Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MZ229330 | GI.4 | |
|
|---|---|---|---|
| GI.P4 |
ORF1: 1..5358
ORF2: 5342..6976
ORF3: 6976..7611
LOCUS MZ229330 7710 bp RNA linear VRL 24-MAY-2021
DEFINITION Norovirus GI isolate Hu/US/2012/GI.4[P4]/CA-RGDS-1107 nonstructural
polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MZ229330
VERSION MZ229330.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7710)
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..7710
/organism="Norovirus GI"
/mol_type="genomic RNA"
/strain="CA-RGDS-1107"
/isolate="Hu/US/2012/GI.4[P4]/CA-RGDS-1107"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122928"
/country="USA"
/collection_date="04-May-2012"
/note="Amplicon sequencing: first 31 nt does represent
primer sequence;
genotype: GI.4[P4]"
gene 1..5358
/gene="ORF1"
CDS 1..5358
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QVL21746.1"
/translation="MMMASNDAIAATAASAENTSDNSDSIKNRFFTKLKNLGSNNKPI
KIENTHMALNLISRGPSPIPQDKPPKDQRDKPPRNVAETQQAMGWIDPPMDQNLPTWE
ELSQTEKQEILKNNSNWFDAGGLAPASIPTGYVKNTEQQPPDHQVKWSASNGVDLGVG
NLTTVPGPAWNLCPMPPIDQRNNGPAKEPLIGDMIEFYEGHIYHYAIYIGQGKTVGVH
SPQAAFSIARITIHPIAAWWRVCYVPTPDQRLNYDQLKELENEPWPYAAVTNNCYEFC
CRILNLQDSWLERRLVTSGRFNHPAQDWSRDTPDFQQDSKLEIVRDAVLAAINGLVSK
PFKDLLNKLKPLNVLNLLSNCDWTFMGVVETIILLMELFGIFWNPPDVSSFIASLLPD
MHLQGPEDLAKDLIPLVLGGVGLAIGFTKDKVTKVMKSAVEGLRAATQLGQYGLEIFA
VLKKYFFGGDQTEKTLKDIETAVIDMEVISTTAVTQLVRDKQAARTYMNILDAEEEKA
RKLSVRHADPHVVSTTNALISRISLARSALAKAQAEMTNRVKPVVIMMCGPPGIGKTK
AAEYLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMSKIADDCNKLQA
IADTAPLTLNCDRIEKKGLQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVYCTA
PDVEQTRRTNPGDTGALKDCFKSDFSHLKMELAPQGGFDNQGNTPFGKGTMRPTTLNR
LLIQAVALTMERQDEFQMQGQVYDFDADRISAFTSLARANGLGLISMASLGKKLRGVD
SVHGLKNALSGYTITPCSIKWQARVYDIESDGTNVRIKENTSAQTQRQQSIDTAALAL
TRLKAARAAAYAACIQSAITTILQMAGSAIVINRAVKRMFGAHSSTIALEGPPREHRC
RAHLAKAAGGGPIGHDDVIDKYGLCETEEEGTSEEINVELPTATSEGKNKGKTKKGRG
RRANYNAFSRRGLSDEEYEEYKKIREEKNGNYSIQEYLEDRQRYEEELAEVQAGGDGG
IGETEMEIRHKIFYKSKKGRQNERRQLGLVTGSDIRKRKPIDWTPPKNDWADDNREVD
YNEKLSFEAPPTLWSRVVRFGSGWGFWVSPTVFITTTHVIPSGAREFFGEPIESIAIH
RAGEFTQFRFSHKVRPDLTGMVLEEGCPEGVVCSILIKRDSGELLPLAVRMGAIASMK
IQGRLVHGQSGMLLTGANAKGMDLGTLPGDCGAPYVYKRNNDWVVCGVHAAATKSGNT
VVCAVQAGEGETTLEGGDKGHYAGHEIIKHSKGPALSTKTKFWRSTPEPLPPGVYEPA
YLGGRDPRVKGGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVTSMLEQTMDTPT
PWSFSDACQSLDKTTSSGHPYHKRKNDDWNGTSFVGELGEQAAHANNMYELGKSMKPL
YTAALKDELVKPEKVYQKIKKRLLWGADLSTVIRAARAFGPFCDAIKPHVIKLPIKVG
MNSIEDGPMIYAEHAKYKNHFDADYSAWDSTQNRQIMTESFAIMCRLTASPELASVVA
KDLLAPSEMDVGDYIIRVKEGLPSGFPCTSQVNSINHWLITLCAMSEVTGLSPDVIQS
QSYFSFYGDDEIVSTDIDFDPARLTQVLKEYGLRPTRPDKSEGPIILRRQVDGLVFLR
