Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MW305631 | GII.3 | |
|
|---|---|---|---|
| GII.P21 |
ORF1: 1..5069
ORF2: 5050..6696
ORF3: 6696..7460
LOCUS MW305631 7513 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate Arg14085 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305631
VERSION MW305631.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7513)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Genome-wide analyses of human noroviruses reveal coexistence of
viral populations evolving under recombination constraints
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7513)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Direct Submission
JOURNAL Submitted (23-NOV-2020) CBER/OVRR/DVP/LHV, U.S. Food and Drug
Administration, 10903 New Hampshire Avenue, Silver Spring, MD
20993, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: High-performance Integrated Virtual
Environment (HIVE) v. 2
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7513
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Arg14085"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Argentina"
/collection_date="2015"
/note="genotype: GII.3[GII.P21]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59229.1"
/translation="VAAKSNSDNAKSSSDGVLSNMAVTFKRALGARPKQPPPSDKPPK
PPRPPTPELVKAIPSPPPNGEDEPIISYNVRGGVSGLPELSTVTQLEENSTAFSVPPL
SQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKIELTPLSL
YWRPVYTPQYLISPDNLRKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLNRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKVKKVANVVLCALSSLFTRPIKDIIGKLKPLNILNILA
TCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEKNELAMV
RSIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDMEEEKARKLSTKSASPDIVGTI
NALLSRIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLARELAKKIASTLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSSPVHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRDFPGQPDM
WKDTFKPDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTAGSLVARASGLLHERLDEY
ELQGPIPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTMTELKQALKNIS
VKKCQLVYGGGTYTLESDGKGNVHVEKVNNTSVQTNNELSGVLHHLRCARIRYYVKCV
QEALYSILQIAGAAFITTRIAKRTNIQNLWSKPQAEVLEEANNEEGCPKPKNDEEFVV
SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD
DFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPT
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGNEGEAMLEGGDNKGTYCGAPILGPGNAPKLSTKT
KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLE
AAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPHHMRKNDYWNGESFTGKLAD
QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGIVKKRLLWGSDLSTMIRCARAFG
GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAA
LEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFKISINEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLREYGLKPTRPDK
TEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPSETMIP
HSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPSFVNEDGVE"
mat_peptide <1..959
/gene="ORF1"
/product="p48"
mat_peptide 960..2057
/gene="ORF1"
/product="NTPase"
mat_peptide 2058..2594
/gene="ORF1"
/product="p22"
mat_peptide 2595..2993
/gene="ORF1"
/product="VPg"
mat_peptide 2994..3536
/gene="ORF1"
/product="Pro"
mat_peptide 3537..5066
/gene="ORF1"
/product="RdRp"
gene 5050..6696
