Typing tool
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Typing tool
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Complete norovirus genomes
| OR685281 | GI.5 | |
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| GI.P4 |
ORF1: 1..5355
ORF2: 5339..6970
ORF3: 6970..7602
LOCUS OR685281 7602 bp RNA linear VRL 23-OCT-2023
DEFINITION Norovirus GI isolate Hu/US/2022/GI.5[P4]/CA-RGDS-1179 nonstructural
polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION OR685281
VERSION OR685281.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7602)
AUTHORS Pan,C.-Y., Hatada,A., Padilla,T., Wright,C. and Morales,C.
TITLE Direct Submission
JOURNAL Submitted (17-OCT-2023) 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 Prime v. 2022.0.2; SPAdes v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7602
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="Hu/US/2022/GI.5[P4]/CA-RGDS-1179"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122928"
/country="USA: CA"
/collection_date="Feb-2022"
/note="genotype: GI.5[P4]"
gene 1..5355
/gene="ORF1"
CDS 1..5355
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WOC94333.1"
/translation="MMASNDAIAATAASVENTSDNSDSIKNRFFTRLKNLGSNNKPIK
IENTHMALNLISRGPSPIPQDKPPKDQRDKPPRNVAETQQAMGWVDPPMDQNLPTWEE
LSQTEKQEILKNNSNWFDAGGLAPASIPTGYVKNTEQQPPDHQVKWSASNGVDLGVGN
LTTVPGPAWNLCPMPPIDQRNNGPAKEPLVGDMIEFYEGHIYHYAIYIGQGKTVGVHS
PQAAFSIARITIHPIAAWWRVCYVPTPDQRLNYDQLKELENEPWPYAAVTNNCYEFCC
RILNLQDSWLERRLVTSGRFNHPAQDWSRDTPDFQQDSKLEIVRDAVLAAINGLVSKP
FKDLLNKLKPLNVLNLLSNCDWTFMGVVETIILLMELFGIFWNPPDVSSFIASLLPDM
HLQGPEDLAKDLIPLVLGGVGLAIGFTKDKVTKVMKSAVEGLRAATQLGQYGLEIFAV
LKKYFFGGDQTEKTLKDIETAVIDMEVISTTAVTQLVRDKQAARTYMNILDAEEEKAR
KLSVRHADPHVVSTTNALISRISLARSALAKAQAEMTNRVKPVVIMMCGPPGIGKTKA
AEYLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMSKIADDCNKLQAI
ADTAPLTLNCDRIEKKGLQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVYCTAP
DVEQTRRTNPGDTGALKDCFKSDFSHLRMELAPQGGFDNQGNTPFGKGTMRPTTLNRL
LIQAVALTMERQDEFQMQGQVYDFDADRISAFTSLARANGLGLISMASLGKKLRGVDS
VHGLKNALSGYTITPCSIKWQARVYDIESDGSNVRIKENTSAQTQRQQSIDTAALALT
RLKAARAAAYAACIQSAITTVLQMAGSAIVINRAVKRMFGAHSSTIALEGPPREHRCR
AHLAKAAGGGPIGHDDVIDKYGLCETEEEGTNEEINVELPTATSEGKNKGKTKKGRGR
RANYNAFSRRGLSDEEYEEYKKIREEKNGNYSIQEYLEDRQRYEEELAEVQAGGDGGI
GETEMEIRHKIFYKSKKGRQNERRQLGLVTGSDIRKRKPIDWTPPKNDWADDNREVDY
NEKLSFEAPPTLWSRVVRFGSGWGFWVSPTVFITTTHVIPSGAREFFGEPIESIAIHR
AGEFTQFRFSHKVRPDLTGMVLEEGCPEGVVCSILIKRDSGELLPLAVRMGAIASMKI
QGRLVHGQSGMLLTGANAKGMDLGTLPGDCGAPYVYKRNNDWVVCGVHAAATKSGNTV
VCAVQAGEGETTLEGGDKGHYAGHEIIKHSKGPALSTKTKFWRSTPEPLPPGVYEPAY
LGGRDPRVKSGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVTSMLEQTMDTPTP
WSFSDACQSLDKTTSSGHPYHKRKNDDWNGTSFVGELGEQAAHANNMYELGKSMKPLY
