Typing tool
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Typing tool
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Complete norovirus genomes
| MZ223426 | GI.2 | |
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| GI.P2 |
ORF1: 5..5371
ORF2: 5355..6995
ORF3: 6995..7630
LOCUS MZ223426 7703 bp RNA linear VRL 23-MAY-2021
DEFINITION Norovirus GI isolate Hu/US/2014/GI.2[P2]/CA-RGDS-1105, complete
genome.
ACCESSION MZ223426
VERSION MZ223426.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7703)
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 (17-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..7703
/organism="Norovirus GI"
/mol_type="genomic RNA"
/strain="CA-RGDS-1105"
/isolate="Hu/US/2014/GI.2[P2]/CA-RGDS-1105"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122928"
/country="USA"
/collection_date="18-Jun-2014"
/note="Amplicon sequencing: first 35 nt does represent
primer sequence;
genotype: GI.2[P2]"
gene 5..5371
/gene="ORF1"
CDS 5..5371
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QVK80303.1"
/translation="MMMASNDAIATNVASNNNANNTSATSRFLSRFKGLGGGASPPSP
IKIKSTEMALGLIGRTTPESTGTAGPPPKQQRDRPPRTQEEVQYGMGWSDRPIDQNVK
SWEELDTTVKEEILDNHKEWFDAGGLGPCTMPPTYERVRDDSPPGEQVKWSARDGVNI
GVERLTTVSGPEWNLCPLPPIDLRNMEPASEPTIGDMIEFYEGHIYHYSIYIGQGKTV
GVHSPQAAFSVARVTIQPIAAWWRVCYIPQPKHRLSYDQLKELENEPWPYAAITNNCF
EFCCQVMNLEDTWLQRRLVTSGRFHHPTQSWSQQTPEFQQDSKLELVRDAILAAVNGL
VSQPFKNFLGKLKPLNVLNILSNCDWTFMGVVEMVILLLELFGVFWNPPDVSNFIASL
LPDFHLQGPEDLARDLVPVILGGIGLAIGFTRDKVTKVMKSAVDGLRAATQLGQYGLE
IFSLLKKYFFGGDQTERTLKGIEAAVIDMEVLSSTSVTQLVRDKQAAKAYMNILDNEE
EKARKLSAKNADPHVISSTNALISRISMARSALAKAQAEMTSRMRPVVIMMCGPPGIG
KTKAAEHLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMTKIQDDCNK
LQAIADSAPLTLNCDRIENKGMQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVY
CSAPEVEQIRRVSPGDTSALKDCFKPDFSHLKMELAPQGGFDNQGNTPVGRGTMKPTT
INRLLIQAVALTMERQDEFQLQGKMYDFDDDRVSAFTTMARDNGLGILSMAGLGKKLR
GVTTMEGLKNALKGYKISACTIKWQAKVYSLESDGNSVNIKEERNILTQQQQSVCAAS
VALTRLRAARAVAYASCIQSAITSILQIAGSALVVNRAVKRMFGTRTATLSLEGPPRE
HKCRVHMAKAAGKGPIGHDDVVEKYGLCETEEDEEVAHTEIPSATMEGKNKGKNKKGR
GRKNNYNAFSRRGLNDEEYEEYKKIREEKGGNYSIQEYLEDRQRYEEELAEVQAGGDG
GIGETEMEIRHRVFYKSKSRKHHQEERRQLGLVTGSDIRKRKPIDWTPPKSAWADDDR
EVDYNEKISFEAPPTLWSRVTKFGSGWGFWVSSTVFITTTHVIPTSAKEFFGEPLTSI
AIHRAGEFTLFRFSKKIRPDLTGMILEEGCPEGTVCSVLIKRDSGELLPLAVRMGAIA
SMRIQGRLVHGQSGMLLTGANAKGMDLGTIPGDCGAPYVYKRANDWVVCGVHAAATKS
GNTVVCAVQASEGETTLEGGDKGHYAGHEIIKHGCGPALSTKTKFWKSSPEPLPPGVY
EPAYLGGRDPRVTGGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVTSSLEQVMD
TPVPWSYSDACQSLDKTTSSGFPYHRRKNDDWNGTTFIRELGEQAAHANNMYEQAKSM
KPMYTAALKDELVKPEKVYQKVKKRLLWGADLGTVVRAARAFGPFCDAIKSHTIKLPI
KVGMNSIEDGPLIYAEHSKYKYHFDADYTAWDSTQNRQIMTESFSIMCRLTASPELAS