/gene="ORF2"
CDS 5050..6696
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59230.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVHLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTKPSPDFSFNFLVPP
TVESKTKPFSLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGVLTRSTSRASDQADIATPRLFNYYWHIQLDNLNGTPYDPAEDIPGP
LGTPDFRGKVFGVASQRNPDATTRAHEAKIDTTSGRFTPKLGSLEVSTESSDFDQNQP
TRFTPVGIGVDHEPDFQQWTLPDYAGQFTHNMNLAPAVAPNFPGEQLLFFRSHLPSSG
GRSNGILDCLVPQEWVQHFYQESAPSQSQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
gene 6696..7460
/gene="ORF3"
CDS 6696..7460
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59231.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTIDFENNKYLQNA
SFNHDKEMLNAQIEATKKLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRYWAPGATSTTSMSGGFTHQTVHRSTPNSKTNQAPKSTPSSGSSVRSNSTQITSLSS
HSSGSSRSSGSTVISSIPSSNRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 ccgttgctgc caaaagcaac agcgacaacg caaaatcttc aagtgacgga gtattatcta
61 atatggctgt cacttttaaa cgagccctcg gggcgcggcc taaacagccg cccccgagtg
121 acaaaccacc aaaaccccca agaccaccca caccagagtt ggttaaggca attccctccc
181 ccccacccaa cggggaagac gaaccaatca tttcttacaa cgtcagaggg ggtgtttctg
241 gtttgcctga gctctcaact gtcacccaac tggaagagaa ctctacagca tttagcgttc
301 cccctcttag tcagagggag aacagagatg caaaggaacc attgactgga accatcctgg
361 agatgtggga cggggagatc taccattatg gcttatacgt agaacgaggg ttagtgcttg
421 gtgtgcacaa accaccagca gcaatcagcc tagctaagat tgagctgacc cccttgtctt
481 tgtattggag accagtgtac accccacagt acctcatttc ccctgacaat ctcagaaagt
541 tgcatgggga gacattccct tatacagcct ttgacaacaa ctgttatgcc ttctgctgtt
601 gggtgcttga cttgaacgat tcatggctaa acagaaggat gatacagagg acaacaggct
661 tcttccgacc ctaccaggat tggaacagga aacccctccc cacgatggat gactccaaag
721 tgaaaaaggt ggccaatgtt gtcctatgtg ctctctcatc attgttcaca agaccaatta
781 aggacattat tgggaagtta aaacccctaa acattctcaa catcttagcc acatgtgatt
841 ggacttttgc aggcatagta gaatccctga tcctcttggc tgaacttttt ggagttttct
901 ggacaccccc agatgtgtct gcgatgatcg ctcccttact aggtgattat gaactacagg
961 gacccgagga cctcgctgtg gaactcgtac ccgtagtaat gggagggata ggtttggtgc
1021 tgggattcac caaagagaaa atcggcaaga tgctttcttc tgctgcttca accctgaggg
1081 catgtaaaga tctcggtgca tatgggttgg agatcctcaa attggttatg aaatggtttt
1141 tcccaaagaa agaagagaaa aacgaattgg caatggtgag atccatcgag gatgcagtgc
1201 tagaccttga agccattgag aacaaccata tgacagctct actcaaggat aaagacagcc
1261 ttgcaactta catgaggact cttgacatgg aggaggagaa ggcgagaaaa ctttccacca
1321 agtctgcctc tccggatatt gtgggtacga taaatgccct actgtcaagg atagcagctg
1381 cccggtctct agtgcacagg gctaaggaag agctgtcaag caggccccga ccggtcgtct
1441 tgatgatttc agggaaaccg ggtataggga aaacccatct agctagagag ttggcaaaga
1501 agatcgcctc cacactcaca ggtgaccaga gggtgggtct tatcccacgt aacggggtcg
1561 atcactggga tgcatacaaa ggtgaaagag tcgttctctg ggacgactac gggatgagta
1621 gccctgtcca cgacgccctc agactccagg agctcgctga cacctgtcct ctcacactca
1681 actgtgacag gattgagaac aaaggtaaag tctttgacag tgacgtcata ataataacca
1741 ccaatttggc caacccagcg ccactggatt atgtcaactt tgaagcttgc tcgagacgca
1801 tagatttcct cgtctatgct gatgctcccg aagttgagaa ggctaagcgg gacttcccag
1861 gccaaccaga catgtggaaa gacaccttca aacccgactt ctcacacata aaattggcat
1921 tagccccgca aggaggtttt gacaagaatg gtaacactcc tcatgggaag ggagtcatga
1981 agaccctcac tgccggttcc ctcgttgccc gagcatcagg gctcctccac gagaggttag
