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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
VSD541
Library VS
(Link to library)
Clone ID VSD541
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U15827-1
Original site URL
Representative seq. ID VSD541P
(Link to Original site)
Representative DNA sequence 
>VSD541 (VSD541Q) /CSM/VS/VSD5-B/VSD541Q.Seq.d/
AGTTATCATGGATAGAGATGTCTATCCAGTTAGATGGGGTCTTGGTCCAAAAGCAAAGGT
CAAGAAGGAAATGATCAAAGATGGTAAATTAGACAAATTTGGTAAACCAAATGAAAAAAC
TCCATCAGATTGGACCAACACTTACACCTATTACACTGGTCAAGTTGCCACTACCACCAC
CTTCCCCAGTCGAATCAATGAATGTTGATACTCCAAAGAAAGCAACTGCCTCTGTCGCCG
TTAAAGCTGAAGTTGAATCATCTGAAGATGAAAAACCAGTCCCAAAGAAAGAAAAGAAAG
ATAAAAAAGAAAAGAAGAAAGACTCATCCGATGACGAATCTGAAGAAGAGAAATCCTCAA
AGAAAGACAAAAAAGAAAAGAAAGAAAAGAAAGAAAAGAAAGAAAAGAAATCCTCAAAAG
ATGACTCTGATGATGAATCATCCAAAAAAGAAAAGAAAGACAAAAAGAGAAAGAAATCTT
CCGATAAAGATTCAGACAGCGAAAAAGAATCTTCTGATAAAAAAGATAAAAAAGATAAAA
AAGAAAAAAAGAAATCAAAGAATTAAATTGATTTCTTTTTAAAAAAATAATCTTTTTTTT
TCTATTTTTAGAATAAAAAAAAAAAAAAANTTTAAAAAAAAAAXXXXXXXXXXATTTTTT
TTGNATNTTTTAGATAAAAAAGAAAAAAANAA
sequence update 2001. 3.22
Translated Amino Acid sequence 
syhg*rclss*mgswskskgqegndqrw*irqiw*tk*knsirldqhlhllhwsschyhh
lpqsnq*mlilqrkqlplsplklklnhlkmknqsqrkkrkikkkrrkthpmtnlkkrnpq
rktkkkrkkrkkrkkrnpqkmtlmmnhpkkkrktkrernlpikiqtakknllikkikkik
kkkrnqriklisf*KNNLFFSIFRIKKKKXFKKK---

---FFLXXLDKKEKX
Translated Amino Acid sequence (All Frames) 
Frame A:
syhg*rclss*mgswskskgqegndqrw*irqiw*tk*knsirldqhlhllhwsschyhh
lpqsnq*mlilqrkqlplsplklklnhlkmknqsqrkkrkikkkrrkthpmtnlkkrnpq
rktkkkrkkrkkrkkrnpqkmtlmmnhpkkkrktkrernlpikiqtakknllikkikkik
kkkrnqriklisf*KNNLFFSIFRIKKKKXFKKK---

---iffxxfr*krkkx

Frame B:
vimdrdvypvrwglgpkakvkkemikdgkldkfgkpnektpsdwtntytyytgqvatttt
fpsrinec*yskesnclcrr*s*s*ii*r*ktspkerker*krkeerlir*ri*rreilk
erqkrkerkerkerkeilkr*l***iiqkrkerqkekeifr*rfrqrkrif**kr*kr*k
rkkeikeln*flfkkiiffflfle*kkkkxlkkk---

---FFLXXLDKKEKX

Frame C:
lswiemsiqldgvlvqkqrsrrk*skmvn*tnlvnqmkklhqigptltpitlvklplppp
spvesmnvdtpkkatasvavkaevessedekpvpkkekkdkkekkkdssddeseeekssk
kdkkekkekkekkekksskddsddesskkekkdkkrkkssdkdsdsekessdkkdkkdkk
ekkkskn*idfflkk*sfffyf*nkkkkkx*kk---

