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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
VSJ109
Library VS
(Link to library)
Clone ID VSJ109
Atlas ID -
NBRP ID
dictyBase ID
Link to Contig Contig-U14494-1
Original site URL
Representative seq. ID VSJ109P
(Link to Original site)
Representative DNA sequence 
>VSJ109 (VSJ109Q) /CSM/VS/VSJ1-A/VSJ109Q.Seq.d/
GCTAACCAATCACACAATGAAGACCTCTCTTTGCAACTACAGTGAATTCAAAATCTACCC
AGCTCGTGGTATGAAATTCGTTAGAGGTGACTCTAAAGTTTTCCACTTTATCAACACTAA
AGTTGAATCTCTCTTCTTCAGAAAGATCAACCCAAGAGATATTAGATGGTCAATGGTTTA
CCGTAGAATCTACAAAAACACCACCACTGATGTTTCAGCCAAAAAGAAGGCCAGAAAGAC
CAAGAAATTCGAAAGAAACATCGTCGGTGCTTCATTAGAAGTCATCCAACAAAAACGTGC
CCAAAAACCAGAAGTCAAACAAGCTGCTGCCGAACAAGCCAAAAGAGAAATCAAAGAAAA
GAAGAAAGCTGCTGCCAAAAAAGCTGCCCCAAAAAAATAAATGATTAAATAAACGTTGGA
TCATTATTGTTTTAAAAAAAAAAXXXXXXXXXXGCTAACCAATCACACAATGAAGACCTC
TCTTTGCAACTACAAGTGAATTCAAAATCTACCCAGCTCGTGGTATGAAATTCGTTAGAG
GTGACTCTAAAGTTTTCCACTTTATCAACACTAAAGTTGAATCTCTCTTCTTCAGAAAGA
TCAACCCAAGAGATATTAGATGGTCAATGGTTTACCGTAGAATCTACAAAAACACCACCA
CTGATGTTTCAGCCAAAAAGAAGGCCAGAAAGACCAAGAAATTCGAAAGAAACATCGTCG
GTGCTTCATTAGAAGTCATCCAACAAAAACGTGCCCAAAAACCAGAAGTCAAACAAGCTG
CTGCCGAACAAGCCAAAAGAGAAATCAAAGAAAAGAAGAAAGCTGCTGCCAAAAAAGCTG
CCCCAAAAAAATAAANNATTAAATAAACGTGGNATCATTA
sequence update 2001. 3.22
Translated Amino Acid sequence 
*pitq*rplfattvnskstqlvv*nslevtlkfstlstlklnlssserstqeildgqwft
vestktpplmfqpkrrperprnsketssvlh*kssnknvpknqksnkllpnkpkekskkr
rkllpkklpqknk*LNKRWIIIVLKKK---

---ANQSHNEDLSLQLQVNSKSTQLVV*nslevtlkfstlstlklnlssserstqeildg
qwftvestktpplmfqpkrrperprnsketssvlh*kssnknvpknqksnkllpnkpkek
skkrrkllpkklpqknkxlnkrgii
Translated Amino Acid sequence (All Frames) 
Frame A:
anqshnedlslqlq*iqnlpsswyeir*r*l*sfplyqh*s*isllqkdqpkry*mvngl
p*nlqkhhh*cfsqkegqkdqeirkkhrrcfirshptktcpktrsqtsccrtsqkrnqrk
eesccqkscpkkind*invgsllf*kk---

---ANQSHNEDLSLQLQVNSKSTQLVV*nslevtlkfstlstlklnlssserstqeildg
qwftvestktpplmfqpkrrperprnsketssvlh*kssnknvpknqksnkllpnkpkek
skkrrkllpkklpqknkxlnkrgii

Frame B:
ltnhtmktslcnysefkiypargmkfvrgdskvfhfintkveslffrkinprdirwsmvy
rriykntttdvsakkkarktkkfernivgasleviqqkraqkpevkqaaaeqakreikek
kkaaakkaapkk*mik*tldhycfkkk---

---ltnhtmktslcnyk*iqnlpsswyeir*r*l*sfplyqh*s*isllqkdqpkry*mv
nglp*nlqkhhh*cfsqkegqkdqeirkkhrrcfirshptktcpktrsqtsccrtsqkrn
qrkeesccqkscpkkixx*invxsl

Frame C:
*pitq*rplfattvnskstqlvv*nslevtlkfstlstlklnlssserstqeildgqwft
vestktpplmfqpkrrperprnsketssvlh*kssnknvpknqksnkllpnkpkekskkr
rkllpkklpqknk*LNKRWIIIVLKKK---

