Norovirus GI, complete genome.
type: Entry
definition: Norovirus GI, complete genome.
sequence version: NC_001959.2
sequence date: 2018-08-13
sequence: sequence
division: VRL
label: NC_001959.2
type: RefSeq
SIO_000068: refseq
dblink: PRJNA485481
keyword: RefSeq
source: Norovirus GI
organism: Norovirus GI
taxonomy: Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA stage; Caliciviridae; Norovirus.
reference: 1
references: 15078964
reference: 2
references: 10073687
reference: 3
references: 8642693
reference: 4
references: 8883366
reference: 5
references: 8391187
reference: 6
reference: 7
reference: 8
comment: REVIEWED REFSEQ: This record has been curated by NCBI staff. The\nreference sequence was derived from M87661.\nOn Jun 1, 2006 this sequence version replaced NC_001959.1.\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000353
sequence length: 7654
topology: linear
so has quality: SO_0000987
location: 1..7654
location: region:1-7654:1
RO_0002162: 122928

NC_001959
type: RefSeq
SIO_000068: refseq

PRJNA485481
type: BioProject
SIO_000068: bioproject

1
title: Norwalk virus N-terminal nonstructural protein is associated with disassembly of the Golgi complex in transfected cells
author: Fernandez-Vega, V.
author: Sosnovtsev, S.V.
author: Belliot, G.
author: King, A.D.
author: Mitra, T.
author: Gorbalenya, A.
author: Green, K.Y.
journal: J. Virol.
volume: 78
issue: 9
pages: 4827-4837
year: 2004
pubmed: 15078964

15078964
type: PubMed
SIO_000068: pubmed

2
title: Identification of further proteolytic cleavage sites in the Southampton calicivirus polyprotein by expression of the viral protease in E. coli
author: Liu, B.L.
author: Viljoen, G.J.
author: Clarke, I.N.
author: Lambden, P.R.
journal: J. Gen. Virol. 80 (Pt 2), 291-296 (1999)
pubmed: 10073687

10073687
type: PubMed
SIO_000068: pubmed

3
title: Polyprotein processing in Southampton virus: identification of 3C-like protease cleavage sites by in vitro mutagenesis
author: Liu, B.
author: Clarke, I.N.
author: Lambden, P.R.
journal: J. Virol.
volume: 70
issue: 4
pages: 2605-2610
year: 1996
pubmed: 8642693

8642693
type: PubMed
SIO_000068: pubmed

4
title: Completion of the Norwalk virus genome sequence
author: Hardy, M.E.
author: Estes, M.K.
journal: Virus Genes
volume: 12
issue: 3
pages: 287-290
year: 1996
pubmed: 8883366

8883366
type: PubMed
SIO_000068: pubmed

5
title: Sequence and genomic organization of Norwalk virus
author: Jiang, X.
author: Wang, M.
author: Wang, K.
author: Estes, M.K.
journal: Virology
volume: 195
issue: 1
pages: 51-61
year: 1993
pubmed: 8391187

8391187
type: PubMed
SIO_000068: pubmed

6
title: Direct Submission
journal: Submitted (01-AUG-2000) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA

7
title: Direct Submission
author: Hardy, M.E.
journal: Submitted (07-NOV-1995) Michele E. Hardy, Molecular Virology, Baylor College of Medicine, Houston, TX 77006, USA

8
title: Direct Submission
author: Estes, M.K.
journal: Submitted (09-AUG-1993) M.K. Estes, Molecular Virology, Baylor College of Medicine, Houston, TX 77006, USA

position:1:1
position: 1
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:7654:1
position: 7654
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-7654:1:source
so part of: sequence
organism: Norovirus GI
mol type: genomic RNA

122928
type: Taxonomy
SIO_000068: taxonomy

5'UTR
type: Five Prime UTR
subclass of: SO_0000204
RO_0002162: 122928
so part of: sequence
location: 1..4
location: region:1-4:1
so has part: feature:1-4:1:region

position:4:1
position: 4
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1-4:1:region

NoVGI_gp1
type: Gene
subclass of: SO_0000704
RO_0002162: 122928
gene: ORF1
locus tag: NoVGI_gp1
old locus tag: NVgp1
so part of: sequence
location: 5..5374
location: region:5-5374:1
so has part: feature:5-5374:1:exon
subclass of: SO_0000010

1491970
type: Gene
SIO_000068: ncbigene

position:5:1
position: 5
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5374:1
position: 5374
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5-5374:1:exon

