Typing tool
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Typing tool
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Complete norovirus genomes
| OR069404 | GII.3 | |
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| GII.P21 |
ORF1: 1..5100
ORF2: 5081..6727
ORF3: 6727..7491
LOCUS OR069404 7543 bp RNA linear VRL 11-OCT-2023
DEFINITION Norovirus GII isolate GII/Hu/US/2015/GII.3[P21]/NIH38.3
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION OR069404
VERSION OR069404.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7543)
AUTHORS Chaimongkol,N., Dabilla,N., Tohma,K., Matsushima,Y., Behrle
Yardley,A., Levenson,E.A., Johnson,J.A., Ahorrio,C., Oler,A.J.,
Kim,D.Y., Souza,M., Sosnovtsev,S.V., Parra,G.I. and Green,K.Y.
TITLE Norovirus Evolves as One or More Distinct Clonal Populations in
Immunocompromised Hosts
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7543)
AUTHORS Chaimongkol,N., Dabilla,N., Sosnovtsev,S.V. and Green,K.Y.
TITLE Direct Submission
JOURNAL Submitted (26-MAY-2023) LID, NIAID, 50 South Drive/R6318, Bethesda,
MD 20892, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: HIVE Hexagon/Heptagon v. 2
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7543
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="GII/Hu/US/2015/GII.3[P21]/NIH38.3"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="Apr-2015"
/note="genotype: GII.3"
gene 1..5100
/gene="ORF1"
CDS 1..5100
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WID03728.1"
/translation="MKMASNDASAAAAANSNNDNAKTSSDGVFSNMAVTFKRALGARP
KQPPPKDKPPKPPRPPTPELVKTIPPPPPNGEDEPVISYNVKEGVSGLPELSTVTQPV
ENSTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLYWRPVYTPQYLISPDTLRKLHGETFPYIAFDSNCYTFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANIVLCAFASVFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKDEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDTLATYMRTLDMEEEKARKLST
KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARDL
AKKIASSLAGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEK
AKRDFPGQPDMWKDTFRPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTAGSLVARA
SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTM
TELKQALKNISVKKCQLVYGGGTYTLESDGKGNVHVEKVKNANVQTNNELSGALHHLR
CARIRYYVKCVQEALYSILQIAGAAFITTRIVKRMNIQNLWSKPQVEDLEEAGNEEGC
PKPRNDEEFVISSDDIKTEGKKGKNKAGRGKKHTAFSSKGLSDEEYDEFKRIREERNG
KYSIEEYLHDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERCSLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYAEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEG
TVATILIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKNMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPGVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPHHMRKNECW
NGETFTGKLADQASKANLMYEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
STMIRCARAFGGLMDELKAHCVSLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPQLAQVVAEDLLSPSVMDVGDFKISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTSKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPSETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSYVNEDGVE"
mat_peptide 1..990
/gene="ORF1"
/product="p48"
mat_peptide 991..2088
/gene="ORF1"
/product="NTPase"
mat_peptide 2089..2625
/gene="ORF1"
/product="p22"
mat_peptide 2626..3024
/gene="ORF1"
/product="VPg"
mat_peptide 3025..3567
/gene="ORF1"
/product="Pro"
mat_peptide 3568..5097
/gene="ORF1"