---ffxxf*ikkkkx
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSD541 (VSD541Q) /CSM/VS/VSD5-B/VSD541Q.Seq.d/                        561   e-159
VFE566 (VFE566Q) /CSM/VF/VFE5-C/VFE566Q.Seq.d/                        535   e-151
SLG818 (SLG818Q) /CSM/SL/SLG8-A/SLG818Q.Seq.d/                        535   e-151
SLA614 (SLA614Q) /CSM/SL/SLA6-A/SLA614Q.Seq.d/                        535   e-151
FC-AH15 (FC-AH15Q) /CSM/FC/FC-AH/FC-AH15Q.Seq.d/                      535   e-151
CHB777 (CHB777Q) /CSM/CH/CHB7-D/CHB777Q.Seq.d/                        535   e-151
CHI225 (CHI225Q) /CSM/CH/CHI2-B/CHI225Q.Seq.d/                        515   e-145
VFB588 (VFB588Q) /CSM/VF/VFB5-D/VFB588Q.Seq.d/                        472   e-132
VFG375 (VFG375Q) /CSM/VF/VFG3-D/VFG375Q.Seq.d/                        466   e-130
VFG107 (VFG107Q) /CSM/VF/VFG1-A/VFG107Q.Seq.d/                        466   e-130
own update 2003. 1. 9
Homology vs DNA 

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

BQ739552|BQ739552.1 PfESToab47d06.y1 Plasmodium falciparum 3D7 asexual cDNA Plasmodium falciparum 3D7 cDNA 5' similar to SW:NO50_CAEEL O17919 PUTATIVE NUCLEOLAR PROTEIN K01G5.5. [1] ;, mRNA sequence.    66  3e-09  2
BI814452|BI814452.1 PfESToaa22h02.y1 Plasmodium falciparum 3D7 asexual cDNA Plasmodium falciparum cDNA 5' similar to SW:CBF5_SCHPO O14007 CENTROMERE/MICROTUBULE BINDING PROTEIN CBF5 ;, mRNA sequence.    66  3e-09  2
BU498441|BU498441.1 PfESToab97c06.y1 Plasmodium falciparum 3D7 asexual cDNA Plasmodium falciparum cDNA 5' similar to SW:DKC1_RAT P40615 DYSKERIN ;, mRNA sequence.    66  4e-09  2
AE014818|AE014818.1 Plasmodium falciparum 3D7 chromosome 14 section 3 of 13 of the complete sequence.    66  2e-07  4
AZ674237|AZ674237.1 ENTIP78TR Entamoeba histolytica Sheared DNA Entamoeba histolytica genomic, DNA sequence.    60  4e-05  1
AZ689018|AZ689018.1 ENTKP90TR Entamoeba histolytica Sheared DNA Entamoeba histolytica genomic, DNA sequence.    60  4e-05  1
BM165400|BM165400.1 EST567923 PyBS Plasmodium yoelii yoelii cDNA clone PYCMM42 5' end, mRNA sequence.    48  5e-04  2
U59149|U59149.1 Candida albicans nucleolar protein CaCbf5p (CaCBF5) gene, complete cds.    42  0.030  2
AC013827|AC013827.4 Homo sapiens clone RP11-23B17, WORKING DRAFT SEQUENCE, 9 unordered pieces.    46  0.40  2
AC018434|AC018434.2 Homo sapiens clone RP11-23C21, LOW-PASS SEQUENCE SAMPLING.    46  0.58  1
dna update 2003. 8.21
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q9LD90) RecName: Full=H/ACA ribonucleoprotein complex subunit 4...    77   5e-13
AY089408_1(AY089408|pid:none) Drosophila melanogaster AT23018 fu...    73   9e-12
BT030987_1(BT030987|pid:none) Drosophila melanogaster LD07711 fu...    73   9e-12
BT064644_1(BT064644|pid:none) Drosophila melanogaster MIP05689 f...    73   9e-12
AF097634_1(AF097634|pid:none) Drosophila melanogaster minifly pr...    73   9e-12
(O14007) RecName: Full=H/ACA ribonucleoprotein complex subunit 4...    72   1e-11
BC047840_1(BC047840|pid:none) Danio rerio dyskeratosis congenita...    71   4e-11
(O17919) RecName: Full=Putative H/ACA ribonucleoprotein complex ...    71   4e-11
BC123284_1(BC123284|pid:none) Xenopus laevis hypothetical protei...    71   4e-11
AK102460_1(AK102460|pid:none) Oryza sativa Japonica Group cDNA c...    71   4e-11
protein update 2009. 7.29
PSORT 

 psg: 0.37  gvh: 0.10  alm: 0.68  top: 0.53  tms: 0.00  mit: 0.31  mip: 0.00
 nuc: 0.28  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 

