Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| PQ310459 | GII.17 | |
|
|---|---|---|---|
| GII.P17 |
ORF1: 5..5113
ORF2: 5094..6719
ORF3: 6719..7498
LOCUS PQ310459 7548 bp RNA linear VRL 17-OCT-2024
DEFINITION Norovirus GII isolate Hu/GII.17[P17]/Sheboygan0502/2024/USA,
complete genome.
ACCESSION PQ310459
VERSION PQ310459.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7548)
AUTHORS Chhabra,P., Wong,S., Niendorf,S., Lederer,I., Vennema,H., Faber,M.,
Nisavanh,A., Jacobsen,S., Williams,R., Colgan,A., Yandle,Z.,
Garvey,P., Al-Hello,H., Ambert-Balay,K., Barclay,L., de Graaf,M.,
Celma,C., Breuer,J., Vinje,J. and Douglas,A.
TITLE Increased circulation of GII.17 noroviruses, six European countries
and the United States, 2023 to 2024
JOURNAL Euro Surveill 29 (39) (2024)
REMARK DOI: 10.2807/1560-7917.ES.2024.29.39.2400625
REFERENCE 2 (bases 1 to 7548)
AUTHORS Davis,T., Barclay,L., Montmayeur,A.M., Vinje,J. and Chhabra,P.
TITLE Direct Submission
JOURNAL Submitted (11-SEP-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..7548
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.17[P17]/Sheboygan0502/2024/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="21-Aug-2023"
/note="genotype: GII.17[P17]"
gene 5..5113
/gene="ORF1"
CDS 5..5113
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XGR29349.1"
/translation="MKMASNDASAAVAGKNNNNDKEKSSSDNLFSNMTVTFKKALGAR
SKQPPPGEVKQTQKPPRPPTPELVKRIPPPPPNGEDEPQIVYKVGEGVSGLPDLTTVA
RPDTQDTAYSVPPLSQREAGEAKEPLPGSILEMWDGEIYHYGLYVDRGNVLGVHKPPA
AVSLAKIELTPLSLYWRVVYTPQYLISPDTLKGLSGETFPYTAFDNNCYAFCCWVLEL
NDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDI
IGKLRPLNILNILATCDWTFAGIVESMILLAELFGVYWTPPDVSAMIAPLLGDYEMQG
PEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKW
FFPKKEETSELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARK
LSTKSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMLSGRPGIGKTHLA
RELAKKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA
DTCPLTLNCDRIENKGKVFDSDVIVITTNLANPAPLDYVNFEACSRRIDFLVYAEAPD
IEKAKRDFPGQPDMWKDHYRPDFTHIKLQLAPQGGFDKNGNTPHGKGVMKSLTVGSLI
ARASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSV
KTLDELKQAIKNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELTGALH
HLRSARIRYYVKCFQEAIYSLLQITGAAFVTSRIVKRMNISNLWSKPPVEEGDEPEDK
GGCPKPRDEDDLTIDSKDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE
RNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATL
GLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFW
VSPSLFITSTHVIPKGITEAFGVPMNQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA
PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTT
PGDCGCPYVYKRGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAP
ILGPGSAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPF
TEPRGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHARKN
DYWNGETFTGKLADQASKANLMYEEGKHMQPVFTAALKDELVKTDKIYGRIKKRLLWG
SDLSTMIRCARAFGGLMDELKANCIALPVRVGMNMNEDGPIVFEKHSRYRYHYDADYS
RWDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGV
PCTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTA
KLKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPVGWFGKLDQSSILRQIYWT
RGPNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVP
RQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 5..1003
/gene="ORF1"
/product="p48"
mat_peptide 1004..2101
/gene="ORF1"
/product="NTPase"
mat_peptide 2102..2638
/gene="ORF1"
/product="p22"
mat_peptide 2639..3037
/gene="ORF1"
/product="VPg"
mat_peptide 3038..3580
/gene="ORF1"
/product="Pro"
mat_peptide 3581..5110
/gene="ORF1"
/product="RdRp"
gene 5094..6719
/gene="ORF2"
CDS 5094..6719
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XGR29350.1"
/translation="MKMASNDAAPSNDGATGLVPEINTETLPLEPVAGASLAAAVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYNNRPSERMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTISELTNSRFPAPIDSLFTAQNNVLNVQCQNGRCTLDGELQGTT
QLLPTGICAFRGKITADVEHQHDDRWHLSLTNINGTPFDPTEDVPAPLGTPDFTGLLF
GVASQRNVGGSGNNTTRAHEAVISTTSTQFVPKLGSVNFGSQSDDFQVSQPTKFTPVG
IKIETGHPFEQWRLPNYAGALTLNMNLAPPIAPNFPGEQLLFFRSNIPCAGGVSDGII
DCLLPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRTGYITVAHTGDYPL
VVPSNGFFRFDSWVNQFYSLAPMGTGNGRRRIQ"
gene 6719..7498
/gene="ORF3"
CDS 6719..7498
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XGR29351.1"
/translation="MAGAFIAGLAGDMLTNTVGSLANAGANAINQKIDFENNKQLQAA
SFQHDKDMLHAQVNATKQLQSDMIAIKQGILTAGGFSPTDAARGAVGAPMTKVLDWSG
TRYWAPNSTKTTSYSGQFTSTPVHTPNLSSKPKTTSVKSPSPSSSPGSVYSLATQSTS
LSGPSSGSSASSALTQSTKLSSTSSMSRTIDWVNQQRSLSPYMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gctggcaaaa acaacaacaa
61 cgacaaggaa aaatcttcaa gtgacaactt gttttctaac atgactgtca cttttaagaa
121 agccctcggg gcgcggtcta aacaaccgcc cccgggagaa gtaaaacaaa cacagaaacc
181 accaagacca ccgacaccgg aattggtgaa gagaataccc ccacccccac ccaatggcga
241 ggatgaacca caaatagtgt acaaggtggg ggagggtgtg tctgggctac ccgacctaac
301 aaccgtggcg cggcctgaca cacaagatac agcttatagt gttcccccac taagccagag
361 agaagccggc gaagctaagg aaccactgcc tggttccatt cttgagatgt gggatggtga
421 gatctaccac tatgggctgt atgttgaccg gggaaatgta ctcggggtgc acaaaccacc
481 tgctgcagta agcctcgcca aaattgaatt aacacctctg tctctctact ggagagtggt
541 atacactccc cagtatctga tatctccaga cactcttaag ggcttaagcg gagagacttt
601 cccatacacg gcctttgaca acaactgcta tgccttctgt tgttgggtcc tagaactcaa
661 tgactcctgg ctcagcagga ggatgattca aagaacaact ggatttttca gaccgtatca
721 ggattggaac agaaagccct tgccaaccat ggatgagccg aaaatcaaga aggccgcaaa
