Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| PQ195952 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P12 |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7509
LOCUS PQ195952 7524 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P12]/Summit0076/2022/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ195952
VERSION PQ195952.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7524)
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JOURNAL Unpublished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 7524)
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..7524
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.4 Sydney[P12]/Summit0076/2022/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="20-Feb-2022"
/note="genotype: GII.4 Sydney[P12]"
gene 1..5100
/gene="ORF1"
CDS 1..5100
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEJ39168.1"
/translation="MKMASNDASAAAAANSNNDNAKSSSDGVLSSMAVTFKRALGARQ
KQPPPREKPQRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVWQPD
ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
WLCRRMIQRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGK
VRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEYELQGPAPTTFNFDRNKVLAFRQLAAENKYGLLDTMRVGKQLKDVKTM
SELKQALKNVAIKSCQIVYGGCTYRLESDGKGVVKVDRVQNTTVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSRPQVEDTEEIASKDGC
PKPQDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGRPPKPSVLEAAKKTIVNVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMEELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQKVAEDLLSPSVMDVGDFKISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLK
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 1..990
/gene="ORF1"
/product="p48"
mat_peptide 991..2088
/gene="ORF1"
/product="NTPase"
mat_peptide 2089..2625
/gene="ORF1"
/product="p22"
mat_peptide 2626..3024
/gene="ORF1"
/product="VPg"
mat_peptide 3025..3567
/gene="ORF1"
/product="Pro"
mat_peptide 3568..5097
/gene="ORF1"
/product="RdRp"
gene 5081..6703
/gene="ORF2"
CDS 5081..6703
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XEJ39169.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNFTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLI
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6703..7509
/gene="ORF3"
CDS 6703..7509
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XEJ39170.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAVN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSGALPGRANLRDAVPARGPPTKPS
NSSTATSMYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgctgctg ctaatagcaa caacgacaac
61 gcaaaatctt caagtgacgg agtgctttct agcatggctg ttacttttaa acgagccctc
121 ggggcgcggc aaaaacagcc tcccccgagg gaaaaaccac aaaggcctcc acggccaccc
181 accccagaac tggtcaaaaa gatccctcct cccccaccca atggggagga tgaactagtg
241 gtctcttata gtgccaaaga tggcgtttct ggtttgcctg aactcaccac tgtctggcaa
301 ccggatgaga ccaacacggc gttcagtgtt ccccctctca accagaggga gaacagggac
361 gccaaggagc cgctgaccgg aacaatcctg gaaatgtggg acggggagat ctatcattat
421 ggtctgtatg tggagcgagg ccttgtactc ggtgtgcaca aaccaccagc tgccatcagc
481 ctcgccaagg ttgaactggc accactctct ctgttttgga ggccagtgta tacaccacag
541 tacctcatct ccccagatac tcttaggaga ctgcatggag agtcgttccc ctacacagcc
601 tttgataaca actgctatgc cttctgttgt tgggttctgg acctaaacga ctcgtggttg
661 tgcaggagaa tgatccagag aacaactggc tttttcagac cttaccaaga atggaacagg
721 aaacccctcc ccactatgga tgactctaaa ttgaagaagg tagccaacat attcttgtgt
781 gcgctatctt cgctattcac taggcccatc aaagacataa taggaaaagt gaggccgctc
841 aacatcctta acatcctggc ctcatgtgat tggacttttg caggcatagt ggaatcttta
901 atccttttgg cagagctctt tggagttttc tggacacccc cagatgtgtc tgcgatgatc
961 gcccccttac taggtgacta cgaactgcag gggcctgagg accttgcagt agaactcgta
1021 ccagtagtga tgggagggat tggtttggtg ttaggattca ccaaagagaa gatcggaaaa
1081 atgttgtcgt ccgctgcttc caccttaaga gcttgtaaag accttggtgc atacgggctg
