Typing tool
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Typing tool
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Complete norovirus genomes
| OL685304 | GIX.1 | |
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| GII.P15 |
ORF1: 1..5091
ORF2: 5072..6739
ORF3: 6739..7467
LOCUS OL685304 7542 bp RNA linear VRL 28-OCT-2022
DEFINITION Norovirus GIX isolate Hu/US/2021/GIX.1[GII.P15]/CA-RGDS-1147
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION OL685304
VERSION OL685304.1
KEYWORDS .
SOURCE Norovirus GIX
ORGANISM Norovirus GIX
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7542)
AUTHORS Osborn,B., Pan,C.Y., Hatada,A., Hatfield,J., Wagner,J., Oakeson,K.,
Montmayeur,A., Morales,C. and Vinje,J.
TITLE Cluster of Norovirus Genogroup IX Outbreaks in Long-Term Care
Facilities, Utah, USA, 2021
JOURNAL Emerg Infect Dis 28 (11), 2312-2315 (2022)
PUBMED 36286223
REFERENCE 2 (bases 1 to 7542)
AUTHORS Pan,C.-Y., Hatada,A., Wagner,J.M., Oakeson,K.F., Montmayeur,A.M.,
Vinje,J., Padilla,T., Wadford,D.A. and Morales,C.
TITLE Direct Submission
JOURNAL Submitted (30-NOV-2021) Viral and Rickettsial Disease Laboratory,
California Department of Public Health, 850 Marina Bay Parkway,
Richmond, CA 94804, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 3.6; Geneious v. R10
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7542
/organism="Norovirus GIX"
/mol_type="genomic RNA"
/isolate="Hu/US/2021/GIX.1[GII.P15]/CA-RGDS-1147"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:2594528"
/country="USA: UT"
/collection_date="Apr-2021"
/note="genotype: GIX.1[GII.P15]"
gene <1..5091
/gene="ORF1"
CDS <1..5091
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="UFP63615.1"
/translation="MASNDVVTALGSQKATNDSYSTPPPNKEEASVLANVKVGFKKIL
GAVPKAPKQHGSIQKPPIVEIDGVTMRVPSPPPNGEDAVHFVKETETIKGLPDLSTVE
NESEHSPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSIYVDNGKALGVHKPPAA
ISLATIDLTPISLYWRPVYTPPYLVHPETLKGLAGEKFPYTAFSNNCFNFCCWVLDLN
DSWLNRRSITRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAVLCALGSLFSKPIKDLL
GKLKPLNLLNLLASCDWTFAGVVETVILAAELFNVFWTPPDVSNFIASIIGGFEMQGP
EDLAVELVPVIMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWF
FPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTALLKDKDSLSAYMKTLDMEEEKARRL
STKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRARPVVVMVSGRPGIGKTYLAR
QLAKSIANSMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNTIKDALTLQELAD
TCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACCRRIDFLVYAEAPDI
EKVKKDFPGQPDMWRDHFKADSSHIKLSLAPQGGFDKNGNTPHGKGTMKTLTLQSLTA
RVMGLVCERKDEFQLQGDELQVYNFDTNKVSAFRKLAADNKYSFVETMKVGAVLKNVK
TLEDLKSALKGVKFKECEIIYKGAKYRVASDGCGSVSVSKIKDVVSQTSNEVHTALLR
LRQARARYYISCFQDLIYTLIQVAGASFVVHRISKRFSWDRWVKPSDSPQEEEQPSSE
VATGRWEIEPKDTDPEGKKGKNKKGRGRKHTAFSSKGLSDEEYDEFKRIREEKNGKYS
