Typing tool
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Typing tool
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Complete norovirus genomes
| PV282512 | GII.4 Den Haag | |
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|---|---|---|---|
| GII.P4 Den Haag |
ORF1: 1..5090
ORF2: 5071..6693
ORF3: 6693..7499
LOCUS PV282512 7564 bp RNA linear VRL 28-JUL-2025
DEFINITION Norovirus GII isolate MDA09-1-AP nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION PV282512
VERSION PV282512.1
DBLINK BioProject: PRJNA1195114
BioSample: SAMN45209632
Sequence Read Archive: SRR31712892
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7564)
AUTHORS Bhamidipati,S.V., Surathu,A., Ramani,S., Atmar,R.L., Estes,M.K.,
Muzny,D.M., Cregeen,S.J. and Doddapaneni,H.
TITLE Direct Submission
JOURNAL Submitted (14-MAR-2025) Molecular Virology and Microbiology, Baylor
College of Medicine, Alkek Center for Metagenomics and Microbiome
Research, 1 Baylor Plaza, Houston, TX 77030, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: VirMap v. 1
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7564
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="MDA09-1-AP"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA: Houston"
/collection_date="01-Apr-2009"
/note="genotype: GII.4"
gene <1..5090
/gene="ORF1"
CDS <1..5090
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="XPY62803.1"
/translation="SNDASAAAVANSNNDTAKSSNDKMFSNMAVTLKRALGARPKQPP
PREIPQRPPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPEETNT
AFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKV
ELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMIQRTTGFFRPYQDWNRRPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPL
NIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPEDLVVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSAS
PDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRI
AASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTL
NCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD
FPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTMPELK
QALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSASVQTNNELAGALHHLRCARI
RYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATSKDGCPKPK
DDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI
EEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSE
IRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFI
TSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVT
LLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCP
YIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILGPGSA
PKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKP
PKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGES
FTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMI
RCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQ
RAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGL
KPTRPDKTEGPLVISEELDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHED
PSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide <1..980
/gene="ORF1"
/product="p48"
mat_peptide 981..2078
/gene="ORF1"
/product="NTPase"
mat_peptide 2079..2615
/gene="ORF1"
/product="p22"
mat_peptide 2616..3014
/gene="ORF1"
/product="VPg"
mat_peptide 3015..3557
/gene="ORF1"
/product="Pro"
