Typing tool
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Typing tool
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Complete norovirus genomes
| MZ223425 | GI.2 | |
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| GI.P2 |
ORF1: 1..5367
ORF2: 5351..6991
ORF3: 6991..7626
LOCUS MZ223425 7688 bp RNA linear VRL 23-MAY-2021
DEFINITION Norovirus GI isolate Hu/US/2014/GI.2[P2]/CA-RGDS-1106 nonstructural
polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MZ223425
VERSION MZ223425.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7688)
AUTHORS Pan,C.-Y., Huynh,T., Padilla,T., Montmayeur,A.M., Chhabra,P.,
Barclay,L., Vinje,J., Wadford,D.A. and Morales,C.
TITLE Direct Submission
JOURNAL Submitted (18-MAY-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 :: Geneious v. R10; SPades v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7688
/organism="Norovirus GI"
/mol_type="genomic RNA"
/strain="CA-RGDS-1106"
/isolate="Hu/US/2014/GI.2[P2]/CA-RGDS-1106"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122928"
/geo_loc_name="USA"
/collection_date="18-Jun-2014"
/note="Amplicon sequencing: first 35 nt does represent
primer sequence;
genotype: GI.2[P2]"
gene 1..5367
/gene="ORF1"
CDS 1..5367
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QVK80300.1"
/translation="MMMASNDAVATNVASNNNANNTSATSRFLSRFKGLGGGASPPSP
IKIKSTEMALGLIGRTTPESTGTAGPPPKQQRDRPPRTQEEVQYGMGWSDRPIDQNVK
SWEELDTTVKEEILDNHKEWFDAGGLGPCTMPPTYERVRDDSPPGEQVKWSARDGVNI
GVERLTTVSGPEWNLCPLPPIDLRNMEPASEPTIGDMIEFYEGHIYHYSIYIGQGKTV
GVHSPQAAFSVARVTIQPIAAWWRVCYIPQPKHRLSYDQLKELENEPWPYAAITNNCF
EFCCQVMNLEDTWLQRRLVTSGRFHHPTQSWSQQTPEFQQDSKLELVRDAILAAVNGL
VSQPFKNFLGKLKPLNVLNILSNCDWTFMGVVEMVILLLELFGVFWNPPDVSNFIASL
LPDFHLQGPEDLARDLVPVILGGIGLAIGFTRDKVTKVMKSAVDGLRAATQLGQYGLE
IFSLLKKYFFGGDQTERTLKGIEAAVIDMEVLSSTSVTQLVRDKQAAKAYMNILDNEE
EKARKLSAKNADPHVISSTNALISRISMARSALAKAQAEMTSRMRPVVIMMCGPPGIG
KTKAAEHLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMTKIQDDCNK
LQAIADSAPLTLNCDRIENKGMQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVY
CSAPEVEQIRRVSPGDTSALKDCFKPDFSHLKMELAPQGGFDNQGNTPFGRGTMKPTT
INRLLIQAVALTMERQDEFQLQGKMYDFDDDRVSAFTTMARDNGLGILSMAGLGKKLR
GVTTMEGLKNALKGYKISACTIKWQAKVYSLESDGNSVNIKEERNILTQQQQSVCAAS
VALTRLRAARAVAYASCIQSAITSILQIAGSALVVNRAVKRMFGTRTATLSLEGPPRE
HKCRVHMAKAAGKGPIGHDDVVEKYGLCETEEDEEVAHTEIPSATMEGKNKGKNKKGR
GRKNNYNAFSRRGLNDEEYEEYKKIREEKGGNYSIQEYLEDRQRYEEELAEVQAGGDG
GIGETEMEIRHRVFYKSKSRKHHQEERRQLGLVTGSDIRKRKPIDWTPPKSAWADDDR
EVDYNEKISFEAPPTLWSRVTKFGSGWGFWVSSTVFITTTHVIPTSAKEFFGEPLTSI
AIHRAGEFTLFRFSKKIRPDLTGMILEEGCPEGTVCSVLIKRDSGELLPLAVRMGAIA
SMRIQGRLVHGQSGMLLTGANAKGMDLGTIPGDCGAPYVYKRANDWVVCGVHAAATKS
GNTVVCAVQASEGETTLEGGDKGHYAGHEIIKHGCGPALSTKTKFWKSSPEPLPPGVY
EPAYLGGRDPRVTGGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVTSSLEQVMD
TPVPWSYSDACQSLDKTTSSGFPYHRRKNDDWNGTTFIRELGEQAAHANNMYEQAKSM
KPMYTAALKDELVKPEKVYQKVKKRLLWGADLGTVVRAARAFGPFCDAIKSHTIKLPI
KVGMNSIEDGPLIYAEHSKYKYHFDADYTAWDSTQNRQIMTESFSIMCRLTASPELAS
VVAQDLLAPSEMDVGDYVIRVKEGLPSGFPCTSQVNSINHWLITLCALSEVTGLSPDV
IQSMSYFSFYGDDEIVSTDIEFDPAKLTQVLREYGLKPTRPDKSEGPIIVRKSVDGLV
FLRRTISRDAAGFQGRLDRASIERQIYWTRGPNHSDPFETLVPHQQRKVQLISLLGEA
SLHGEKFYRKISSKVIQEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFVN
DDGV"
mat_peptide 1..1197
/gene="ORF1"
/product="p48"
mat_peptide 1198..2286
/gene="ORF1"
/product="NTPase"
mat_peptide 2287..2883
/gene="ORF1"
/product="p22"
mat_peptide 2884..3297
/gene="ORF1"
/product="VPg"
mat_peptide 3298..3840
/gene="ORF1"
/product="Pro"
mat_peptide 3841..5364
/gene="ORF1"
/product="RdRp"
gene 5351..6991
/gene="ORF2"
CDS 5351..6991
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QVK80301.1"
/translation="MMMASKDAPQSADGASGAGQLVPEVNTADPLPMEPVAGPTTAVA
TAGQVNMIDPWIVNNFVQSPQGEFTISPNNTPGDILFDLQLGPHLNPFLSHLSQMYNG
WVGNMRVRILLAGNAFSAGKIIVCCVPPGFTSSSLTIAQATLFPHVIADVRTLEPIEM
PLEDVRNVLYHTNDNQPTMRLVCMLYTPLRTGGGSGSSDSFVVAGRVLTAPSSDFSFL
FLVPPTIEQKTRAFTVPNIPLQTLSNSRFPSLIQGMILSPDASQVVQFQNGRCLIDGQ
LLGTTPATSGQLFRVRGKINQGARTLNLTEVDGKPFMAFDSPAPVGFPDFGKCDWHMR
ISKTPNNTSSGDPMRSVSVQTNVQGFVPHLGSIQFDEVFNHPTGDYIGTIEWISQPST
PPGTDINLWEIPDYGSSLSQAANLAPPVFPPGFGEALVYFVSAFPGPNNRSAPNDVPC
LLPQEYITHFVSEQAPTMGDAALLHYVDPDTNRNLGEFKLYPGGYLTCVPNGVGAGPQ
QLPLNGVFLFVSWVSRFYQLKPVGTASTARGRLGVRRI"
gene 6991..7626
/gene="ORF3"
CDS 6991..7626
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QVK80302.1"
/translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQSQRYQQDLALQRN
TFEHDKDMLSYQVQASNALLAKNLNTRYSMLVAGGLSSADASRAVAGAPVTQLIDWNG
TRVAAPRSSATTLRSGGFMAVPMPVQPKSKALQSSGFSNPAYDVSTVSSRTSSWVQSQ
NSLRSVSPFHRQALQTVWVTPPGSTSSSSVSSTPYGVFNTDRMPLFANLRR"
ORIGIN
1 atgatgatgg cgtctaacga cgctgttgca actaatgttg caagcaacaa caatgctaac
61 aacactagtg ctacatctcg gtttctatcg agatttaagg gcttaggagg tggcgcaagc
121 ccccctagcc ctataaaaat caaaagtaca gaaatggctc tggggttaat tggcagaacg
181 accccagaat caacggggac cgctggtcca ccgcccaaac aacagaggga ccgacctcct
241 agaactcagg aggaggtcca gtatggtatg gggtggtccg acaggcccat tgatcagaac
301 gtcaaatcat gggaagagct tgacaccaca gttaaggaag agatcctaga caaccacaaa
361 gaatggtttg acgctggtgg tttgggccct tgcacaatgc ctccaacata tgaacgggtc
421 agggatgaca gtccacctgg tgaacaggtt aaatggtccg cacgtgatgg agtcaacatt
481 ggagtggaac gcctcacaac agtgagtggg cctgagtgga atctttgccc cttacccccc
541 attgatttga ggaacatgga accagctagt gaacccacta ttggagatat gatagaattc
601 tacgaaggcc acatctatca ttactccata tacattgggc aaggcaaaac agtcggcgtc
661 cattctccac aggcggcatt ttcagtggct agagtgacca tccagcccat agccgcttgg
721 tggagagttt gttacatacc ccaacccaag catagactga gttacgacca actcaaggaa