2041 acgagtatga gctgcagggc ccaattccca caacattcaa cttcgaccgc aacaaggtgc
2101 ttgcttttag gcagcttgct gctgaaaaca agtacggtct agttgacaca atgagggtcg
2161 ggtcacaact caagaatgtc aaaactatga cagaactcaa acaggccctc aagaacatct
2221 cagtcaagaa atgtcagctt gtgtacggtg ggggcacata cacactcgaa tctgatggca
2281 aaggcaatgt gcatgtcgaa aaggtgaaca acaccagtgt gcaaactaac aacgagctct
2341 ccggggtttt gcaccatctc aggtgtgcta gaatcaggta ctatgttaag tgtgttcagg
2401 aagctctcta ctccatctta caaattgccg gggctgcatt catcaccacg cgcattgcta
2461 agcgcacgaa catacaaaac ctctggtcca agccacaagc agaagttcta gaggaggcta
2521 acaacgagga gggttgtcca aaaccaaaaa atgatgaaga atttgtcgtc tcctctgatg
2581 acatcaaaac tgagggtaag aaaggaaaga acaagactgg ccgtggtaag aagcacacag
2641 ccttttccag caaaggactc agtgatgagg aatacgatga gtataagaga atcagggaag
2701 agagaaatgg taagtactcc atagaggaat acctacagga cagagacaaa tactatgagg
2761 aggtggccat agccagggca actgaggaag atttctgtga agaagaggag gcaaaaatcc
2821 ggcagaggat attcagacca acaaggaaac aacgtaaaga ggaaagagct tctcttggtt
2881 tggtcacagg ttctgagatc aggaagagaa acccagatga cttcaagccc aaagggaaac
2941 tatgggctga tgatgacagg agtgttgact acaatgagaa acttagtttc gaggctccac
3001 caagcatttg gtcacgaata gtcaactttg gctcagggtg gggtttttgg gtctcgccca
3061 gcctcttcat aacatcaacc catgtcattc cccaaggcgc gcaggagttc tttggagtgt
3121 ccatcaaaca aatacaaatt cacaagtcag gtgagttctg ccggcttaga ttcccaaaac
3181 caatcaggac agatgttaca ggcatgatct tggaagaagg tgctccagaa ggcactgttg
3241 ccacacttct catcaagaga ccaactgggg aactcatgcc cttggcagcc aggatgggca
3301 cccacgcaac catgaagatt cagggtcgca ctgttggtgg acaaatgggc atgctactca
3361 cagggtctaa cgctaagagc atggatttgg gcacaactcc tggcgattgt ggttgtccct
3421 acatctacaa gagagggaac gactacgtgg tcattggagt tcacaccgcc gccgctcgtg
3481 gaggaaacac cgtcatctgt gcaacccaag gaaacgaggg tgaggccatg ctagagggtg
3541 gtgataacaa gggaacttat tgtggagcac caatattagg ccctgggaat gctcccaaac
3601 tcagcaccaa aaccaaattc tggaggtctt ccaccacccc cctgccaccc ggaacctatg
3661 agccagccta tctgggtggc aaggacccta gagtgaaagg tggcccctca ctgcaacagg
3721 taatgagaga ccaactaaaa ccattcactg agcccagagg caaaccaccc aaaccaagtg
3781 tgctagaagc tgccaaaaag actataatca atgtacttga acaaacaata gacccacctc
3841 aaaaatggac atacgcacaa gcgtgtgcat cactagacaa gaccacttcc agcggtcacc
3901 ctcaccacat gcggaagaac gattactgga atggggaatc tttcacagga aaactggcag
3961 accaagcatc aaaggccaac ctaatgtttg aggaaggaaa gaacatgact ccagtataca
4021 caggagctct gaaagatgag ctagtcaaga ctgacaagat ctatgggata gtcaagaaga
4081 ggctcctgtg gggttcagac ctatcaacca tgatacggtg tgcacgagcc ttcggtgggc
4141 taatggacga gctcaaggcc cattgcgtca cactaccagt cagggttggt atgaacatga
4201 atgaggatgg acccataata tttgagaaac actccagata caaataccat tatgatgcag
4261 attactcccg ctgggactca acacaacaaa gagcagtgct agccgcagcc ctggaaataa
4321 tggtcaaatt ctcaccagaa ccccatctgg cccaagtggt tgcagaagac cttttgtccc
4381 ccagtgtgat ggatgtgggt gatttcaaga tatcaatcaa cgagggattg ccctctggtg
4441 tcccttgcac ttcacaatgg aactccattg ctcactggct cctcacacta tgtgcactgt
4501 ctgaagtcac agacctgtcc cctgacatca tccaggcgaa ttccctgttc tccttttatg
4561 gtgatgatga gatagtgagc acagacatca aattagaccc agagaagttg acagcaaaac
4621 tgagggaata cgggctcaaa ccaacccgcc ctgacaaaac agagggaccc ttaattatct
4681 ctgaagatct gaatggcctg accttcctgc ggagaacagt gacccgcgac ccggccggat
