Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| PQ196527 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 1..5091
ORF2: 5072..6694
ORF3: 6694..7500
LOCUS PQ196527 7515 bp RNA linear VRL 27-MAR-2025
DEFINITION Norovirus GII isolate Hu/GII.4
Sydney[P16]/SanLuisObispo0182/2023/USA nonstructural polyprotein
(ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ196527
VERSION PQ196527.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7515)
AUTHORS Barclay,L., Montmayeur,A.M., Cannon,J.L., Mallory,M.L., Reyes,Y.I.,
Wall,H., Baric,R.S., Lindesmith,L.C., Vinje,J. and Chhabra,P.
TITLE Molecular Evolution and Epidemiology of Norovirus GII.4 Viruses in
the United States
JOURNAL J Infect Dis (2025) In press
PUBMED 40036172
REMARK Publication Status: Available-Online prior to print
REFERENCE 2 (bases 1 to 7515)
AUTHORS Pan,C.Y., Barclay,L., Montmayeur,A.M., Vinje,J. and Chhabra,P.
TITLE Direct Submission
JOURNAL Submitted (16-AUG-2024) Viral Gastroenteritis Branch, Centers for
Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA
30329, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. v. 11.1.2; SPAdes v. v. 3.6
Sequencing Technology :: Sanger dideoxy sequencing; Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7515
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.4 Sydney[P16]/SanLuisObispo0182/2023/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="25-Apr-2023"
/note="genotype: GII.4 Sydney[P16]"
gene <1..5091
/gene="ORF1"
CDS <1..5091
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEJ39609.1"
/translation="ASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQP
APRGEPQKPPRPPTPELVKRIPPPPPNGEEEDEPVIRYEVKSGISGLPELTTVPQPDV
ANTAFSVPPLSMRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISM
ARVELAPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSW
LSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKI
KPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDL
AVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPK
KEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTK
SASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVA
RKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCP
LTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKA
KRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARAS
GLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTME
ELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSIQTNNELTGALHHLKH
ARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPK
SEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS
IEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGS
EIRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLF
ITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVA
TVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGC
PYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGG
APKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGR
PPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGE
TFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLPTM
IRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQ
QRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKIAINEGLPSGVPCTSQW
NSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYG
LKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHE
DPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPMF
RWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide <1..987
/gene="ORF1"
/product="p48"
mat_peptide 988..2085
/gene="ORF1"
/product="NTPase"
mat_peptide 2086..2616
/gene="ORF1"
/product="p22"
mat_peptide 2617..3015
/gene="ORF1"
/product="VPg"
mat_peptide 3016..3558
/gene="ORF1"
/product="Pro"
mat_peptide 3559..5088
/gene="ORF1"
/product="RdRp"
gene 5072..6694
/gene="ORF2"
CDS 5072..6694
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XEJ39610.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTVKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNFTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6694..7500
/gene="ORF3"
CDS 6694..7500
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XEJ39611.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKTLDWSGTRYWAPDARITTYNAGHFSTPQPSGALPGRANLRDAVPARGPSTKPS
NSPTATSVHSNQTVSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMKGAYNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTDAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gcgtctaacg acgcttccgc tgccgttgct tgcaacaaca acaacgacaa ggaaaaatct
61 tcaggtgaag gcttattcac aaatatgtct tccaccttaa agaaagccct cggggctagg
121 cccaaacagc ctgccccgag aggtgaacca caaaagcccc caagaccgcc aactcccgag
181 ttggtcaaga ggataccccc tcctccacct aatggcgaag aagaagacga accagtcatt
241 aggtatgagg ttaagagtgg gatctctggc ctgcccgagc tcacaacagt cccccaaccg
301 gacgtggcca acacagcatt tagtgttcca ccactgagca tgagagaaaa cagggaggcc
361 aaagaaccgc tgacaggggc aatactagag atgtgggatg gagagatata ccactatggc
421 ctgtacgtgg agaaaggctt agtgttgggt gtgcacaaac cacctgcagc cataagcatg
481 gcaagagtgg agctggcgcc gctgtcattg tactggcgtg tggtgtacac tccccaatac
541 ctcatctccc ctgagactct caggaggctc aacggtgagg cgtttcctta caccgctttt
601 gacaacaact gctacgcttt ttgctgctgg gtgttagacc tcaatgactc atggcttagc
661 aggaggatgg tgcaacgaac cacgggcttc ttcaggcctt accaagagtg gaacagaaaa
721 cccttaccca ccatggatga ctccaaaata aagaaggtag caaatatatt cctgtgctca
781 ttgtccacat tattcaccag gcccataaaa gacctcatag gaaaaattaa accattaaac
841 atattgaaca tcctggcaac gtgtgactgg acgtttgccg gaatagtgga gtctctgata
901 ttgcttgccg aactcttcgg agttttctgg acacccccag atgtgtctgc tatgattgct
961 cccttacttg gggactacga gttgcagggg ccagaagacc tcgccgttga actcgtacct
1021 gtggtaatgg gagggattgg tttggtgttg ggattcacca aagagaaaat tggcaaaatg
1081 ttgtcctcag cagcatcaac actcagagct tgtaaagatc ttggtgccta tggcttagag
1141 atactcaaat tggtcatgaa gtggtttttc ccaaagaaag aagaggctaa tgagctagct
1201 atggtgaggg ccatagagga tgccgtacta gatcttgagg caatagaaaa caaccatatg
1261 acaaccctgt tgaaagacaa agacagctta gcaacataca tgaaaacact ggacatggag
1321 gaggagaaag ccagaaggtt gtccacaaaa tctgcatccc ctgacatagt tgggacaatc
1381 aacgccctgc tggctcgaat agcagcagcc aggtcattag tccacagggc caaggaagaa
1441 ctgtctagca ggataagacc agtagttgtt atgatatctg gcaaaccagg aataggcaaa
1501 actcatctag ccagagaggt ggcaagaaag gtggcatcca ctctcacagg ggaccaaaga
1561 gtcggactca taccaagaaa cggtgtggac cactgggatg catacaaagg tgagagagtc
1621 gtgctgtggg acgactatgg catgagtaac cccattcatg atgctctccg catacaagaa
1681 ttggctgata cgtgtcccct taccttaaat tgcgacagaa ttgaaaacaa ggggaaagtt
1741 tttgacagtg aagtcataat aattacaaca aacctcgcca acccagcccc acttgattat
1801 gtcaactttg aggcctgctc caggagaatt gatttcctgg tgtacgctga ggcaccagaa
1861 gtagaaaagg caaaacggga ttttcctggt cagccagata tgtggaagga cgccttcaag
