Typing tool
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Typing tool
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Complete norovirus genomes
| AF414402 | GI.4 | |
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|---|---|---|---|
| GI.P4 |
ORF1: 1..588
ORF2: 572..2206
ORF3: 2206..2841
LOCUS AF414402 2931 bp ss-RNA linear VRL 26-JUL-2016
DEFINITION Norwalk-like virus NLV/New Orleans/266/1993/US RNA polymerase
(orf1) gene, partial cds; and capsid protein (orf2) and minor
structural protein (orf3) genes, complete cds.
ACCESSION AF414402
VERSION AF414402.1
KEYWORDS .
SOURCE Norwalk-like virus NLV/New Orleans/266/1993/US
ORGANISM Norwalk-like virus NLV/New Orleans/266/1993/US
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 81)
AUTHORS Ando,T., Jin,Q., Gentsch,J.R., Monroe,S.S., Noel,J.S., Dowell,S.F.,
Cicirello,H.G., Kohn,M.A. and Glass,R.I.
TITLE Epidemiologic applications of novel molecular methods to detect and
differentiate small round structured viruses (Norwalk-like viruses)
JOURNAL J. Med. Virol. 47 (2), 145-152 (1995)
PUBMED 8830118
REFERENCE 2 (bases 1 to 2931)
AUTHORS Ando,T., Monroe,S.S., Noel,J.S. and Glass,R.I.
TITLE A one-tube method of reverse transcription-PCR to efficiently
amplify a 3-kilobase region from the RNA polymerase gene to the
poly(A) tail of small round-structured viruses (Norwalk-like
viruses)
JOURNAL J. Clin. Microbiol. 35 (3), 570-577 (1997)
PUBMED 9041391
REFERENCE 3 (bases 1 to 2931)
AUTHORS Ando,T., Noel,J.S. and Fankhauser,R.L.
TITLE Genetic classification of 'Norwalk-like viruses.
JOURNAL J. Infect. Dis. 181 (Suppl 2), S336-S348 (2000)
PUBMED 10804147
REFERENCE 4 (bases 1 to 2931)
AUTHORS Ando,T., Seto,Y., Noel,J.S., Monroe,S.S., Glass,R.I. and
Fankhauser,R.L.
TITLE Direct Submission
JOURNAL Submitted (27-AUG-2001) Viral Gastroenteritis Section/Division of
Viral and Rickettsial Diseases/National Center for Infectious
Diseases, Centers for Disease Control and Prevention, 1600 Clifton
Road, Atlanta, GA 30333, USA
FEATURES Location/Qualifiers
source 1..2931
/organism="Norwalk-like virus NLV/New Orleans/266/1993/US"
/mol_type="genomic RNA"
/strain="Hu/NLV/New Orleans/266/1993/US"
/db_xref="taxon:171834"
/clone="pYS01A"
/note="NLV/266; NLV/S01;
group: GI/4"
gene <1..588
/gene="orf1"
CDS <1..588
/gene="orf1"
/note="nonstructural protein"
/codon_start=1
/product="RNA polymerase"
/protein_id="AAL12958.1"
/translation="LITLCAMSEVTGLSPDVIQSQSYFSFYGDDEIVSTDIDFDPARL
TQVLKEYGLRPTRPDKSEGPIILRRQVDGLVFLRRTISKDAAGFQGRLDRGSIERQLW
WTRGPNHDDPSETLIPHPQRKVQLISLLGEASLHGEKFYRKISSKVIQEIKTGGLEMY
VPGWQAMFRWMRFHDLGLWTGDRNLLPEFVNDDGV"
gene 572..2206
/gene="orf2"
CDS 572..2206
/gene="orf2"
/note="major structural protein"
/codon_start=1
/product="capsid protein"
/protein_id="AAL12959.1"
/translation="MMMASKDATPSADGATGAGQLVPEVNTADPIPIDPVAGSSTALA
TAGQVNLIDPWIINNFVQAPQGEFTISPNNTPGDVLFDLQLGPHLNPFLSHLSQMYNG
WVGNMRVRVVLAGNAFTAGKVIICRVPPGFQSRTLSIAQATLFPHVIADVRTLDPVEV
PLEDVRNVLYHNNDTQPTMRLLCMLYTPLRTGGASGGTDSFVVVGRVLTCPGPDFNFL
FLVPPTVEQKTRPFTAPNIPLKYLSNSRIPNPIEGMSLSPDQTQNVQFQNGRCTIDGQ
PLGATPVSVSQLCKFRGRITSGQRALNLTELDGSPFMAFAAPAPAGFPDLGSCDWHIE
MSKIPNSSTQNNPIVVNSVKPNSQQFVPHLPSITLDENVSSGGDYIGTIQWTSPPSDS
GGANTNFWKIPDYGSSLAEASQLAPAVYPPGFNEVIVYFMASIPGPNQSGSPNLVPCL
LPQEYITHFISEQAPIQGEAALLHYVDPDTNRNLGEFKLYPGGYLTCVPNSSSTGPQQ
LPLDGVFVFASWVSRFYQLKPVGTAGPARGRLGVRR"
gene 2206..2841
/gene="orf3"
CDS 2206..2841
/gene="orf3"
/codon_start=1
/product="minor structural protein"
/protein_id="AAL12960.1"
/translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQAQRYQQDLTLQQN
SFNHDKEMLGYQVEMSNKLLAKNLNTRYSLLQAGGLSPSDAARAVAGAPVTRVVDWGG
