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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
VSD645
Library VS
(Link to library)
Clone ID VSD645
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16543-1
Original site URL
Representative seq. ID VSD645P
(Link to Original site)
Representative DNA sequence 
>VSD645 (VSD645Q) /CSM/VS/VSD6-B/VSD645Q.Seq.d/
CAAATAAATAATTTATATTAAAAAATGTCCAGAGTAATTCATATTTCATCTAATGAAGAA
TTAGATAAACATTTGCAAGCTGAAAGATTAGTGATTGACTTTAGTGCTGCATGGTGTGGT
CCATGTAGAGCAATATCTCCGGTATTTGAAAAGCTTTCAAACGAATTTGTAACATTTACA
TTCGTTCATGTTGACATTGATAAACTAAGTGGTCATCCAATAGTAAAAGAAATTAGAAGT
GTTCCTACATTCTATTTTTACAGAAATGGAGCTAAAGTATCAGAATTCAGTGGTGCCAAT
GAAGCAACTCTAAGAAGTACTCTAGAAGCAAACAAATAATTTTTTGTTAAATTAATAATT
GTACAAAAAATGCAACAAATTAAATAAATAAAAAAAAAAAAATANTTCNCAAATTATTTT
ATTTAATTTATNTTTTAAAAAAAAAAAAAAAAANNAAAAANANAAACAAAAAAAAANAAA
AAAAAAANNNAAAAAAAAAAAAAAAAAAANCNNAAAAAAAAXXXXXXXXXXCCANGGGTC
CGCAAATAAATAATTTATATTAAAAAATGTCCANAGTAATTCANATTTCATNTAATGAAG
AATTAGATNAACATTTGCAAGCTGAAANATTAGTGATTGACTTTAGNGCTGCATGGTGTG
GNCCATGTANAGCAANATCTCCGGNATTTGAAAAGCTTTCAAACGAATTTGNAACATTTA
CATTCGTTCATGTTGACATTGATAAACTAAGTGGTCATCCAATAGTAAAAGAAATTANAA
GNGNTCCTACATTCTATTTTTACANAAATGGAGCTAAAGNATCAGAANTCAGTGGGGCCA
ATGAAGCAAC
sequence update 2001. 3.22
Translated Amino Acid sequence 
nk*filknvqsnsyfi**rir*tfas*kisd*l*ccmvwsm*snisgi*kafkricniyi
rsc*h**tkwssnskrn*kcsyilflqkws*siriqwcq*snskkysrskqiifc*innc
tknatn*INKKKKIXXKLFYLIYXLKKKKKXKXXNKKKXKKXXKKKKKKXXKK---

---XGPQINNLY*kmsxvixisxneeldxhlqaexlvidfxaawcgpcxaxspxfeklsn
efxtftfvhvdidklsghpivkeixxxptfyfyxngakxsexsganea
Translated Amino Acid sequence (All Frames) 
Frame A:
qinnly*kmsrvihissneeldkhlqaerlvidfsaawcgpcraispvfeklsnefvtft
fvhvdidklsghpivkeirsvptfyfyrngakvsefsganeatlrstleank*ffvklii
vqkmqqik*ikkkkxfxnyfi*fxf*kkkkkxkxxtkkxkkkxxkkkkkxxkk---

---pxvrk*iiyikkcpx*fxfhxmkn*xnicklkx**ltlxlhgvxhvxqxlrxlksfq
tnlxhlhsfmltlin*vviq**kklxxxlhsiftxmelkxqxsvgpmkq

Frame B:
k*iiyikkcpe*fifhlmkn*inicklkd**ltlvlhgvvhveqylrylksfqtnl*hlh
sfmltlin*vviq**kklevflhsiftemelkyqnsvvpmkql*evl*kqtnnflln**l
ykkcnklnk*kkknxsqiilfnlxfkkkkkxxkxkqkkxkkkxkkkkkkxxkk---

---xgsank*filknvxsnsxfx**rirxtfas*xisd*l*xcmvwxmxsxisgi*kafk
rixniyirsc*h**tkwssnskrnxkxsyilflxkws*xirxqwgq*sn

Frame C:
nk*filknvqsnsyfi**rir*tfas*kisd*l*ccmvwsm*snisgi*kafkricniyi
rsc*h**tkwssnskrn*kcsyilflqkws*siriqwcq*snskkysrskqiifc*innc
tknatn*INKKKKIXXKLFYLIYXLKKKKKXKXXNKKKXKKXXKKKKKKXXKK---