1141 gaaatcctaa aattggtcat gaaatggttc ttcccaaaga aagaggaagc aaatgagcta
1201 gctatggtga ggtccatcga ggatgcggtg ctggacctcg aagcaattga gaacaaccac
1261 atgactgccc tcctcaaaga caaagacagc ttggcaacct acatgaggac ccttgacctc
1321 gaggaggaga aagccaggaa gctttcaacc aagtctgctt cacctgacat cgtgggcacg
1381 attaacgctc ttctggcgag aatcgccgct gcacgttccc tggtgcatcg ggcgaaagag
1441 gaactctcca gcagaccaag acctgttgtt gttatgatat caggtaggcc agggataggg
1501 aaaactcacc ttgccaggga gctggccaag aagatcgcag cttcactcac aggggaccag
1561 cgcgtgggtc tcatccctcg caatggcgtt gaccactggg atgcatataa gggagaaaga
1621 gtcgtcctat gggacgatta tggaatgagc aatcccatcc acgatgccct taggttacag
1681 gaacttgctg acacctgtcc ccttacgcta aactgtgaca ggattgagaa caaaggaaag
1741 gtttttgaca gcgatgccat aatcatcacc actaatctag ccaacccagc accattggac
1801 tatgtcaact ttgaagcgtg ctcgaggcgc attgacttcc tcgtgtacgc agaagcccct
1861 gaagtcgaga aagcaaagcg tgattttcca ggtcaacctg acatgtggaa gaacgcattt
1921 agctctgact tctcgcacat aaaactggcg ctggctccgc agggtggttt cgacaagaac
1981 ggaaacaccc cacacgggaa aggcgtcatg aaaaccctca ccactggttc cctcatcgcc
2041 cgagcatcag ggctactcca tgagaggtta gatgagtacg agctgcaggg cccagctccc
2101 accaccttta attttgaccg caacaaggtg cttgcgttca gacaacttgc tgccgaaaac
2161 aagtatggat tgttggacac aatgagagtt ggaaaacagc tcaaggatgt taagaccatg
2221 tcagagctca aacaggcact caagaatgtc gcaatcaaga gttgtcagat agtgtatggt
2281 ggctgcacct acaggcttga gtctgatggc aagggtgttg ttaaagttga cagagttcag
2341 aacactactg tacagaccaa caatgagctt gctggcgcac tacaccatct taggtgcgcc
2401 agaatcaggt actatgtcaa gtgtgttcag gaggccctgt attccatcat ccaaatcgct
2461 ggggctgctt ttgtcaccac acgcattgtc aagcgcatga acatacaaga tctctggtcc
2521 aggccacagg tggaggacac agaggaaatc gctagcaagg atgggtgccc aaaaccccag
2581 gatgatgaag aatttgttgt ctcatccgat gacatcaaaa ccgagggcaa gaaagggaag
2641 aacaagtctg gccgtggcaa gaagcacaca gcgttttcaa gtaaaggtct cagtgatgaa
2701 gagtacgatg agtacaaaag aattagagaa gaaagaaatg gcaaatactc catagaggaa
2761 tacctccagg atagagacag gtattatgag gaggtggcca tcgccagggc aaccgaagag
2821 gacttctgtg aagaagaaga ggccaagatc cgacagagga tcttcaggcc aacaaggaaa
2881 caacgcaaag aggagagagc ctctctcggt ctggtcacag gttctgaaat caggaagagg
2941 aacccagatg acttcaagcc taaaggaaag ctgtgggctg atgatgacag gagtgttgac
3001 tacaatgaga aactcagctt tgaagcccca ccaagcatct ggtcgaggat agtcaacttt
3061 ggctcaggtt ggggcttttg ggtttccccc agcctgttca taacatcaac ccatgtcata
3121 ccccagggcg cacaggagtt ctttggtgtg tccatcaaac aaatccagat acacaagtca
3181 ggtgaattct gccgcttgag gtttccaaaa ccgataagaa ctgacgtgac aggcatgatc
3241 ttagaagaag gtgcacccga aggaaccgtg gtcacattac tcatcaaaag accaactgga
3301 gagctcatgc ccctggcagc cagaatggga acccatgcaa ccatgaagat acaagggcgc
3361 actgttggag gccaaatggg catgctcctg acaggatcca acgccaagag catggatctg
3421 ggcaccacac caggtgactg tggctgcccc tacatttaca agagggggaa tgactacgtg
3481 gttattggag tccatacagc tgccgcccgt ggaggaaaca ctgtcatttg tgccacccag
3541 gggagcgagg gagaagccac acttgaaggc ggtgatagca aggggaccta ctgcggagca
3601 ccaattttag gtccaggaag tgccccaaaa cttagcacca agaccaagtt ctggagatca
3661 tccacggcac cactcccacc tggtacctat gaaccagctt acctcggtgg caaggaccct
3721 agagttaagg gtggcccttc actgcaacaa gttatgaggg atcaactgaa accattcact
3781 gagcctaggg gtaggccacc aaaaccaagt gtgctagaag ctgccaagaa aaccatcgtc
3841 aatgtcctag aacagacaat tgacccacct caaaaatggt cgtttgcgca ggcatgcgca
3901 tccctagaca agaccacttc tagcggccat ccgcaccaca tgcggaagaa tgactgctgg
3961 aacggggagt ccttcacagg aaaattggca gaccaggctt ccaaggccaa cctgatgttt
4021 gaggagggaa agaacatgac cccagtttac acgggtgcgc ttaaggacga gctggtcaag
4081 actgacaaaa tttatggtaa gatcaaaaag agacttctct ggggttcgga cctggcgacc
4141 atgattcggt gcgctcgagc attcgggggt ctgatggagg aactcaaagc acattgtgtc
4201 acactacctg ttagggtggg tatgaatatg aatgaggatg gccccatcat ctttgagaaa
4261 cactccagat acaaatatca ttatgatgct gactactccc ggtgggattc aacacaacaa