mat_peptide 3558..5087
/gene="ORF1"
/product="RdRp"
gene 5071..6693
/gene="ORF2"
CDS 5071..6693
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XPY62804.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEVLWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSSDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTKGDGSTRGHKATVYTGSAVFTPKLGSVQFATDTENDFVTHQNTKFTPVGVIQDG
NTTHRNEPQQWVLPSYSGRNVHNVHLAPAVAPNFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6693..7499
/gene="ORF3"
CDS 6693..7499
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XPY62805.1"
/translation="MAGALFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQLSGAPPGRINPRTPTPARGSPSTSS
NASTATSVYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEGQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 cgtctaacga cgcttccgct gccgctgttg ctaacagcaa caacgacacc gcaaaatctt
61 caaatgacaa aatgttttct aacatggctg tcacccttaa acgagccctc ggggcgcggc
121 ctaaacagcc ccccccgagg gaaataccac aaagaccccc acgaccaccc actccagaac
181 tggtcaaaaa gatccctcct cccccgccta acggagagga tgaagtagtg gtttcttata
241 gtgccaaaga tggcgtttcc ggtttgcctg agctttccac cgttaggcaa ccggaagaaa
301 ccaatacggc cttcagtgtc cctccactca atcagaggga gaatagggat gctaaggaac
361 cactgactgg aacaattctg gaaatgtggg atggagaaat ttaccactat ggcctgtatg
421 ttgagcgagg tcttgtgctg ggtgtacaca aaccaccagc tgccattagc ctcgccaagg
481 tcgaactaac accactctcc ttgttctgga gacctgtgta cactcctcag tacctcattt
541 ctccagacac cctcaagaaa ttgcacggag aaacatttcc ctacacagcc tttgacaaca
601 attgctatgc cttttgttgc tgggtcctgg atctaaacga ctcgtggctg agtaggagaa
661 tgatccagag aacaactggc ttcttcagac cctaccaaga ttggaatagg agacccctcc
721 ccactatgga tgattccaaa ttaaagaagg tggctaacat attcctgtgc gccctgtctt
781 cgctattcac caggcccata aaagacataa taggaaagtt aaggcctctc aacattatca
841 acatcctggc ttcatgtgat tggactttcg caggcatagt ggagtccttg atactcttgg
901 cagagctctt tggagtcttc tggacacccc cagatgtgtc tgcgatgatt gcccccttac
961 tcggtgattt cgagttacaa ggacctgagg accttgtagt ggaactcgtc cctgtagtaa
1021 tgggggggat tggtttggtg ctaggattca ccaaagagaa gattggaaaa atgttgtcat
1081 ctgctgcatc caccttgaga gcttgtaaag atcttggtgc atatgggcta gagatcctaa
1141 agttagtcat gaagtggttc ttcccgaaga aagaggaagc gaatgaactg gctatggtga
1201 gatccatcga ggatgcagtg ctggaccttg aggcaattga aaacaaccat atgaccaccc
1261 tgctcaaaga caaagacagc ctggcaacct acatgagaac ccttgacctc gaggaagaga
1321 aagccagaaa actctcaacc aagtctgctt cacctgacat cgtgggcaca atcaacgccc
1381 ttctagcgag aatcgccgct gcacgctccc tggtgcaccg agcgaaagag gagctttcca
1441 gcagaccaag acctgtagtc ttgatgatat caggtaggcc aggaataggg aagacccacc
1501 ttgctaggga agtggccaag agaatcgcag cctccctcac aggagaccaa cgtgtaggcc
1561 tcatcccacg caatggcgtc gatcactggg atgcgtacaa gggggagagg gtcgtcctat
1621 gggacgacta tggaatgagc aatcccattc acgacgccct caggctgcaa gaactcgctg
1681 acacttgccc cctcactcta aattgtgaca ggattgagaa taaaggaaag gtctttgaca
1741 gtgatgtcat cattatcact accaatctgg ccaacccagc accactggac tatgtcaact
1801 ttgaagcgtg ctcgaggcgc atcgatttcc tcgtgtatgc agaagccccc gaggtcgaaa
1861 aggcgaagcg cgactttccg ggccaacctg acatgtggaa aaacgctttt agttctgatt
1921 tctcacacat aaaattggca ctggctccac aaggtggctt tgataagaac gggaacaccc
1981 cacacgggaa gggtgtcatg aagactctca ccactggctc cctcatcgcc cgagcatcag
2041 ggctgctcca tgagagattg gatgagtttg aactacaggg cccagctctt accaccttca