VVAQDLLAPSEMDVGDHVIRVKEGLPSGFPCTSQVNSINHWLITLCALSEVTGLSPDV
IQSMSYFSFYGDDEIVSTDIEFDPAKLTQVLREYGLKPTRPDKSEGPIIVRKSVDGLV
FLRRTISRDAAGFQGRLDRASIERQIYWTRGPNHSDPFETLVPHQQRKVQLISLLGEA
SLHGEKFYRKISSKVIQEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFVN
DDGV"
mat_peptide 5..1201
/gene="ORF1"
/product="p48"
mat_peptide 1202..2290
/gene="ORF1"
/product="NTPase"
mat_peptide 2291..2887
/gene="ORF1"
/product="p22"
mat_peptide 2888..3301
/gene="ORF1"
/product="VPg"
mat_peptide 3302..3844
/gene="ORF1"
/product="Pro"
mat_peptide 3845..5368
/gene="ORF1"
/product="RdRp"
gene 5355..6995
/gene="ORF2"
CDS 5355..6995
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QVK80304.1"
/translation="MMMASKDAPQSADGASGAGQLVPEVNTADPLPMEPVAGPTTAVA
TAGQVNMIDPWIVNNFVQSPQGEFTISPNNTPGDILFDLQLGPHLNPFLSHLSQMYNG
WVGNMRVRILLAGNAFSAGKIIVCCVPPGFTSSSLTIAQATLFPHVIADVRTLEPIEM
PLEDVRNVLYHTNDNQPTMRLVCMLYTPLRTGGGSGSSDSFVVAGRVLTAPSSDFSFL
FLVPPTIEQKTRAFTVPNIPLQTLSNSRFPSLIQGMILSPDASQVVQFQNGRCLIDGQ
LLGTTPATSGQLFRVRGKINQGARTLNLTEVDGKPFMAFDSPAPVGFPDFGKCDWHMR
ISKTPNNTSSGDPMRSVSVQTNVQGFVPHLGSIQFDEVFNHPTGDYIGTIEWISQPST
PPGTDINLWEIPDYGSSLSQAANLAPPVFPPGFGEALVYFVSAFPGPNNRSAPNDVPC
LLPQEYITHFVSEQAPTMGDAALLHYVDPDTNRNLGEFKLYPGGYLTCVPNGVGAGPQ
QLPLNGVFLFVSWVSRFYQLKPVGTASTARGRLGVRRI"
gene 6995..7630
/gene="ORF3"
CDS 6995..7630
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QVK80305.1"
/translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQSQRYQQDLALQRN
TFEHDKDMLSYQVQASNALLAKNLNTRYSMLVAGGLSSADASRAVAGAPVTQLIDWNG
TRVAAPRSSATTLRSGGFMAVPMPVQPKSKALQSSGFSNPAYDVSTVSSRTSSWVQSQ
NSLRSVSPFHRQALQTVWVTPPGSTSSSSVSSTPYGVFNTDRMPLFANLRR"
ORIGIN
1 gtgaatgatg atggcgtcta acgacgctat tgcaactaat gttgcaagca acaacaatgc
61 taacaacact agtgctacat ctcggtttct atcgagattt aagggcttag gaggtggcgc
121 aagcccccct agccctataa aaatcaaaag tacagaaatg gctctggggt taattggcag
181 aacgacccca gaatcaacgg ggaccgctgg tccaccgccc aaacaacaga gggaccgacc
241 tcctagaact caggaggagg tccagtatgg tatggggtgg tccgacaggc ccattgatca
301 gaacgtcaaa tcatgggaag agcttgacac cacagttaag gaagagatcc tagacaacca
361 caaagaatgg tttgacgctg gtggtttggg cccttgcaca atgcctccaa catatgaacg
421 ggtcagggat gacagtccac ctggtgaaca ggttaaatgg tccgcacgtg atggagtcaa
481 cattggagtg gaacgcctca caacagtgag tgggcctgag tggaatcttt gccccttacc
541 ccccattgat ttgaggaaca tggaaccagc tagtgaaccc actattggag atatgataga
601 attctacgaa ggccacatct atcattactc catatacatt gggcaaggca aaacagtcgg
661 cgtccattct ccacaggcgg cattttcagt ggctagagtg accatccagc ccatagccgc
721 ttggtggaga gtttgttaca taccccaacc caagcataga ctgagttacg accaactcaa
781 ggaactagag aatgagccat ggccatacgc ggccataacc aataattgtt ttgaattctg
841 ctgtcaagtc atgaaccttg aggacacgtg gttgcaaagg cgactggtca cgtcgggcag
