Typing tool
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Typing tool
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Complete norovirus genomes
| AF414416 | GII.1 | |
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| GII.P37 |
ORF1: 1..591
ORF2: 572..2179
ORF3: 2179..2961
LOCUS AF414416 3011 bp ss-RNA linear VRL 26-JUL-2016
DEFINITION Norwalk-like virus NLV/Miami/81/1986/US RNA polymerase (orf1) gene,
partial cds; and capsid protein (orf2) and minor structural protein
(orf3) genes, complete cds.
ACCESSION AF414416
VERSION AF414416.1
KEYWORDS .
SOURCE Norwalk-like virus NLV/Miami/81/1986/US
ORGANISM Norwalk-like virus NLV/Miami/81/1986/US
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 81)
AUTHORS Ando,T., Monroe,S.S., Gentsch,J.R., Jin,Q., Lewis,D.C. and
Glass,R.I.
TITLE Detection and differentiation of antigenically distinct small
round-structured viruses (Norwalk-like viruses) by reverse
transcription-PCR and southern hybridization
JOURNAL J. Clin. Microbiol. 33 (1), 64-71 (1995)
PUBMED 7699068
REFERENCE 2 (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 3 (bases 1 to 3011)
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 4 (bases 1 to 3011)
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 5 (bases 1 to 3011)
AUTHORS Ando,T., Seto,Y., Noel,J.S., Monroe,S.S. 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..3011
/organism="Norwalk-like virus NLV/Miami/81/1986/US"
/mol_type="genomic RNA"
/strain="Hu/NLV/Miami/81/1986/US"
/db_xref="taxon:171848"
/clone="pYS15A"
/note="NLV/81; NLV/UK4-22; NLV/S15;
group: GII/1"
gene <1..591
/gene="orf1"
CDS <1..591
/gene="orf1"
/note="nonstructural protein"
/codon_start=1
/product="RNA polymerase"
/protein_id="AAL13000.1"
/translation="LLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKL
TAKLKEYGLKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMY
WTRGPNHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGDMDIY
VPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 572..2179
/gene="orf2"
CDS 572..2179
/gene="orf2"
/note="major structural protein"
/codon_start=1
/product="capsid protein"
/protein_id="AAL13001.1"
/translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ
NNVIDPWIRMNFVQAPNGEFTVSPRNSPGEILLNLELGPELNPFLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKLVFAAIPPHFPIGNLSPGQIAMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQEPEPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP
TVESKTKPFTLPILTIGELSNSRFPVPIDELYTSPNEGLVVQPQNGRSTLDGELLGTT
QLVPSNICSLRGRINAHLSDNQHRWNMQVTNANGTPFDPTEDVPAPLGTPDFLANIYG
VTSQRNPDNTCRAHDGILATWSPKFTPKLGSVVLGTWEDRDFDINQPTRFTPVGLYDT
DHFNQWVLPYYSGALTLNMNLAPSVAPLFPGEQLLFFRSHVPLKGGTSNGAIDCLLPQ
EWVQHFYQESAPSSTDVALIRYTNPDTGRVLFEAKLHRQGFITVANSGSRPIVVPPNG
YFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 2179..2961
/gene="orf3"
CDS 2179..2961
/gene="orf3"
/codon_start=1
/product="minor structural protein"
/protein_id="AAL13002.1"
/translation="MAGAFIAGLAGDMLTNSFGSLVNAGANAINQKVDFENNKQLQQA
SFNHDKEMLQAQIQATKQLQADMIALRQGVLTAGGFSPTDAARGAVNAPMTQVLDWNG
TRYWAPGATKTTTFSGGFTSSSHARTVDLPKKTSATPAPVPASRPSSSSASTVSTRST
LVSGSFNFPSSTKSSISVSSQSTSPSSRTSEWVRNQNRALEPYMRGALKTAYVTPPSG
RASSNGTVSTVPKEVLDSWTSVFNTRRQPLFAHLRRRGESQA"
3'UTR 2962..3011
ORIGIN
1 ctcctcaccc tttgtgcact ttctgaagtc acgaacctgt cccctgacat catacaagct
61 aattctctat tttctttcta tggtgatgat gagattgtga gcacagacat aaaattggac