4321 agagccgtgt tggcagcagc cttagaaatc atggtcaagt tttccccaga accacacctg
4381 gcccaaaagg ttgcagaaga ccttctttct cccagcgtga tggacgtggg tgacttcaaa
4441 atatcaatca atgagggtct cccctccgga gtgccctgca cctcccaatg gaattccatc
4501 gcccactggc tcctcactct ctgtgcactt tctgaggtta caaacctgtc ccctgacatc
4561 attcaggcta attctctctt ttctttctac ggtgatgatg aaattgtgag tacagacata
4621 aaattggacc cagaaagact gacagcaaaa ctcaaggaat acgggttgaa accgacccgc
4681 cctgacaaaa ctgaagggcc tcttgtcatt tccgaagacc taaatggcct aaccttcctg
4741 cggaggaccg tgactcgcga cccagcaggc tggtttggaa agttggaaca gagctcaata
4801 cttagacaaa tgtactggac taggggtccc aaccacgaag atccatctga aacaatgata
4861 ccacactccc agaggcccat acaattgatg tctttgctgg gtgaggcagc actccacggc
4921 ccagcattct acagcaaaat tagtaaactg gtcattgcag agttgaagga gggtggcatg
4981 gatttttacg tgccaagaca agagccgatg ttcagatgga tgagattctc ggatctgagc
5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga
5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtgcca gaggtcaaca atgaggttat
5161 ggctttggag cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt
5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggggagt ttacagtatc
5281 ccctagaaat gctccaggtg aaatactatg gagcgcgccc ctaggccctg acctaaatcc
5341 ctacctatcc cacttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaagt
5401 aattctcgcg gggaacgcgt tcaccgccgg gaagattata tttgcagcag tcccaccaaa
5461 ttttccaact gaaggcttaa gccctagcca ggtcactatg ttcccccata taatagtaga
5521 tgttagacaa ttggaacctg tgctgatccc cttacccgat gttaggaata atttctatca
5581 ttacaatcag tcaaatgact ctactattaa gttgatagca atgttgtaca caccacttag
5641 ggctaataat gctggggatg atgtcttcac agtttcgtgc cgagttctca cgaggccatc
5701 ccccgatttt gatttcatat tcttagtacc acccacagtt gagtcaagaa ctaaaccatt
5761 ctctgttcca gttttaactg ttgaggagat gaccaattca agattcccca tccctttgga
5821 aaagttgttc acaggcccca gcagtgcatt tgttgttcaa ccacaaaacg gcaggtgcac
5881 aactgatggc gtgctcctag gcaccaccca actttctcct gtcaacatct gcaccttcag
5941 aggggatgtc acccacatca caggtagtca caacttcact atgaatttgg cttctcaaaa
6001 ttggaacaac tatgacccaa cagaagaaat cccagccccc ctaggaactc cagattttgt
6061 ggggaagatc caaggcatgc tcacccaaac cacaaggaca gatggttcaa cacgcggcca
6121 caaagctaca gtgtacactg ggagcgctga ctttgctcca aaactgggta gggttcaatt
6181 tgaaactgat acaaaccatg actttgaagc taatcaaaac acaaagttca ccccagtcgg
6241 cgtcatccaa gatggtagca ccacccaccg aaacgaaccc caacagtggg tgctcccaag
6301 ttactcaggc agaaacactc acaatgtaca tttggccccc gctgtagccc ccacctttcc
6361 gggtgagcaa ctcctcttct tcaggtccac catgcccgga tgcagcgggt accccaatat
6421 ggatttggac tgtctgctcc cccaggagtg ggtgcagtac ttctaccaag aggcagcccc
6481 agcacaatct gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt
6541 tgagtgcaag cttcacaaat caggctatgt tacagtggct cacactggcc aacatgattt
6601 gattatcccc cccaatggtt actttagatt tgattcctgg gtcaaccagt tctacacgct
6661 tgcccccatg ggaaatggaa cggggcgtag acgtgcagta taatggctgg agctttcttt
6721 gctggattgg catctgatgt ccttggctct ggacttggtt ccctcatcaa tgctggagct
6781 ggggccatca accaaaaagt tgagtttgaa aataatagaa aattgcaaca agcatccttc
6841 caatttagca gcaatttgca acaagcttcc tttcaacatg acaaagagat gctccaagca
6901 caaattgagg ccaccaaaaa gctacagcag gaaatgatga gagttaagca ggcaatgctc
6961 ctagagggtg ggttctctga gacagatgca gcccgcgggg cagttaatgc ccccatgaca
7021 aaggctttgg actggagcgg gacaaggtac tgggctccag atgctagaat tactacatac
7081 aatgcaggcc acttttccac ccctcaacca tcgggggcac tgccaggaag agctaatctt
7141 agggatgctg tccctgctcg tggacccccc accaaacctt ctaactcttc tactgccacc
7201 tctatgtact caaatcaaac tatttcaacg agacttggtt ctacagctgg ttctggaacc
7261 agtgtctcga gcctcccgtc aactgcaagg actaggagct gggttgagga ccagaatagg
7321 aatttgtcac ctttcatgag gggggcccac aacatatcat ttgtcacccc accatctagc
7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag aaattttgga ctcctggact
7441 ggcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgtaagcg aggggagtca
7501 cgggtgtaat gtgaaaagac aaaa
//