901 attccaccac cccacccagt cgtggtcaca gcagacccct gagttccaac aagatagcaa
961 gttagagttg gttagggacg ccatattggc tgcagtgaat ggtcttgttt cgcagccctt
1021 taagaacttc ttgggtaaac tcaaacccct caatgtgctt aacatcctgt ctaactgtga
1081 ttggaccttc atgggggtgg tggaaatggt catactatta cttgaactct ttggtgtgtt
1141 ctggaacccg cctgatgtat ccaattttat agcgtccctt cttcctgatt tccatcttca
1201 gggacctgaa gacttggcac gagatctagt cccagtgatt cttggtggta taggcttagc
1261 cattgggttc accagagaca aagttacaaa ggtcatgaag agtgctgtgg atggtcttcg
1321 agctgccaca caactgggac agtatggatt agaaatattc tcactgctca agaagtactt
1381 ctttgggggg gaccagactg agcgcaccct caaaggcatt gaggcagcag tcatagatat
1441 ggaggtactg tcctccactt cagtaacaca gctagtgagg gacaaacagg cagcaaaggc
1501 ctatatgaac atcttggaca atgaagaaga gaaggccagg aagctctctg ctaaaaacgc
1561 tgacccacat gtgatatcct caacaaatgc cctaatatcg cgcatatcca tggcacgatc
1621 tgcattggcc aaggcccagg ctgagatgac cagtcgaatg cgaccagttg tcatcatgat
1681 gtgtggccca cctgggattg gtaagaccaa ggctgctgag cacctagcta agcgtctagc
1741 caatgagatc agaccaggtg gtaaggtggg gttggttccc cgtgaagctg tcgaccactg
1801 ggacggttat catggtgagg aagtgatgct atgggatgac tatggcatga caaaaataca
1861 agacgactgt aataaactcc aggccattgc tgattcggcc cccctcacat taaattgtga
1921 taggattgaa aataaaggaa tgcagttcgt ttcagatgca atagtcatca ccaccaacgc
1981 cccaggcccc gcccctgtgg actttgtcaa ccttggacca gtgtgtagac gggtcgactt
2041 tttggtgtac tgctctgccc cagaggtgga gcagatacgg agagtcagcc ctggcgacac
2101 atcagcactg aaagactgct tcaagccaga tttctcacat ttaaaaatgg agctggctcc
2161 acaaggtggg tttgataatc aagggaacac accggttggc aggggcacca tgaagccaac
2221 aaccattaat agactcctca tacaagccgt ggcccttacc atggaaaggc aggatgagtt
2281 ccagttgcag gggaagatgt atgactttga tgatgacagg gtgtcagcgt tcaccaccat
2341 ggcacgtgac aatggcctgg gcatcttgag catggcgggt ctgggtaaga agttacgcgg
2401 tgtcacaacg atggagggct tgaagaatgc cctgaagggg tacaaaatta gtgcgtgtac
2461 aataaaatgg caggctaaag tgtactcact agagtcagat ggcaacagtg tcaacattaa
2521 agaggagagg aacatcttaa ctcaacaaca acagtcagtg tgtgctgcct ctgtcgcgct
2581 cactcgcctc cgggctgcgc gtgcggtggc atacgcgtca tgcatccaat cggctataac
2641 ttctatacta caaattgctg gctcagccct agtggtcaac agagcagtga agagaatgtt
2701 tggcacgcgt actgccaccc tgtcccttga gggccccccc agagaacaca aatgcagggt
2761 ccacatggcc aaggccgcag gaaaggggcc tattggccat gatgatgtgg tagaaaagta
2821 tgggctttgt gaaactgagg aggacgaaga agtggcccac actgaaatcc cttctgccac
2881 catggagggc aagaataaag ggaagaacaa gaaaggacgt ggtcggaaga acaactacaa
2941 cgccttctcc cgcaggggac tcaatgatga agagtacgaa gagtacaaga agatacgcga
3001 ggagaaaggt ggcaattata gcatacagga gtacctagag gataggcaaa ggtatgaaga
3061 agaactagca gaggttcaag caggtggaga tggaggaatc ggggaaactg aaatggaaat
3121 ccgccacaga gtgttctaca aatctaagag tagaaagcat caccaggaag agcgacgcca