121 ccagaaaaat taacagcaaa actgaaagag tatgggctga agccaacccg ccctgacaag
181 actgagggac ccctgatcat ttctgaggac ctggatggtt tgaccttcct gcggagaact
241 gtgacccgcg acccagctgg ctggtttgga aaattggaac aaagctcaat acttaggcag
301 atgtactgga ctagaggccc caatcatgaa gacccatctg aaacaatgat accacattcc
361 caaaggccca tacaactgat gtccttactg ggcgaagctg cactacatgg tccagcattt
421 tacagcaaaa ttagtaaatt agtcattgca gagttgaagg aaggtgacat ggatatttac
481 gtgcccaggc aagagccaat gttcagatgg atgaggttct cagacctgag cacgtgggag
541 ggcgatcgca atctggctcc cagttttgtg aatgaagatg gcgtcgaatg acgccgctcc
601 atctaatgat ggtgcagccg gtctcgtacc agaggtcaac aacgagacga tggcactcga
661 accggtggct ggggcttcca tagccgcccc tctaaccggt caaaacaatg tgatagaccc
721 ctggattaga atgaactttg ttcaagcccc aaatggtgaa tttacagtat ctccccgtaa
781 ctctcctggt gaaattctgt taaatttaga attaggtcct gaattaaatc cattcttagc
841 acacctttca aggatgtata atggttatgc tggcggggtt gaagtgcagg tgctacttgc
901 tgggaacgcg ttcacagcag gaaaactagt gtttgcagcg atccccccac acttccctat
961 tgggaatctt agtcctggac aaattgcaat gttcccccat gtgatcattg atgttaggac
1021 attagaacct gtacttttgc ccctcccaga tgttaggaat aatttcttcc actacaacca
1081 ggagcctgag ccccgtatga ggcttgtggc tatgttgtat acccccctta ggtctaatgg
1141 ttctggtgat gatgtgttta cagtttcttg tagggttctt actcgccctt ccccagattt
1201 tgatttcaat tacttggttc ccccaactgt tgagtctaaa accaaaccat tcaccctacc
1261 aatcctgacc attggagaat tgtcaaattc taggttccca gttccaattg atgaactgta
1321 taccagcccc aatgagggat tggttgttca accccaaaac ggcagatcaa cactcgacgg
1381 tgaattgttg ggcaccactc aactcgtgcc ctcaaacatc tgttcactgc gaggacgcat
1441 caatgcccac ttgtcagata accaacaccg ttggaacatg caggtcacaa atgcaaatgg
1501 aacccccttc gaccccaccg aagatgtccc tgcaccactg ggcacaccag acttcctagc
1561 gaacatctat ggagtcacca gccagaggaa ccccgacaac acttgtcgcg cccatgatgg
1621 aattttggcg acttggagcc ccaaatttac acccaaatta gggtctgtgg ttctgggtac
1681 ttgggaagat agagattttg atataaacca acccacgagg tttacacctg ttggtttgta
1741 tgatactgat cattttaatc aatgggtttt accgtattat tctggagcgc tgaccctaaa
1801 catgaatttg gcaccctctg tcgctcctct ctttccaggt gagcaactac ttttcttcag
1861 gtcccatgta ccactcaaag gaggtacctc taatggtgcc attgattgtc tactccccca
1921 ggaatgggtt cagcactttt accaggagtc agctccatcc tctactgacg tggctctgat
1981 caggtacacc aaccctgaca caggacgcgt tttgttcgag gccaaattgc acaggcaggg
2041 atttatcaca gtggcaaact ctggctctag acccattgtt gtccccccca atggctattt
2101 tagatttgat tcttgggtta accagtttta ttctcttgcc cccatgggaa ctgggaatgg
2161 gcgcagaaga gtacagtaat ggctggagct ttcatagcag ggcttgctgg tgatatgctc
2221 accaatagtt ttggttcact tgtgaatgct ggagctaatg cgataaacca aaaagtggac
2281 tttgaaaaca acaagcaact acaacaggct tcttttaatc atgacaaaga gatgcttcaa
2341 gctcaaatcc aggccactaa acagctacag gctgacatga ttgcactcag acaaggggtg
2401 ttgaccgcgg gcggcttctc ccctactgat gcagcaagag gggcagttaa cgcgcctatg
2461 acgcaggtct tggactggaa tggaactagg tactgggccc ccggagccac aaaaacaacc
2521 actttctccg gagggttcac tagctcttcc cacgccagga ctgttgatct gcccaagaaa
2581 acatcagcta ctccagcccc ggtgcctgca tctagaccca gttcttcttc tgcttccaca
2641 gtctctactc gctcaacact tgttagtggg tcttttaatt ttccttcttc aactaagagt
2701 tctatcagtg tttcttccca atccacttcc ccgtcctccc ggactagtga atgggtgcgc
2761 aaccaaaata gggcactgga gccttacatg aggggggcgc taaaaacagc ttacgtgaca
2821 cctccttctg gtagggcttc tagtaatggc acagtctcaa ccgtgccaaa ggaagttttg
2881 gactcctgga catctgtgtt caacacccgc agacagccgc tcttcgctca tctccgtcgg
2941 agaggggagt cacaagctta gtgaaaagat gatttttctt tcttctttct ttgaaaattt
3001 tgtcttgcga t
//