	 76.0 %: nuclear
	 20.0 %: cytoplasmic
	  4.0 %: mitochondrial

>> prediction for VSD541 is nuc
5' end seq. ID VSD541F
5' end seq. 
>VSD541F.Seq
AGTTATCATGGATAGAGATGTCTATCCAGTTAGATGGGGTCTTGGTCCAAAAGCAAAGGT
CAAGAAGGAAATGATCAAAGATGGTAAATTAGACAAATTTGGTAAACCAAATGAAAAAAC
TCCATCAGATTGGACCAACACTTACACCTATTACACTGGTCAAGTTGCCACTACCACCAC
CTTCCCCAGTCGAATCAATGAATGTTGATACTCCAAAGAAAGCAACTGCCTCTGTCGCCG
TTAAAGCTGAAGTTGAATCATCTGAAGATGAAAAACCAGTCCCAAAGAAAGAAAAGAAAG
ATAAAAAAGAAAAGAAGAAAGACTCATCCGATGACGAATCTGAAGAAGAGAAATCCTCAA
AGAAAGACAAAAAAGAAAAGAAAGAAAAGAAAGAAAAGAAAGAAAAGAAATCCTCAAAAG
ATGACTCTGATGATGAATCATCCAAAAAAGAAAAGAAAGACAAAAAGAGAAAGAAATCTT
CCGATAAAGATTCAGACAGCGAAAAAGAATCTTCTGATAAAAAAGATAAAAAAGATAAAA
AAGAAAAAAAGAAATCAAAGAATTAAATTGATTTCTTTTTAAAAAAATAATCTTTTTTTT
TCTATTTTTAGAATAAAAAAAAAAAAAAANTTTAAAAAAAAAA----------
Length of 5' end seq. 643
3' end seq. ID VSD541Z
3' end seq. 
>VSD541Z.Seq
----------ATTTTTTTTGNATNTTTTAGATAAAAAAGAAAAAAANAA
Length of 3' end seq. 39
Connected seq. ID VSD541P
Connected seq. 
>VSD541P.Seq
AGTTATCATGGATAGAGATGTCTATCCAGTTAGATGGGGTCTTGGTCCAAAAGCAAAGGT
CAAGAAGGAAATGATCAAAGATGGTAAATTAGACAAATTTGGTAAACCAAATGAAAAAAC
TCCATCAGATTGGACCAACACTTACACCTATTACACTGGTCAAGTTGCCACTACCACCAC
CTTCCCCAGTCGAATCAATGAATGTTGATACTCCAAAGAAAGCAACTGCCTCTGTCGCCG
TTAAAGCTGAAGTTGAATCATCTGAAGATGAAAAACCAGTCCCAAAGAAAGAAAAGAAAG
ATAAAAAAGAAAAGAAGAAAGACTCATCCGATGACGAATCTGAAGAAGAGAAATCCTCAA
AGAAAGACAAAAAAGAAAAGAAAGAAAAGAAAGAAAAGAAAGAAAAGAAATCCTCAAAAG
ATGACTCTGATGATGAATCATCCAAAAAAGAAAAGAAAGACAAAAAGAGAAAGAAATCTT
CCGATAAAGATTCAGACAGCGAAAAAGAATCTTCTGATAAAAAAGATAAAAAAGATAAAA
AAGAAAAAAAGAAATCAAAGAATTAAATTGATTTCTTTTTAAAAAAATAATCTTTTTTTT
TCTATTTTTAGAATAAAAAAAAAAAAAAANTTTAAAAAAAAAA----------ATTTTTT
TTGNATNTTTTAGATAAAAAAGAAAAAAANAA
Length of connected seq. 682
Full length Seq ID -
Full length Seq. -
Length of full length seq. -