---XGPQINNLY*kmsxvixisxneeldxhlqaexlvidfxaawcgpcxaxspxfeklsn
efxtftfvhvdidklsghpivkeixxxptfyfyxngakxsexsganea
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSJ416 (VSJ416Q) /CSM/VS/VSJ4-A/VSJ416Q.Seq.d/                        771   0.0
VSI646 (VSI646Q) /CSM/VS/VSI6-B/VSI646Q.Seq.d/                        771   0.0
VSD821 (VSD821Q) /CSM/VS/VSD8-A/VSD821Q.Seq.d/                        771   0.0
VSD665 (VSD665Q) /CSM/VS/VSD6-C/VSD665Q.Seq.d/                        771   0.0
VSD645 (VSD645Q) /CSM/VS/VSD6-B/VSD645Q.Seq.d/                        771   0.0
SSM584 (SSM584Q) /CSM/SS/SSM5-D/SSM584Q.Seq.d/                        771   0.0
SSM341 (SSM341Q) /CSM/SS/SSM3-B/SSM341Q.Seq.d/                        771   0.0
SSE809 (SSE809Q) /CSM/SS/SSE8-A/SSE809Q.Seq.d/                        771   0.0
SSA493 (SSA493Q) /CSM/SS/SSA4-D/SSA493Q.Seq.d/                        771   0.0
AHG261 (AHG261Q) /CSM/AH/AHG2-C/AHG261Q.Seq.d/                        771   0.0
own update 2004.12.25
Homology vs DNA 

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

M91384|M91384.1 Dictyostelium discoideum thioredoxin (TRX1) mRNA, complete cds.   513  e-158  3
M91383|M91383.1 Dictyostelium discoideum thioredoxin (TRX3) mRNA, complete cds.   555  e-154  1
M91382|M91382.1 Dictyostelium discoideum thioredoxin (TRX2) mRNA, 5' end.   541  e-150  1
AC119905|AC119905.3 Mus musculus clone RP24-238N14, WORKING DRAFT SEQUENCE, 6 unordered pieces.    42  0.004  2
AX349036|AX349036.1 Sequence 494 from Patent WO0202807.           36  0.005  5
AF538053|AF538053.1 Monosiga brevicollis mitochondrion, complete genome.    36  0.008  6
AC116960|AC116960.2 Dictyostelium discoideum chromosome 2 map complement(1004496-821614) strain AX4, complete sequence.    34  0.014  10
AE014847|AE014847.1 Plasmodium falciparum 3D7 chromosome 12, section 4 of 9 of the complete sequence.    36  0.014  10
AE014843|AE014843.1 Plasmodium falciparum 3D7 chromosome 11 section 8 of 8 of the complete sequence.    34  0.023  10
X03240|X03240.1 Drosophila yakuba complete mitochondrial sequence.    30  0.032  7
dna update 2003. 8.22
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(P29447) RecName: Full=Thioredoxin-3;          Short=Trx-3;           185   2e-45
C46264(C46264) thioredoxin 3 - slime mold (Dictyostelium discoid...   182   1e-44
(P29446) RecName: Full=Thioredoxin-2;          Short=Trx-2; Flag...   182   2e-44
BC129794_1(BC129794|pid:none) Xenopus laevis hypothetical protei...    94   8e-18
AB478083_1(AB478083|pid:none) Pichia pastoris TRX2 gene for thio...    93   1e-17
BC166957_1(BC166957|pid:none) Xenopus tropicalis hypothetical pr...    92   2e-17
BC072884_1(BC072884|pid:none) Xenopus laevis MGC80314 protein, m...    91   5e-17
(Q9DGI3) RecName: Full=Thioredoxin;          Short=Trx;  &AF2936...    87   7e-16
FJ384985_1(FJ384985|pid:none) Bombina orientalis thioredoxin mRN...    85   3e-15
DQ215312_1(DQ215312|pid:none) Taeniopygia guttata clone 0058P004...    85   3e-15
protein update 2009. 7.30
PSORT 

 psg: 0.90  gvh: 0.26  alm: 0.63  top: 0.60  tms: 0.00  mit: 0.32  mip: 0.00
 nuc: 0.99  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 