IEEYLQDRDRFYEEVAVARATEEDFCEEEVAKIRQRIFRPTKKQRKEERGVLGLVTGS
EIRKRRPDDFQPKGNLWADDTRSVDYNEKLEFEAPPSVWSRIVPLGTGWGFWVSSNLL
ITTTHVLPKGLKELFGVDIKQVQIHKSGEFCRFRFPRPIRPDVTGLILEEGAPEGTVC
SILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTNPGDCGC
PYIFKRGNDIVVAGVHTAAARGGNTVICATQGADGEAVLEGGEDKGTYCGAPILGLGK
APKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMREQLKPFTEPRGK
PPKPNVLDEAKKTVMNVLEQTINPAKPWSYSQACASLDKTTSSGSPHHLRKNDHWNGE
SFTGPLADQASKANLMYEQAKHMSPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTM
VRCARAFGGLMDSMKESCVMLPCRVGMNMNEDGPIIFDKHAKYKYHYDADYSRWDSTQ
QRSILSAAMEVMVKFSAEPELAQVVAEDLLAPSQLDVGDFVVSVQEGLPSGVPCTSQW
NSIAHWIITLSAMAEVSGLSPDVIQAHSCFSFYGDDEIVSTDINLDPAKLTLKLREYG
LVPTRPDKTEGPLVITEDLHGLTFLRRHITRDPAGWFGKLDQDSILRQLYWTRGPNHE
NPYECMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMF
RWMRFSDLSTWEGDRNLAPDGVNEDGVE"
mat_peptide <1..996
/gene="ORF1"
/product="p48"
mat_peptide 997..2094
/gene="ORF1"
/product="NTPase"
mat_peptide 2095..2616
/gene="ORF1"
/product="p22"
mat_peptide 2617..3015
/gene="ORF1"
/product="VPg"
mat_peptide 3016..3558
/gene="ORF1"
/product="Pro"
mat_peptide 3559..5088
/gene="ORF1"
/product="RdRp"
gene 5072..6739
/gene="ORF2"
CDS 5072..6739
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="UFP63616.1"
/translation="MRMASSDAPVSGTDGAAGLVPESQQEVLPLEPVAGVQLAAPVAG
QSNIIDPWIRMNFVQAPAGEFTVSPRNAPGEVLIDLELGPELNPYLNHLARMYNGYVG
GMEVEVVLAGNAFTAGKILFAAVPPSFPTHGISAAQATMLPHVIVDVRQLEPVRLPLP
DVRNVMFHFCQENKEPRMRIVAILYTPLRANGAGDDVFTVSCRVLTRPSPDFDFIFLV
PPSVESKLKQFTLPNLQPNEMTNSRFPTGITQLYTSPNTNLVVQFQNGRCLLDGTLLG
TTPVRAADICSFRGVTSTEVDATDSPRVAGSHRIMVQLKEPDGEEFSPTGPNPAPVGT
PDFQAAIFGTLSQRNTGGAGQNSNRAHFAYFYTRNPTFAPGIGTVVFSFDTTDFQNRQ
PTKFSPSGVFDDDSSEPFNQFSLPYYNGSLGAVDAGKLAPPVAPNYPGEQILYFRGNI
PFKGGYGEGEIDSLLPQEWITHFYAEQAPTQGDAALLRYYNPDTGRVLFECKLHREGF
ITINYTGSNALAVPVNGVFRFEGWVNKFYTLTPMGNGNGRRGRRREL"
gene 6739..7467
/gene="ORF3"
CDS 6739..7467
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UFP63617.1"
/translation="MAGAFFAGLASDVLGSGLSSLIGAGANAINQKVEYDYNRHLQSA
SFQHDKDMLNSQVEATKHLQREMMAIKEGMLLKGGFSPTDAARGAVNAPMTQILDWNG
TRYWAPGAMKTTAYSGRFVSQSTHRPIPNVAHKSDGPIHQTGSTTGSISSLSTLSTHV
PSSTSSSSASRTRDWVSEQQRLSPFMRGSLHTAYVTPPSSSASSVSSVSTVPHYVLDS
WTPSFNTKHLPLFAHVRKRGQSQV"
ORIGIN
1 atggcgtcga atgacgtcgt tactgccctt ggcagccaaa aagctaccaa tgacagctac
61 agcacacctc cccccaacaa ggaggaggct agtgtgcttg ccaacgttaa agttggcttt
121 aaaaagatcc tcggggccgt ccctaaggct ccgaaacagc atggcagcat acaaaaaccg
181 ccgatcgtcg agatcgatgg tgtgaccatg cgtgtaccct ctccccctcc aaacggtgag
241 gacgcagtcc acttcgtgaa ggaaacggag accatcaagg gactgccaga cttgtccacc
301 gtggagaacg agtctgaaca ctctccgtac acagtccccc cgttgagtga gagggagcac
361 aggccagcaa cagagccatt gcccggcact atacttgaga tgtgggatgg tgagttctac
421 cactactcca tatacgtgga caatggcaag gcccttggag ttcacaaacc accagcagca