NoVGI_gp1
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 122928
gene: ORF1
locus tag: NoVGI_gp1
old locus tag: NVgp1
note: The mature peptides were added by the NCBI staff following publications Liu et all (1996, 1999), that (tentatively) determined processing map by site-directed mutagenesis or by direct sequencing of the cleavage products for closely related Southampton virus (a Norwalk-like virus); ORF1; sequence homologies to 2C helicase, 3C protease, and 3D RNA-dependent RNA polymerase of picornavirus
codon start: 1
product: nonstructural polyprotein
translation: MMMASKDVVPTAASSENANNNSSIKSRLLARLKGSGGATSPPNSIKITNQDMALGLIGQVPAPKATSVDVPKQQRDRPPRTVAEVQQNLRWTERPQDQNVKTWDELDHTTKQQILDEHAEWFDAGGLGPSTLPTSHERYTHENDEGHQVKWSAREGVDLGISGLTTVSGPEWNMCPLPPVDQRSTTPATEPTIGDMIEFYEGHIYHYAIYIGQGKTVGVHSPQAAFSITRITIQPISAWWRVCYVPQPKQRLTYDQLKELENEPWPYAAVTNNCFEFCCQVMCLEDTWLQRKLISSGRFYHPTQDWSRDTPEFQQDSKLEMVRDAVLAAINGLVSRPFKDLLGKLKPLNVLNLLSNCDWTFMGVVEMVVLLLELFGIFWNPPDVSNFIASLLPDFHLQGPEDLARDLVPIVLGGIGLAIGFTRDKVSKMMKNAVDGLRAATQLGQYGLEIFSLLKKYFFGGDQTEKTLKDIESAVIDMEVLSSTSVTQLVRDKQSARAYMAILDNEEEKARKLSVRNADPHVVSSTNALISRISMARAALAKAQAEMTSRMRPVVIMMCGPPGIGKTKAAEHLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMTKIQEDCNKLQAIADSAPLTLNCDRIENKGMQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVYCTAPEVEHTRKVSPGDTTALKDCFKPDFSHLKMELAPQGGFDNQGNTPFGKGVMKPTTINRLLIQAVALTMERQDEFQLQGPTYDFDTDRVAAFTRMARANGLGLISMASLGKKLRSVTTIEGLKNALSGYKISKCSIQWQSRVYIIESDGASVQIKEDKQALTPLQQTINTASLAITRLKAARAVAYASCFQSAITTILQMAGSALVINRAVKRMFGTRTAAMALEGPGKEHNCRVHKAKEAGKGPIGHDDMVERFGLCETEEEESEDQIQMVPSDAVPEGKNKGKTKKGRGRKNNYNAFSRRGLSDEEYEEYKKIREEKNGNYSIQEYLEDRQRYEEELAEVQAGGDGGIGETEMEIRHRVFYKSKSKKHQQEQRRQLGLVTGSDIRKRKPIDWTPPKNEWADDDREVDYNEKINFEAPPTLWSRVTKFGSGWGFWVSPTVFITTTHVVPTGVKEFFGEPLSSIAIHQAGEFTQFRFSKKMRPDLTGMVLEEGCPEGTVCSVLIKRDSGELLPLAVRMGAIASMRIQGRLVHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVCGVHAAATKSGNTVVCAVQAGEGETALEGGDKGHYAGHEIVRYGSGPALSTKTKFWRSSPEPLPPGVYEPAYLGGKDPRVQNGPSLQQVLRDQLKPFADPRGRMPEPGLLEAAVETVTSMLEQTMDTPSPWSYADACQSLDKTTSSGYPHHKRKNDDWNGTTFVGELGEQAAHANNMYENAKHMKPIYTAALKDELVKPEKIYQKVKKRLLWGADLGTVVRAARAFGPFCDAIKSHVIKLPIKVGMNTIEDGPLIYAEHAKYKNHFDADYTAWDSTQNRQIMTESFSIMSRLTASPELAEVVAQDLLAPSEMDVGDYVIRVKEGLPSGFPCTSQVNSINHWIITLCALSEATGLSPDVVQSMSYFSFYGDDEIVSTDIDFDPARLTQILKEYGLKPTRPDKTEGPIQVRKNVDGLVFLRRTISRDAAGFQGRLDRASIERQIFWTRGPNHSDPSETLVPHTQRKIQLISLLGEASLHGEKFYRKISSKVIHEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRDLLPEFVNDDGV
SIO_010081: NoVGI_gp1
subclass of: SO_0000673
so part of: NoVGI_gp1
location: 5..5374
location: region:5-5374:1
so has part: feature:5-5374:1:exon

