Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| AF414413 | GII.3 | |
|
|---|---|---|---|
| GII.P3 |
ORF1: 1..591
ORF2: 572..2218
ORF3: 2218..2982
LOCUS AF414413 3021 bp ss-RNA linear VRL 26-JUL-2016
DEFINITION Norwalk-like virus NLV/Montgomery/312/1994/US RNA polymerase (orf1)
gene, partial cds; and capsid protein (orf2) and minor structural
protein (orf3) genes, complete cds.
ACCESSION AF414413
VERSION AF414413.1
KEYWORDS .
SOURCE Norwalk-like virus NLV/Montgomery/312/1994/US
ORGANISM Norwalk-like virus NLV/Montgomery/312/1994/US
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 3021)
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 2 (bases 871 to 1147)
AUTHORS Noel,J.S., Ando,T., Leite,J.P., Green,K.Y., Dingle,K.E.,
Estes,M.K., Seto,Y., Monroe,S.S. and Glass,R.I.
TITLE Correlation of patient immune responses with genetically
characterized small round-structured viruses involved in outbreaks
of nonbacterial acute gastroenteritis in the United States, 1990 to
1995
JOURNAL J. Med. Virol. 53 (4), 372-383 (1997)
PUBMED 9407386
REFERENCE 3 (bases 1 to 3021)
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 3021)
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..3021
/organism="Norwalk-like virus NLV/Montgomery/312/1994/US"
/mol_type="genomic RNA"
/strain="Hu/NLV/Montgomery/312/1994/US"
/db_xref="taxon:171845"
/clone="pYS12D"
/note="NLV/312; NLV/S12;
group: GII/3"
gene <1..591
/gene="orf1"
CDS <1..591
/gene="orf1"
/note="nonstructural protein"
/codon_start=1
/product="RNA polymerase"
/protein_id="AAL12991.1"
/translation="LLTLCALSEVTGLGPDIIQANSMYSFYGDDEVVSTDIKLDPEKL
TAKLKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQLY
WTRGPNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYIKVSKLVISELKEGGMDFY
VPRQESMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 572..2218
/gene="orf2"
CDS 572..2218
/gene="orf2"
/note="major structural protein"
/codon_start=1
/product="capsid protein"
/protein_id="AAL12992.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKVIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPINLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDGVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTRLFTLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGTLTRSTSRASDQADTPIPRLFNHRWHIQLDNLNGTPYDPAEDIPAP
LGTPDFRGKVFGVASQRNPDSTTRAHEAKVDATPGRFTPKLGSLEIITESDDFDTNQS
TKFTPVGIGVDNEAEFQQWSLPNYSGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGVLDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
gene 2218..2982
/gene="orf3"
CDS 2218..2982
/gene="orf3"
/codon_start=1
/product="minor structural protein"
/protein_id="AAL12993.1"
/translation="MAGAFIAGLAGGMLTNTVGSLVNAGANAINQKVDFENNKYLQNA
SFNHDKEMLSAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWSG
TRYWAPNAASTTSMSGGFTSQVVHRTTPNFKTSQAPKFTPSSGSSVRSSSTQLTNLSS
HSSGSSRSSGSTVVSSLPSSSRTRDWVNQQNLNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKDVLDSWTSAFNTRRQPLFAHLRRRGESNV"
3'UTR 2983..3021
ORIGIN
1 ttgcttactt tgtgtgccct ttctgaagtg acaggactag gccccgacat catacaagct
61 aattccatgt actctttcta tggtgatgat gaggttgtga gcactgacat aaaattggac
121 ccagagaaac tgactgcaaa actcaaagag tacggcctca aacccacccg gcccgacaag
181 accgaagggc cgctggtgat cagtgaagac ttgaatggtt taacgttcct ccgccgaaca