3181 gctagggctg gtgacaggtt ccgacatccg gaagagaaaa ccaattgact ggaccccacc
3241 caagtcagca tgggcagatg atgatcgtga ggtggattat aatgagaaga tcagttttga
3301 ggcgcccccc actttatgga gcagagtgac aaagtttggg tctggatggg gtttctgggt
3361 cagctctaca gtcttcataa ccacaacgca cgtcatacca accagtgcga aggaattctt
3421 tggtgaaccc ctaaccagca tagccatcca cagggctggt gagttcactc tattcaggtt
3481 ctcaaagaaa attaggcctg acctcacagg tatgatcctt gaggagggtt gccccgaggg
3541 cacagtgtgt tcagtactaa taaaaaggga ctctggtgaa ctactaccat tggctgtaag
3601 aatgggcgca atagcatcaa tgcgtataca gggccgcctt gtccatgggc agtccggcat
3661 gttgctcacc ggggctaatg ctaagggcat ggaccttgga accatcccag gagactgtgg
3721 ggctccttat gtctataaga gagccaacga ctgggtggtc tgtggtgtac acgctgctgc
3781 caccaaatca ggcaacaccg ttgtgtgcgc cgttcaggcc agtgaaggag aaaccacgct
3841 tgaaggcggt gacaaaggtc actatgctgg acatgaaata attaagcatg gttgtggacc
3901 agccctgtca accaaaacca aattctggaa atcatccccc gaaccactac cccctggggt
3961 ctatgaacct gcctacctcg ggggccggga ccctagagta actggcggtc cctcactcca
4021 acaggtgttg cgggaccaat taaagccatt tgctgagcca cgaggacgca tgccagagcc
4081 aggtctcttg gaggccgcag ttgagactgt gacttcatca ttagagcagg ttatggacac
4141 tcccgttcct tggagctata gtgatgcgtg ccaatccctt gataagacca ctagttctgg
4201 ttttccctac cacagaagga agaatgacga ctggaatggc accaccttta tcagggagtt
4261 aggggagcag gcagcacacg ctaataacat gtatgaacag gctaaaagta tgaaacccat
4321 gtacacggca gcgcttaaag atgaactagt caaaccagag aaggtatacc aaaaagtgaa
4381 gaagcgcttg ttatgggggg cagacttggg cacggtagtt cgggccgcgc gggcttttgg
4441 tccattctgt gatgctataa agtcccacac aatcaaattg cccattaaag ttggaatgaa
4501 ttcaattgag gatgggccac tgatctatgc agaacattca aagtataagt accattttga
4561 tgcagattac acagcttggg attcaactca aaatagacaa atcatgacag agtcattctc
4621 aatcatgtgt cggctaactg catcacctga actagcttca gtggtggctc aagatttgct
4681 tgcaccctca gagatggatg ttggcgacca tgtcataaga gtgaaggaag gcctcccatc
4741 tggttttccg tgtacatcac aggttaatag tataaaccat tggttaataa ctctgtgtgc
4801 cctttctgaa gtaactggtc tgtcgccaga tgtcatccag tccatgtcat atttctcttt
4861 ctatggtgat gatgaaatag tgtcaactga catagaattt gacccagcaa aactgacaca
4921 agtcctcaga gagtatggac ttaaacccac ccgccccgac aaaagcgagg gcccaataat
4981 tgtgaggaag agtgtggatg gtttggtctt tttgcgtcgc actatctccc gcgacgccgc
5041 aggattccag gggcgactgg accgggcatc cattgaaaga caaatctact ggactagagg
5101 acccaaccat tcagaccctt tcgagaccct ggtgccacac caacaaagga aggtccaact
5161 aatatcatta ttgggtgagg cctcactgca tggtgaaaag ttttacagga agatttcaag
5221 taaagtcatc caggaaatta aaacaggggg ccttgaaatg tatgtgccag gatggcaagc
5281 catgttccgt tggatgcggt tccatgacct tggtttgtgg acaggagatc gcaatctcct
5341 gcccgaattt gtaaatgatg atggcgtcta aggacgcccc tcaaagcgct gatggcgcaa
5401 gcggcgcagg tcaactggtg ccggaggtta atacagctga ccccttaccc atggaacctg