481 attagcctag caacgataga tttaacacct atatcgttgt actggagacc ggtttacaca
541 ccgccgtacc ttgtccaccc agagacgctc aagggactgg ctggcgaaaa attcccctac
601 acggccttca gcaacaactg cttcaacttc tgttgctggg ttctggacct caatgactcg
661 tggttgaacc ggagatccat aactagaaca actggtttct tcaaacccta ccaatcctgg
721 aacaggaagc ccctcccaac tgtggatgat ggcaagatca agaaggtcgc gaatgcagtt
781 ctgtgtgccc taggatcact tttctccaag cccattaagg acctccttgg caaattaaaa
841 cccctcaatc tcctgaactt gcttgcatca tgtgactgga cctttgctgg cgtggtggaa
901 acagtcattc ttgctgcaga gctcttcaat gtcttctgga ctccacctga tgtctccaac
961 ttcattgctt ccataattgg cggcttcgag atgcaaggac cagaggatct tgctgtggag
1021 cttgtccctg ttatcatggg aggcattggt atggtgttag ggtttacagc tgagaagata
1081 gggcgtatgt tatcatctgc agcatccacc ctcagggctt gtaaggacct tggcaattac
1141 gccttagaca tcctgaaact agtcatgaag tggtttttcc ctaaaaagga ggaaaaggcc
1201 gagatggaga ccctgagggc cattgaggac gctgtccttg acatggaggc aattggaaac
1261 aaccacctca cagcgctgct caaagacaaa gatagcttga gcgcctatat gaagaccttg
1321 gacatggagg aggagaaggc caggaggctc tccaccaaat catcatcacc cgacattgtt
1381 ggcaccatca acgcgatcct cgcacgcatt gctgccgcaa ggtcactcct acacaaagcc
1441 aaagaggaaa tgttcagtcg agcgaggcct gttgtcgtta tggtgtctgg aaggcccggt
1501 atcgggaaga catatctggc cagacagctt gccaaatcga ttgcaaacag catgagtggt
1561 gatcagagag tgggactcgt cccccgcaat ggggttgacc actgggatgc ctataggggt
1621 gaaagagttg tcctatggga tgactacggc atgggaaata caatcaaaga tgccctgacc
1681 ctacaagagt tggctgacac ctgcccagtt accctcaact gtgacaggat cgaaaacaag
1741 gggaagatgt ttgacagcga tgtcattata ataacaacca atcttgtcaa ccccgctccc
1801 ctcgattatg ttaattttga ggcttgctgt aggcgaattg acttccttgt ttatgccgag
1861 gcaccggaca ttgagaaagt caaaaaggat ttccctggac aacctgacat gtggcgtgac
1921 cattttaaag ctgactcgtc acacataaag ttatcactag ccccacaggg tggctttgac
1981 aagaacggaa acacccctca cgggaagggc accatgaaaa ctctcacgct gcaatcactc
2041 actgcacgtg tgatgggttt agtgtgtgag aggaaggatg agttccaact gcagggtgat
2101 gaactacagg tttataactt tgacacaaac aaggtctctg catttagaaa actagcagct
2161 gacaacaagt acagctttgt ggagacaatg aaagtcggtg cagtcctcaa gaatgtaaaa
2221 accctggaag atctgaaatc tgccctcaag ggagttaaat tcaaagagtg tgaaataatt
2281 tacaaggggg ccaagtatag agtcgcctcg gatggttgtg gcagtgtctc agtttccaag
2341 atcaaagatg ttgtatcgca gacatccaac gaagtgcaca cagcgctcct gagattgagg
2401 caagcccggg ccaggtatta tatcagctgc ttccaagatc tcatatacac cctaatacag
2461 gttgctggag cctcatttgt ggtacatagg atctcaaaga gattctcatg ggaccgctgg
2521 gtcaaaccca gtgacagccc tcaggaggaa gaacaaccca gtagtgaggt ggccacaggg
2581 agatgggaaa ttgagccaaa agacacagat cctgaaggca aaaagggtaa aaacaagaag
2641 ggaaggggaa ggaaacacac ggctttctct agtaagggtc ttagtgatga agagtatgat
2701 gagttcaaaa gaatcagaga agagaagaac ggcaaatact ccatagaaga atacctccag
2761 gaccgtgaca gattttacga ggaagtggca gttgcaaggg caacggagga ggatttctgt