	 84.0 %: nuclear
	  4.0 %: cytoskeletal
	  4.0 %: mitochondrial
	  4.0 %: plasma membrane
	  4.0 %: cytoplasmic

>> prediction for VSD645 is nuc
5' end seq. ID VSD645F
5' end seq. 
>VSD645F.Seq
CAAATAAATAATTTATATTAAAAAATGTCCAGAGTAATTCATATTTCATCTAATGAAGAA
TTAGATAAACATTTGCAAGCTGAAAGATTAGTGATTGACTTTAGTGCTGCATGGTGTGGT
CCATGTAGAGCAATATCTCCGGTATTTGAAAAGCTTTCAAACGAATTTGTAACATTTACA
TTCGTTCATGTTGACATTGATAAACTAAGTGGTCATCCAATAGTAAAAGAAATTAGAAGT
GTTCCTACATTCTATTTTTACAGAAATGGAGCTAAAGTATCAGAATTCAGTGGTGCCAAT
GAAGCAACTCTAAGAAGTACTCTAGAAGCAAACAAATAATTTTTTGTTAAATTAATAATT
GTACAAAAAATGCAACAAATTAAATAAATAAAAAAAAAAAAATANTTCNCAAATTATTTT
ATTTAATTTATNTTTTAAAAAAAAAAAAAAAAANNAAAAANANAAACAAAAAAAAANAAA
AAAAAAANNNAAAAAAAAAAAAAAAAAAANCNNAAAAAAAA----------
Length of 5' end seq. 521
3' end seq. ID VSD645Z
3' end seq. 
>VSD645Z.Seq
----------CCANGGGTCCGCAAATAAATAATTTATATTAAAAAATGTCCANAGTAATT
CANATTTCATNTAATGAAGAATTAGATNAACATTTGCAAGCTGAAANATTAGTGATTGAC
TTTAGNGCTGCATGGTGTGGNCCATGTANAGCAANATCTCCGGNATTTGAAAAGCTTTCA
AACGAATTTGNAACATTTACATTCGTTCATGTTGACATTGATAAACTAAGTGGTCATCCA
ATAGTAAAAGAAATTANAAGNGNTCCTACATTCTATTTTTACANAAATGGAGCTAAAGNA
TCAGAANTCAGTGGGGCCAATGAAGCAAC
Length of 3' end seq. 319
Connected seq. ID VSD645P
Connected seq. 
>VSD645P.Seq
CAAATAAATAATTTATATTAAAAAATGTCCAGAGTAATTCATATTTCATCTAATGAAGAA
TTAGATAAACATTTGCAAGCTGAAAGATTAGTGATTGACTTTAGTGCTGCATGGTGTGGT
CCATGTAGAGCAATATCTCCGGTATTTGAAAAGCTTTCAAACGAATTTGTAACATTTACA
TTCGTTCATGTTGACATTGATAAACTAAGTGGTCATCCAATAGTAAAAGAAATTAGAAGT
GTTCCTACATTCTATTTTTACAGAAATGGAGCTAAAGTATCAGAATTCAGTGGTGCCAAT
GAAGCAACTCTAAGAAGTACTCTAGAAGCAAACAAATAATTTTTTGTTAAATTAATAATT
GTACAAAAAATGCAACAAATTAAATAAATAAAAAAAAAAAAATANTTCNCAAATTATTTT
ATTTAATTTATNTTTTAAAAAAAAAAAAAAAAANNAAAAANANAAACAAAAAAAAANAAA
AAAAAAANNNAAAAAAAAAAAAAAAAAAANCNNAAAAAAAA----------CCANGGGTC
CGCAAATAAATAATTTATATTAAAAAATGTCCANAGTAATTCANATTTCATNTAATGAAG
AATTAGATNAACATTTGCAAGCTGAAANATTAGTGATTGACTTTAGNGCTGCATGGTGTG
GNCCATGTANAGCAANATCTCCGGNATTTGAAAAGCTTTCAAACGAATTTGNAACATTTA
CATTCGTTCATGTTGACATTGATAAACTAAGTGGTCATCCAATAGTAAAAGAAATTANAA
GNGNTCCTACATTCTATTTTTACANAAATGGAGCTAAAGNATCAGAANTCAGTGGGGCCA
ATGAAGCAAC
Length of connected seq. 840
Full length Seq ID -
Full length Seq. -
Length of full length seq. -