VSG239
Library VS
(Link to library)
Clone ID VSG239
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U15128-1
Original site URL
Representative seq. ID VSG239E
(Link to Original site)
Representative DNA sequence
>VSG239 (VSG239Q) /CSM/VS/VSG2-B/VSG239Q.Seq.d/
GTCGTGTTAGAACAAAGACAATCAAAAGAGCTTCCAAACTCCTCATTGAGAAGCATTACC
CAAGACTTACCAATGACTTCGACACTAACAAGAGAACTTGCGACAAACTCGCCAAGATCC
CATCAAAACGTTTAAGAAACAAGATTGCTGGTTTCTGTACCCATTTAATGAGACGTATTG
CTAATGGTCCAGTCCGTGGTATTTCTTACAAATTACAAGAAGAAGAAAGAGAAAAGAGAG
ATAACTACGTTCCACAAGAATCAGCCATCAAAACCAACGAAGTTAAAATCGATCGTGATG
TTGAAGAAATGCTTAAATCTACTTTGGAATTCCCAACCATCCCACAAATCCACGTCGTTG
ACCAAAAGAGATACAACAAAAACACCAAAAAATCAAACAAATAAACGTCAGATTGTTGAT
TATATAGAAAAAAAAAANNNNNNNNNNGTNGTGTTAGAACAAAGTCAATCAAAAGAGCTT
CCANACTCCTCATTGAGAAGCATTACCCAAGACTTACCAATGNCTTNGACACTAACAAGA
GAACTTGCGNCAAACTCGCCAAGATCCCATCAAAACGTTTAAGAAACAAGATTGCTGGTT
TCTGTACCCATTTAATGAGACGTATTGCTAATGGTCCAGTCCGTGGTATTTCTTACAAAT
TACAAGAAGAAGAAAGAGAAAAGAGAGATAACTACGTTCCACAAGAATCAGCCATCAAAA
CCAACGAAGTTAAAATCGATCGTGATGTTGAAGAAATGCTTAAATCTACTTTGGAATTCC
CAACCATCCCACAAATCCACGTCGTANACCAAAAGAGATACAACAAAAACACCAAAAAAT
CAAACAAA
sequence update 2001. 5.10
Translated Amino Acid sequence
rvrtktikrasklliekhyprltndfdtnkrtcdklakipskrlrnkiagfcthlmrria
ngpvrgisyklqeeerekrdnyvpqesaiktnevkidrdveemlkstlefptipqihvvd
qkrynkntkksnk*tsdc*LYRKKKXXXXXVRTKSIKRASXLLIEKHYPRLTNXXDTNKR
TCXKLAKIPSKRLRNKIAGFCTHLMRRIANGPVRGISYKLQEEEREKRDNYVPQESAIKT
NEVKIDRDVEEMLKSTLEFPTIPQIHVVXQKRYNKNTKKSNK


Translated Amino Acid sequence (All Frames)
Frame A:
vvleqrqskelpnsslrsitqdlpmtstltrelatnsprshqnv*etrllvsvpi**dvl
lmvqsvvfltnykkkkekreittfhknqpskptklksivmlkkclnllwnsqpshkstsl
tkrdttktpknqtnkrqivdyiekkxxxxvvleqsqskelpxsslrsitqdlpmxxtltr
elaxnsprshqnv*etrllvsvpi**dvllmvqsvvfltnykkkkekreittfhknqpsk
ptklksivmlkkclnllwnsqpshkstsxtkrdttktpknqt


Frame B:
sc*nkdnqksfqtph*ealpktyq*lrh*qenlrqtrqdpiktfkkqdcwflypfnetyc
*wsspwyflqitrrrkrker*lrstrishqnqrs*nrs*c*rna*iyfgipnhptnprr*
pkeiqqkhqkikqinvrllii*kkkxxxxxc*nkvnqksfxtph*ealpktyqxlxh*qe
nlrqtrqdpiktfkkqdcwflypfnetyc*wsspwyflqitrrrkrker*lrstrishqn
qrs*nrs*c*rna*iyfgipnhptnprrxpkeiqqkhqkikq