4741 ggtttggcaa gctggaccaa agttcaatac tcaggcagat gtactggacc agggggccaa
4801 accatgaaga cccctctgaa acaatgatac cacactccca aagacccata caactgatgt
4861 cattacttgg tgaagctgca ttgcatggtc catcatttta cagtaaaatc agcaaattgg
4921 tcatttcgga actgaaagag ggtggaatgg atttttacgt gcccagacaa gaaccaatgt
4981 tcaggtggat gagattctca gatttgagca cgtgggaggg cgatcgcaat ctggctccca
5041 gttttgtgaa tgaagatggc gtcgaatgac gccgctccat ctaatgatgg tgccgccggc
5101 ctcgtcccag agatcaacaa tgaggcaatg gcgctagagc cagtggcggg tgcagcgata
5161 gcagcacccc tcactggtca gcaaaatata attgatccct ggattatgaa taattttgtg
5221 caagcacctg gtggtgagtt tacagtgtcc cccagaaatt cccctggtga agtccttctt
5281 aatttggaac tgggcccaga aataaatccc tatttggccc atcttgctag aatgtacaat
5341 ggttatgcag gtggatttga agtgcaggtg gtcctggctg gaaatgcgtt tacagcagga
5401 aagataatct ttgcagccat cccccccaat tttccaattg acaatttaag tgcagcacag
5461 atcacaatgt gcccacatgt gattgtggat gtcaggcagt tggaaccagt ccacctcccg
5521 atgcctgacg ttcgcaacaa cttctttcat tataatcaag ggtctgattc gaggttacgc
5581 ctaattgcga tgctatatac acctcttagg gcaaataatt ctggggatga tgtttttact
5641 gtgtcttgta gagtgctaac taaacctagt cctgatttct cattcaattt tcttgtgcca
5701 cctactgtgg agtcaaagac aaaacccttt tccctcccta tcctgactat ctctgaaatg
5761 tccaattcta ggttcccagt accaattgat tccctacata ccagtcctac tgagaatatt
5821 gttgttcagt gccaaaatgg gcgcgtcacc cttgatggtg agctgatggg caccacccaa
5881 ctcttgccta gccaaatctg tgctttcagg ggcgttctca ccagatcaac aagcagagcc
5941 agtgaccagg ccgatatagc aacccctaga ttgtttaatt attattggca tatacaattg
6001 gataatctaa atggaacccc ttatgatcct gcagaagaca taccaggccc cctagggaca
6061 ccagatttcc gtggcaaagt ctttggcgtg gccagccaga gaaatcctga tgccacgact
6121 agggcacatg aagcaaagat agacaccaca tctggccgct tcaccccaaa gctaggctca
6181 ttagaggtat ccactgaatc tagtgatttt gatcaaaacc aaccaacaag attcacccca
6241 gttggcattg gagttgacca tgagccagac tttcaacaat ggaccctacc cgactacgct
6301 ggtcagttca cacacaacat gaacttagcc ccagctgttg ctcccaattt ccctggtgag
6361 cagctccttt tcttccgctc acacttgcca tcttctggtg ggcgatccaa cgggattcta
6421 gactgcctgg ttccccaaga atgggtacag cacttctacc aagagtcagc cccctctcag
6481 tctcaagtgg ccctggttag gtatgttaat cctgacactg gtagagtgtt atttgaggcc
6541 aagctacaca aattaggttt catgactata gccaagaatg gtgattctcc aataactgtc
6601 cctccaaatg gatattttag gtttgaatct tgggtgaacc ccttttacac acttgccccc
6661 atgggaactg ggaatgggcg tagaaggatt caataatggc tggagctttt atagcaggat
6721 tggctggtga catgctcaca aatactgtag gatctttagt taatgcagga gctaatgcta
6781 ttaatcaaac aattgatttt gaaaataata aatatttgca aaatgcttct tttaatcatg
6841 ataaggagat gttgaatgca caaattgagg caacaaagaa gttacaggct gacatgattg
6901 ctatcaaaca aggggttttg accgctggcg gcttctcccc tactgatgca gcccgtgggg
6961 caattaatgc ccccatgaca aaagtcctag attggaatgg aacgagatac tgggcaccag
7021 gtgccacctc cacaacctcg atgtcgggtg gctttacaca tcaaactgtg cacagatcca
7081 caccaaattc taaaacgaac caggccccta aatccacacc cagcagtggg tcttcagtga
7141 ggtcaaactc aacccaaatc actagcctga gctcacactc gtccgggtcg tctcgatcca
7201 gcgggtctac agttatcagt tcaataccat cctctaacag gactagggac tgggtcaacc
7261 aacaaaattt taatttggaa ccacacatgc ctggatctct taggacagct tttgtcactc
7321 caccatctag tacagcctct agctcaggca cagtctcaac tgtgcccaaa aatgttttgg
7381 actcctggac atctgcgttc aacacgcgca gacagccgct attcgcacac cttcgcagaa
7441 ggggggagtc aaatgtttag tgaaaagatt attttaaatt tggtttaaaa ttaggtttaa
7501 tttggaatct ttt
//