TAALKDELVKPEKIYQKIKKRLLWGADLSTVIRAARAFGPFCDAIKSHVIKLPIKVGM
NSIEDGPMIYAEHAKYKNHFDADYSAWDSTQNRQIMTESFAIMCRLTASPELASVVAK
DLLAPSEMDVGDYIIRVKEGLPSGFPCTSQVNSINHWLITLCAMSEVTGLSPDVIQSQ
SYFSFYGDDEIVSTDIDFDPARLTQVLKEYGLRPTRPDKSEGPIILRRQVDGLVFLRR
TISKDAAGFQGRLDRGSIERQLWWTRGPNHDDPSETLIPHPQRKVQLISLLGEASLHG
EKFYRKISSKVIQEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFVNDDGV
"
mat_peptide 1..1185
/gene="ORF1"
/product="p48"
mat_peptide 1186..2274
/gene="ORF1"
/product="NTPase"
mat_peptide 2275..2877
/gene="ORF1"
/product="p22"
mat_peptide 2878..3285
/gene="ORF1"
/product="VPg"
mat_peptide 3286..3828
/gene="ORF1"
/product="Pro"
mat_peptide 3829..5352
/gene="ORF1"
/product="RdRp"
gene 5339..6970
/gene="ORF2"
CDS 5339..6970
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WOC94334.1"
/translation="MMMASKDAPPSADGANGAGQLVPEVNNAEPLPLDPVAGASTALA
TAGQVNMIDPWIFNNFVQAPQGEFTISPNNTPGDILFDLQLGPHLNPFLAHLAQMYNG
WVGNMRVRLILAGNAFTAGKVIICCVPPGFQSRTLSIAQATLFPHVIADVRTLEPIEI
PLEDVRNTLYHNNDNQPTMRLLCMLYTPLRTGGGSGGTDAFVVAGRVLTCPSPDFNFL
FLVPPTVEQKTRPFSLPNIPLHLQSNSRVPNPIQSMVISPDQAQNTQFQNGRCTTDGQ
LLGTTPVSVSQILKFRGKVSPGSKVINLTELDGSPFLAFEAPAPTGFPDLGTCDWHVE
LSLNSNSQSSGNPIVLRDIQPNSSDFVPHLGSVAVTVAIETAGDYTGTIQWISQPSNV
SPVPNVNLWTIPNYGSSLAEASQLAPVVYPPGFGEAVVYFMSHIPGPNTEHKPNLVPC
LLPQEFITHFVSEQAPPMGEAALIHYVDPDTNRNLGEFKLYPEGVITCVPNGTGPQQL
PLNGVFVFASWVSRFYQLKPVGTASLARGRLGVRR"
gene 6970..7602
/gene="ORF3"
CDS 6970..7602
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WOC94335.1"
/translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQSQRFQQDLTLQQN
SFKHDKEMMSYQVEMSNALLAKNLNTRYALLQSGGLSSADAARAVAGAPVTRIVDWNG
TRVAAPNSSATTLRSGGFMSVPIPVQPKQKPSTISGFNNPAYGETMSRVSSWVQSQNS
SVRSMPPFHSSALRTVWVTPPGSTSTSSSVSSVPMGVFNTDRLPLFANRR"
ORIGIN
1 atgatggcgt ctaacgacgc tattgcagct actgctgcta gtgttgaaaa cactagtgac
61 aatagtgatt ctataaagaa ccgtttcttc acaaggttga agaatttagg ttctaacaac
121 aagcccataa aaattgagaa cacccacatg gcccttaact tgattagtag gggcccatct
181 ccaattccac aagacaagcc cccaaaagac cagagggata aacccccaag gaatgtggct
241 gagacccagc aggcaatggg ctgggtcgac ccccccatgg accagaatct accaacctgg
301 gaggagttga gccaaacaga aaaacaagag atactcaaaa acaattcaaa ttggtttgat
361 gctggtggtt tggcaccagc tagcatccca actggttatg taaagaacac agaacaacaa
421 ccccctgatc accaagtcaa atggagtgcc agtaatgggg ttgatcttgg ggtaggcaat
481 ttgacaactg tgccaggtcc agcatggaat ctgtgcccca tgccaccaat tgatcaacgc
541 aacaatggcc cagcaaagga accacttgtt ggtgacatga tagaattcta tgaggggcac
601 atttaccatt atgcaatata cattggacaa ggaaaaactg ttggggttca ctcaccccaa
661 gcggcctttt caatagccag gataactata caccccatcg ccgcttggtg gagggtttgt
721 tatgtgccaa cacctgatca gaggctgaat tatgaccaac tcaaagaact tgagaatgag
781 ccatggccat atgctgcagt tactaataat tgttatgagt tctgctgcag gattctcaat