/product="RdRp"
gene 5081..6727
/gene="ORF2"
CDS 5081..6727
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WID03729.1"
/translation="MKMASNDAAPSSDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ
HNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLKLELGPEINPYLAHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPIDNLSPAQITMCPHVIVDVRQLEPINLPMPD
VRNTFFHYNQGADSRLCLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKMKPFTIPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGVLTGSTSRASDQTDTATPRQFNHRWHIQLDNLNGTPYDPAEDVPGP
LGTPDFRGKIFGVASQRNPDSTTRAHEAKVNTAAGRFTPKLGSLEMSTESDDFDQNQP
TRFTPVGIGVDNEMDFQQWSLPNYSGQLTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSSGILDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGFLTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
gene 6727..7491
/gene="ORF3"
CDS 6727..7491
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WID03730.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTVEFENNKYLQNA
SFNHDKEMLIAQVEATKKLQADMMAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRLWAPNATSTTSMSGGFTHQAVRRTTPDFKMNQAPKSTPSSGSSVRSNTTQVTSLSS
HSSGSSRSSGSTVVSSLPSSNRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgctgctg ccaacagcaa caacgacaac
61 gcaaaaactt caagtgacgg agtattttct aatatggctg tcacttttaa acgagccctc
121 ggggcgcggc ctaaacagcc gcccccgaag gacaaaccac caaaaccccc aagaccgccc
181 acaccagagc tggttaagac aatcccccct cccccaccca acggggagga cgagccagtc
241 atttcttaca acgtcaaaga gggtgtttct ggtttgcctg aactctccac agtaacccaa
301 ccggtggaga actctacggc attcagtgtc ccccctctca gtcagaggga gaacagagat
361 gcaaaggaac ccttgactgg aaccattctg gaaatgtggg acggggagat ctaccactat
421 ggcttgtatg tggaacgagg attagtgctc ggtgtacaca aaccaccagc ggccatcagc
481 cttgctaagg ttgagctgac ccctctgtcc ttgtattgga ggccagtgta caccccacag
541 tacctcattt cccctgacac tctcagaaag ttgcacgggg agacgttccc ttacatagcc
601 tttgacagca actgctacac cttctgctgt tgggttcttg acttgaacga ttcatggctg
661 agcagaagga tgatacagag aacaacaggc ttcttccgac cctaccaaga ctggaacagg
721 aaacccctcc ccacgatgga tgactccaaa gtgaagaagg tggccaatat tgtcctctgc
781 gctttcgcct cagtgttcac tagaccaatt aaggatatta ttggaaagtt gaaaccccta
841 aacatcctca acatcctagc cacatgtgat tggacttttg caggcatagt ggaatcactg
901 atcctcttgg ctgaactatt tggagttttc tggacacccc cagatgtgtc tgcaatgatc
961 gctcccttac tgggtgatta cgaactacag gggcccgagg acctcgttgt ggaactcgta
1021 cccgtggtaa tgggagggat aggtttggtg ctgggattca ccaaagagaa aatcggtaaa
1081 atgctttcat ctgctgcttc aaccctgaga gcgtgtaaag atcttggtgc atatgggctg
1141 gagatcctca agttggtcat gaaatggttt ttcccaaaga aagacgaggc aaacgaattg
1201 gctatggtga gatccatcga ggatgcagta ctagacctcg aggccattga gaacaaccat
1261 atgacaactc tactcaagga caaggacacc cttgcaacct acatgaggac tcttgacatg
1321 gaggaggaga aggcgaggaa gctgtccacc aagtctgcct caccggacat cgtgggcacg
1381 atcaactccc tactggcaag gattgcagcc gcccggtctc tagtacacag ggctaaggag
1441 gaattgtcaa gcagaccccg accggttgtt gtgatgattt cagggagacc aggtataggg
1501 aaaacccacc tagctagaga cctggcaaag aagatcgcct cctcactcgc gggtgaccag
1561 agggtgggtc tcatcccacg caacggagtt gaccactggg acgcgtacaa aggtgaaaga
1621 gtcgtcctct gggacgacta cgggatgagc aaccccatcc acgacgctct cagactccag
1681 gagctcgctg acacctgccc cctcacactc aactgtgaca ggattgagaa caaaggcaaa
1741 gtctttgaca gtgacgccat aataataacc accaacttag ccaacccagc gccactggat
1801 tatgtcaatt ttgaagcttg ctcaagacgt atagacttcc tcgtctatgc tgatgcccct
