Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| PQ195932 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS PQ195932 7528 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P16]/Portage0042/2023/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ195932
VERSION PQ195932.1
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JOURNAL Unpublished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]/Portage0042/2023/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="27-Feb-2023"
/note="genotype: GII.4 Sydney[P16]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEJ39108.1"
/translation="MKMASNDASAAVACNSNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDEPQKPPRPPTPELIKRIPPPPPNGEEEGEPVIRYEVKSGVSGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLKRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILFAELFGVFWTPPDVSAMIAPLLGDYELQGS
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVIIKRCRIIYGGSTYDLESDGKGKVLVEKVKNASIQTNNELVGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKVE
APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVRGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW
DGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPGQLTAKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
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="XEJ39109.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNAHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6707..7513
/gene="ORF3"
CDS 6707..7513
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XEJ39110.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSRALPGRANFRDAVPARGPSTRPS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gcttgcaaca gcaacaacga
61 caaggaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc
121 cctcggggct aggcccaaac agcctgcccc gagagacgaa ccacaaaagc ccccaagacc
181 accaactcca gagttgatca agaggatacc cccccctcca cctaatggcg aagaagaagg
241 agaaccagtc attaggtatg aggttaagag tggggtctct ggcctgcccg agctcacaac
301 agtcccccaa ccggacgtgg ccaacacagc atttagtgtt ccaccactga gcttgagaga
361 aaacagggag gccaaggagc cgctaacagg ggcaatacta gagatgtggg acggagagat
421 ataccactat ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc
481 agccataagc atggcgagag tggagctgac gccgctgtca ttgtactggc gtgtggtgta
541 cactccccaa tacctcatct cccctgaaac tctcaagagg ctcaacggag aggcgtttcc
601 ttacaccgct ttcgacaaca actgctatgc cttttgttgc tgggtgttag acctcaatga
661 ttcatggctt agcaggagga tggtgcaaag aacaacgggc ttcttcagac cttatcaaga
721 gtggaacaga aaacccttgc ccaccatgga tgactccaaa ataaagaagg tagcaaatat
781 attcctatgt tcattgtcca cattattcac cagacccata aaagacctca taggaaaaat
841 taaaccatta aacatattga acatcctggc aacgtgtgac tggacgtttg ccggaatagt
901 ggagtctctg atattgtttg ctgaactctt cggagttttc tggacacccc cagatgtgtc
961 tgctatgatc gctcccttac tcggggacta cgagttgcag gggtcagaag acctcgccgt
1021 tgaactcgta cctgtggtaa tgggagggat tggcttggtg ttgggattca ccaaagagaa
1081 aattggcaaa atgttgtcct cagcagcatc aacactcagg gcttgtaaag atcttggtgc
1141 ctatggctta gagatactca aattggtcat gaagtggttc ttcccaaaga aagaggaggc
1201 caatgagcta gccatggtga gggccataga ggatgccgta ctagatcttg aggcaataga
1261 aaacaaccac atgacaaccc tgttgaaaga caaagacagc ttagcaacat acatgaaaac
1321 actggatatg gaggaggaga aagccagaag gttgtccaca aaatctgcat cccctgacat
1381 agttgggaca atcaacgccc tgctggctcg aatagcagcg gccaggtcat tggtccacag
1441 ggccaaggaa gaactgtcta gcaggatgag gccagtagtt gttatgatat ctggcaaacc
1501 aggaataggc aaaactcacc tggccaggga ggtggcaagg aaggtggcat ccactctcac