841 cttcaggact cttggttgga acgtcgcttg gtcacatctg gccgtttcaa ccacccagca
901 caagactggt ccagggacac gcctgacttc caacaagata gcaagttaga aatagtcagg
961 gatgccgtgc tcgctgctat caatggcttg gtatcaaaac cttttaagga cctcctaaat
1021 aaacttaagc cactcaacgt gctcaactta ctctctaact gtgattggac attcatgggg
1081 gtggttgaga cgataatatt acttatggag ttgtttggga tcttctggaa tccccctgat
1141 gtgtccagtt tcatagcctc actactacct gatatgcact tgcagggacc agaagatctg
1201 gctaaagact tgataccgtt ggtattgggg ggtgtggggc ttgcaattgg gttcactaag
1261 gacaaagtta caaaagttat gaagagtgct gttgaaggac tcagggcagc cacacaatta
1321 ggccagtatg gcctagagat atttgcagtt ttaaagaaat atttctttgg tggggatcaa
1381 acagagaaga ccttaaagga cattgagaca gccgtgattg atatggaggt catctcaaca
1441 actgctgtaa ctcaactagt cagggacaaa caggctgccc gaacctacat gaacatctta
1501 gatgctgaag aagagaaggc aagaaagctt tcagttagac atgcagaccc ccatgttgta
1561 tccacaacca atgccctgat ctcacgtatt tcattggctc gttccgcact tgctaaggca
1621 caagctgaga tgactaatag ggttaaacca gtagtgataa tgatgtgtgg ccccccaggt
1681 ataggcaaaa caaaggcagc cgagtacctt gctaagaggc tggctaatga gatacggcct
1741 ggaggaaaag tgggccttgt gccaagggag gctgtggacc actgggatgg atatcatggt
1801 gaagaggtta tgctatggga tgactatggt atgtcaaaaa tagctgatga ctgcaataaa
1861 ttacaggcta tagccgacac agctccactc actctgaact gtgaccggat tgagaagaaa
1921 gggttacaat ttgtctctga tgccatagtg ataacaacaa atgccccagg accagcccca
1981 gttgactttg tcaatcttgg cccagtgtgt cggcgggtag atttcctggt ttattgcact
2041 gcgcccgatg ttgaacagac acgtcgtact aaccctggcg acaccggagc cctcaaggat
2101 tgttttaaaa gtgatttctc tcatttaaga atggagttgg ctccacaggg agggttcgac
2161 aaccaaggaa acactccatt tggcaaaggg accatgcggc ctaccacatt aaaccgcctc
2221 cttatacagg ccgtggcact aactatggag cgtcaggatg agttccagat gcaaggtcag
2281 gtgtacgact ttgatgctga caggatctct gccttcacca gtttagcaag agccaatggt
2341 ttgggtctca ttagtatggc ctccctagga aagaaattga ggggtgtgga ctcggttcat
2401 ggcctcaaga atgcactatc aggctatacc ataaccccct gtagcataaa gtggcaagct
2461 agagtgtatg acattgaatc agatggctcc aatgtgcgca taaaggaaaa cacctcagcc
2521 cagacacaac gccagcaatc aattgataca gcagccctgg cacttaccag acttaaagca
2581 gcacgggcag cagcatatgc agcttgcata caaagcgcaa taacaactgt cctgcagatg
2641 gctgggtcag ccatcgttat aaatcgtgct gttaagagga tgttcggtgc acattcgagc
2701 actatagccc ttgaaggacc tccaagagaa catcggtgta gggctcattt agccaaggct
2761 gcaggtggtg ggccaatagg ccatgacgat gtcattgata aatatggcct gtgtgagact
2821 gaagaagagg gtaccaatga ggaaataaat gtggagctac ccaccgccac ttccgaaggt
2881 aagaacaaag gaaagaccaa gaaaggaaga ggcagaaggg ccaactacaa tgctttttca
2941 cggcgcggcc tgagtgatga ggagtatgag gaatataaga agatcaggga agaaaagaat
3001 ggcaactaca gcattcagga gtaccttgaa gacaggcaac gctatgaaga agagctcgca