Frame C:
rvrtktikrasklliekhyprltndfdtnkrtcdklakipskrlrnkiagfcthlmrria
ngpvrgisyklqeeerekrdnyvpqesaiktnevkidrdveemlkstlefptipqihvvd
qkrynkntkksnk*tsdc*LYRKKKXXXXXVRTKSIKRASXLLIEKHYPRLTNXXDTNKR
TCXKLAKIPSKRLRNKIAGFCTHLMRRIANGPVRGISYKLQEEEREKRDNYVPQESAIKT
NEVKIDRDVEEMLKSTLEFPTIPQIHVVXQKRYNKNTKKSNK


Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

VSJ410 (VSJ410Q) /CSM/VS/VSJ4-A/VSJ410Q.Seq.d/ 428 e-119
VSI470 (VSI470Q) /CSM/VS/VSI4-C/VSI470Q.Seq.d/ 428 e-119
VSI273 (VSI273Q) /CSM/VS/VSI2-D/VSI273Q.Seq.d/ 428 e-119
VSI191 (VSI191Q) /CSM/VS/VSI1-D/VSI191Q.Seq.d/ 428 e-119
VSH760 (VSH760Q) /CSM/VS/VSH7-C/VSH760Q.Seq.d/ 428 e-119
VSH591 (VSH591Q) /CSM/VS/VSH5-D/VSH591Q.Seq.d/ 428 e-119
VSG239 (VSG239Q) /CSM/VS/VSG2-B/VSG239Q.Seq.d/ 428 e-119
VSG216 (VSG216Q) /CSM/VS/VSG2-A/VSG216Q.Seq.d/ 428 e-119
VSF388 (VSF388Q) /CSM/VS/VSF3-D/VSF388Q.Seq.d/ 428 e-119
VSD873 (VSD873Q) /CSM/VS/VSD8-D/VSD873Q.Seq.d/ 428 e-119

own update 2001.11.13
Homology vs DNA

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

L35173|L35173.1 Dictyostelium discoideum ribosomal protein (rps17) gene, complete cds. 428 e-177 4
BG259081|BG259081.1 602379133F1 NIH_MGC_92 Homo sapiens cDNA clone IMAGE:4509608 5', mRNA sequence. 50 6e-05 2
BQ434132|BQ434132.1 AGENCOURT_7808782 NIH_MGC_92 Homo sapiens cDNA clone IMAGE:6069301 5', mRNA sequence. 50 6e-05 2
AA390236|AA390236.1 CpEST.220 pSKIIminusCpIOWAsporoLib2 Cryptosporidium parvum cDNA 5' similar to 40S ribosomal protein S17A, mRNA sequence. 44 0.003 2
CD477300|CD477300.1 eca01-12ms1-h08 Eca01 Eschscholzia californica cDNA clone eca01-12ms1-h08 5', mRNA sequence. 42 0.011 2
CD476897|CD476897.1 eca01-7ms1-c05 Eca01 Eschscholzia californica cDNA clone eca01-7ms1-c05 5', mRNA sequence. 42 0.011 2
H36865|H36865.1 14994 Lambda-PRL2 Arabidopsis thaliana cDNA clone 180B22T7, mRNA sequence. 36 0.013 3
CD477145|CD477145.1 eca01-14ms1-h01 Eca01 Eschscholzia californica cDNA clone eca01-14ms1-h01 5', mRNA sequence. 42 0.013 2
BT000851|BT000851.1 Arabidopsis thaliana At5g04800/MUK11_12 mRNA, complete cds. 34 0.032 3
U74165|U74165.1 ATU74165 NaCl-treated Arabidopsis subtraction library Arabidopsis thaliana cDNA clone OS0132, mRNA sequence. 34 0.035 3
dna update 2003. 7.24
Homology vs Protein