1561 aggggatcag agagtcggac tcataccaag aaacggtgtg gatcattggg atgcatacaa
1621 aggtgagaga gtcgtgttgt gggacgacta tggcatgagt aaccccattc atgatgctct
1681 ccgcatacaa gaattggctg atacgtgtcc ccttacctta aattgtgaca gaattgaaaa
1741 taagggaaaa gtttttgaca gtgaagtcat aataattaca acaaaccttg ccaacccagc
1801 cccacttgat tatgtcaact ttgaggcctg ttccaggaga attgatttcc tggtgtacgc
1861 tgaggcacca gaagtagaaa aggcaaaacg ggattttcct ggtcagccag atatgtggaa
1921 ggacgccttc aagccggact tttcacacat caagctacag cttgcacctc agggcggctt
1981 tgacaagaat ggcaacaccc cacatgggaa aggagtgatg aagacactca ctaccggttc
2041 tctgattgcc cgtgcatcag gcctactgca tgagaggatg gatgaatttg aactccaagg
2101 tcccacaatc accactttca atttcgaccg gaacagaatc acagcattca gacaattggc
2161 tgcagaaaac aagtatggac tggtggatac catgaaagtt ggcaatcaac taaaaggagt
2221 gaaaaccatg gaagaactca aacaagcgat caggaatgtg atcatcaaga ggtgccggat
2281 catctacggt ggctccacgt atgaccttga atctgatggc aagggcaaag ttttggtgga
2341 aaaggtcaaa aacgcctcta tacagaccaa caacgagttg gtcggggccc tgcaccatct
2401 taaacatgcc cgaatcaggt actatgtcaa atgtgtgcaa gaagcagtct attccatcat
2461 acaaattgcc ggcgctgcgt ttgtcactac gcgtattgca cgccgcatga acatacaaga
2521 actctggtcc aagccacaat tagaccaaaa tgaatcagag accaaggtag aggcccccaa
2581 gtcagaagat gacgagttca tcatatcttc taaggatatc aaggaggaag gaaagaaggg
2641 caaaaacaaa actggccgtg gcaagaaaca cactgcattc tccagcaagg gcttgagcga
2701 tgaggagtat gacgagtaca agaggataag agaagagaga aatgggaagt actctataga
2761 ggagtatctt caagacagag acaggtacta tgaggagctc gccattgcca aggccacgga
2821 agaagacttc tgtgaagagg aggagatcaa aatccgtcag agaattttcc gtcccaccag
2881 gaaacaaaga aaggaagaga gggccacact agggctggtg acaggttcag aaatcagaag
2941 aagaaaccct gatgatttca aacccaaagg gaagctgtgg gccgatgata acagaagtgt
3001 tgactacaat gagaaactgg actttgaggc ccccccaagc atatggtcta ggattgtgag
3061 ctttggttct ggctggggct tctgggtatc accaagcctg ttcataacat caactcatgt
3121 gatccctgca ggcataacag aagcatttgg agtccccatc aagcaaattc agatccacaa
3181 atcaggtgaa ttttgtcgat tcagattccc aaaaccaatt agaccagatg tgacaggaat
3241 gatcttggaa gaaggtgcgc ctgaaggtac cgtggcaact gtgctcatca aacgccccac
3301 cggagagctc atgcctcttg cagccagaat gggaacacac gcaaccatga agattcaagg
3361 ccgcatggtt ggcggacaga tgggtatgtt gctcactgga tcaaatgcca aaggaatgga
3421 tttgggaaca actcctggtg actgtggctg cccttacatc tataaaaggg gcaatgacta
3481 tatagtcatt ggggtgcaca ctgcagcagc ccgtggtgga aacaccgtca tctgtgccac
3541 acagggaagt gagggtgagg caacccttga gggtggagat gacaaaggaa catactgtgg
3601 ggcacccatt ctaggccctg ggggcgcacc aaaattgagc accaaaacca aattttggag
3661 gtcatcgaac acgccccttc caccagggac atatgagcct gcctacctcg gtggccgtga
3721 cccacgtgtt aggggtgggc cctccttaca gcaggtgatg agagaccagt tgaagccatt
3781 cactgaaccc aggggcaaac ctccaagacc aagtgttttg gaagcagcca aacaaaccat
3841 tatcaatgtc cttgaacaaa ccctggatcc tccacaaaaa tggacatacg cgcaggcgtg
3901 tgcctcactt gacaaaacca cctccagcgg gcatccccat cacgtccgaa agaatgaatt
3961 ctgggatggc gagaccttca ctggcaaatt ggcagaccaa gcatcaaaag caaacctaat
4021 gtttgaggaa gggaaacaca tgacaccagt gtacacagca gcactcaagg atgagctagt
4081 taagactgag aaaatctatg gaaagatcaa gaagagactg ctctggggct ctgacctgtc
4141 taccatgatc cggtgcgcta ggtcatttgg tgggctcatg gacgagatga aggcacactg
4201 catatcactc ccagtacgag ttggcatgaa tatgaatgaa gatggcccaa taatatttga
4261 gaaacattcc agatacaaat accactatga tgcagactac tctcgttggg attcaacaca
4321 acagagggca gtattagcag cagccttgga aatcatggtc agattctctg cagaaccaca
4381 attggcacaa atagtcgctg aggatctact ggcccctagt gtagtagatg taggagactt