2101 actttgaccg caacaaagtg ctagccttca ggcagcttgc tgctgaaaac aaatatgggt
2161 tgatggacac aatgaaagtt gggaggcagc tcaaggatgt caaaaccatg ccagaactta
2221 aacaagcact caagaatatc tcaatcaaga agtgccagat tgtatacagt ggttgcacct
2281 acacacttga gtctgatggc aagggtaatg tgaaagttga cagagttcag agtgcctccg
2341 ttcagaccaa caatgaactg gctggcgccc tgcaccatct aaggtgcgcc agaatcaggt
2401 actatgtcaa gtgtgttcag gaggccctgt attctatcat ccagattgct ggggccgcat
2461 ttgtcaccac gcgcatcatt aagcgtgtga acattcaaga cttatggtcc aagccacagg
2521 tggaaaacac agaggaggct accagcaagg acgggtgccc aaaacccaaa gatgatgagg
2581 agttcgtcat ttcatctgac gacattaaaa ctgagggcaa gaaagggaag aacaagactg
2641 gccgtggcaa gaagcacaca gccttctcaa gtaaaggtct cagtgatgaa gagtatgatg
2701 agtacaagag aattagagag gaaagaaatg gcaagtactc catagaagag taccttcagg
2761 atagggacaa atactatgag gaggtggcca ttgccagggc gaccgaggaa gacttctgtg
2821 aagaggagga ggccaagatc cggcaaagga tcttcagacc aacaaggaaa caacgcaagg
2881 aagaaagagc ttctctcggt ttagtcacag gttctgaaat taggaaaaga aatccagaag
2941 acttcaagcc caaggggaaa ctatgggctg acgatgacag aagtgtggac tacaatgaaa
3001 aactcagttt tgaggcccca ccaagcatct ggtcaagaat agtcaacttt ggctcaggtt
3061 ggggcttctg ggtctccccc agcctgttca taacatcaac ccacgtcata ccccagggcg
3121 caaaggagtt ctttggagtc cccatcaaac aaattcaggt gcacaagtca ggcgaattct
3181 gtcgcttgag gttcccaaaa ccaatcagga ctgatgtgac tggcatgatc ttggaagaag
3241 gtgcgcctga aggcaccgtg gtcacactac tcatcaaaag gtctactgga gaactcatgc
3301 ccctagcagc cagaatgggg actcatgcaa ccatgaaaat tcaagggcgc actgttggag
3361 gtcagatggg catgcttctg acaggatcca acgccaaaag catggatcta ggcaccacac
3421 caggtgattg cggctgtccc tacatctaca agaggggaaa cgactatgtg gtcattggag
3481 tccacacggc tgccgctcgt gggggaaaca ctgtcatatg tgccacccag gggggtgagg
3541 gagaagctac acttgaaggt ggcgacagta agggaacata ctgtggtgca ccaatcctag
3601 gcccagggag tgccccaaaa cttagcacta aaaccaaatt ctggagatca tccacagcac
3661 cactcccacc tggcacctat gaaccagcct accttggtgg caaagacccc agagtcaagg
3721 gtggcccctc gttgcagcaa gtcatgaggg accagctgaa accatttaca gagcctaggg
3781 gtaagccacc aaagccaagt gtgttagaag ctgccaagaa aaccatcatc aatgtccttg
3841 aacagacaat tgatccacct gagaagtggt cgttcgcaca agcttgcgcg tcccttgaca
3901 agaccacttc tagcggccat ccgcaccaca tgcggaaaaa cgactgctgg aacggggaat
3961 ccttcacagg caagctggca gaccaggctt ccaaggccaa cctgatgttt gaagaaggga
4021 agaacatgac cccagtctac acaggtgcac tcaaggatga attagtcaaa actgacaaaa
4081 tttatggtaa gatcaagaag aggcttctct ggggctcgga tttagcaacc atgatccggt
4141 gtgctcgggc attcggaggc ctgatggatg aactcaaagc acactgcgtc acacttcctg
4201 tcagagttgg tatgaatatg aatgaggatg gccccatcat tttcgagaaa cattccaggt
4261 acagatacca ctatgatgct gattactctc ggtgggattc aacacaacag agagccgtgc
4321 tggcagctgc tctagaaatc atggttaaat tctcttcaga accacatttg gctcaggtag
4381 tagcagaaga ccttctttct cctagcgtgg tggatgtggg tgacttcaca atatcaatca
4441 acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc gcccactggc
4501 ttctcactct ctgtgcactc tccgaagtta caaatttgtc cccagacatc atacaggcta
4561 attctctctt ctccttctat ggtgatgatg aaattgttag tacagacata aaactagacc
4621 cagagaagtt gacagcaaag cttaaggaat acgggttgaa accaacccgc cctgacaaaa
4681 ctgaaggacc tcttgttatt tctgaagaat tagacggttt gactttcctg cggagaactg
4741 tgacccgcga cccagctggt tggtttggaa aactggagca gagctcaata ctcaggcaaa
4801 tgtactggac taggggcccc aaccatgaag acccatctga atcaatgatc ccacactctc