Score E
Sequences producing significant alignments: (bits) Value

EU124942_1(EU124942|pid:none) Arenicola marina ribosomal protein... 154 3e-36
EU247177_1(EU247177|pid:none) Lycosa singoriensis clone LSsin973... 154 4e-36
AY857475_1(AY857475|pid:none) Suberites domuncula S17 mRNA, comp... 153 8e-36
DQ066305_1(DQ066305|pid:none) Ixodes scapularis isolate IS-6-12L... 152 1e-35
AF548334_1(AF548334|pid:none) Branchiostoma belcheri ribosomal p... 152 2e-35
(A5PK63) RecName: Full=40S ribosomal protein S17; &BC142374_1(B... 150 4e-35
BC091562_1(BC091562|pid:none) Danio rerio zgc:114188, mRNA (cDNA... 150 4e-35
AY892179_1(AY892179|pid:none) Synthetic construct Homo sapiens c... 150 5e-35
BT058153_1(BT058153|pid:none) Salmo salar clone Contig981 40S ri... 150 5e-35
(P08708) RecName: Full=40S ribosomal protein S17; &AB174364_1(A... 150 5e-35
protein update 2009. 4.30
PSORT

psg: 0.67 gvh: 0.40 alm: 0.51 top: 0.53 tms: 0.00 mit: 0.41 mip: 0.04
nuc: 0.33 erl: 0.00 erm: 0.60 pox: 0.00 px2: 0.50 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: 0.50 bac: 0.00 m1a: 0.00 m1b: 0.00 m2 : 0.00 mNt: 0.00
m3a: 0.00 m3b: 0.00 m_ : 1.00