RTISKDAAGFQGRLDRGSIERQLWWTRGPNHDDPSETLIPHPQRKVQLISLLGEASLH
GEKFYRKISSKVIQEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFVNDDG
V"
mat_peptide 1..1188
/gene="ORF1"
/product="p48"
mat_peptide 1189..2277
/gene="ORF1"
/product="NTPase"
mat_peptide 2278..2880
/gene="ORF1"
/product="p22"
mat_peptide 2881..3288
/gene="ORF1"
/product="VPg"
mat_peptide 3289..3831
/gene="ORF1"
/product="Pro"
mat_peptide 3832..5355
/gene="ORF1"
/product="RdRp"
gene 5342..6976
/gene="ORF2"
CDS 5342..6976
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QVL21747.1"
/translation="MMMASNDAIPSADGATGAGQLVPEVNTADPIPIDPVAGSSTALA
TAGQVNLIDPWIINNFVQAPQGEFTISPNNTPGDVLFDLQLGPHLNPFLSHLSQMYNG
WVGNMRVRVVLAGNAFTAGKVIICCVPPGFQSRTLSIAQATLFPHVIADVRTLDPVEV
PLEDVRNVLYHNNDTQPTMRLLCMLYTPLRTGGASGGTDSFVVAGRVLTCPGPDFNFL
FLVPPTVEQKTRPFTVPNIPLKYLSNSRIPNPIEGMSLSPDQTQNVQFQNGRCTIDGQ
PLGTTPVSVSQLCKFRGRITSGQRVLNLTELDGSPFMAFAAPAPAGFPDLGSCDWHIE
MSKIPNSSTQNNPIVVNSVKPNSQQFVPHLSSITLDDNVSSGGDYIGTLQWTSPPSDS
GGANTNFWKIPDYGSSLAEASQLAPAVYPPGFNEVIVYFMASIPGPNQSGSPNLVPCL
LPQEYITHFISEQAPIQGEAALLHYVDPDTNRNLGEFKLYPGGYLTCVPNSSSTGPQQ
LPLDGVFVFASWVSRFYQLKPVGTAGPARGRLGVRR"
gene 6976..7611
/gene="ORF3"
CDS 6976..7611
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QVL21748.1"
/translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQAQRYQQDLTLQQN
SFNHDKEMLGYQVEMSNKLLAKNLNTRYSLLQAGGLSPSDAARAVAGAPVTRLVDWGG
VRVAAPQSSATTLRSGNFMAVPLPAQPKQKPLASEGYSNPAYDPMQRTASWVQSQNSS
RNWSPYHRQALQTVWVTPPGSTSSSSISSVSTAPRGYFNTDRLPLFANLRR"
ORIGIN
1 atgatgatgg cgtctaacga cgctattgca gctactgctg ctagtgctga aaacactagt
61 gacaatagtg attctataaa gaaccgtttc ttcacaaagt tgaagaattt aggttctaac
121 aataagccta taaaaattga gaacacccac atggccctta acttaattag taggggtcca
181 tctccaattc cacaagataa gccccctaaa gaccagaggg ataaaccccc aaggaatgtg
241 gctgagaccc agcaggcaat gggatggatt gaccccccca tggaccagaa tctaccaacc
301 tgggaggagt tgagccaaac agaaaaacaa gagatactca agaacaattc aaactggttt
361 gatgctggtg gtttggcacc agctagcatc cctactggtt atgtgaagaa tacagagcaa
421 caaccccctg accaccaagt caagtggagt gccagtaatg gggttgatct tggggtaggc
481 aatctaacaa ctgtgccagg tccagcatgg aatctgtgcc ccatgccacc aattgaccaa
541 cgcaataatg gtccagcaaa ggaaccactt attggtgaca tgatagaatt ctatgagggg
601 cacatttacc attatgcaat atacattggc caaggaaaaa ctgttggggt tcactcacct
661 caagcggcct tttcaatagc caggataact atacacccca tcgccgcttg gtggagggtt
721 tgttatgtgc caacacctga tcagaggtta aattatgacc aactcaaaga acttgagaat
781 gagccatggc catatgctgc agttaccaat aattgttatg agttctgctg caggattctc
841 aatcttcaag actcttggtt ggaacgtcgc ttggtcacat ctggccgttt caaccaccca
901 gcacaagact ggtccaggga cacgcctgac ttccagcaag atagcaagtt agaaatagtc
961 agggatgccg tgcttgctgc tatcaatggc ttggtatcaa aacctttcaa agacctccta