4861 aaagacccat acaattgatg tccttactgg gagaggccgc actccacggc ccaacattct
4921 acagtaaaat cagcaagtta gtcattgcag agcttaaaga aggtggcatg gatttttacg
4981 tgcccaggca agagccaatg ttcagatgga tgagattctc ggatctgagc acgtgggagg
5041 gcgatcgcaa tctggctccc aattttgtga atgaagatgg cgtcgaatga cgccaaccca
5101 tctgatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggttat ggctttggag
5161 cccgttgtcg gtgccgctat tgcggcgcct gtagcgggcc aacaaaatgt aattgacccc
5221 tggattagaa ataattttgt acaagcccct ggtggagagt tcacagtatc ccctagaaac
5281 gctccaggtg aagtactatg gagcgcgccc ttaggccctg atctgaatcc ctacctatct
5341 catttggcca gaatgtataa tggttatgca ggtggttttg aagtgcaggt gatcctcgcg
5401 gggaacgcgt tcaccgccgg aaaaattata tttgcagcag tcccaccaaa ttttccaact
5461 gaaggcttga gccccagcca ggtcaccatg ttcccccaca taatagtaga tgttaggcaa
5521 ttggaacctg tgttgatccc tttacctgat gttaggaata acttctatca ctacaatcag
5581 tcaagtgatt ctaccattaa attgatagca atgctgtata caccacttag ggccaataat
5641 gctggggatg atgtcttcac agtctcttgt cgagtcctca cgagaccatc ccctgatttt
5701 gattttatat ttttggtgcc acctacagtt gagtcaagaa ccaagccatt cactgtccca
5761 atcttaactg ttgaagaaat gaccaattca agattcccta ttcctttgga aaaactgttc
5821 acgggtccca gcagtgcctt tgttgttcaa ccacaaaatg gcagatgcac tactgatggc
5881 gtgctcctag gcaccaccca actgtctcct gtcaacatct gcaccttcag aggagatgtc
5941 acccacattg cgggttcccg caattacaca atgaatttgg cctctctaaa ttggaacaat
6001 tatgacccaa cagaagaaat tccagcccca ctgggaactc cagattttgt gggaaagatc
6061 caaggtgtgc tcactcaaac cacaaaggga gatggctcga cccggggcca taaagctaca
6121 gtttacactg ggagtgccgt ctttactcca aagctgggca gtgttcaatt tgctactgat
6181 acagaaaatg attttgtaac tcaccaaaac acaaaattca ccccagtcgg tgtcatccag
6241 gatggtaaca ccacccaccg aaatgaaccc caacaatggg tgctcccaag ttattcaggt
6301 agaaatgtcc ataatgtaca cctagcccct gctgtagctc ccaatttccc gggtgaacaa
6361 cttcttttct tcaggtccac tatgcccgga tgcagcgggt atcccaacat ggatttggat
6421 tgcctgctcc cccaggagtg ggtgcagcac ttctaccaag aggcagctcc agcacaatct
6481 gatgtggctc tattgagatt tgtgaaccca gacacgggta gggtcctgtt tgagtgcaaa
6541 cttcataaat caggctatgt cacagtggct cacaccggcc aacatgattt ggtcatcccc
6601 cccaatggct attttaggtt tgattcctgg gttaaccaat tctacacact tgcccccatg
6661 ggaaatggaa cggggcgtag acgtgcttta taatggctgg agctctcttt gctggattgg
6721 catctgatgt ccttagttct ggacttggtt ccctaatcaa tgctggggct ggggctatca
6781 accaaaagat tgattttgaa aataatagga aattgcagca agcttccttc cagtttagca
6841 gtaatctaca acaggcttca tttcaacatg ataaagagat gctccaagca caaattgagg
6901 ccactaaaaa gttgcaacag gaaatgatga aagtcaaaca ggcaatgctc ttagaaggtg
6961 gattctctga aacagatgca gcccgtgggg caatcaacgc ccccatgaca aaggttttgg
7021 actggagcgg gacaaggtac tgggctcctg atgctaggac tacaacatac aatgcaggcc
7081 gcttctccac ccctcaactt tcgggggcac cgccaggaag aatcaatccc aggactccta
7141 cccccgctag gggctccccc agcacatctt ctaatgcttc tactgctact tctgtatatt
7201 caaatcaaac tgtttcaacg agacttggtt ctacagctgg ttctggcacc aatgtctcga
7261 gtcttccgtc aactgcaagg actaggagtt gggttgaggg ccaaaacaga aatttgtcac
7321 ccttcatgag gggggctcac aacatatcgt ttgtcacccc accatctagc agatcctcca
7381 gccaaggcac agtctcaacc gtgcctaaag aagttttgga ctcctggact ggcgctttca
7441 acacgcgcag gcagcctctc ttcgctcaca ttcgtaggcg aggggagtca cgggtgtaat
7501 gtgaaaagac aaaattgatt atctttccct ttctttagtg tcttttaaaa aaaaataaaa
7561 aaaa
//