1921 ccggactttt cgcacatcaa gctacagctt gcacctcagg gcggctttga caagaacggc
1981 aacacccctc atgggaaagg agtgatgaag accctcacta ccggttctct gattgcccgt
2041 gcatcaggcc tactgcatga gaggatggat gaatttgaac tccaaggtcc cacaatcacc
2101 actttcaatt tcgaccggaa cagaatcaca gcattcagac aattggctgc agaaaacaag
2161 tatggactgg tggacaccat gaaagttggt aatcaactaa aaggagtgaa aaccatggaa
2221 gaactcaaac aagcaatcag gaatgtgacc atcaagaggt gccggataat ctacggtggc
2281 tccacgtatg accttgagtc tgatggcaag ggcaaagttt tggtggaaaa ggtcaagaac
2341 acctctatac agaccaacaa cgagttgacc ggggccctgc atcatctcaa gcatgcccga
2401 atcaggtact atgtcaagtg tgtgcaagag gcagtctatt ccatcataca aatcgccggc
2461 gctgcgtttg tcaccacgcg cattgcacgc cgcatgaaca tacaagagct ctggtcgaag
2521 ccacaattag accaaaatga atcagagact aaggaagagg cccccaagtc agaagatgac
2581 gagttcatca tatcttctaa ggatatcaag gaggaaggaa agaagggcaa aaacaaaact
2641 ggccgtggca agaaacacac cgcattctcc agcaagggct taagcgatga ggagtatgac
2701 gagtacaaga ggataagaga agagagaaat gggaagtact ccatagaaga gtatcttcaa
2761 gacagagaca ggtattatga ggagctcgcc attgccaagg ccacggaaga agacttctgt
2821 gaagaggagg agatcaaaat ccgtcagagg atttttcgtc ccaccaggaa acaaagaaag
2881 gaagagaggg ccacactagg gctggtaact ggctcagaaa tcagaagaag aaaccctgat
2941 gatttcaaac ccaaagggaa gctgtgggcc gatgacaaca gaagtgttga ctacaatgaa
3001 aaactggatt ttgaggctcc cccaagcata tggtctagga ttgtgagctt tggttctggc
3061 tggggcttct gggtatcacc aagcctgttc ataacgtcaa ctcatgtgat ccctgcaggc
3121 ataacagaag catttggagt ccccatcaaa caaatccaga tccacaaatc aggtgaattt
3181 tgccgattca gattcccaaa accaatcaga ccagatgtga caggaatgat cttggaagaa
3241 ggtgcgcctg aaggcaccgt ggcaactgtg ctcatcaaac gccccaccgg agagctcatg
3301 cctcttgcag ccagaatggg aacacacgca accatgaaga ttcaaggccg catggttggt
3361 ggacagatgg gtatgctgct cactgggtca aatgctaaag ggatggattt gggaacaact
3421 cctggtgact gtggctgccc ttacatctat aaaaggggca atgactatat agtcattggg
3481 gtgcacaccg cagcagcccg tggcggaaac accgtcatct gtgccacaca gggaagtgag
3541 ggtgaggcaa ctcttgaggg tggagatgac aaaggaacat actgtggggc acccattcta
3601 ggccctggag gtgcaccaaa attgagcact aaaaccaaat tttggaggtc atcgaacacg
3661 ccccttccac cggggacgta cgaacctgcc tacctcggtg gccgtgaccc gcgtgttaag
3721 ggtgggccct ccttacaaca ggtaatgaga gatcagttga agccattcac tgaacccagg
3781 ggcagacctc caagaccaag tgttttggaa gcagccaaac aaaccattat caatgtcctt
3841 gaacaaaccc tggatcctcc acaaaagtgg acatacgcac aggcgtgtgc ctcacttgac
3901 aaaaccacct ccagcgggca tccccaccac gtccgaaaga atgaattctg gaatggtgag
3961 accttcactg gtaaattggc agaccaagca tcaaaagcaa acctaatgtt tgaggaaggg
4021 aaacacatga caccagtgta cacagcagca ctcaaggacg agctggtcaa gactgagaaa
4081 atctatggaa agatcaagaa gagactgctc tggggctctg acttgcccac catgatccgg
4141 tgcgctaggt catttggtgg gctcatggac gagatgaagg cacactgtat atcactccca
4201 gtgcgagttg gcatgaatat gaatgaagat ggcccaataa tatttgagaa acattctagg
4261 tacaaatatc actatgatgc agactactct cgttgggatt caacacagca aagggcagta
4321 ttagcagcag ccttggaaat tatggtcaga ttctctgcag aaccacaatt ggcacaaata
4381 gtcgctgagg atctactggc ccctagtgta gtagatgtag gagactttaa aattgcaata
4441 aatgaagggc tcccatctgg cgtgccatgc acttctcaat ggaactccat tgcacactgg
4501 ctgctaactc tctgtgcctt gtctgaagtc accaaactgt cccctgacat tatacaagca
4561 aattccatgt tctcatttta cggtgatgac gagattgtca gcaccgacat aaaattagac
4621 cctgaacagt tgaccgccaa gttgaaggag tacggcctga aaccaacccg cccagacaag
4681 actgagggac ctctgatcat cagtgaagat ttggacggac tcactttcct ccgaaggacg