72.0 %: cytoplasmic
16.0 %: nuclear
12.0 %: mitochondrial

>> prediction for VSG239 is cyt

5' end seq. ID VSG239F
5' end seq.
>VSG239F.Seq
GTCGTGTTAGAACAAAGACAATCAAAAGAGCTTCCAAACTCCTCATTGAGAAGCATTACC
CAAGACTTACCAATGACTTCGACACTAACAAGAGAACTTGCGACAAACTCGCCAAGATCC
CATCAAAACGTTTAAGAAACAAGATTGCTGGTTTCTGTACCCATTTAATGAGACGTATTG
CTAATGGTCCAGTCCGTGGTATTTCTTACAAATTACAAGAAGAAGAAAGAGAAAAGAGAG
ATAACTACGTTCCACAAGAATCAGCCATCAAAACCAACGAAGTTAAAATCGATCGTGATG
TTGAAGAAATGCTTAAATCTACTTTGGAATTCCCAACCATCCCACAAATCCACGTCGTTG
ACCAAAAGAGATACAACAAAAACACCAAAAAATCAAACAAATAAACGTCAGATTGTTGAT
TATATAGAAAAAAAAAA----------
Length of 5' end seq. 437
3' end seq. ID VSG239Z
3' end seq.
>VSG239Z.Seq
----------CTAAAGGGANCAAAAGNTGGGNNCCGGGCCCCCCCTNAAGGTNGANCCAC
GNGTCCGGTNGTGTTAGAACAAAGTCAATCAAAAGAGCTTCCANACTCCTCATTGAGAAG
CATTACCCAAGACTTACCAATGNCTTNGACACTAACAAGAGAACTTGCGNCAAACTCGCC
AAGATCCCATCAAAACGTTTAAGAAACAAGATTGCTGGTTTCTGTACCCATTTAATGAGA
CGTATTGCTAATGGTCCAGTCCGTGGTATTTCTTACAAATTACAAGAAGAAGAAAGAGAA
AAGAGAGATAACTACGTTCCACAAGAATCAGCCATCAAAACCAACGAAGTTAAAATCGAT
CGTGATGTTGAAGAAATGCTTAAATCTACTTTGGAATTCCCAACCATCCCACAAATCCAC
GTCGTANACCAAAAGAGATACAACAAAAACACCAAAAAATCAAACAAA
Length of 3' end seq. 458
Connected seq. ID VSG239P
Connected seq.
>VSG239P.Seq
GTCGTGTTAGAACAAAGACAATCAAAAGAGCTTCCAAACTCCTCATTGAGAAGCATTACC
CAAGACTTACCAATGACTTCGACACTAACAAGAGAACTTGCGACAAACTCGCCAAGATCC
CATCAAAACGTTTAAGAAACAAGATTGCTGGTTTCTGTACCCATTTAATGAGACGTATTG
CTAATGGTCCAGTCCGTGGTATTTCTTACAAATTACAAGAAGAAGAAAGAGAAAAGAGAG
ATAACTACGTTCCACAAGAATCAGCCATCAAAACCAACGAAGTTAAAATCGATCGTGATG
TTGAAGAAATGCTTAAATCTACTTTGGAATTCCCAACCATCCCACAAATCCACGTCGTTG
ACCAAAAGAGATACAACAAAAACACCAAAAAATCAAACAAATAAACGTCAGATTGTTGAT
TATATAGAAAAAAAAAA----------CTAAAGGGANCAAAAGNTGGGNNCCGGGCCCCC
CCTNAAGGTNGANCCACGNGTCCGGTNGTGTTAGAACAAAGTCAATCAAAAGAGCTTCCA
NACTCCTCATTGAGAAGCATTACCCAAGACTTACCAATGNCTTNGACACTAACAAGAGAA
CTTGCGNCAAACTCGCCAAGATCCCATCAAAACGTTTAAGAAACAAGATTGCTGGTTTCT
GTACCCATTTAATGAGACGTATTGCTAATGGTCCAGTCCGTGGTATTTCTTACAAATTAC
AAGAAGAAGAAAGAGAAAAGAGAGATAACTACGTTCCACAAGAATCAGCCATCAAAACCA
ACGAAGTTAAAATCGATCGTGATGTTGAAGAAATGCTTAAATCTACTTTGGAATTCCCAA
CCATCCCACAAATCCACGTCGTANACCAAAAGAGATACAACAAAAACACCAAAAAATCAA
ACAAA
Length of connected seq. 895
Full length Seq ID VSG239E
Full length Seq.
>VSG239E.Seq
GTCGTGTTAGAACAAAGACAATCAAAAGAGCTTCCAAACTCCTCATTGAGAAGCATTACC
CAAGACTTACCAATGACTTCGACACTAACAAGAGAACTTGCGACAAACTCGCCAAGATCC
CATCAAAACGTTTAAGAAACAAGATTGCTGGTTTCTGTACCCATTTAATGAGACGTATTG
CTAATGGTCCAGTCCGTGGTATTTCTTACAAATTACAAGAAGAAGAAAGAGAAAAGAGAG
ATAACTACGTTCCACAAGAATCAGCCATCAAAACCAACGAAGTTAAAATCGATCGTGATG
TTGAAGAAATGCTTAAATCTACTTTGGAATTCCCAACCATCCCACAAATCCACGTCGTTG
ACCAAAAGAGATACAACAAAAACACCAAAAAATCAAACAAATAAACGTCAGATTGTTGAT
TATATAGAAAAAAAAAANNNNNNNNNNGTNGTGTTAGAACAAAGTCAATCAAAAGAGCTT
CCANACTCCTCATTGAGAAGCATTACCCAAGACTTACCAATGNCTTNGACACTAACAAGA
GAACTTGCGNCAAACTCGCCAAGATCCCATCAAAACGTTTAAGAAACAAGATTGCTGGTT
TCTGTACCCATTTAATGAGACGTATTGCTAATGGTCCAGTCCGTGGTATTTCTTACAAAT
TACAAGAAGAAGAAAGAGAAAAGAGAGATAACTACGTTCCACAAGAATCAGCCATCAAAA
CCAACGAAGTTAAAATCGATCGTGATGTTGAAGAAATGCTTAAATCTACTTTGGAATTCC
CAACCATCCCACAAATCCACGTCGTANACCAAAAGAGATACAACAAAAACACCAAAAAAT
CAAACAAA
Length of full length seq. 848