781 tgctgtcctt tgtgctctct cctcactctt caccagaccc attaaggata tcattggaaa
841 actcaggcca ttaaacatcc tcaacattct ggcaacatgt gactggactt ttgcaggcat
901 agtggaatcc atgatccttc ttgctgaact ctttggggtg tactggaccc ccccagatgt
961 gtctgcgatg attgctccct tactcggtga ctacgaaatg caaggccccg aagacctggc
1021 cgtggaactt gtgcccgtgg taatgggagg aataggtttg gtgttaggat tcaccaaaga
1081 aaagatcggc aagatgctct catcagctgc aaccacactt agggcctgta aagacttagg
1141 ttcttatgga ctggagatac tcaaattggt catgaagtgg ttcttcccca agaaggaaga
1201 gactagtgaa ctagccatgg tgagggccat tgaggatgca gtcctggact tggaggcgat
1261 agaaaacaac cacatgacca ctctcctcaa ggacaaagat agcctggcca catacatgag
1321 aactcttgac ttggaagaag agaaagcaag gaaactatca accaaatcgg catcacctga
1381 tatcgtgggc acaataaatg cattattggc aaggattgca gctgctaggt cactggtcca
1441 caaggccaag gaggagctct cgagcagaca gaggcctgtt gttgtaatgc tatcaggtag
1501 accaggcata ggaaagaccc atcttgccag agagctagcc aagaaagttg catctacact
1561 gtcaggtgac caaagaattg gattggtgcc tagaaatggc gtcgatcact gggatgccta
1621 caagggagaa agggtagtcc tgtgggatga ctacggtatg agcaacccta tacaggacgc
1681 attaaggctc caagaattgg ctgacacctg cccactaacc ctaaattgtg acaggattga
1741 aaacaaagga aaagtgttcg acagtgatgt catagttata acaaccaacc ttgcaaaccc
1801 agcaccactg gactatgtca actttgaggc ctgctctaga cgcatagact tcttggtgta
1861 tgcagaagca cctgacatcg agaaggctaa gcgtgatttt cctggccaac cagatatgtg
1921 gaaagaccac tatagaccag acttcacaca cattaaactt caactggcac cacaaggagg
1981 ttttgacaag aatggcaaca ccccacatgg caaaggtgtg atgaagtcac tgacggttgg
2041 ttctctgatc gccagggctt ctggcttgct ccatgaaaga atggatgaat ttgagctcca
2101 gggctctgac ctgccaacct tcaactttga ccgtaacaaa gtcgccgcct tcaggcaatt
2161 ggcagctgaa aataaatatg gtcttatgga cacactgagg gtcggcaacc aactgaagag
2221 tgtcaaaacc ctagatgagc tgaagcaggc cataaagaac atcagcatca agaagtgcca
2281 aatagtgtat aatggctgta catacacaat ggaatctgat gggaggggca aggttgtggt
2341 tgaaaaggtg caaaatgcaa cagtccaaac caacaatgaa ctcacaggag cactccatca
2401 cctgaggtct gcaaggataa gatattatgt caaatgtttc caagaagcca tttactcctt
2461 actccaaatc actggtgcag cctttgtcac ttcgcgcatc gtgaaacgca tgaacatctc
2521 aaatctctgg tcaaaaccac ccgtcgaaga gggtgatgag cctgaagaca aaggaggatg
2581 ccctaaaccc agggatgaag atgacctcac cattgactct aaagatataa aagtggaagg
2641 gaaaaagggc aaaaacaagt ctggtcgggg caagaaacac acagccttct catccaaggg
2701 tcttagtgat gaagagtacg atgagtacaa gagaatcaga gaggagagga atggtaaata
2761 ctcaatagag gaatacctcc aagatagaga cagatactat gaagaacttg ccattgctaa
2821 ggccacagaa gaggacttct gtgaagagga ggaaatcaaa atccgccaga gaatcttccg
2881 acccaccagg aagcaacgga aagaggagag ggccacgctc ggactcgtca caggatcaga
2941 aatcaggaaa agaaacccag atgactttaa accaaaagga aaattgtggg ctgatgacaa
3001 cagaagtgtg gattacaatg agagaataga ttttgaggcc cccccgagcg tctggtctag