1021 aacaaactta agccactcaa cgtgctcaac ctactctcta actgtgattg gacatttatg
1081 ggggtggttg agacgataat actacttatg gaactgtttg ggatcttctg gaacccccct
1141 gatgtgtcca gcttcatagc ctcattattg cctgatatgc acttacaagg accggaagat
1201 ctggctaaag acttgatacc attggtattg gggggtgtgg ggcttgcaat tgggttcacc
1261 aaggacaaag ttacaaaggt catgaagagt gctgttgaag ggctcagggc agccacacaa
1321 ttaggccagt atggcctgga gatatttgca gttttaaaga aatatttctt tggtggagac
1381 caaacagaga agaccttaaa agatattgag acagccgtaa ttgacatgga ggttatctca
1441 acaactgctg ttactcaact agtcagggac aaacaggctg cccggaccta catgaacatc
1501 ttagatgctg aagaagagaa ggcaagaaag ctttcagtta gacatgcaga cccccatgtt
1561 gtgtccacga ccaatgccct gatctcacgt atttcattgg ctcgctccgc acttgctaag
1621 gcacaagctg agatgactaa tagggttaaa ccagtagtga taatgatgtg tggtccccca
1681 ggtataggca agacaaaggc agccgagtac cttgctaaga gattggccaa tgagatacgg
1741 cctggaggaa aagtgggcct cgtgccaagg gaggctgtgg atcactggga tggatatcat
1801 ggtgaagagg ttatgctatg ggatgactat ggtatgtcta agatagctga tgactgtaat
1861 aaattacagg ctatagccga cacagctcca ctcactttga actgtgaccg aattgagaag
1921 aaagggttac aatttgtctc tgatgccata gtgataacaa caaatgcccc aggaccagcc
1981 ccagttgact ttgtcaatct tggcccggtg tgtcggcggg tagatttcct ggtttactgc
2041 actgcacctg acgttgaaca aacacgtcgc actaaccctg gagacaccgg agcccttaag
2101 gattgcttta aaagtgattt ctctcatcta aaaatggagt tggctccaca gggcggattc
2161 gacaatcaag gaaacactcc atttggtaaa gggaccatgc ggcctaccac attaaaccgc
2221 ctccttatac aggccgtggc actaaccatg gagcgtcagg atgagttcca gatgcaaggt
2281 caagtgtacg attttgatgc tgacaggatc tctgccttca ccagtttagc aagagccaat
2341 ggtttgggtc tcattagcat ggcctctcta ggaaagaaat taaggggtgt ggactcggtt
2401 catggcctca agaatgcact atcaggctat accataaccc cctgtagcat aaagtggcaa
2461 gctagggtat atgacattga atcagatggt accaatgtac gcataaagga aaacacctca
2521 gcccagacac aacgccagca atcaattgac acagcagccc tagcacttac cagacttaaa
2581 gcagcacggg cagcagcata tgcagcttgc atacaaagcg caataacaac tatcctgcag
2641 atggctgggt cagccatcgt tataaatcgt gctgttaaaa ggatgttcgg tgcacactcg
2701 agcactatag cccttgaagg acccccaaga gaacatcggt gcagggctca cttagctaag
2761 gctgcaggtg gtgggccaat aggccatgat gatgtcattg ataagtatgg cctatgtgag
2821 actgaagaag agggtaccag tgaggagata aatgtggagc tacccaccgc cacttccgaa
2881 ggtaaaaaca aaggaaagac caagaaagga aggggcagaa gggccaacta caatgctttt
2941 tcacggcgcg gcctgagtga tgaggagtat gaggagtata agaagatcag ggaagaaaag
3001 aatggcaact acagcattca ggagtacctt gaagacaggc aacgctatga agaagagctc
3061 gcagaagtgc aagctggtgg tgatggaggc attggtgaga cagaaatgga gatccgacat
3121 aaaatctttt acaagtccaa aaagggccgc cagaatgaac gccgccaatt agggctagtc
3181 actggtagtg atatcagaaa gagaaaacca attgattgga ccccccccaa aaacgattgg
