
GAAGAAGAGACAAACTTTACACTCAAGAGATATTCAAGTTGCCGGTTCGTATCATTCTCA
CTGGGTGAGTTAGCTAAACATGCCATCTTACAAGGTATGACTGCTGTCAACAAG------
----CCCCCCCCAAAGTAACCCAAACCCCAAGTTAAGGT
Length of connected seq. 569
Full length Seq ID -
Full length Seq. -
Length of full length seq. -