Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| PQ195921 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS PQ195921 7528 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P16]/Mahoning0041/2022/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ195921
VERSION PQ195921.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7528)
AUTHORS Barclay,L., Montmayeur,A.M., Cannon,J.L., Mallory,M.L., Reyes,Y.I.,
Lindesmith,L., Wall,H., Baric,R.S., Vinje,J. and Chhabra,P.
TITLE Norovirus GII.4 evolution in the United States since emergence of
GII.4 Sydney
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7528)
AUTHORS Brandt,E., 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..7528
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.4 Sydney[P16]/Mahoning0041/2022/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="01-Mar-2022"
/note="genotype: GII.4 Sydney[P16]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEJ39075.1"
/translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDKPQKPPRPPTPELVKRIPPPPPNGEEEQEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLMDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH
LKHARIRYYVRCVQEAIYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESEIREE
APKPEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEVKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSITHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 5..1000
/gene="ORF1"
/product="p48"
mat_peptide 1001..2098
/gene="ORF1"
/product="NTPase"
mat_peptide 2099..2629
/gene="ORF1"
/product="p22"
mat_peptide 2630..3028
/gene="ORF1"
/product="VPg"
mat_peptide 3029..3571
/gene="ORF1"
/product="Pro"
mat_peptide 3572..5101
/gene="ORF1"
/product="RdRp"
gene 5085..6707
/gene="ORF2"
CDS 5085..6707
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XEJ39076.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKTGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6707..7513
/gene="ORF3"
CDS 6707..7513
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XEJ39077.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQVSFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSRALPGRANLRDAVPAQGSSIKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 aagaatgaag atggcgtcta acgacgcttc cgctgccgtt gcttgtaaca acaacaacga
61 caaggaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc
121 cctcggggct aggcccaaac agcctgcccc gagagataaa ccacaaaaac caccaagacc
181 accaactccc gagttggtca agaggatacc ccctcctcca cctaatggcg aagaagaaca
241 agaaccagtc attaggtatg aggttaagag tgggatctct ggcctgcccg agctcacaac
301 agttccccaa ccggacgtgg ccaacacagc attcagtgtt ccaccactga gcttgagaga
361 aaacagggag gccaaggaac cgctaacagg agcaatatta gaaatgtggg acggagagat
421 ataccactat ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca agccacctgc
481 agccataagt atggcaagag tggagctgac gccgctgtca ctgtactggc gcgtggtgta
541 cactccccaa taccttatct cccccgaaac tctcaggagg ctcaacggag aggcgtttcc
601 ttacaccgcc ttcgacaaca actgctacgc cttttgctgc tgggtgttag acctcaatga
661 ctcatggctt agtaggagga tggtgcaaag aacaacgggc ttcttcagac cttaccaaga
721 gtggaacaga aagcccctgc ctaccatgga tgactccaaa ataaagaagg tagcaaatat
781 attcctatgt tcattgtcca cattattcac caggcccata aaagacctca tagggaaaat
841 taaaccatta aacatattga acatcctggc aacgtgtgac tggacgtttg ccggaatagt
901 ggagtctctg atattacttg ccgaactctt cggagttttc tggacacccc cagatgtgtc
961 tgctatgatc gctcccttac tcggggacta cgagttgcaa gggccagaag acctcgccgt
1021 tgaactcgta cctgtggtaa tgggagggat tggcttggtg ttgggattca ccaaagagaa
1081 aatcggcaaa atgttgtcct cagcagcgtc aacactcagg gcttgcaaag atcttggtgc
1141 ctatggctta gagatactta aattggtcat gaagtggttc ttcccaaaga aagaggaggc