3241 gcagatgata atagggaagt ggactacaat gaaaaactca gttttgaagc cccaccaacc
3301 ctctggagcc gggttgtgag atttggctct gggtggggct tttgggtgag cccgactgtt
3361 tttatcacca ccactcacgt cataccatct ggggcgcgtg aattctttgg ggaacccatt
3421 gagtccattg caatccatcg tgctggtgaa ttcacacaat tcagattttc acacaaggtc
3481 cgcccagatc tgactggaat ggtgctggag gaaggctgtc ctgagggtgt cgtgtgttct
3541 attctcatta aacgtgactc tggtgagctg ctaccccttg ctgtccgaat gggtgctata
3601 gcgtccatga agattcaggg aaggctagtg catggtcagt ctgggatgct gcttactgga
3661 gctaacgcta aggggatgga tttaggtacc ctaccaggtg attgtggtgc cccttatgtg
3721 tacaaaagga ataacgactg ggtggtttgt ggcgtacatg cagccgctac aaagtcaggc
3781 aacactgtgg tgtgtgctgt ccaggctgga gagggtgaaa ccaccctaga gggtggtgac
3841 aaaggccact atgcaggcca tgaaataatc aagcatagta agggcccagc tctatccact
3901 aagaccaagt tttggaggtc aacccctgaa ccattgccgc caggtgttta tgaaccagca
3961 taccttgggg gtcgtgatcc aagggtaaaa ggtgggccct ctctgcaaca ggtcttgcgt
4021 gatcagctga aaccatttgc tgagccgcga ggtcgaatgc cagagcctgg tctacttgag
4081 gcagctgttg aaactgtcac gtccatgctt gaacaaacaa tggatacacc aaccccctgg
4141 tctttctctg atgcatgtca atcacttgac aaaaccacaa gttcgggaca cccatatcat
4201 aagaggaaga atgatgattg gaatggaact tcatttgttg gagagcttgg agaacaggca
4261 gcacatgcca acaacatgta cgaattaggc aaatctatga aaccactata cactgcagcc
4321 ttaaaagacg agttagtcaa gcccgagaaa gtttaccaaa agatcaagaa gaggcttctc
4381 tggggtgctg atctctcaac agttataaga gctgccaggg cctttggacc attttgtgat
4441 gctataaagc cccatgtcat taaactcccc atcaaagtcg gtatgaactc catagaggat
4501 ggcccaatga tttatgcaga gcatgcaaaa tataagaacc attttgatgc agattattcg
4561 gcctgggatt ccacgcaaaa tagacagatt atgactgaat ccttcgcaat catgtgccgc
4621 ctcacggcat caccggaatt ggcttctgtt gtagctaaag atctactagc gccttcagaa
4681 atggatgttg gtgattacat catccgtgta aaagaaggct tgccatcagg attcccttgc
4741 acatcacagg tgaacagtat aaaccactgg ttgatcacac tgtgtgccat gtctgaagtc
4801 acgggtttgt cacccgatgt catacaatcc caatcttact tttctttcta tggtgatgat
4861 gagatagtct caacagacat tgactttgac cccgctcgcc tcacccaagt gcttaaggaa
4921 tatgggttga gacccaccag accagacaag tcagaagggc ccatcatact cagaagacag
4981 gtggatggtc ttgttttctt aaggaggaca atttccaaag atgctgcagg ctttcaggga
5041 aggctagata ggggctcaat tgaaagacag ctgtggtgga cccggggccc taaccatgat
5101 gaccccagtg aaactctgat cccacacccc cagaggaaag ttcagcttat atcccttctt
5161 ggagaggcct ccctccatgg tgagaagttt tacaggaaaa tctccagtaa agtcatacag
5221 gagataaaga ccggtggctt agaaatgtat gtgccaggtt ggcaggccat gttccgctgg
5281 atgcgcttcc atgatctcgg attatggaca ggagatcgca atctcctgcc cgaattcgtg
5341 aatgatgatg gcgtctaacg acgctatacc aagcgcagat ggcgccactg gcgccggcca
5401 gctggtaccg gaggttaata cagctgaccc tatacccatt gaccctgtgg ctggctcctc