241 gtcacccgtg acccagcagg ctggtttgga aagctggagc aaagttccat cctcaggcag
301 ctatactgga caaggggacc taaccatgaa gaccccagtg aaaccatgat accacatgcg
361 cagagacccg tgcagctcat ggcactactg ggagaatcct ccctacatgg accctcattt
421 tacatcaagg tcagcaagct ggttatatct gaacttaagg agggaggaat ggatttttat
481 gtgcccagac aagagtcaat gttcaggtgg atgaggttct cagatctaag cacatgggag
541 ggcgatcgca atctggctcc cagttttgtg aatgaagatg gcgtcgaatg acgctgctcc
601 atctaatgat ggtgccgccg gcctcgtccc agagatcaac aatgaggcaa tggcgctaga
661 gccagtggcg ggtgcagcga tagcagcgcc cctcactggc cagcaaaata taattgatcc
721 ctggattatg aataattttg tgcaagcacc tggtggtgag tttacagtgt cacctaggaa
781 ttcccctggt gaagtgcttc ttaatttgga attaggtcca gaaataaatc cctatttggc
841 tcatcttgct agaatgtaca atggttatgc aggtggattt gaagtgcagg tggtcctagc
901 tggaaatgcg tttacagcag gaaaggttat ctttgcagct atacccccta atttccctat
961 tgacaatctg agcgcggcac agatcacaat gtgcccgcac gtgattgtgg atgtcaggca
1021 gttggaacca atcaatctcc cgatgcctga tgtccgcaac aatttctttc attataatca
1081 aggttctgat tcaagattac gtttgattgc aatgttgtat acacctctta gggcaaataa
1141 ttctggagat ggtgttttta ctgtatcttg tagggtgtta actaggccca gccctgattt
1201 ctcattcaat tttcttgtcc cacccactgt ggaatcaaag acaagacttt ttaccctccc
1261 cattttaacc atctctgaaa tgtccaattc caggtttcca gttccaattg actctctgca
1321 caccagccca actgagaata tagttgtcca gtgccaaaat gggcgcgtca ctcttgacgg
1381 tgagttaatg ggcaccaccc aactcttacc gagccaaata tgtgctttca ggggcacact
1441 cactaggtca acaagcaggg ccagtgacca agccgacaca ccaatcccca ggctattcaa
1501 ccaccgttgg catatacaat tggataatct gaatggaact ccctacgacc ctgcagagga
1561 cataccagct cctttgggca cgccagactt ccggggcaag gtctttggcg tggccagcca
1621 gagaaacccc gacagcacaa caagggcaca tgaagcaaaa gtggacgcaa cacctggtcg
1681 cttcacccca aaattgggct ccttagaaat aatcactgaa tctgatgact ttgacacaaa
1741 ccagtcaaca aaattcaccc cagttggcat cggagttgac aatgaggcag aatttcagca
1801 atggtcctta cctaactatt ctggtcagtt tactcacaat atgaacttag ccccagctgt
1861 tgcccccaat tttcctggtg aacagctact tttcttccgg tcacagctgc catcctctgg
1921 tgggcgttcc aacggggttc tagactgcct ggtcccccag gaatgggttc aacactttta
1981 ccaagaatca gcccccgccc aaacgcaggt ggccctggtt aggtatgtca accctgacac
2041 tggcagagtg ctatttgagg ccaagctgca caaattgggt tttatgacta tagcaaagaa
2101 tggtgactca ccaataactg tccccccaaa tggatacttt agatttgaat cttgggttaa
2161 ccccttttat acacttgccc ccatgggaac tggaaatggg cgtagaagga ttcaataatg
2221 gctggagctt ttatagcagg attggctggt ggcatgctca caaacactgt ggggtctttg
2281 gttaatgcag gggccaatgc tattaatcaa aaagttgatt ttgaaaataa taaatatttg
2341 caaaatgctt cttttaatca tgataaggag atgttgagtg cacaaattga ggcaacaaag
2401 aggctgcagg ctgacatgat tgcaatcaaa caaggggtct tgaccgctgg cggcttttcc
2461 cccactgatg cagcacgtgg ggcaattaat gccccaatga caaaagtttt agattggagt
2521 ggaacaaggt actgggcacc aaacgccgcc tccacaactt caatgtcagg tggcttcaca
2581 agccaagttg tgcacagaac cacaccaaat ttcaaaacga gccaggcccc caaattcaca
2641 cccagcagtg ggtcttcagt gagatcaagc tcaacccaac ttaccaactt gagctcacac
2701 tcatccgggt cgtcccgatc tagcgggtct acggttgtca gctcgctgcc gtcctccagt
2761 aggactaggg actgggtcaa ccaacaaaat ctcaatttgg aaccacacat gcctggatct
2821 ctcaggacag cttttgtcac tccaccatct agcacagcct ctagttcagg cacagtctca
2881 accgtgccca aagatgtttt ggactcctgg acatctgcgt ttaacacgcg cagacagccg
2941 ctgtttgcac accttcgtag aaggggggag tcaaatgttt agtgaaaaga ttattcctaa
3001 atttgattta gaatcttgta g
//