781 ctagagaatg agccatggcc atacgcggcc ataaccaata attgttttga attctgctgt
841 caagtcatga accttgagga cacgtggttg caaaggcgac tggtcacgtc gggcagattc
901 caccacccca cccagtcgtg gtcacagcag acccctgagt tccaacaaga tagcaagtta
961 gagttggtta gggacgccat attggctgca gtgaatggtc ttgtttcgca gccctttaag
1021 aacttcttgg gtaaactcaa acccctcaat gtgcttaaca tcctgtctaa ctgtgattgg
1081 accttcatgg gggtggtgga aatggtcata ctattacttg aactctttgg tgtgttctgg
1141 aacccgcctg atgtatccaa ttttatagcg tcccttcttc ctgatttcca tcttcaggga
1201 cctgaagact tggcacgaga tctagtccca gtgattcttg gtggtatagg cttagccatt
1261 gggttcacca gagacaaagt tacaaaggtc atgaagagtg ctgtggatgg tcttcgagct
1321 gccacacaac tgggacagta tggattagaa atattctcac tgctcaagaa gtacttcttt
1381 gggggggacc agactgagcg caccctcaaa ggcattgagg cagcagtcat agatatggag
1441 gtactgtcct ccacttcagt aacacagcta gtgagggaca aacaggcagc aaaggcctat
1501 atgaacatct tggacaatga agaagagaag gccaggaagc tctctgctaa aaacgctgac
1561 ccacatgtga tatcctcaac aaatgcccta atatcgcgca tatccatggc acgatctgca
1621 ttggccaagg cccaggctga gatgaccagt cgaatgcgac cagttgtcat catgatgtgt
1681 ggcccacctg ggattggtaa gaccaaggct gctgagcacc tagctaagcg tctagccaat
1741 gagatcagac caggtggtaa ggtggggttg gttccccgtg aagctgtcga ccactgggac
1801 ggttatcatg gtgaggaagt gatgctatgg gatgactatg gcatgacaaa aatacaagac
1861 gactgtaata aactccaggc cattgctgat tcggcccccc tcacattaaa ttgtgatagg
1921 attgaaaata aaggaatgca gttcgtttca gatgcaatag tcatcaccac caacgcccca
1981 ggccccgccc ctgtggactt tgtcaacctt ggaccagtgt gtagacgggt cgactttttg
2041 gtgtactgct ctgccccaga ggtggagcag atacggagag tcagccctgg cgacacatca
2101 gcactgaaag actgcttcaa gccagatttc tcacatttaa aaatggagct ggctccacaa
2161 ggtgggtttg ataatcaagg gaacacaccg tttggcaggg gcaccatgaa gccaacaacc
2221 attaatagac tcctcataca agccgtggcc cttaccatgg aaaggcagga tgagttccag
2281 ttgcagggga agatgtatga ctttgatgat gacagggtgt cagcgttcac caccatggca
2341 cgtgacaatg gcctgggcat cttgagcatg gcgggtctgg gtaagaagtt acgcggtgtc
2401 acaacgatgg agggcttgaa gaatgccctg aaggggtaca aaattagtgc gtgtacaata
2461 aaatggcagg ctaaagtgta ctcactagag tcagatggca acagtgtcaa cattaaagag
2521 gagaggaaca tcttaactca acaacaacag tcagtgtgtg ctgcctctgt cgcgctcact
2581 cgcctccggg ctgcgcgtgc ggtggcatac gcgtcatgca tccaatcggc tataacttct
2641 atactacaaa ttgctggctc agccctagtg gtcaacagag cagtgaagag aatgtttggc
2701 acgcgtactg ccaccctgtc ccttgagggc ccccccagag aacacaaatg cagggtccac
2761 atggccaagg ccgcaggaaa ggggcctatt ggccatgatg atgtggtaga aaagtatggg
2821 ctttgtgaaa ctgaggagga cgaagaagtg gcccacactg aaatcccttc tgccaccatg
2881 gagggcaaga ataaagggaa gaacaagaaa ggacgtggtc ggaagaacaa ctacaacgcc
2941 ttctcccgca ggggactcaa tgatgaagag tacgaagagt acaagaagat acgcgaggag
3001 aaaggtggca attatagcat acaggagtac ctagaggata ggcaaaggta tgaagaagaa