3061 gaagtgcaag ctggtggtga tggaggcatt ggtgagacag aaatggagat ccgacataaa
3121 atcttttaca agtctaaaaa gggccgccag aatgaacgtc gccaactagg gctagtcact
3181 ggtagtgata ttagaaagag aaagccaatt gattggaccc cccccaaaaa tgattgggca
3241 gatgataata gggaagtgga ctacaatgaa aaactcagtt ttgaagcccc accaaccctt
3301 tggagccgtg ttgtgagatt tggctctggg tggggctttt gggtgagccc gactgttttt
3361 atcaccacca ctcatgtcat accatctggg gcgcgtgaat tctttggaga acccattgag
3421 tccattgcaa tccatcgtgc tggtgaattc acacaattca gattttcaca caaggtccgc
3481 ccggatttga ctggaatggt gctggaggaa ggttgtcctg agggtgttgt gtgttctatt
3541 ctcataaagc gtgactctgg tgagttgctg ccccttgctg tccgaatggg cgctatagcg
3601 tccatgaaga ttcagggaag gctagtgcat ggccagtctg ggatgctgct cactggagct
3661 aacgctaagg ggatggattt aggcacccta ccaggtgatt gtggtgcccc ttatgtgtac
3721 aaaaggaata acgactgggt ggtctgtggt gtacatgcag ccgctacaaa gtcaggcaac
3781 actgtggtgt gtgctgtcca ggctggagag ggtgagacca ccctagaggg tggtgacaaa
3841 ggccattatg caggccatga aataatcaag catagtaagg gcccagctct atctactaag
3901 accaagtttt ggaggtcaac ccctgaacca ttaccaccag gtgtttatga accagcgtat
3961 cttgggggtc gagatcccag ggtaaaaagt gggccctctc tacagcaagt cttgcgtgat
4021 cagttgaaac catttgctga gccgcgaggt cgaatgccag agcctggtct acttgaggca
4081 gctgttgaga ctgtcacatc catgcttgag caaacaatgg atacaccaac cccctggtct
4141 ttctctgatg catgtcaatc acttgacaag accacaagtt caggacaccc gtatcacaaa
4201 agaaagaatg atgattggaa tggaacttca tttgttggag agcttggaga acaggcagca
4261 catgccaaca acatgtatga attaggcaaa tctatgaaac cgctatacac tgcagccctt
4321 aaagacgagt tggtcaagcc cgagaaaatt tatcaaaaga tcaagaagag gcttctctgg
4381 ggtgctgatc tctcaacagt cataagggct gccagggcct ttggaccttt ttgtgatgct
4441 ataaagtctc atgtcattaa actccccatc aaagttggta tgaactccat agaagatggc
4501 ccaatgattt acgcagagca tgcaaaatac aagaaccatt ttgatgcaga ttattcggcc
4561 tgggattcca cgcaaaatag acagatcatg actgaatcct ttgcaatcat gtgccgtctc
4621 acagcatcac cggaattggc ttctgttgta gctaaagatt tactagcccc ttcagaaatg
4681 gatgttggtg attacatcat ccgtgtaaaa gagggcttgc catcaggatt cccttgcaca
4741 tcacaggtga acagcataaa ccactggctg atcacactgt gtgccatgtc tgaagtcacg
4801 ggtttgtcac ctgatgtcat acaatcccag tcttactttt ctttctatgg tgatgatgag
4861 atagtctcca cagacattga ttttgacccc gctcgcctca ctcaagtgct caaggaatat
4921 gggttgagac ccaccagacc agacaagtca gaagggccta tcatactcag aagacaggtg
4981 gatggtcttg ttttcttgag gaggacaatc tccaaagatg ctgcgggctt ccagggaagg
5041 ctagatagag gttcaattga aagacagctc tggtggactc gaggccctaa ccatgatgac
5101 cccagtgaga ctctaatccc acacccccag aggaaagttc agcttatatc cctccttggt
5161 gaggcttccc tccatggtga gaagttttac aggaagatct ccagtaaagt tatacaggag
5221 ataaaaactg gtggtttgga aatgtatgtg ccaggctggc aggccatgtt ccgctggatg
5281 cgcttccatg acctcggatt gtggacagga gatcgcaatc tcctgcccga attcgtaaat