4441 taaaatcaca ataaatgaag ggcttccatc tggcgtgcca tgcacttctc aatggaactc
4501 catcgcacac tggctgctaa ctctctgtgc cttgtctgaa gtcaccaaac tatctcctga
4561 cattatacaa gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagcaccga
4621 cataaagttg gaccctggac agttgaccgc caagttgaag gagtacggcc tgaaaccaac
4681 ccgcccagac aagaccgagg gacccctgat catcagtgaa gatttgaacg gactcacttt
4741 cctccgaagg acggtgactc gtgacccagc tggctggttt ggaaaactgg accaaagttc
4801 aattttgagg cagatgtact ggactagagg accaaatcat gaagacccca atgagacaat
4861 gataccccat tctcaaagac ccatacagct catggcactg cttggtgaag cctctcttca
4921 cggaccctct ttctacagta gaatcagcaa attggtcata actgaactca aagaaggtgg
4981 gatggacttt tacgtgccaa ggcaggaacc catgttcagg tggatgaggt tttctgactt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt accagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtggg gagtttacag
5281 tatcccctag aaatgctcca ggtgaaatac tatggagcgc gcccctaggc cctgatctaa
5341 atccctacct atcccatctg gccaggatgt acaatggtta tgcaggtggc tttgaagtgc
5401 aggtaattct cgcggggaac gcgttcaccg ccgggaagat tatatttgca gcagtcccac
5461 caaattttcc aactgaaggc ttaagcccta gccaggttac tatgtttccc catataatag
5521 tagatgttag acaattggaa cctgtgctga tccccttacc cgatgttagg aataatttct
5581 atcattacaa tcagtctaat gactccacta ttaagttgat agcaatgttg tacacaccac
5641 ttagggctaa taatgctgga gatgatgttt tcacagtctc gtgccgagtt ctcacgagac
5701 catcccccga ttttgatttc atattcttag taccacccac agttgagtca agaactaaac
5761 cattctccgt cccagtttta actgttgagg agatgaccaa ttcaagattt cccatccctt
5821 tagaaaagtt gttcacaggc cccagcagtg catttgttgt tcaaccacaa aacggcagat
5881 gcacaactga tggcgtgctc ctaggcacca cccaactttc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac atcacaggta gtcacaacta cactatgaat ttggcttctc
6001 aaaattggaa caactacgac ccaacagaag aaatcccagc tcccctagga actccagatt
6061 ttgtggggaa gattcaaggc atgctcaccc aaaccacaag gacagatggt tcaacacgcg
6121 gccacaaagc tacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc
6181 aatttgaaac tgacacaaac catgattttg aagctaatca aaacacaaag ttcaccccag
6241 tcggtgttat ccaagatggt agcaccaccc accgaaacga accccaacag tgggtgctcc
6301 caagttactc aggcagaaat gctcacaatg tacacttggc ccccgctgta gcccccacct
6361 ttccgggtga gcaacttctc ttctttagat ccactatgcc cggatgcagc gggtacccca
6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtatttctac caagaggcag
6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgagtg caagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg
6601 atttggttat cccccccaat ggttacttta gatttgattc ctgggtcaac cagttctaca
6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgc agtataatgg ctggagcttt
6721 ctttgctgga ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc
6841 cttccaattt agcagcaatt tgcaacaggc ttcctttcaa catgataaag agatgctcca
6901 agcacaaatt gaggccacca aaaagctaca acaggaaatg atgagagtta agcaggcaat
6961 gctcctagag ggtgggtttt ctgagacaga tgcggctcgc ggggcaatta acgcccccat
7021 gacaaaggct ttggactgga gcgggacaag gtactgggct ccagatgcta gaattacaac
7081 atacaatgca ggccactttt ccacccctca accatcgagg gcactgccag gaagagctaa
7141 ttttagggat gctgtccctg ctcggggacc ctccaccaga ccttctaact cttctactgc
7201 cacctctgtg tattcaaatc aaactatttc aacgagactt ggttctacag ctggttctgg
7261 aaccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaaa
7321 taggaatttg tctcctttca tgaggggggc ccacaacata tcatttgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagaaattt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga
7501 gtcacgggtg taatgtgaaa agacaaaa
//