3061 ctagcagagg ttcaagcagg tggagatgga ggaatcgggg aaactgaaat ggaaatccgc
3121 cacagagtgt tctacaaatc taagagtaga aagcatcacc aggaagagcg acgccagcta
3181 gggctggtga caggttccga catccggaag agaaaaccaa ttgactggac cccacccaag
3241 tcagcatggg cagatgatga tcgtgaggtg gattataatg agaagatcag ttttgaggcg
3301 ccccccactt tatggagcag agtgacaaag tttgggtctg gatggggttt ctgggtcagc
3361 tctacagtct tcataaccac aacgcacgtc ataccaacca gtgcgaagga attctttggt
3421 gaacccctaa ccagcatagc catccacagg gctggtgagt tcactctatt caggttctca
3481 aagaaaatta ggcctgacct cacaggtatg atccttgagg agggttgccc cgagggcaca
3541 gtgtgttcag tactaataaa aagggactct ggtgaactac taccattggc tgtaagaatg
3601 ggcgcaatag catcaatgcg tatacagggc cgccttgtcc atgggcagtc cggcatgttg
3661 ctcaccgggg ctaatgctaa gggcatggac cttggaacca tcccaggaga ctgtggggct
3721 ccttatgtct ataagagagc caacgactgg gtggtctgtg gtgtacacgc tgctgccacc
3781 aaatcaggca acaccgttgt gtgcgccgtt caggccagtg aaggagaaac cacgcttgaa
3841 ggcggtgaca aaggtcacta tgctggacat gaaataatta agcatggttg tggaccagcc
3901 ctgtcaacca aaaccaaatt ctggaaatca tcccccgaac cactaccccc tggggtctat
3961 gaacctgcct acctcggggg ccgggaccct agagtaactg gcggtccctc actccaacag
4021 gtgttgcggg accaattaaa gccatttgct gagccacgag gacgcatgcc agagccaggt
4081 ctcttggagg ccgcagttga gactgtgact tcatcattag agcaggttat ggacactccc
4141 gttccttgga gctatagtga tgcgtgccaa tcccttgata agaccactag ttctggtttt
4201 ccctaccaca gaaggaagaa tgacgactgg aatggcacca cctttatcag ggagttaggg
4261 gagcaggcag cacacgctaa taacatgtat gaacaggcta aaagtatgaa acccatgtac
4321 acggcagcgc ttaaagatga actagtcaaa ccagagaagg tataccaaaa agtgaagaag
4381 cgcttgttat ggggggcaga cttgggcacg gtagttcggg ccgcgcgggc ttttggtcca
4441 ttctgtgatg ctataaagtc ccacacaatc aaattgccca ttaaagttgg aatgaattca
4501 attgaggatg ggccactgat ctatgcagaa cattcaaagt ataagtacca ttttgatgca
4561 gattacacag cttgggattc aactcaaaat agacaaatca tgacagagtc attctcaatc
4621 atgtgtcggc taactgcatc acctgaacta gcttcagtgg tggctcaaga tttgcttgca
4681 ccctcagaga tggatgttgg cgactatgtc ataagagtga aggaaggcct cccatctggt
4741 tttccgtgta catcacaggt taatagtata aaccattggt taataactct gtgtgccctt
4801 tctgaagtaa ctggtctgtc gccagatgtc atccagtcca tgtcatattt ctctttctat
4861 ggtgatgatg aaatagtgtc aactgacata gaatttgacc cagcaaaact gacacaagtc
4921 ctcagagagt atggacttaa acccacccgc cccgacaaaa gcgagggccc aataattgtg
4981 aggaagagtg tggatggttt ggtctttttg cgtcgcacta tctcccgcga cgccgcagga
5041 ttccaggggc gactggaccg ggcatccatt gaaagacaaa tctactggac tagaggaccc
5101 aaccattcag accctttcga gaccctggtg ccacaccaac aaaggaaggt ccaactaata
5161 tcattattgg gtgaggcctc actgcatggt gaaaagtttt acaggaagat ttcaagtaaa
5221 gtcatccagg aaattaaaac agggggcctt gaaatgtatg tgccaggatg gcaagccatg
5281 ttccgttgga tgcggttcca tgaccttggt ttgtggacag gagatcgcaa tctcctgccc
5341 gaatttgtaa atgatgatgg cgtctaagga cgcccctcaa agcgctgatg gcgcaagcgg