2821 gaggaagaag tggcaaagat cagacagaga atcttcaggc ccacaaagaa gcaaaggaag
2881 gaggagcgag gcgtcctagg gctggtcact ggttcagaaa tcaggaagag aagaccagat
2941 gacttccagc ctaaaggtaa cttgtgggct gatgacacca ggagcgtgga ctacaacgaa
3001 aagctggagt ttgaggcccc tccgagcgtg tggtcacgta tcgtacccct cggcactggc
3061 tggggtttct gggtctcctc caaccttctc ataacaacaa cacatgtcct gccaaaagga
3121 ttgaaggagc tgtttggggt tgatatcaaa caagtccaga tacacaagtc aggtgagttc
3181 tgcaggttca ggtttccaag accaatcaga ccagatgtca caggcctcat ccttgaagaa
3241 ggggcccctg aaggcacggt gtgttctatc cttgtcaaaa gaccgactgg ggagatgata
3301 ccgcttgcag tgaggatggg cacccacgct tccatgaaga tccagggtag aacggttggt
3361 ggtcaaatgg gcatgctgct cacaggagca aacgccaaaa acatggattt gggcacgaac
3421 cctggtgatt gtggatgccc gtacattttt aagaggggca atgacattgt ggtagctggg
3481 gtccacactg cagctgcacg gggtggcaac actgtgatct gtgccacgca aggagctgac
3541 ggagaggccg tccttgaagg aggagaggac aaagggacgt actgtggtgc cccaatactt
3601 ggactcggga aggcccccaa actcagtacc aagacaaagt tctggcggtc ctcccctgat
3661 gcgcttcccc cgggaacgta tgagccagca tacctaggtg gaaaagaccc aagggttgag
3721 aagggcccgt cactccagca ggtcatgaga gaacaactta aacctttcac cgaacccaga
3781 ggaaaacccc caaaacccaa cgttcttgat gaggcaaaga aaactgtgat gaacgtgttg
3841 gagcagacta taaaccctgc caaaccctgg tcatactccc aagcatgtgc ttcgcttgac
3901 aagacaactt caagtggtag cccccaccac ctgagaaaga atgaccattg gaatggtgaa
3961 tctttcaccg gtcctttggc cgatcaagct tcaaaagcaa acctaatgta tgaacaggca
4021 aaacacatga gccccgttta cactgcagcc cttaaagatg aactggtcaa gaccgacaag
4081 atctacaaga aaataaagaa gaggctgctg tggggctctg acctgggtac tatggtcagg
4141 tgtgctaggg cttttggtgg gttgatggat agcatgaaag agagttgtgt gatgttgccc
4201 tgcagagttg gcatgaacat gaatgaagat ggaccaatca tttttgacaa acatgcaaaa
4261 tacaaatatc actatgatgc agattactcc agatgggatt ccacacaaca aaggagcatc
4321 ttatctgctg ctatggaggt tatggtgaag ttctcagctg aaccggaact ggcacaagtg
4381 gtcgctgaag acttactcgc cccaagccaa ctcgacgtgg gcgactttgt ggtgtcagtc
4441 caagaaggtc tcccctcagg tgttccgtgc acttcccaat ggaactccat agcacattgg
4501 atcatcaccc ttagtgcaat ggcagaagtt tctggtctct ccccagatgt gatccaagct
4561 cactcatgct tctctttcta tggtgatgat gagatagtta gcacagacat caacttggac
4621 ccagcaaagc taaccttaaa actcagagaa tatggattgg tccccaccag accagacaaa
4681 actgaaggcc cattagtcat cacagaggat ctccatggat tgacctttct acgcagacac
4741 atcacacgag atcctgctgg atggtttgga aaattagacc aggattcaat cttgaggcaa
4801 ctctattgga ctagaggacc caaccatgaa aatccctacg agtgcatggt cccacactca
4861 cagcgtgcaa ctcagttaat ggcgctgttg ggtgaggcat cattgcacgg tccccagttc
4921 tacaagaaag tcagcaagat ggttatcaat gagattaaga gtggtggtct ggaattttac
4981 gtgcccagac aggaggccat gttcagatgg atgagattct ctgacctcag cacgtgggag
5041 ggcgatcgca atctggctcc cgacggtgtg aatgaggatg gcgtcgagtg acgcgcccgt
5101 ttctggcacc gatggtgcgg caggactcgt cccagagagt caacaagaag tcttgccttt
5161 agagcccgtc gcgggagttc agctggctgc tcccgtagca gggcaaagta atataattga