5341 gatgatggcg tctaaggacg ccccaccaag cgcagatggc gcgaatggcg ccggtcagct
5401 tgtgccggag gttaataatg ctgaaccact gccacttgat ccagtggcgg gggcttccac
5461 cgcccttgcc actgctggac aagttaatat gattgaccca tggatcttta ataattttgt
5521 ccaggccccc cagggtgaat ttactatttc cccaaacaat acccccggcg atatcctgtt
5581 tgatttacaa ttaggtccac atctaaatcc ttttctagca catttagctc agatgtacaa
5641 tggctgggtt ggcaacatgc gggtcaggct catcttggcc ggtaatgctt tcactgctgg
5701 taaagttata atttgttgtg ttccccctgg ttttcaatct agaacccttt ccatagccca
5761 ggctacactc tttccccatg tgatcgctga tgtgagaact ttggaaccaa ttgagatccc
5821 tttagaagat gttaggaaca ctctttatca taataatgac aatcaaccaa caatgcgctt
5881 actgtgcatg ctctacacgc cactacgcac cggtggcggt tctggtggta cagatgcgtt
5941 tgttgtagca ggtcgagttc taacttgccc tagccctgat ttcaatttct tgttcttggt
6001 cccacccact gtggagcaga agacacgtcc ctttagtctg cccaatatac ccttgcactt
6061 gcagtctaac tcccgtgtcc ccaaccccat acagagtatg gtcatttcgc ctgatcaggc
6121 ccagaatacc caatttcaga atggccgctg caccactgat gggcagctct tgggtacaac
6181 acctgtctca gttagtcaga tcttaaagtt tagaggaaag gtgtcacctg gttctaaggt
6241 tatcaacctc actgagttag atggttcccc ctttctggct tttgaggccc ctgcgcccac
6301 gggctttcct gacttgggaa cttgtgattg gcatgttgaa ttaagcctta actcaaatag
6361 tcaaagttct ggcaacccaa ttgtattaag ggacatacaa ccaaattctt cagattttgt
6421 gccacacttg ggcagtgtgg ctgtcaccgt tgcaattgaa acagctgggg attatactgg
6481 tacaatacaa tggatctctc agccatccaa tgtctcccca gttcccaatg tcaacctatg
6541 gactatcccc aactatggat caagtttggc agaagcctcc caactggccc ccgtagtgta
6601 ccccccggga tttggtgaag ctgtagtgta ctttatgtct cacataccag gcccaaacac
6661 tgaacacaaa cccaatttgg taccctgcct acttccacaa gaatttataa ctcattttgt
6721 cagtgaacaa gccccaccca tgggtgaggc ggctcttatc cattatgtgg acccagatac
6781 caaccgtaat ctaggtgagt tcaaactgta tcctgaaggt gttatcacct gtgtgccaaa
6841 tggcactggt ccacaacaac tccccctcaa tggggtcttc gtctttgcct cctgggtttc
6901 tagattttat caattaaagc ctgtgggaac ggccagtttg gccagaggta ggcttggagt
6961 cagaagataa tggctcaagc catcattgga gccattgctg catcagcggc tggaagtgcc
7021 cttggagctg gtatccaagc aggtgctgag gccgccctcc agagccaaag gttccagcag
7081 gaccttaccc ttcaacaaaa ttcttttaaa catgataagg agatgatgtc atatcaagtt
7141 gaaatgtcta atgctttgtt agctaaaaat cttaatactc gctatgcttt gctccaatct
7201 ggaggtctat ctagtgctga tgctgctcgt gctgtggcag gtgcgcctgt tacaaggatt
7261 gttgattgga atggcacgag agtggcagcc ccaaactctt ctgcaacaac tctcagatct
7321 ggtggattta tgtctgttcc tatacctgtt caacccaaac aaaagccctc taccatctca
7381 gggtttaata atccagcata tggagaaact atgtcaagag tttcctcctg ggtccaatcc
7441 cagaattcaa gtgttagaag catgcctcct tttcatagtt ctgccctcag gactgtttgg
7501 gttacaccac caggttcaac ttctacttct tcatctgttt catccgtgcc tatgggcgtg
7561 tttaacactg ataggcttcc cctattcgca aacaggagat ga
//