VRVAAPQSSATTLRSGNFMAVPLPAQPKHKPLASEGYSNPAYDPVQRTASWVQSQNSS
RTWSPYHRQALQTVWVTPPGSTSSSSISSVSTAPRRYFNTDRLPLFANLRR"
3'UTR 2842..2931
ORIGIN
1 ctgatcacat tgtgtgctat gtctgaagtc acgggtttat cacctgatgt catacaatcc
61 caatcttact tttctttcta tggtgatgat gagatagtct caacagacat tgattttgac
121 cccgcccgcc tcactcaagt gcttaaggaa tatgggttga gacccacccg gccagacaaa
181 tcagaagggc ccatcatact tagaagacag gtggatggcc ttgttttctt aaggaggaca
241 atctctaaag atgctgcagg ctttcaggga aggctagata ggggctcgat tgaaaggcag
301 ctctggtgga ctcgaggccc taaccatgat gaccccagtg agactctaat cccacacccc
361 caaaggaaag tacagctcat atccctcctt ggtgaggctt ccctccatgg tgagaagttt
421 tacagaaaaa tctccagtaa agtcatacag gagataaaga ctggtggttt agaaatgtat
481 gtgccaggat ggcaggccat gttccgctgg atgcgcttcc atgatctcgg attgtggaca
541 ggagatcgca atctcctgcc cgaattcgta aatgatgatg gcgtctaagg acgctacacc
601 aagcgcagat ggcgccactg gcgccggcca gctggtaccg gaggttaata cagctgaccc
661 tatacctatt gaccctgtgg ctggctcctc tacagccctt gccacagcag gccaagttaa
721 tttgattgat ccctggataa tcaataattt tgtgcaagcc ccccagggcg agtttacaat
781 atccccaaat aatacccccg gtgatgtgct ttttgatttg cagttaggac ctcatttaaa
841 ccctttcctc tcccatcttt ctcagatgta taatggttgg gtaggcaaca tgcgagtacg
901 tgttgtcttg gctggtaacg ctttcacggc tgggaaggtt ataatttgcc gtgtcccccc
961 tggctttcaa tctcgcactc tttccatagc tcaggctact ttatttcccc atgttattgc
1021 tgatgttagg acccttgatc ctgtagaagt gccccttgaa gatgtcagga atgtgctgta
1081 tcataataat gacacccaac ctaccatgcg cctcctttgc atgttgtata ctcctctccg
1141 caccggaggg gcgtctggtg ggactgattc ttttgtggta gttgggcgtg tgctcacttg
1201 cccgggccct gattttaatt tcttattcct agtccctcct acagtcgagc aaaagacccg
1261 cccttttact gcgcctaata tccctttgaa gtacctgtct aattctagga tcccaaaccc
1321 tatcgagggt atgtcattgt cacctgacca gacccaaaat gttcaattcc agaatggtag
1381 gtgtacaatt gatggtcaac ccctcggggc cacacctgtc tcagttagcc agttgtgtaa
1441 gtttaggggt aggattacat ctggacagag agcgctcaat ttgacagagt tggatggttc
1501 accttttatg gcctttgccg cccccgcccc tgcgggtttc ccggatcttg gatcctgtga
1561 ttggcatatt gaaatgagta aaatcccaaa ctctagtacc cagaacaatc caatagtggt
1621 caattctgtc aaacccaata gtcaacagtt tgtcccgcac ttgccaagta tcacccttga
1681 tgaaaacgtt tctagtgggg gtgactatat tggtactata caatggacct ctcctccttc
1741 tgattccggc ggagccaaca caaatttttg gaaaatccct gactatgggt ctagcctagc
1801 agaagcttca cagttggccc ccgctgtcta tccacctggt ttcaatgagg tgattgtgta
1861 ctttatggca tctatacccg gtcccaatca gtctgggtcc cctaacttgg tgccatgcct
1921 gcttccccag gaatatataa cacacttcat tagtgagcag gcccccattc agggtgaggc
1981 tgccttactc cattatgtag acccagacac caatcgtaac ctgggtgagt ttaaattgta
2041 ccctggtggt tatttaacct gtgttcctaa tagttctagt actggacctc agcagcttcc
2101 tcttgatggt gtatttgttt ttgcttcttg ggtttctaga ttttatcaat taaagcctgt
2161 gggaacagcc ggaccggcta gaggtaggct tggtgtccgt agataatggc ccaagccatt
2221 ataggagcca ttgccgcctc cgcagccggt agcgccctgg gtgctggcat ccaagctggt
2281 gctgaagctg cgttacaggc acagagatat caacaagatc tgactttgca gcaaaattct
2341 tttaatcatg ataaagaaat gttaggttat caagtggaaa tgtctaataa gttgctagct
2401 aagaatctta acacccgcta ttctctcctc caagcgggtg gcctctcgcc ctctgatgcg
2461 gctagggctg tggctggggc ccctgtcact agagtggtcg actggggtgg agtgcgtgtt
2521 gcggcacctc aatcatctgc caccacattg aggtctggta atttcatggc agtgccgctc
2581 ccagcacagc caaagcataa gccccttgcc agtgagggtt actccaatcc tgcttatgac
2641 cctgtgcagc gcacagcttc ttgggttcaa tctcaaaatt ccagccggac ttggtcccca
2701 taccataggc aagcccttca gactgtgtgg gtgacccccc ctggttctac ttcttcttct
2761 tccatttctt ctgtttctac cgcccctcga aggtatttta atacagatag attgcctctg
2821 ttcgcaaact tgaggcgtta atgttgtaat aagattagtg agcatcctat tcaaatttgg
2881 ttttgtataa tttggttgta tttggccttt aattttgatt tggttgatgc c
//