5221 cccctggatt agaatgaatt ttgtgcaagc cccggccggt gagttcactg tttcccctcg
5281 gaacgcaccg ggtgaggtgc ttattgattt agaattagga ccagaattaa atccctatct
5341 caatcacctt gcgagaatgt acaatgggta tgtgggagga atggaggtgg aagttgtcct
5401 tgccgggaat gcgttcacgg cgggtaagat cttattcgca gctgtgcccc ccagcttccc
5461 aacccatggc atttctgcag cacaggcaac tatgttacca catgtgattg tggatgtcag
5521 gcagctggag cctgtccggc tccctcttcc tgatgtcagg aatgtgatgt tccatttctg
5581 tcaagaaaat aaggagccgc gcatgagaat tgtggcaata ttgtacaccc cactccgtgc
5641 caacggtgcg ggtgatgatg tcttcactgt ctcatgtcgt gtgctgacaa ggccctcccc
5701 agattttgat tttattttct tggttccccc ctctgtagag agtaagttga aacagtttac
5761 ccttccaaac ctgcagccaa atgaaatgac caattcaaga ttccccactg gcatcacaca
5821 actctacacc agtccaaata ccaatttggt tgttcagttc caaaatggca ggtgtctgct
5881 tgatggtaca cttctcggca ccacccctgt cagagctgct gacatctgca gtttcagagg
5941 agtcacctca actgaagttg atgcaactga cagccccaga gtggcagggt cccatagaat
6001 tatggtgcag ctcaaggagc cagatggaga ggagttttca cccacaggtc ctaaccctgc
6061 ccctgttggc actccagact ttcaagcagc catatttggc acccttagtc aaagaaacac
6121 tggcggggct ggacagaact ccaacagagc ccacttcgca tacttctaca ctagaaaccc
6181 cacatttgca ccaggtatag ggacagttgt gttttctttt gatactactg attttcaaaa
6241 tcgccaacct accaaattct ctccttctgg tgtgtttgat gatgattctt ctgaaccctt
6301 taatcaattt tctctaccat actataatgg atcactcggt gcagtggatg ctggaaaact
6361 ggctccgcct gtggcaccca actacccagg tgagcagatt ctttatttta gagggaatat
6421 tcccttcaaa ggtgggtatg gagagggtga gattgatagc ttgcttcccc aggagtggat
6481 cacccacttt tatgcagagc aggctcctac acaaggtgac gcagccctgc tgcgttacta
6541 caaccctgac actggcagag tcctttttga gtgcaaactc caccgtgagg gattcatcac
6601 aatcaattac acagggtcca atgctcttgc tgtaccagtc aatggagtct tcaggtttga
6661 gggctgggtt aacaaattct acacacttac ccccatggga aatggcaacg gccgcagggg
6721 tagaagaagg gagttataat ggctggagct ttctttgcag gtcttgcttc tgatgttctc
6781 ggcagtggtt tgtcttcact tatcggtgcc ggtgccaatg ccataaacca aaaggttgaa
6841 tatgattaca ataggcactt gcagtctgct tctttccaac atgataagga catgctcaac
6901 tcacaggtgg aagccacaaa gcacttacaa agagagatga tggccatcaa ggaaggcatg
6961 ctgctcaagg gtgggttctc ccccactgat gcagcaagag gagctgtcaa cgcccctatg
7021 acacaaattt tggattggaa tggcaccaga tactgggccc cgggtgcaat gaaaaccacg
7081 gcttactcag gccgttttgt tagccaatcc actcacaggc ctattcccaa tgttgctcac
7141 aagagtgatg gacccataca ccaaactggg tcaaccacag ggtccatttc ctctctctcc
7201 acattatcca cccatgttcc atcatctaca tcctcatcta gtgcttctag aacaagggac
7261 tgggtgtctg aacagcaaag actcagtcct ttcatgagag gctctcttca cactgcatat
7321 gtgactcctc cctcaagctc tgcctcctca gttagttctg tttctacagt cccacactat
7381 gttttagatt catggacccc ttcttttaac actaaacatc tacctttgtt tgctcatgtt
7441 agaaagaggg gacaatctca agtttaatct accactcatg gtttgattga tttgttttgt
7501 aattagtgaa atgttgattc tttctaattc ggcatttaaa aa
//