4741 gtgactcgtg acccagctgg ctggtttgga aaactggacc aaagttcaat tttgaggcag
4801 atgtattgga ctagaggacc aaatcatgaa gaccccaatg agacaatgat accccattcc
4861 cagaggccca tacagctcat ggcactgctt ggtgaagcct ctcttcacgg accctctttc
4921 tacagtagaa tcagtaaatt ggttataact gaactcaaag aaggtgggat ggacttttac
4981 gtgccaaggc aggaacccat gttcaggtgg atgaggttct ctgacttgag cacgtgggag
5041 ggcgatcgca atctggctcc caactttgtg aatgaagatg gcgtcgaatg acgccaaccc
5101 atctgatggg tccgcagcca acctcgtacc agaggtcaac aatgaggtta tggctttgga
5161 gcccgttgtt ggtgccgcta ttgcggcacc cgtagcgggc caacaaaatg taattgaccc
5221 ctggattaga aataattttg tacaagcccc tggtggggag ttcacagtat cccctagaaa
5281 tgctccaggt gaaatactgt ggagcgcacc cttaggccct gacctaaatc cctacctatc
5341 ccatttggcc agaatgtaca atggttatgc aggtggtttc gaagtgcagg taattctcgc
5401 ggggaacgcg ttcaccgcag ggaagattat atttgcagca gtcccaccaa attttccaac
5461 tgaaggctta agccctagcc aggttaccat gttcccccat ataatagtag atgttagaca
5521 attggaacct gtgctgatcc ccttacccga tgttaggaac aacttctacc attacaatca
5581 gtcaaatgac tccactgtca agttgatagc aatgttgtac acaccactta gggctaataa
5641 tgctggggat gatgttttca cagtttcgtg ccgagttctc acgagaccat cccccgattt
5701 tgattttata ttcttagtac cacccacagt tgagtcaaga actaaaccat tctctgtccc
5761 aattttaact gttgaggaga tgaccaattc aagattcccc atccctttgg aaaagttgtt
5821 cacaggcccc agcagtgcat ttgttgttca accacaaaac ggcagatgca caactgatgg
5881 cgtgctccta ggtaccaccc aactttctcc tgtcaacatc tgcaccttca gaggggacgt
5941 cacccatatc acaggtagtc acaacttcac tatgaatttg gcttctcaaa attggagcaa
6001 ctatgaccca acagaagaaa tcccagcccc cctaggaact ccagattttg tggggaagat
6061 ccaaggcatg ctcacccaaa ccacaaggac agatggttca actcgcggcc acaaagctac
6121 agtgtacact gggagcgccg actttgctcc aaaactgggt agagttcaat ttgaaactga
6181 cacaaaccat gactttgaag ccaatcagaa cacaaagttc accccagtcg gtgtcattca
6241 agatggtagc accacccacc gaaacgaacc ccaacagtgg gtgctcccaa gttactcagg
6301 cagaaatact cacaatgtac atttggcccc tgctgtagcc cccacctttc cgggtgagca
6361 actcctcttc tttagatcca ccatgcccgg atgcagcggg taccccaaca tggacttgga
6421 ctgtctgctc ccccaggaat gggtgcagta cttctaccaa gaggcagccc cagcacaatc
6481 tgatgtggct ctgctaagat ttgtaaaccc agacacaggt agggttctgt ttgagtgcaa
6541 gcttcacaaa tcaggctatg ttacagtggc tcacactggt caacatgatt tggttatccc
6601 ccccaatggt tactttaggt ttgattcctg ggtcaaccag ttctacacgc ttgcccccat
6661 gggaaatgga acggggcgta gacgtgcagt ataatggctg gagctttctt tgctggattg
6721 gcatctgatg tccttggctc cggacttggt tctcttatca atgctggggc tggggccatc
6781 aaccaaaaag ttgagtttga aaataacaga aaattgcaac aagcatcctt ccaatttagc
6841 agcaatttgc aacaggcttc ctttcaacat gataaagaga tgctccaagc acaaattgag
6901 gccaccaaaa agctacagca ggaaatgatg agagttaagc aggcaatgct cttagagggt
6961 gggttctctg agacagatgc agcccgcggg gcaattaacg cccccatgac aaagactttg
7021 gactggagcg ggacaaggta ctgggctcca gatgctagaa ttacaacata caatgcaggc
7081 cacttttcca cccctcaacc atcgggggca ctgccaggaa gagctaatct cagggatgct
7141 gtccctgctc gtgggccctc caccaaacct tctaactctc ctactgccac ctctgtgcac
7201 tcaaaccaaa ctgtttcaac gagacttggt tctacagctg gttctggaac cagtgtctcg
7261 agcctcccgt caactgcaag aactaggagc tgggttgagg atcagaatag gaatttgtca
7321 cctttcatga agggggccta caacatatca tttgtcaccc caccatctag cagatcctct
7381 agccagggca cagtctcaac cgtgcccaaa gaaattttgg actcctggac tgacgctttc
7441 aacacgcgca ggcagcctct cttcgctcac attcgtaagc gaggggagtc acgggtgtaa
7501 tgtgaaaaga caaaa
//