---*pitq*rplfattsefkiypargmkfvrgdskvfhfintkveslffrkinprdirws
mvyrriykntttdvsakkkarktkkfernivgasleviqqkraqkpevkqaaaeqakrei
kekkkaaakkaapkk*xik*twxh
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSJ109 (VSJ109Q) /CSM/VS/VSJ1-A/VSJ109Q.Seq.d/                        676   0.0
VSI860 (VSI860Q) /CSM/VS/VSI8-C/VSI860Q.Seq.d/                        652   0.0
VSG477 (VSG477Q) /CSM/VS/VSG4-D/VSG477Q.Seq.d/                        652   0.0
VSE158 (VSE158Q) /CSM/VS/VSE1-C/VSE158Q.Seq.d/                        652   0.0
VFL381 (VFL381Q) /CSM/VF/VFL3-D/VFL381Q.Seq.d/                        652   0.0
VSF626 (VSF626Q) /CSM/VS/VSF6-B/VSF626Q.Seq.d/                        640   0.0
VSI713 (VSI713Q) /CSM/VS/VSI7-A/VSI713Q.Seq.d/                        632   e-180
VSF371 (VSF371Q) /CSM/VS/VSF3-C/VSF371Q.Seq.d/                        632   e-180
VSG792 (VSG792Q) /CSM/VS/VSG7-D/VSG792Q.Seq.d/                        628   e-179
VSB728 (VSB728Q) /CSM/VS/VSB7-B/VSB728Q.Seq.d/                        620   e-177
own update 2004.12.25
Homology vs DNA 

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

BH012722|BH012722.1 TDGAN15TH cTOG Lycopersicon esculentum genomic clone cTOG4C6, DNA sequence.    38  0.053  2
CC663129|CC663129.1 OGOAH23TH ZM_0.7_1.5_KB Zea mays genomic clone ZMMBMa0337D22, genomic survey sequence.    38  0.26  2
AL627236|AL627236.11 Mouse DNA sequence from clone RP23-384G12 on chromosome 4.    46  0.72  1
AC129645|AC129645.4 Rattus norvegicus clone CH230-24G10, *** SEQUENCING IN PROGRESS ***, 12 unordered pieces.    40  0.96  3
AC128803|AC128803.2 Rattus norvegicus clone CH230-145N17, *** SEQUENCING IN PROGRESS ***, 19 unordered pieces.    38  1.2  2
AC108581|AC108581.4 Rattus norvegicus clone CH230-250F2, *** SEQUENCING IN PROGRESS ***, 14 unordered pieces.    38  1.2  5
Z83239|Z83239.1 Caenorhabditis elegans cosmid T09F5.              44  2.3  2
AC095203|AC095203.4 Rattus norvegicus clone CH230-9J18, *** SEQUENCING IN PROGRESS ***, 11 unordered pieces.    38  2.8  3
AC099980|AC099980.1 Mus musculus chromosome 7 clone RP23-23H17 map 7, LOW-PASS SEQUENCE SAMPLING.    36  3.2  3
K02311|K02311.1 C. tentans 195 bp beta-repeats in Balbiani ring 2 (BR 2) salivary polypeptide mRNA.    38  3.5  2
dna update 2003. 7.17
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54VN6) RecName: Full=60S ribosomal protein L24;                     166   9e-40
AE017347_304(AE017347|pid:none) Cryptococcus neoformans var. neo...    86   2e-15
DQ213898_1(DQ213898|pid:none) Taeniopygia guttata clone 0061P001...    85   3e-15
BC078474_1(BC078474|pid:none) Xenopus laevis MGC85232 protein, m...    85   3e-15
BC158409_1(BC158409|pid:none) Xenopus tropicalis hypothetical pr...    85   3e-15
AX887970_1(AX887970|pid:none) Sequence 3833 from Patent EP1033401.     84   4e-15
AY891881_1(AY891881|pid:none) Synthetic construct Homo sapiens c...    84   4e-15
AB374963_1(AB374963|pid:none) Solea senegalensis RPL24 mRNA for ...    84   6e-15
(Q9DFQ7) RecName: Full=60S ribosomal protein L24;                      84   6e-15
(Q6Y263) RecName: Full=60S ribosomal protein L24;  &AY190673_1(A...    84   6e-15
protein update 2009. 3.25
PSORT 

 psg: 0.42  gvh: 0.44  alm: 0.57  top: 0.53  tms: 0.00  mit: 0.35  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 