NP_056820.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5-5374:1:exon

NoVGI_gp1
type: Mature Peptide
subclass of: SO_0000419
RO_0002162: 122928
gene: ORF1
locus tag: NoVGI_gp1
old locus tag: NVgp1
product: p48
note: N-terminal leader p48; 2A2-2B-like membrane protein; distant homolog of H-rev107-like parechovirus 2a2, a putative regulator of cell proliferation; the c-terminal membrane-binding portion contributes to the Golgi disassembly and, therefore, functionally similar to the picornavirus 2B protein
SIO_010081: NoVGI_gp1
subclass of: SO_0000673
so part of: NoVGI_gp1
location: 5..1198
location: region:5-1198:1
so has part: feature:5-1198:1:exon

NP_786945.1
type: Protein
SIO_000068: ncbiprotein

position:1198:1
position: 1198
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5-1198:1:exon

NoVGI_gp1
type: Mature Peptide
subclass of: SO_0000419
RO_0002162: 122928
gene: ORF1
locus tag: NoVGI_gp1
old locus tag: NVgp1
product: NTPase
note: 2C-L; probable ortholog of the 2C protein of picornaviruses; the calicivirus NTPase was found in membranous replication complexes
SIO_010081: NoVGI_gp1
subclass of: SO_0000673
so part of: NoVGI_gp1
location: 1199..2287
location: region:1199-2287:1
so has part: feature:1199-2287:1:exon

NP_786946.1
type: Protein
SIO_000068: ncbiprotein

position:1199:1
position: 1199
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2287:1
position: 2287
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1199-2287:1:exon

NoVGI_gp1
type: Mature Peptide
subclass of: SO_0000419
RO_0002162: 122928
gene: ORF1
locus tag: NoVGI_gp1
old locus tag: NVgp1
product: p22
note: 3A-L; located in the polyprotein between NTPase and VPg; second most variable region of the calicivirus polyprotein; the FCV ortholog was detected in membranous replication complexes
SIO_010081: NoVGI_gp1
subclass of: SO_0000673
so part of: NoVGI_gp1
location: 2288..2890
location: region:2288-2890:1
so has part: feature:2288-2890:1:exon

NP_786947.1
type: Protein
SIO_000068: ncbiprotein

position:2288:1
position: 2288
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2890:1
position: 2890
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2288-2890:1:exon

NoVGI_gp1
type: Mature Peptide
subclass of: SO_0000419
RO_0002162: 122928
gene: ORF1
locus tag: NoVGI_gp1
old locus tag: NVgp1
product: VPg
note: For Southampton calicivirus, both N-terminal and C-terminal cleavage sites have been confirmed by direct sequencing. In caliciviruses, VPg can also exist in the form of precursor with the upstream protein which is thought to function as a membrane anchor
SIO_010081: NoVGI_gp1
subclass of: SO_0000673
so part of: NoVGI_gp1
location: 2891..3304
location: region:2891-3304:1
so has part: feature:2891-3304:1:exon

NP_786948.1
type: Protein
SIO_000068: ncbiprotein

position:2891:1
position: 2891
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3304:1
position: 3304
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2891-3304:1:exon

NoVGI_gp1
type: Mature Peptide
subclass of: SO_0000419
RO_0002162: 122928
gene: ORF1
locus tag: NoVGI_gp1
old locus tag: NVgp1
product: Pro
note: Chymotrypsin-like cysteine proteinase; For Southampton calicivirus, both N-terminal and C-terminal cleavage sites have been confirmed by direct sequencing. The FCV proteinase (Pro) can exist in the form of a stable Pro-Pol precursor
SIO_010081: NoVGI_gp1
subclass of: SO_0000673
so part of: NoVGI_gp1
location: 3305..3847
location: region:3305-3847:1
so has part: feature:3305-3847:1:exon

NP_786949.1
type: Protein
SIO_000068: ncbiprotein

position:3305:1
position: 3305
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3847:1
position: 3847
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3305-3847:1:exon

