Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| PV282514 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 1..5090
ORF2: 5071..6693
ORF3: 6693..7499
LOCUS PV282514 7559 bp RNA linear VRL 28-JUL-2025
DEFINITION Norovirus GII isolate BCM16-16-AP nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION PV282514
VERSION PV282514.1
DBLINK BioProject: PRJNA1195114
BioSample: SAMN45209630
Sequence Read Archive: SRR31712883
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7559)
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..7559
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="BCM16-16-AP"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA: Houston"
/collection_date="23-Nov-2016"
/note="genotype: GII.4"
gene <1..5090
/gene="ORF1"
CDS <1..5090
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="XPY62809.1"
/translation="SNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPA
PRDRPQKPSRPPTPELVKRIPPPPPNGEEEEEPVVRYEVKSGISGLPELTTVPQPDVA
NTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHRPPAAISMA
RVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIK
PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPVVMGGIGLVLGFTKEKIGRMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKS
ASPDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAREVAR
KVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPL
TLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEE
LKQAIRNVTIKRCRIIYGGSTYDLESDGRGKVLVEKVKNTSVQTNNELAGALHHLKHA
RIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEETPKS
GDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI
EEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSE
IRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFI
TSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVAS
VLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCP
YIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGA
PKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKSGPSLQQVMRDQLKPFTEPRGKP
PRPSVLEAAKQTIINVLEQTLDPPQKWSYAQACASLDKTTSSGHPHHVRKNEFWNGET
FTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYRKIKKRLLWGSDLSTMI
RCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQ
RAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGL
KPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHED
PNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide <1..986
/gene="ORF1"
/product="p48"
mat_peptide 987..2084
/gene="ORF1"
/product="NTPase"
mat_peptide 2085..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="XPY62810.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6693..7499
/gene="ORF3"
CDS 6693..7499
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XPY62811.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS
NSSAATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 cgtctaacga cgctaccgtt gccgttgctt gcaacaacaa caacgacaag gaaaaatctt
61 caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaggccctc ggggctaggc