1861 gaagttgaga aggccaaacg agacttccca ggccagccag atatgtggaa agacaccttc
1921 agacctgact tctcacacat aaaactgtca ctagccccac aaggaggttt tgacaagaat
1981 ggcaacaccc ctcatggaaa gggtgtcatg aagaccctca ctgctggttc tctcgttgcc
2041 cgagcatcag ggctcctcca tgagagacta gacgagtatg agctgcaggg cccaaccccc
2101 acaacattca acttcgaccg caacaaggtg cttgctttta gacaactcgc tgctgagaac
2161 aagtacggcc ttgttgacac aatgagggtc ggatcacagc tcaagaatgt caaaaccatg
2221 acagaactca aacaggctct caagaacatc tcagtcaaga aatgccagct tgtgtatggt
2281 gggggcacgt acacacttga atctgatggc aaaggcaacg tgcacgtcga gaaggtgaag
2341 aacgccaatg tgcaaactaa caacgagctc tccggggctc tgcaccacct caggtgtgcc
2401 aggatcaggt actatgtcaa gtgtgtccag gaagctctct actccatctt gcaaattgcc
2461 ggggctgcat tcatcaccac gcgcattgta aagcgcatga acatacaaaa cctctggtcc
2521 aaaccacaag tggaagacct ggaggaggct ggcaatgagg agggttgccc aaaacctaga
2581 aatgatgagg aatttgtcat ctcctctgat gacatcaaaa ccgagggcaa gaaaggaaag
2641 aacaaagctg gccgtggcaa gaagcacaca gccttttcca gcaaaggtct cagtgatgag
2701 gagtacgatg agtttaagag aattagggaa gagagaaacg gcaagtactc catagaggaa
2761 tacctacatg acagggacaa gtactatgag gaagtggcca tagccagagc aaccgaggaa
2821 gacttctgtg aagaagagga ggctaaaatc cggcaaagga tttttagacc aacaaggaaa
2881 caacgcaaag aggaaaggtg ctctctcggt ttggtcacag gttctgagat caggaagaga
2941 aacccagatg acttcaagcc caaagggaaa ctgtgggccg atgatgacag gagtgttgac
3001 tacgctgaga aactcagttt cgaggctcca ccaagcattt ggtcacgaat agtcaacttt
3061 ggttcagggt ggggtttttg ggtctcgccc agtctcttta taacatctac ccatgtcatc
3121 ccccaaggcg cacaggagtt ctttggagtg cccatcaaac agatacaaat tcataaatca
3181 ggtgagttct gccggctcag gttcccaaaa ccaatcagga cagacgtttc gggcatgatc
3241 ttggaggaag gtgctccaga aggcactgtt gccacaattc tcatcaagag accaaccggg
3301 gaactcatgc ccttggcggc cagaatgggc actcacgcga ctatgaaaat ccagggtcgc
3361 actgttggtg gacagatggg catgctactc acagggtcca acgccaagaa catggatttg
3421 ggcacgactc ctggcgactg tgggtgtccc tacatataca agagagggaa cgactacgtg
3481 gtcattggag tccacaccgc cgccgctcgt ggagggaaca ccgtcatctg tgcaacccag
3541 ggaagcgagg gtgaggccac gctagaaggt ggtgacaaca aaggaactta ctgtggagca
3601 ccaatattgg gccctggaaa tgcccccaaa ctcagcacca aaaccaaatt ctggagatct
3661 tccaccaccc ccctaccacc cggaacctat gaaccagctt atctgggtgg taaggacccc
3721 agagtgaaag gtggcccctc actgcaacag gttatgaggg accaactaaa gcctttcact
3781 gagcccagag gcaagccacc caaaccgggt gtactagaag ctgccaagaa gaccataatc
3841 aatgtgcttg aacagacaat agacccaccc caaaaatgga catacgcaca ggcgtgtgca
3901 tcattggaca aaacaacttc cagcggtcac cctcaccaca tgcggaagaa tgagtgctgg
3961 aacggggaaa ctttcacagg gaaactggca gaccaagcat caaaggctaa cctaatgtat
4021 gaagaaggaa agaacatgac cccagtatac acaggagctt tgaaggatga gctagtcaag
4081 actgataaga tctacgggaa aatcaaaaag aggctcctgt gggggtcaga cctatcgacc
4141 atgatacggt gtgcacgagc ctttggtggg ctgatggacg agctcaaggc ccactgcgtc
4201 tcactaccgg tcagggttgg tatgaacatg aatgaggatg gacccataat atttgagaaa
4261 cactccaggt acaaatacca ctatgatgca gactactccc gctgggactc aacgcaacag
4321 agggcagtgc tggctgcagc tttggaaata atggtcaaat tttcaccaga accccagcta
4381 gcccaagtag ttgcagaaga cctcttgtcc cccagtgtga tggacgtggg tgacttcaag
4441 atatcaatca acgaggggtt gccctctggt gtgccttgta cctcacaatg gaactccatt
4501 gcccactggc tcctaacact gtgtgcactg tctgaagtca cagatctgtc ccctgacatc
4561 atccaggcaa actccctatt ctccttttat ggtgatgatg aaatagtgag cacagacatc
4621 aaactggacc cagaaaaatt gacatcaaaa ctgaaggaat acgggctaaa accaacccgc
4681 cctgataaaa cagaaggacc cctaattata tctgaagact tgaatggcct aaccttcttg