3061 aatagtcaat tttggcacag gctggggatt ctgggtttct ccaagtctct ttataacttc
3121 aacacatgtc ataccaaaag gaattactga agcttttgga gtgcccatga accaaatcca
3181 gattcacaaa tccggagaat tttgccgctt gcggtttcca aaaccaatca gaccagacgt
3241 gagtgggatg atcttggaag agggtgcccc tgaaggcact gttgtgtcta ttctcatcaa
3301 aaggacaaca ggggagctga tgcctcttgc agtcagaatg ggaacccatg ccacaatgaa
3361 aattcaaggt agaacggtgg gtggtcagat gggtatgctt ctcactggtt caaatgccaa
3421 aagcatggat ttgggtacaa cgccaggtga ttgcgggtgt ccatacgtct acaaaagggg
3481 caatgacttc gtggtcattg gggtacacac tgcagcagca cgtggaggca acacagtcat
3541 atgtgccaca cagggaagtg aaggtgaggc cactcttgaa ggaggtgaca acaagggcac
3601 ctactgtgga gcacccattc tgggacctgg cagtgcacca aaactgagca caaaaacaaa
3661 attctggaga tcttccaata caccgcttcc cccaggcacc tatgaaccag cgtaccttgg
3721 tgggagagac ccgcgtgtga agggaggccc gtctctgcag caggtcatga gagatcaact
3781 caaacccttc acagaaccca gagggaagcc accaaaccca aatgtcctgg agtcagcaaa
3841 gaagactatc atcaatgttt tggaacaaac catcgacccc cctcaaaagt ggtcgtatgc
3901 ccaagcttgt gcatctcttg acaaaacgac ttccagtgga tacccacacc acgcccggaa
3961 gaatgattat tggaatggtg aaacattcac agggaaactt gcagaccagg cttcaaaggc
4021 aaatctcatg tatgaagaag gcaagcacat gcaaccagtt ttcaccgcag cactcaaaga
4081 cgagcttgta aaaactgaca aaatttatgg tagaatcaag aaaagactcc tgtggggttc
4141 tgacctctcc accatgattc gttgcgctag ggcattcggt ggtctcatgg acgagcttaa
4201 agcaaactgc attgcactcc ctgtcagagt tggtatgaat atgaatgaag atggtcccat
4261 agtatttgag aaacactcca ggtacagata ccactatgat gcagattatt cccgctggga
4321 ttccacacaa cagcgggcag tgctggaagc ggcacttgaa attatggtga gattttctgc
4381 tgaaccacag ctggcacaaa tagtggcaga ggacctgctg tcaccaagtg tggtggatgt
4441 gggcgacttc aaaatcgcaa tcaatgaagg cctaccatct ggtgtgcctt gcacctcaca
4501 atggaactct attgcccact ggttactcac cctgtgtgcc ctctctgaag tgacaggact
4561 aggccccgac atcatacaag ccaactccat gtactctttc tatggtgatg atgagattgt
4621 gagcacagac ataaaattgg acccagagaa attaactgca aagctcaaag aatatggcct
4681 taaacccaca cggcccgaca aaactgaggg accgctggtg atcagtgagg acctgaatgg
4741 gttaacattc ctacgccgga cagtgacccg cgacccagta ggctggtttg gaaaattgga
4801 ccaaagttct atcctcaggc agatttattg gacaagggga cccaaccatg aagatcccag
4861 tgaaaccatg ataccacacg cacagagacc tgtgcagctc atggcattat taggagaatc
4921 ctccctacat ggaccatcat tttacagcaa ggtcagcaag ctggtcatat cagaactcaa
4981 agagggagga atggattttt atgtgcccag acaagagcca atgttcagat ggatgaggtt
5041 ctcagatcta agcacatggg agggcgatcg caatctggct cccagttttg tgaatgaaga
5101 tggcgtcgaa tgacgccgct ccatctaatg atggtgctac gggcctcgtc ccagagatca
5161 acaccgagac ccttcctttg gaaccagtgg ctggtgcatc ccttgcagca gctgtcactg
5221 gtcaaaacaa tataattgat ccctggatta gaacaaattt tgtacaggca cccaatgggg