121 ccaaacagcc tgccccgaga gacagaccac aaaagccctc aagaccacca actcccgagt
181 tggtcaagag gataccccct cctccaccta atggcgaaga agaagaagaa ccagtcgtta
241 ggtatgaggt taagagtggg atctctggcc tgcccgagct cacaacagtc ccccaaccgg
301 acgtggccaa cacagcattc agtgttccac cactgagctt gagagaaaac agggaggcca
361 aggaaccgct aacaggggca atattagaga tgtgggatgg agagatatac cactacggcc
421 tgtacgtgga gaaaggctta gtgttgggtg tgcacagacc acctgcagcc ataagcatgg
481 caagggtgga gctgacgccg ctgtcattgt actggcgtgt ggtgtacact ccccaatacc
541 tcatctcccc tgaaactctc aggagactca acggagaggc attcccttac accgccttcg
601 acaacaactg ttatgccttt tgctgctggg tgttagacct caatgactca tggcttagca
661 ggaggatggt gcaaagaaca acgggcttct tcagacctta ccaagagtgg aacagaaaac
721 ccctgcctac catggatgac tccaaaatta agaaggtagc aaatatattc ctatgttcat
781 tgtccacatt attcaccaga cccataaaag acctcatagg aaaaattaaa ccattaaaca
841 tattgaacat cctggcaacg tgtgactgga cgtttgccgg aatagtggag tctctgatat
901 tacttgctga actcttcgga gttttctgga cacccccaga tgtgtctgct atgatcgctc
961 ccttactcgg ggactacgag ttgcaagggc cagaagacct cgccgttgaa ctcgtacctg
1021 tggtaatggg agggattggt ttggtgttgg gattcaccaa agagaaaatt ggcagaatgt
1081 tgtcctcagc agcatcaaca ctcagggctt gcaaagatct tggtgcctat ggcttagaga
1141 tactcaaatt ggtcatgaag tggttcttcc caaagaaaga ggaggccaat gagctagcca
1201 tggtgagggc catagaggat gccgtactag atcttgaggc aatagaaaat aaccacatga
1261 caaccctgtt gaaagacaaa gacagcttag caacatacat gaaaacactg gacatggagg
1321 aggagaaagc cagaagattg tccacaaaat ctgcatcccc tgacatagtt gggacaatca
1381 acgctctgct ggctcgaata gcagcggcca ggtcattagt ccacagggcc aaggaagagc
1441 tatctagcag gatgagacca gtagttgtta tgatatctgg caaaccagga ataggcaaaa
1501 ctcatctggc cagggaggtg gcaagaaagg tggcatccac tctcacaggg gatcaaagag
1561 tcggactcat accaagaaac ggtgtggacc attgggatgc atacaaaggt gagagagtcg
1621 tgctgtggga cgactatggc atgagtaacc ccattcatga tgctcttcgc atacaagaat
1681 tggctgatac gtgtcccctt accttaaatt gtgacagaat tgaaaataag ggaaaagttt
1741 ttgacagtga agtcataata attacaacaa accttgccaa cccagcccca cttgattatg
1801 tcaactttga ggcctgttcc aggagaattg atttcctggt gtacgctgag gcaccagaag
1861 tggaaaaggc aaaacgggac tttcctggtc agccagatat gtggaaggac gccttcaagc
1921 cggacttttc acacatcaag ctacagcttg cacctcaggg cggctttgac aagaatggca
1981 acaccccaca tgggaaagga gtgatgaaga ccctcactac cggttctctg attgcccgtg
2041 catcaggcct actgcatgag aggatggatg aatttgaact ccaaggtccc acaatcacca
2101 ccttcaattt cgaccggaac agaatcacag cattcagaca attggctgca gaaaacaagt
2161 atgggttggt ggataccatg aaagttggca atcaactaaa aggagtgaaa accatggaag
2221 aactcaaaca agcaatcagg aatgtgacca tcaagaggtg ccggatcatc tacggtggct
2281 ccacgtatga ccttgaatct gatggcaggg gcaaagtttt ggtggaaaag gtcaagaaca
2341 cctctgtaca gaccaacaac gagttggccg gggccctgca ccatctcaaa cacgcccgaa
2401 tcaggtacta tgtcaaatgt gtgcaagaag cagtctattc catcatacaa attgccggcg
2461 ctgcgtttgt caccacgcgc attgcacgcc gcatgaacat acaagaactc tggtcgaagc
2521 cacaattaga tcaaaatgaa tcagagacta aggaagagac ccccaagtca ggagatgacg
2581 agttcatcat atcttctaag gacatcaagg aggaaggaaa gaagggcaaa aacaaaactg