	 56.0 %: cytoplasmic
	 24.0 %: mitochondrial
	 12.0 %: nuclear
	  4.0 %: extracellular, including cell wall
	  4.0 %: peroxisomal

>> prediction for VSJ109 is cyt
5' end seq. ID VSJ109F
5' end seq. 
>VSJ109F.Seq
GCTAACCAATCACACAATGAAGACCTCTCTTTGCAACTACAGTGAATTCAAAATCTACCC
AGCTCGTGGTATGAAATTCGTTAGAGGTGACTCTAAAGTTTTCCACTTTATCAACACTAA
AGTTGAATCTCTCTTCTTCAGAAAGATCAACCCAAGAGATATTAGATGGTCAATGGTTTA
CCGTAGAATCTACAAAAACACCACCACTGATGTTTCAGCCAAAAAGAAGGCCAGAAAGAC
CAAGAAATTCGAAAGAAACATCGTCGGTGCTTCATTAGAAGTCATCCAACAAAAACGTGC
CCAAAAACCAGAAGTCAAACAAGCTGCTGCCGAACAAGCCAAAAGAGAAATCAAAGAAAA
GAAGAAAGCTGCTGCCAAAAAAGCTGCCCCAAAAAAATAAATGATTAAATAAACGTTGGA
TCATTATTGTTTTAAAAAAAAAA----------
Length of 5' end seq. 443
3' end seq. ID VSJ109Z
3' end seq. 
>VSJ109Z.Seq
----------GCTAACCAATCACACAATGAAGACCTCTCTTTGCAACTACAAGTGAATTC
AAAATCTACCCAGCTCGTGGTATGAAATTCGTTAGAGGTGACTCTAAAGTTTTCCACTTT
ATCAACACTAAAGTTGAATCTCTCTTCTTCAGAAAGATCAACCCAAGAGATATTAGATGG
TCAATGGTTTACCGTAGAATCTACAAAAACACCACCACTGATGTTTCAGCCAAAAAGAAG
GCCAGAAAGACCAAGAAATTCGAAAGAAACATCGTCGGTGCTTCATTAGAAGTCATCCAA
CAAAAACGTGCCCAAAAACCAGAAGTCAAACAAGCTGCTGCCGAACAAGCCAAAAGAGAA
ATCAAAGAAAAGAAGAAAGCTGCTGCCAAAAAAGCTGCCCCAAAAAAATAAANNATTAAA
TAAACGTGGNATCATTA
Length of 3' end seq. 427
Connected seq. ID VSJ109P
Connected seq. 
>VSJ109P.Seq
GCTAACCAATCACACAATGAAGACCTCTCTTTGCAACTACAGTGAATTCAAAATCTACCC
AGCTCGTGGTATGAAATTCGTTAGAGGTGACTCTAAAGTTTTCCACTTTATCAACACTAA
AGTTGAATCTCTCTTCTTCAGAAAGATCAACCCAAGAGATATTAGATGGTCAATGGTTTA
CCGTAGAATCTACAAAAACACCACCACTGATGTTTCAGCCAAAAAGAAGGCCAGAAAGAC
CAAGAAATTCGAAAGAAACATCGTCGGTGCTTCATTAGAAGTCATCCAACAAAAACGTGC
CCAAAAACCAGAAGTCAAACAAGCTGCTGCCGAACAAGCCAAAAGAGAAATCAAAGAAAA
GAAGAAAGCTGCTGCCAAAAAAGCTGCCCCAAAAAAATAAATGATTAAATAAACGTTGGA
TCATTATTGTTTTAAAAAAAAAA----------GCTAACCAATCACACAATGAAGACCTC
TCTTTGCAACTACAAGTGAATTCAAAATCTACCCAGCTCGTGGTATGAAATTCGTTAGAG
GTGACTCTAAAGTTTTCCACTTTATCAACACTAAAGTTGAATCTCTCTTCTTCAGAAAGA
TCAACCCAAGAGATATTAGATGGTCAATGGTTTACCGTAGAATCTACAAAAACACCACCA
CTGATGTTTCAGCCAAAAAGAAGGCCAGAAAGACCAAGAAATTCGAAAGAAACATCGTCG
GTGCTTCATTAGAAGTCATCCAACAAAAACGTGCCCAAAAACCAGAAGTCAAACAAGCTG
CTGCCGAACAAGCCAAAAGAGAAATCAAAGAAAAGAAGAAAGCTGCTGCCAAAAAAGCTG
CCCCAAAAAAATAAANNATTAAATAAACGTGGNATCATTA
Length of connected seq. 870
Full length Seq ID -
Full length Seq. -
Length of full length seq. -