Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| AF414417 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P12 |
ORF1: 1..591
ORF2: 572..2191
ORF3: 2191..2997
LOCUS AF414417 3041 bp ss-RNA linear VRL 26-JUL-2016
DEFINITION Norwalk-like virus NLV/UK3-17/12700/1992/GB RNA polymerase (orf1)
gene, partial cds; and capsid protein (orf2) and minor structural
protein (orf3) genes, complete cds.
ACCESSION AF414417
VERSION AF414417.1
KEYWORDS .
SOURCE Norwalk-like virus NLV/UK3-17/12700/1992/GB
ORGANISM Norwalk-like virus NLV/UK3-17/12700/1992/GB
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 83)
AUTHORS Ando,T., Mulders,M.N., Lewis,D.C., Estes,M.K., Monroe,S.S. and
Glass,R.I.
TITLE Comparison of the polymerase region of small round structured virus
strains previously classified in three antigenic types by
solid-phase immune electron microscopy
JOURNAL Arch. Virol. 135 (1-2), 217-226 (1994)
PUBMED 7515226
REFERENCE 2 (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 3 (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 4 (bases 1 to 3041)
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 5 (bases 1 to 3041)
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 6 (bases 1 to 3041)
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..3041
/organism="Norwalk-like virus NLV/UK3-17/12700/1992/GB"
/mol_type="genomic RNA"
/strain="Hu/NLV/UK3-17/12700/1992/GB"
/db_xref="taxon:171849"
/clone="pYS16A"
/note="NLV/UK3-17; NLV/S16;
group: GII/4"
gene <1..591
/gene="orf1"
CDS <1..591
/gene="orf1"
/note="nonstructural protein"
/codon_start=1
/product="RNA polymerase"
/protein_id="AAL13003.1"
/translation="LLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDINLNPEKL
TAKLKEYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMY
WTRGPNHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFY
VPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 572..2191
/gene="orf2"
CDS 572..2191
/gene="orf2"
/note="major structural protein"
/codon_start=1
/product="capsid protein"
/protein_id="AAL13004.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVDAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDPNPYLSHLSRMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPMLIPLPD
VRNNFYHYNQANDSTLKLIATLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPVLTVEEMSNSRFPIPLEKLYTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSAVNICNFRGDVAHIAGSHDYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGLL
TQTTRADGLTRAHKATVSTGSVHFTPKLGSVQFTTDTNNDFQAGQNTKFTPVGVIQDG
DHHQNEPQQWLLPNYSGRTGHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMNLDC
LLPQEWVLHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYITVAHTGPYDLVL
PPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 2191..2997
/gene="orf3"
CDS 2191..2997
/gene="orf3"
/codon_start=1
/product="minor structural protein"
/protein_id="AAL13005.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSTLQQASFQHDKEMLQAQIEATKKLQQDLMKVKQAVLLEGGFSTADAARGAIN
APMTKALDWSGTRYWAPDARVTTYNAGHFSTPQSSGALTGRTNSRVPAPARSSSSALS
NAPTATSLHSNQTVSTRLGSSAGSGTGVSSLPSAARTRSWVEDQNRNLSPFMRGALNT
SFVTPPSSRSSSQSTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
3'UTR 2998..3041
ORIGIN
1 ctcctcactc tctgtgcact ctctgaagtt acaaacctgt cccctgacat catacaggct
61 aattccctct tttccttcta tggtgatgat gaaattgtca gtacagatat aaacttaaac
121 ccagagaaac taacagcaaa gctcaaggaa tacgggttga aaccaacccg ccctgacaaa