5281 aatttactgt atcacccagg aattccccag gagagattct tctaaatttg gaattaggtc
5341 ctgatttaaa tccttatttg gcacacctgt ctagaatgta caatggctac gctggcggag
5401 ttgaagtcca ggtgctcttg gcggggaatg cgttcaccgc tggaaagatc cttttcgccg
5461 ctgtaccacc aaattttcca gttgaatttc ttagtcctgc tcaaataact atgcttccac
5521 atttgatagt tgatgttaga actcttgaac caatcatgat acctcttcct gatgtgagaa
5581 ataccttctt ccactacaac aaccggccct ctgagcgcat gcgcttagtg gctatgctgt
5641 acactccttt aagatctaat ggttcaggtg atgatgtttt cacagtctcg tgtagagttt
5701 taaccaggcc taccccagac tttgagttca cttatttagt cccaccttca gttgaatcta
5761 aaacaaaacc tttttctctc cctatcctga ctatctctga gctgactaat tcaagattcc
5821 cagcacctat tgactcactg tttactgctc aaaataatgt ccttaatgtc cagtgtcaaa
5881 atggccggtg cactctggat ggagagttgc aaggaaccac ccaattactt ccaactggaa
5941 tatgtgcctt caggggaaag ataacagcag atgtagaaca ccaacatgat gacagatggc
6001 acttgagttt aacaaacatc aatggaaccc cttttgatcc aacagaagat gtcccagccc
6061 cattaggcac ccctgacttc acaggcctcc tcttcggagt tgcaagccaa agaaatgtcg
6121 gtgggtcagg caacaatacc accagggcgc atgaggctgt aatatcaaca accagcacac
6181 aatttgttcc aaaattaggt tctgtcaact ttgggagtca gagtgacgat tttcaggttt
6241 ctcagccaac caagttcaca ccagttggga tcaaaattga aaccggacac ccttttgaac
6301 aatggagatt gcccaactat gctggagcac taacacttaa tatgaacctt gccccaccta
6361 tcgctcccaa ctttccaggt gagcaattgc ttttctttag gtctaatatc ccttgtgctg
6421 gtggtgtcag tgacggtatc atcgactgtc tgcttcctca ggagtggata caacacttct
6481 accaggagtc cgctccttct caatcagatg tggctctaat caggtatgtc aaccctgaca
6541 cgggtcgcac tctctttgag gcgaagctcc acaggaccgg atacatcact gttgcccata
6601 ccggcgatta ccctcttgtt gtcccctcta atggcttctt cagatttgac tcttgggtaa
6661 accagtttta ctcacttgcc cccatgggaa ctgggaatgg gcgtagaagg attcagtaat
6721 ggcaggagct tttatagcag gtcttgcagg tgacatgctc accaacactg ttggctctct
6781 ggcgaatgcc ggagcaaacg ccataaacca aaagatagac tttgagaaca acaaacaatt
6841 acaagctgcc tctttccaac atgacaaaga catgctccac gcacaggtga atgcaaccaa
6901 acaactgcag tcagacatga tcgccatcaa gcaggggata ttgaccgcgg gcggcttttc
6961 ccctactgat gcagcgaggg gagccgtggg ggcacccatg acaaaagttc tcgattggtc
7021 tggcacccgc tattgggcac caaattctac caagacaaca agctattcag ggcaattcac
7081 atcaacacct gtgcatacac caaatttgag tagcaagccc aagaccacaa gtgtcaaatc
7141 cccatctcct tcttcttccc ctggtagtgt ttatagctta gcaactcagt caacttcact
7201 gtccggacct tcttcaggtt cctctgcttc ttctgcttta acacaatcaa caaaattaag
7261 ctcaacttct tctatgagta gaacaattga ttgggtcaat caacaaagaa gtcttagccc
7321 atacatgagt ggagctctta acatctccca tgtgacacct ccatcaagta gagcatctag
7381 ttcgggaaca gtctcaactg tccccaaaga agttttggac tcctggacat ctgcatttaa
7441 cacacacaga cagccgctct tcgcacacct tagggtaagg ggggagtcac gtgtttagtg
7501 aaaagaatta attagattta atcaggctta aatttaattt gatctttt
//