1201 caacgagcta gctatggtga gggccataga ggacgccgta ttagatcttg aggcaataga
1261 aaacaaccac atgacaaccc tgttgaaaga caaagacagc ttagcaacat acatgaagac
1321 actggacatg gaggaggaga aagccaggag gttgtccaca aaatctgcat cccctgacat
1381 agttgggaca atcaacgccc ttctggctcg aatagcagcg gccaggtcat tagtccacag
1441 ggccaaggaa gaactatcta gcaggataag accagtagtc gttatgatat ctggcaaacc
1501 aggaataggc aaaactcatc tggccaggga ggtggcaaga aaggtggcat ccactctcac
1561 aggggatcaa agagtcggac tcataccaag gaacggtgtg gaccattggg atgcatacaa
1621 aggtgagaga gtcgtgctgt gggacgacta tggcatgagt aaccccattc atgatgctct
1681 tcgcatacag gaattggctg atacgtgtcc cctcacctta aattgtgaca gaattgaaaa
1741 taagggaaaa gtctttgaca gtgaagtcat aataatcaca acaaaccttg ccaacccagc
1801 cccacttgat tatgtcaact ttgaggcctg ttccaggaga attgatttcc tggtgtacgc
1861 tgaggcacca gaagtagaaa aggcaaaacg ggatttccct ggtcaaccag acatgtggaa
1921 ggacgctttc aagccggact tctcacacat caagctacag cttgcacctc agggcggctt
1981 tgacaagaat ggtaacactc cacatgggaa aggagtgatg aagaccctca ctaccggttc
2041 tctgattgcc cgtgcatcag gcttactgca tgagaggatg gatgaatttg agctccaagg
2101 tcccacaatc accactttta atttcgaccg gaacagaatc acagcattca gacaattggc
2161 tgcagaaaac aagtatggat tgatggatac catgaaagtt ggcaatcaac taaaaggagt
2221 gaaaaccatg gaagaactca aacaagcaat caggaacgtg accatcaaga ggtgccgaat
2281 catctacggc ggctccacgt atgaccttga atctgatggc aagggcaaag ttttggtgga
2341 aaaggttaag aacacctctg tacagaccaa caacgagttg gccggggccc tgcaccatct
2401 caaacacgcc cgtatcaggt actatgtcag atgtgtgcaa gaagcaatct attccatcat
2461 acaaattgcc ggcgctgcgt ttgtcaccac gcgcattgca cgccgcatga acatacaaga
2521 actctggtcg aagccacaat tagatcaaaa tgaatcagag atcagggaag aggcccccaa
2581 accagaagat gacgagttca tcatatcttc taaggacatc aaggaggaag gaaagaaggg
2641 caaaaacaaa actggccgtg gcaagaaaca cactgcattc tccagcaagg gcttgagcga
2701 tgaggagtac gacgagtaca agaggataag agaagagagg aatgggaagt actctataga
2761 ggagtatctt caagacagag acaggtacta tgaggagctc gccattgcca aggccacgga
2821 agaagacttt tgtgaagagg aggaggtcaa aatccgtcag agaattttcc gtcccaccag
2881 gaaacaaaga aaggaagaga gagccacatt agggctggtg acaggctcag aaatcagaaa
2941 aagaaatcct gacgacttca aacccaaagg gaagctgtgg gccgatgaca atagaagtgt
3001 tgactacaat gagaagctgg actttgaggc ccccccgagc atatggtcta ggattgtgag
3061 ctttggttct ggctggggct tctgggtatc accaagcctg ttcataacat caactcatgt
3121 aatccccgca ggcataacag aagcatttgg agtccccatc aaacaaattc agatccacaa
3181 atcaggtgaa ttttgccgat tcaggttccc aaaaccaatt agaccagatg tgacagggat
3241 gatcttggaa gaaggtgcgc ctgaaggcac cgtggcaact gtactcatca aacgccccac
3301 cggagagctc atgcctctcg cagccagaat gggaacacac gcaaccatga aaattcaggg
3361 ccgtatggtt ggcggacaga tgggtatgtt gctcaccgga tcaaatgcta aaggaatgga
3421 tttgggaaca actcctggtg actgtggctg cccttacatc tataaaaggg gcaatgacta
3481 tatagtcatt ggggtgcata ctgcagcagc acgtggtgga aacaccgtca tctgtgccac
3541 acagggaagt gagggtgagg caactcttga gggtggggat gacaaaggaa catattgtgg
3601 ggcacccatt ctaggccctg ggggcgcacc aaaattgagc accaaaacca aattttggag
3661 gtcatcaaac acgccccttc caccaggaac atatgagcct gcctaccttg gtggccgtga
3721 cccgcgtgtt aagggtgggc cctccttaca gcaggtaatg agagaccagc taaagccatt
3781 cactgaaccc aggggcaaac ctccaagacc aagtgttttg gaagcagcca aacaaaccat
3841 tattaatgtt ctcgaacaaa ccctggatcc tccacaaaaa tggacatacg cacaggcgtg
3901 tgcctcactt gacaaaacca cctccagcgg gcatccccat cacgcccgaa agaatgagtt
3961 ctggaatggt gagaccttca ctggcaaatt ggcagaccaa gcatcaaaag caaacctaat
4021 gtttgaggaa gggaaacaca tgacaccggt gtacacagca gcactcaagg acgagctagt
4081 caagactgag aaaatctatg gaaagatcaa gaagagactg ctctggggct ctgacttgtc
4141 tactatgatc cggtgcgcta ggtcatttgg tgggctcatg gacgagatga aggcacactg
4201 catatcactc ccagtgcgag ttggcatgaa tatgaatgaa gatggcccaa taatatttga
4261 gaaacattcc agatacaaat atcactatga tgcagactac tctcgttggg attcaacaca