2641 gccgtggcaa gaaacacact gcattctcca gcaagggctt gagcgatgag gagtatgacg
2701 agtacaagag gataagagaa gagagaaatg ggaagtactc tatagaggag tatcttcaag
2761 acagagacag gtactatgag gagctcgcca ttgccaaggc cacggaagaa gacttctgtg
2821 aagaggagga gatcaaaatc cgtcagagaa ttttccgtcc caccaggaaa caaaggaagg
2881 aagagagggc cacattgggg ctagtgacag gttcagaaat cagaaaaaga aaccctgatg
2941 acttcaaacc caaagggaag ctgtgggccg atgacaacag aagtgttgac tacaatgaga
3001 aactggactt tgaggccccc ccaagcatat ggtctaggat tgtgagcttt ggttctggct
3061 ggggcttctg ggtatcacca agcctgttca taacatcaac tcatgtaatc cccgctggca
3121 taacagaagc atttggagtc cccatcaaac aaattcagat ccacaaatca ggtgaatttt
3181 gccgattcag attcccaaaa ccaattagac cagatgtgac aggaatgatc ttggaagaag
3241 gtgcgcctga aggcaccgtg gcatctgtgc tcatcaaacg ccccaccgga gagctcatgc
3301 ctcttgcagc cagaatggga acacacgcaa ccatgaaaat tcaaggccgc atggttggcg
3361 gacagatggg tatgctgctc actggatcaa atgctaaagg aatggatttg ggaacaactc
3421 ctggtgactg tggctgtcct tacatctata aaaggggcaa tgactatata gtcattgggg
3481 tgcacactgc agcagcccgt ggtggaaaca ccgtcatctg tgccacacag ggaagtgagg
3541 gtgaggcaac tcttgagggt ggagatgaca aaggaacata ctgtggggca cccattctag
3601 gccctggggg tgcaccaaaa ctgagcacca aaactaaatt ttggaggtca tcgaacacgc
3661 cccttccacc agggacatat gagcctgcct acctcggtgg ccgtgatccg cgtgttaaga
3721 gtgggccctc cttgcagcag gtaatgagag accagttgaa gccattcact gaacccaggg
3781 gtaaacctcc aagaccaagt gtattggaag cagccaaaca aaccattatc aatgtcctcg
3841 aacaaaccct ggaccctcca caaaaatggt catacgcaca ggcgtgtgcc tcacttgaca
3901 aaaccacctc cagcgggcat ccccatcacg tccgaaagaa tgaattctgg aatggtgaga
3961 ccttcactgg taaattggca gaccaagcat caaaagcaaa cctaatgttt gaggaaggga
4021 aacatatgac accagtgtat acagcagcac tcaaggacga gctagtcaag actgagaaaa
4081 tctatagaaa gatcaagaag agactgctct ggggctctga cttgtccacc atgatccggt
4141 gcgctaggtc atttggtggg ctcatggacg agatgaaggc acactgcata tcactcccag
4201 tacgagttgg catgaatatg aatgaagatg gcccaataat atttgagaaa cattccagat
4261 ataaatatca ctatgatgca gactactctc gttgggattc aacacaacag agggcagtac
4321 tagcagcagc cttggaaatc atggtcagat tctctgcaga accacaattg gcacaaatag
4381 tcgctgagga tctgctggcc cctagtgtgg tagatgtagg agactttaaa atcacaataa
4441 atgaagggct cccatctggt gtgccatgca cttcccaatg gaactccatc gcacactggc
4501 tgctaactct ctgtgccttg tctgaagtca ccaaactgtc ccctgacatc atacaagcaa
4561 attccatgtt ctcattttac ggtgatgacg agattgtcag caccgacata aaattggacc
4621 ctgaacagtt aaccgccaaa ttgaaggagt acggcctgaa accaacccgt ccagacaaga
4681 ccgagggacc cctgatcatc agtgaagatt tgaacggact cactttcctc cgaaggacgg
4741 tgactcgtga cccagctggc tggtttggaa aactggacca aagctcaatt ttgaggcaga
4801 tgtactggac tagaggacca aatcatgaag atcccaatga gacaatgata ccccattctc
4861 aaagacccat acagctcatg gcactgcttg gtgaagcctc tctccacgga ccctctttct
4921 acagtaaaat cagtaaattg gtcataactg aactcaaaga aggtgggatg gacttttacg
4981 tgccaaggca ggaacccatg ttcaggtgga tgaggttttc tgacttgagc acgtgggagg
5041 gcgatcgcaa tctggctccc aattttgtga atgaagatgg cgtcgagtga cgccaaccca