NoVGI_gp1
type: Mature Peptide
subclass of: SO_0000419
RO_0002162: 122928
gene: ORF1
locus tag: NoVGI_gp1
old locus tag: NVgp1
product: RdRp
note: the FCV polymerase (Pol) can exist in the form of a stable Pro-Pol precursor; RNA-dependent RNA polymerase
SIO_010081: NoVGI_gp1
subclass of: SO_0000673
so part of: NoVGI_gp1
location: 3848..5371
location: region:3848-5371:1
so has part: feature:3848-5371:1:exon

NP_786950.1
type: Protein
SIO_000068: ncbiprotein

position:3848:1
position: 3848
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5371:1
position: 5371
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3848-5371:1:exon

NoVGI_gp2
type: Gene
subclass of: SO_0000704
RO_0002162: 122928
gene: ORF2
locus tag: NoVGI_gp2
old locus tag: NVgp2
so part of: sequence
location: 5358..6950
location: region:5358-6950:1
so has part: feature:5358-6950:1:exon
subclass of: SO_0000010

1491972
type: Gene
SIO_000068: ncbigene

position:5358:1
position: 5358
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6950:1
position: 6950
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5358-6950:1:exon

NoVGI_gp2
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 122928
gene: ORF2
locus tag: NoVGI_gp2
old locus tag: NVgp2
note: ORF2; 58kd capsid protein; major capsid protein
codon start: 1
product: VP1
translation: MMMASKDATSSVDGASGAGQLVPEVNASDPLAMDPVAGSSTAVATAGQVNPIDPWIINNFVQAPQGEFTISPNNTPGDVLFDLSLGPHLNPFLLHLSQMYNGWVGNMRVRIMLAGNAFTAGKIIVSCIPPGFGSHNLTIAQATLFPHVIADVRTLDPIEVPLEDVRNVLFHNNDRNQQTMRLVCMLYTPLRTGGGTGDSFVVAGRVMTCPSPDFNFLFLVPPTVEQKTRPFTLPNLPLSSLSNSRAPLPISSMGISPDNVQSVQFQNGRCTLDGRLVGTTPVSLSHVAKIRGTSNGTVINLTELDGTPFHPFEGPAPIGFPDLGGCDWHINMTQFGHSSQTQYDVDTTPDTFVPHLGSIQANGIGSGNYVGVLSWISPPSHPSGSQVDLWKIPNYGSSITEATHLAPSVYPPGFGEVLVFFMSKMPGPGAYNLPCLLPQEYISHLASEQAPTVGEAALLHYVDPDTGRNLGEFKAYPDGFLTCVPNGASSGPQQLPINGVFVFVSWVSRFYQLKPVGTASSARGRLGLRR
SIO_010081: NoVGI_gp2
subclass of: SO_0000673
so part of: NoVGI_gp2
location: 5358..6950
location: region:5358-6950:1
so has part: feature:5358-6950:1:exon

NP_056821.2
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5358-6950:1:exon

NoVGI_gp3
type: Gene
subclass of: SO_0000704
RO_0002162: 122928
gene: ORF3
locus tag: NoVGI_gp3
old locus tag: NVgp3
so part of: sequence
location: 6950..7588
location: region:6950-7588:1
so has part: feature:6950-7588:1:exon
subclass of: SO_0000010

1491971
type: Gene
SIO_000068: ncbigene

position:7588:1
position: 7588
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6950-7588:1:exon

NoVGI_gp3
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 122928
gene: ORF3
locus tag: NoVGI_gp3
old locus tag: NVgp3
note: ORF3; minor structural protein; small basic protein
codon start: 1
product: VP2
translation: MAQAIIGAIAASTAGSALGAGIQVGGEAALQSQRYQQNLQLQENSFKHDREMIGYQVEASNQLLAKNLATRYSLLRAGGLTSADAARSVAGAPVTRIVDWNGVRVSAPESSATTLRSGGFMSVPIPFASKQKQVQSSGISNPNYSPSSISRTTSWVESQNSSRFGNLSPYHAEALNTVWLTPPGSTASSTLSSVPRGYFNTDRLPLFANNRR
SIO_010081: NoVGI_gp3
subclass of: SO_0000673
so part of: NoVGI_gp3
location: 6950..7588
location: region:6950-7588:1
so has part: feature:6950-7588:1:exon

NP_056822.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6950-7588:1:exon

3'UTR
type: Three Prime UTR
subclass of: SO_0000205
RO_0002162: 122928
so part of: sequence
location: 7589..7654
location: region:7589-7654:1
so has part: feature:7589-7654:1:region

position:7589:1
position: 7589
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:7589-7654:1:region