4741 cggagaacgg taacccgtga tccggctggg tggtttggca aactggatca aagttcaata
4801 ctcagacaga tgtactggac cagaggacca aaccatgagg acccttctga gacaatgata
4861 ccacactccc agagacccat acaactgatg tcactactag gtgaagctgc actgcatggc
4921 ccatcattct acagcaaaat cagcaaactg gtcatctcag aattgaaaga gggtggaatg
4981 gacttttacg tgcccaggca agaaccaatg tttaggtgga tgagattctc agatttgagc
5041 acgtgggagg gcgatcgcaa tctggctccc agttatgtga atgaagatgg cgtcgaatga
5101 cgctgctcca tctagtgatg gtgccgccgg cctcgtccca gagatcaaca atgaggcaat
5161 ggcgctagag ccagtggcgg gtgcagcgat agcagcacct ctcactggcc agcataatat
5221 aattgatccc tggattatga ataattttgt gcaagcacct ggtggtgagt ttacagtgtc
5281 ccctagaaat tcccctggtg aagtgctcct taaattggaa ttgggtccag aaataaaccc
5341 ctatttggcc catcttgcca gaatgtacaa tggttatgca ggtggatttg aagtgcaggt
5401 gatccttgct ggaaatgcgt ttacagcagg gaaaataatc tttgcagctg tacccccaaa
5461 ctttccaatt gacaatttga gcccagcaca gatcacaatg tgcccacatg tgattgtgga
5521 tgtcagacag ctggaaccaa tcaaccttcc aatgcctgat gttcgcaaca ccttctttca
5581 ttacaatcaa ggagctgatt cgagattgtg cttagttgca atgttataca cacctcttag
5641 ggcaaataat tctggtgatg atgtctttac tgtgtcttgt agagtgctga ctaggcctag
5701 ccctgatttc tcattcaact ttcttgtgcc acccactgta gagtcaaaga tgaaaccctt
5761 tactatcccc attctgacta tctctgaaat gtctaactct aggttcccag tgccgattga
5821 ctcactgcac accagcccaa ctgagaatat cgttgtccag tgccaaaatg ggcgcgtcac
5881 ccttgatggt gagttgatgg gcaccaccca gcttctgccc agtcaaatct gtgctttcag
5941 aggcgtgctc actggatcaa caagcagggc cagtgaccaa accgacacag caacccccag
6001 gcagttcaat caccgttggc acatacaatt ggataatcta aatggaaccc cctatgaccc
6061 tgcagaggac gtcccaggcc ccctaggaac accagacttt cggggcaaga tcttcggcgt
6121 ggccagccag aggaaccctg acagcacaac tagagcacat gaagcaaagg tgaacacagc
6181 agctggtcgt ttcaccccaa aattaggttc actagagatg tccactgaat cagatgactt
6241 tgaccaaaat cagccaacaa gattcacccc agtcggcatt ggggttgaca atgaaatgga
6301 ctttcaacag tggtctttac ctaactattc tggtcagctc acccacaaca tgaacctggc
6361 accagctgtt gctcccaact tccctggtga gcagctcctc ttcttccgct cacagttacc
6421 atcctctggt gggcggtcca gcgggatcct agattgcctg gtcccccaag agtgggttca
6481 acatttctac caggagtcgg cccccgctca aacccaagtg gccctggtta gatatgtcaa
6541 ccctgacact ggtagagtgc tgtttgaggc caagttacac aaactaggct tcttgaccat
6601 agctaagaat ggtgattctc caataactgt ccctccaaat ggttacttta ggtttgagtc
6661 ttgggtgaac ccattttaca cacttgcccc catgggaact gggaacgggc gtagaaggat
6721 tcaataatgg ctggagcttt tatagcaggg ttagctggtg acatgttaac aaatactgta
6781 gggtctctgg ttaatgcagg ggctaatgcc atcaatcaaa cagttgaatt tgaaaataac
6841 aaatacttac aaaatgcttc ctttaatcat gataaagaaa tgttgatagc acaagttgag
6901 gcaacaaaga aactacaggc tgatatgatg gccatcaagc agggggtttt gaccgctggc
6961 ggcttctccc ctactgatgc agcccgcggg gcaattaatg cccccatgac aaaagtccta
7021 gattggaatg gaacaaggct ctgggcacca aatgccacct ccacaacctc gatgtcgggt
7081 ggcttcacac atcaggcagt gcgcaggacc acgccagact tcaaaatgaa ccaggctccc
7141 aaatccacac ctagcagtgg gtcttcagtg aggtcaaaca caacccaagt gactagtctg
7201 agctcacact catccgggtc gtcccgatcc agtgggtcta cagtagtcag ctcattacca
7261 tcatctaaca ggactagaga ttgggttaac caacagaact tcaatttgga accacacatg
7321 cctgggtctc tcaggacggc ttttgtcact ccaccatcta gcacagcttc tagttcaggt
7381 acggtctcaa ccgtgcccaa aaatgttttg gactcctgga catctgcgtt taacacgcgc
7441 agacagccgc tattcgcaca ccttcgcaga aggggggagt caaatgttta gtgaaaagat
7501 tgctttaaat ttgatttaaa ttaaatttga tttggaatct ttt
//