5101 tctgatgggt ccgcagccaa cctcgtacca gaggtcaaca atgaggttat ggctttggag
5161 cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt aattgacccc
5221 tggattagaa ataattttgt acaagcccct ggtggggagt ttacagtatc ccctagaaac
5281 gctccaggtg aaatactatg gagcgcgccc ctaggccctg acctaaatcc ctacctatcc
5341 catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt aattctcgcg
5401 gggaacgcgt tcaccgccgg gaagatcata tttgcagcag tcccaccaaa ttttccaact
5461 gaaggcttaa gtcctagcca ggtcactatg ttcccccata taatagtaga tgttagacaa
5521 ttagaacctg tgctgattcc cttacccgat gtcaggaata atttctatca ttacaatcag
5581 tcaaatgact ccactattaa gttgatagca atgttgtata caccacttag ggctaataat
5641 gctggggatg atgttttcac agtttcgtgc cgagttctca cgagaccatc ccccgatttt
5701 gatttcatat ttttagtgcc acccacagtt gaatcaagaa ctaaaccatt ctctgtccca
5761 gttttaactg ttgaggagat gaccaattca agattcccca ttcctttgga aaagttgttc
5821 acgggcccca gcagtgcctt tgttgttcaa ccacaaaacg gcaggtgcac aactgatggc
5881 gtgctcctag gcaccaccca actgtctcct gtcaacatct gcaccttcag aggggatgtc
5941 acccacatca caggtagtcg caactacaca atgaatttgg cttctcaaaa ttggaataac
6001 tatgacccaa cagaagaaat cccagccccc ctaggaactc cagattttgt ggggaagatt
6061 caaggcatgc tcacccaaac cacaaggaca gatggttcaa cacgcggcca caaagctaca
6121 gtgtacactg ggagcgccga ctttgctcca aaactgggta gagttcaatt tgaaactgac
6181 acagaccatg attttgaagc taatcaaaac acaaagttca ccccagtcgg tgtcatccaa
6241 gatggtagca ccacccaccg aaacgaaccc caacagtggg tgctcccaag ttactcaggc
6301 agaaatactc acaatgtaca tctggccccc gctgtagccc ccacctttcc gggtgagcaa
6361 cttctcttct tcagatccac catgcccgga tgcagcgggt accccaacat ggatttggac
6421 tgtctgctcc cccaggaatg ggtgcagtac ttctatcaag aggcagcccc agcacaatct
6481 gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt tgagtgcaag
6541 cttcacaaat caggctatgt tacagtggct cacactggcc aacatgattt ggttatcccc
6601 cccaatggtt actttaggtt tgattcctgg gtcaaccagt tctacacgct tgcccccatg
6661 ggaaatggaa cggggcgtag acgtgtagta taatggctgg agctttcttt gctggattgg
6721 catctgatgt ccttggctct ggacttggtt cccttatcaa tgctggggct ggggccatca
6781 accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc caatttagca
6841 gtaatctgca acaggcttcc tttcaacatg ataaagagat gctccaagca caaattgagg
6901 ccaccaaaaa gctacaacag gaaatgatga aagttaagca ggcaatgctc ctagagggtg
6961 ggttctctga gacagatgca gcccgcgggg caattaacgc tcccatgaca aaagctttgg
7021 actggagtgg gacaaggtac tgggctcccg atgctaggac tacaacatac aatgcaggcc
7081 gcttttccac ccctcaacca tcgggggcac tgccaggaag agctaacctt agggatgctg
7141 tccctgctcg gggaccctcc aacaagtctt ctaactcttc tgctgccacc tctgtgtact
7201 caaatcaaac tatttcaacg agacttggtt ctacggctgg ttctggaacc agcgtctcga
7261 gcctcccgtc aactgcaagg actaggagct gggttgagga tcaaagtagg aatttgtcac
7321 ctttcatgag gggggcccac aacatatcat ttgtcacccc accatctagc agatcctcta
7381 gccaaggcac agtctcaacc gtgcctaaag agattttgga ctcctggact ggcgctttca
7441 acacgcgcag gcagcctctc ttcgctcata ttcgtaagcg aggggagtca cgggtgtaat
7501 gtgaaaagac aaaactgatt atttttcttt ttctttagtg tcttttaaaa aaaaaaaaa
//