5401 cgcaggtcaa ctggtgccgg aggttaatac agctgacccc ttacccatgg aacctgtggc
5461 tgggccaaca acagccgtag ccactgctgg gcaagttaat atgattgatc cctggattgt
5521 taataatttt gtccagtcac ctcaaggtga gttcacaatc tctcctaaca atacccccgg
5581 tgatattttg tttgatttac aattaggtcc acatctaaac cctttcttgt cacatttgtc
5641 ccaaatgtat aatggctggg ttgggaacat gagagtcaga attctccttg ctgggaatgc
5701 attctcagct ggaaagatta tagtttgttg tgtcccccct ggctttacat cttcttctct
5761 caccatagct caggctacat tgtttcccca tgtaattgct gatgtgagaa cccttgagcc
5821 aatagaaatg cccctcgagg atgtacgcaa tgtcctctat cacaccaatg ataatcaacc
5881 aacaatgcgg ctggtgtgta tgctatacac gccgctccgc actggtgggg ggtctggtag
5941 ttctgattcc tttgtagttg ctggcagggt cctcacagcc cctagtagcg acttcagttt
6001 cttgttcctt gtcccgccta ccatagagca gaagactcgg gctttcactg tgcctaatat
6061 ccccttgcaa accttgtcca attctaggtt tccttccctc atccagggga tgattctgtc
6121 ccccgatgca tctcaagtgg tccaattcca aaatgggcgt tgcctcatag atggccaact
6181 cttaggcact acacccgcta catcaggaca gctgttcaga gtgagaggaa agataaatca
6241 gggagcccgc acactcaacc tcacagaggt ggatggtaaa ccattcatgg catttgattc
6301 ccctgcacct gtggggttcc ccgattttgg aaaatgtgat tggcatatga gaatcagcaa
6361 aaccccaaac aacacaagtt caggtgaccc catgcgcagt gtcagcgtgc aaaccaatgt
6421 gcagggtttt gtgccacacc tgggaagtat acaatttgat gaagtgttta atcatcccac
6481 aggtgactac attggcacca ttgaatggat ttcccagcca tctacacccc ctggaacaga
6541 tattaatctg tgggagatcc ccgattatgg atcatccctt tcccaagcag ctaatctggc
6601 ccccccagta ttcccccctg gatttggtga ggcccttgta tactttgttt ctgctttccc
6661 gggccccaat aaccgctcag ccccgaatga tgtaccctgt cttctccctc aagagtatat
6721 aacccacttt gtcagtgaac aagccccaac gatgggtgac gcagctttac tgcattatgt
6781 cgaccctgat accaacagga accttgggga gttcaagcta taccctggag gttacctcac
6841 ctgtgtacca aacggggtag gtgccgggcc tcaacagctc cctctcaatg gtgtttttct
6901 ctttgtttct tgggtgtctc gtttttacca gcttaagcct gtgggaacag ccagtacggc
6961 aagaggtagg cttggagtac gccgtatata atggcccaag ccattatagg agcaattgcc
7021 gcgtcagctg caggctcagc attgggtgcg ggcatccagg ctggtgccga ggctgcgctt
7081 cagagtcaaa gataccaaca agacttagcc ctgcaaagga atacttttga acatgataag
7141 gatatgcttt cctaccaggt ccaggcaagt aatgcacttt tggcaaagaa tctcaatacc
7201 cgctattcta tgcttgttgc agggggtctt tctagtgctg atgcttctcg ggctgttgct
7261 ggggcccctg tgacacaatt gattgattgg aacggcactc gggttgccgc ccccaggtca
7321 agtgcaacaa ctctgaggtc tggtggtttc atggcagtcc ccatgcctgt tcaacccaaa
7381 tctaaggccc tgcaatcctc tgggttttct aatcctgctt atgacgtgtc cacagtttct
7441 tctaggactt cttcttgggt gcagtcacag aattcactac gaagtgtatc accctttcat
7501 aggcaggccc ttcaaactgt atgggttact ccacctgggt ctacttcctc ttcttctgtt
7561 tcctcaacac cttatggtgt ttttaatacg gataggatgc cgctattcgc aaatttgcgg
7621 cgttaatgtt gtaatataat gcagcagtgg gcactatatt caatttggtt taattagtga
7681 ataatttg
//