5461 tggctgggcc aacaacagcc gtagccactg ctgggcaagt taatatgatt gatccctgga
5521 ttgttaataa ttttgtccag tcacctcaag gtgagttcac aatctctcct aacaataccc
5581 ccggtgatat tttgtttgat ttacaattag gtccacatct aaaccctttc ttgtcacatt
5641 tgtcccaaat gtataatggc tgggttggga acatgagagt cagaattctc cttgctggga
5701 atgcattctc agctggaaag attatagttt gttgtgtccc ccctggcttt acatcttctt
5761 ctctcaccat agctcaggct acattgtttc cccatgtaat tgctgatgtg agaacccttg
5821 agccaataga aatgcccctc gaggatgtac gcaatgtcct ctatcacacc aatgataatc
5881 aaccaacaat gcggctggtg tgtatgctat acacgccgct ccgcactggt ggggggtctg
5941 gtagttctga ttcctttgta gttgctggca gggtcctcac agcccctagt agcgacttca
6001 gtttcttgtt ccttgtcccg cctaccatag agcagaagac tcgggctttc actgtgccta
6061 atatcccctt gcaaaccttg tccaattcta ggtttccttc cctcatccag gggatgattc
6121 tgtcccccga tgcatctcaa gtggtccaat tccaaaatgg gcgttgcctc atagatggcc
6181 aactcttagg cactacaccc gctacatcag gacagctgtt cagagtgaga ggaaagataa
6241 atcagggagc ccgcacactc aacctcacag aggtggatgg taaaccattc atggcatttg
6301 attcccctgc acctgtgggg ttccccgatt ttggaaaatg tgattggcat atgagaatca
6361 gcaaaacccc aaacaacaca agttcaggtg accccatgcg cagtgtcagc gtgcaaacca
6421 atgtgcaggg ttttgtgcca cacctgggaa gtatacaatt tgatgaagtg tttaatcatc
6481 ccacaggtga ctacattggc accattgaat ggatttccca gccatctaca ccccctggaa
6541 cagatattaa tctgtgggag atccccgatt atggatcatc cctttcccaa gcagctaatc
6601 tggccccccc agtattcccc cctggatttg gtgaggccct tgtatacttt gtttctgctt
6661 tcccgggccc caataaccgc tcagccccga atgatgtacc ctgtcttctc cctcaagagt
6721 atataaccca ctttgtcagt gaacaagccc caacgatggg tgacgcagct ttactgcatt
6781 atgtcgaccc tgataccaac aggaaccttg gggagttcaa gctataccct ggaggttacc
6841 tcacctgtgt accaaacggg gtaggtgccg ggcctcaaca gctccctctc aatggtgttt
6901 ttctctttgt ttcttgggtg tctcgttttt accagcttaa gcctgtggga acagccagta
6961 cggcaagagg taggcttgga gtacgccgta tataatggcc caagccatta taggagcaat
7021 tgccgcgtca gctgcaggct cagcattggg tgcgggcatc caggctggtg ccgaggctgc
7081 gcttcagagt caaagatacc aacaagactt agccctgcaa aggaatactt ttgaacatga
7141 taaggatatg ctttcctacc aggtccaggc aagtaatgca cttttggcaa agaatctcaa
7201 tacccgctat tctatgcttg ttgcaggggg tctttctagt gctgatgctt ctcgggctgt
7261 tgctggggcc cctgtgacac aattgattga ttggaacggc actcgggttg ccgcccccag
7321 gtcaagtgca acaactctga ggtctggtgg tttcatggca gtccccatgc ctgttcaacc
7381 caaatctaag gccctgcaat cctctgggtt ttctaatcct gcttatgacg tgtccacagt
7441 ttcttctagg acttcttctt gggtgcagtc acagaattca ctacgaagtg tatcaccctt
7501 tcataggcag gcccttcaaa ctgtatgggt tactccacct gggtctactt cctcttcttc
7561 tgtttcctca acaccttatg gtgtttttaa tacggatagg atgccgctat tcgcaaattt
7621 gcggcgttaa tgttgtaata taatgcagca gtgggcacta tattcaattt ggtttaatta
7681 gtgaataatt tggctattga tta
//