5461 tacagccctt gccactgcgg gccaagttaa tttgattgat ccctggataa tcaataattt
5521 tgtgcaagcc cctcagggcg agttcacaat atccccaaat aatacccccg gtgatgtgct
5581 atttgatttg cagttagggc ctcatctgaa tcctttcctt tcccatcttt ctcagatgta
5641 caatggctgg gtgggtaaca tgcgagtacg cgttgttttg gctggtaatg cttttacagc
5701 tggaaaggtt ataatttgtt gtgttccccc tggctttcaa tctcgcactc tttccatagc
5761 tcaggctact ctatttcccc atgttattgc tgatgttagg acccttgatc ctgtagaagt
5821 gccccttgaa gatgttagga atgtattgta tcacaataat gacactcaac ctaccatgcg
5881 cctcctttgc atgttgtaca cccctcttcg aactgggggg gcgtctggtg ggactgattc
5941 ttttgtggta gctgggcgtg tgctcacttg cccaggccct gactttaact tcttattcct
6001 agttcctcct acagtcgagc aaaagactcg cccttttact gtgcctaata tccctttgaa
6061 gtatctgtct aattctagga tcccaaaccc tattgagggt atgtctttgt cacctgacca
6121 gacccaaaat gttcaattcc agaatggtag gtgtacaatt gatggtcagc ccctcgggac
6181 cacacctgtc tcagttagcc agttatgtaa gtttaggggt aggattacat ctggacagag
6241 ggtgctcaat ttgacagaat tggatggttc accttttatg gcctttgccg ctcccgcccc
6301 cgcgggcttt ccagatcttg gatcttgtga ttggcatatt gaaatgagta aaattccaaa
6361 ctccagcacc cagaacaatc caatagtagt taattctgtc aaacccaata gtcaacagtt
6421 tgtcccgcat ttgtcaagta tcacccttga tgataatgtt tctagtgggg gtgactatat
6481 tggcacttta caatggacct ctcctccttc tgattctggc ggagccaaca caaatttttg
6541 gaagattcct gactatgggt ctagtctagc agaagcctca cagctggccc ccgctgtcta
6601 tccacctggt ttcaatgagg tgattgtgta ctttatggca tctatacctg gccccaatca
6661 atctggttcc cccaatttgg tgccatgcct tctcccccag gaatatataa cacactttat
6721 cagtgagcag gcccccattc agggtgaggc tgccttactc cattatgtag acccagacac
6781 caaccgtaat ttaggtgagt tcaagttgta tcctggtggt tatctgactt gtgttcctaa
6841 tagttctagt acaggacctc aacagcttcc tcttgatggt gtgtttgtct ttgcttcttg
6901 ggtttctaga ttttatcaat taaagcctgt gggaacagcc ggaccggcta gaggtaggct
6961 tggtgtccgc agatgatggc ccaagccatt ataggagcca ttgctgcctc cgcggctggc
7021 agtgccctgg gtgctggcat ccaggctggt gctgaagctg cgttacaggc acagagatat
7081 caacaagatt tgactttaca gcaaaattct ttcaatcatg ataaggagat gttaggttat
7141 caagtagaaa tgtctaataa gttattagct aaaaatctca atacccgcta ttctcttctc
7201 caggcgggtg gtctctcccc ctctgatgcg gctagggctg tggccggggc ccctgtcact
7261 aggttggttg actggggtgg agttcgtgtt gcggcacctc aatcatctgc caccacactg
7321 agatctggca attttatggc agtgccactc ccagcccagc caaagcagaa acctcttgct
7381 agtgagggat attccaatcc agcttatgac cccatgcagc gtacagcttc ttgggttcaa
7441 tcccaaaatt ccagccggaa ttggtcccca taccacaggc aagctctcca aactgtgtgg
7501 gtgacccccc ctggttccac ctcttcttct tctatttctt ctgtttctac tgcccctcga
7561 gggtatttta atacagatag attgcctctg ttcgcaaact tgaggcgcta atgttgtaat
7621 aagattagtg agcatcctat tcaaatttgg ctttatataa tttgattgta tttggctttt
7681 aattttgatt tggttgatgt taaaaaaaaa
//