181 actgagggac cccttattat ctctgaagac ctgaacggcc tcaccttcct gcggaggact
241 gtgacccgcg acccagctgg ttggtttgga aaactggatc agagctcaat acttaggcaa
301 atgtactgga ctagaggccc caatcatgaa gacccatctg aaacaatgat accacactcc
361 caaagaccca tacaactaat gtctttgctg ggcgaggccg cactccacgg cccagcattc
421 tacagcaaaa ttagcaagct ggtcattgca gaactgaagg aaggtggcat ggatttttac
481 gtgcccagac aagagccaat gttcagatgg atgagattct cagatctgag cacgtgggag
541 ggcgatcgca atctggctcc cagctttgtg aatgaagatg gcgtcgaatg acgccaaccc
601 atctgatggg tccgcagcca acctcgttcc agaggtcaat aatgaggtta tggctctgga
661 gcccgttgtt gatgccgcta ttgcggcacc tgtggcgggc caacaaaacg taattgaccc
721 ctggattaga aacaattttg tacaagcccc tggtggagag ttcacagtgt cccctagaaa
781 cgctccaggt gagatactgt ggagcgcgcc cttgggccct gatccgaacc cctatctttc
841 tcatttgtcc agaatgtaca atggttatgc aggtggtttt gaagtgcaag taatcctcgc
901 ggggaacgcg ttcaccgccg ggaaagtcat atttgcagca gtcccaccaa actttcctac
961 tgaaggctta agccccagcc aggttactat gttcccccac ataattgtag atgttagaca
1021 attggaacct atgttgatcc ccctacctga tgttaggaat aatttctatc attacaacca
1081 agcaaatgat tctaccctta agttgatagc aacgttgtac acaccactca gagctaataa
1141 tgccggggat gatgtcttca cagtctcttg tcgagtcctc acgaggccat cccccgattt
1201 tgattttata tttctggtgc cacccacagt tgaatcaaga actaaaccat tcactgtccc
1261 agtcttgact gttgaggaaa tgtctaattc aagattcccc attcctttgg aaaagcttta
1321 cacgggccct agtagtgctt ttgtcgtcca accacaaaat ggcagatgta cgactgatgg
1381 cgtacttcta ggcactaccc agctgtcagc tgttaatatc tgtaacttta ggggggatgt
1441 tgcccatatt gcgggtagcc atgattacac aatgaatttg gcatcccaaa attggagcaa
1501 ttatgaccca acagaagaga tcccagcccc cctaggaacg ccagactttg tgggaaagat
1561 ccaaggcttg ctcacccaga ccacaagagc ggacggcttg acccgtgccc acaaagctac
1621 agtgagcact gggagtgtcc acttcactcc aaagctgggt agtgttcaat tcaccactga
1681 cacgaacaat gatttccaag ctggccaaaa cacaaaattc accccagttg gcgtcatcca
1741 agacggtgat caccaccaga atgaacccca acaatggtta ctcccaaatt actcaggtag
1801 aactggtcac aatgtgcacc tggcccctgc tgtcgccccc actttccccg gtgagcagct
1861 tcttttcttt agatccacca tgccagggtg tagcgggtac cccaacatga atttggattg
1921 cttactcccc caggaatggg tgttgcactt ttaccaggaa gcagccccag cacaatccga
1981 tgtggcactg ctgagatttg tgaatccaga tacaggtagg gttctgtttg agtgcaagct
2041 tcataaatca ggctatatca cagtggccca caccggcccg tatgatttgg ttctcccccc
2101 taatggttat ttcagatttg attcttgggt caaccagttc tacacactcg cccccatggg
2161 aaatggaacg gggcgcaggc gtgcattata atggctggag ctttctttgc tggattggca
2221 tctgatgtcc tcggctctgg acttggttct ctaatcaatg ctggagctgg agccatcaat
2281 caaaaagttg aatttgaaaa taataggaaa ttacaacaag cttcctttca atttagcagc
2341 accctacaac aggcttcttt ccaacatgat aaagagatgc tccaagcaca aattgaggct
2401 actaaaaaat tacaacaaga tctgatgaag gttaaacagg cagtgctcct agagggtggg
2461 ttttccacag cagatgcggc ccgtggggca atcaacgccc ccatgacaaa ggctctggac
2521 tggagcggaa caaggtactg ggcccctgat gccagggtca caacatacaa tgcaggccat
2581 ttttccaccc ctcagtcttc gggggcgttg acaggaagga ctaattctag ggtccccgct
2641 cctgctcgga gctcctccag tgcactttct aatgctccta ctgccacttc tttgcattca
2701 aatcaaactg tttctacgag actaggttct tcagctggtt ctggtaccgg tgtctcgagt
2761 ctcccgtcag ctgcaaggac taggagttgg gttgaggacc aaaacagaaa tttgtcaccc
2821 ttcatgaggg gggctctcaa cacatcattt gtcacccctc catctagtag atcctccagt
2881 caaagcacag tctcaaccgt gcctaaagaa attttggact cctggactgg cgctttcaac
2941 acgcgcaggc agcctctctt cgctcacatt cgcaaacgag gggagtcacg ggtgtaatgt
3001 gaaaagacaa gattgattat ctttcctttc tttagtgtct c
//