4321 acagagggca gtactagcag cagccttaga aatcatggtc agattctctg cagaaccaca
4381 attggcacaa atagtcgctg aggacctgct ggcccctagt gtagtagatg taggagactt
4441 caagatcaca ataaatgaag gactcccatc tggtgtgcca tgcacttctc aatggaactc
4501 catcacacac tggctgctaa ctctatgtgc tttgtctgaa gtcaccaaac tgtcccctga
4561 cattatacaa gcaaattcta tgttctcatt ttacggtgat gatgagattg tcagtaccga
4621 cataaaattg gatcctgagc agttgaccgc caagttgaag gagtacggcc tgaagccaac
4681 ccgcccagac aagaccgagg gacccctgat catcagtgaa gatttgaacg gactcacttt
4741 cctcagaagg acggtgactc gtgacccagc tggctggttt ggaaaactgg accaaagctc
4801 aattctgagg cagatgtact ggactagagg accaaatcat gaagacccca atgagacaat
4861 gatacctcat tctcaaagac ccatacagct catggcactg cttggtgaag cctctcttca
4921 cggaccctct ttctacagca gaatcagcaa attggtcata actgaactca aagaaggtgg
4981 gatggacttt tacgtgccaa ggcaggaacc catgttcaga tggatgaggt tttctgactt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt accagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtggg gagttcacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccctaggc cctgacctaa
5341 atccctatct gtcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc
5401 aggtagtcct cgcggggaac gcgttcaccg ccgggaagat catatttgca gcagtcccac
5461 cgaatttccc aactgaaggc ttaagtccta gccaggtcac tatgttcccc cacataatag
5521 tagatgttag acaactagaa cctgtgctaa ttcccttacc cgatgttagg aataatttct
5581 atcattataa tcaatcaaat gattccacta ttaagttaat agcaatgttg tatacaccac
5641 ttagggctaa taatgctggg gatgatgttt tcacagtttc gtgccgagtt ctcacgagac
5701 catcccccga ttttgatttc atattcttag tgccacccac agttgagtca agaactaaac
5761 cattctctgt cccagtttta actgttgagg agatgaccaa ttcaagattc cccatccctt
5821 tggaaaagtt gttcacaggc cccagcagtg cctttgttgt tcaaccacaa aacggcagat
5881 gcacaactga tggcgtactc ttaggcacca cccaactttc tccagtcaac atctgcacct
5941 tcagagggga tgtcacccac atcacaggta gtcgcaatta tacaatgaat ttggcttctc
6001 aaaattggaa caactatgac ccaacagaag aaatcccagc ccctctagga actccagatt
6061 ttgtggggaa gattcaaggc atgctcaccc aaaccacaag gacagatggt tcaacacgcg
6121 gccacaaagc cacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc
6181 aatttgaaac tgacacagac catgattttg aagctaatca aaacacaaag ttcaccccag
6241 tcggtgtcat tcaagatgga agtaccaccc accgaaacga accccaacag tgggtgctcc
6301 caagttactc aggcagaaac actcacaatg tacatttggc ccccgctgtg gcccccacct
6361 ttccgggtga gcaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca
6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag
6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgagtg caagcttcac aaaacaggct atgttacagt ggctcacact ggccaacatg
6601 atctggttat cccccccaat ggctacttta ggtttgattc ctgggtcaac cagttctaca
6661 cgctcgcccc catgggaaat ggaacggggc gtagacgtgt ggtataatgg ctggagcttt
6721 ctttgctgga ttggcatctg atgtcctcgg ctctggactt ggttccctca tcaacgctgg
6781 ggctggggcc attaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc
6841 cttccaattt agcagcaatt tgcaacaggt ttcttttcaa catgataaag agatgctcca
6901 agcacaaatt gaggccacca aaaagctaca acaggaaatg atgaaagtta agcaggcaat
6961 gctcctagag ggtgggttct ctgagacaga tgcagcccgc ggggcaatta acgcccccat
7021 gacaaaagct ttggactgga gcgggacaag gtattgggcc ccagatgcta gaattacaac
7081 atacaatgca ggccactttt ccacccctca gccatcgagg gcactgccag gaagagctaa
7141 tcttagggat gctgtccctg ctcagggatc ctctattaaa tcttctaact cttctactgc
7201 tacctctgtg tactcaaatc aaaccacttc aacgagactt ggttctacag ctggttctgg
7261 aaccagtgtc tcgagtctcc cgtcaactgc aaggactagg agctgggttg aggatcaaaa
7321 taggaatttg tcacctttca tgagaggggc ccacaacata tcatttgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagagattt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgcc cacattcgta agcgagggga
7501 gtcacgggtg taatgtgaaa agacaaaa
//