Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MW305568 | GII.4 Yerseke | |
|
|---|---|---|---|
| GII.P4 Hunter |
ORF1: 1..5069
ORF2: 5050..6672
ORF3: 6672..7478
LOCUS MW305568 7524 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate 925SR nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MW305568
VERSION MW305568.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7524)
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JOURNAL Unpublished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 7524)
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..7524
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="925SR"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Paraguay"
/collection_date="2005"
/note="genotype: GII.4[GII.P4]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59040.1"
/translation="AVANSNNDTAKSSSDGVLSSMAVTFKRALGARPKQPPPREVPQR
PPRPPTPELVKNIPPPPPNGEDEIVVSYSAKDGVSGLPDLSTVRQPEESNTAFSVPPL
SHRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLARVELTPLSL
FWRPVYTPQYLISPDALKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPLNILNILA
SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGD
QRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM
WKNAFSSDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEF
ELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVRTMPELKQALNNIS
IKKCQIVYNGCTYTLESDGKGNVRVDRVQSASVQTNNELTGALHHLRCARIRYYVRCV
QEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVENTEETASKDGCPKPKDDEEFVI
SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGRYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD
DFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRST
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGSAPKLSTKT
KFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLE
AAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGRLAD
QASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWDSTQQRAVLAAA
LEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLREYGLKPTRPDK
TEGPLVISEDLNGLTFLRRTVTRDPAGWFGRLEQSSILRQMYWTRGSNHEDPSETMIP
HSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL
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..6672
/gene="ORF2"
CDS 5050..6672
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59041.1"
/translation="MKMASSDAAPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNSYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGTQNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGRIQGVL
TQTTRRDGSTRGHKATVSTGSVHFTPKLGSIQFSTDTSNDFETGQNTRFTPVGVVQDG
GTTHQNEPQQWVLPDYSGRDSHNVHLAPAVAPSFPGEQLLFFRSTMPGCSGYPNMNLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6672..7478
/gene="ORF3"
CDS 6672..7478
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59042.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAVN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALTGRTNLRATVPARGSSGTPS
NTSTAASVYSNQTASTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNV
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 ccgctgttgc taacagcaac aacgacaccg caaaatcttc aagtgacgga gtgctttcta
61 gcatggctgt cacttttaaa cgagccctcg gggcgcggcc taagcagcct cccccgaggg
121 aagtaccaca aagaccccca cgaccaccta ctccagaact ggtcaaaaat atcccccctc
181 ccccgcccaa cggagaggat gaaatagtgg tttcttacag tgccaaagat ggtgtttccg
241 gtttgcctga tctttccacc gtcaggcaac cggaggaatc taacacggcc ttcagtgtcc
301 ctccactcag tcatagggag aatagagatg ctaaagagcc actgacagga acaattctgg
361 aaatgtggga tggagaaatc taccattatg gcctgtatgt ggagcgaggt cttgtactag
421 gtgtgcacaa accaccagct gccatcagcc ttgctagggt cgaactaaca ccactctcct
481 tgttctggag acctgtgtat actcctcagt atctcatctc tccagacgct ctcaagaaat
541 tacacggaga aacgttcccc tacacagcct ttgacaacaa ttgctatgcc ttttgttgtt
601 gggtcctgga cctaaacgat tcgtggctga gtaggagaat gatccagaga acgactggct
661 tcttcaggcc ctaccaagat tggaatagga aacccctccc cactatggat gactccaaat
721 taaagaaggt agctaacata ttcctgtgtg ctctgtcttc gctattcacc aggcccataa
781 aagacataat agggaagctg aggcctctta acatcctcaa catcttggcc tcatgtgatt
841 ggacttttgc aggcatagtg gagtccttaa tactcttggc agaactcttt ggagttttct
901 ggacaccccc agatgtgtct gcgatgattg cccccttact cggtgattac gagctacaag
961 gacctgagga ccttgcagtg gagctcgtcc ctgtagtgat ggggggaatt ggtttggtgc
1021 taggattcac caaagagaag attggaaaaa tgttatcatc tgctgcatcc accttgagag
1081 cttgtaaaga tcttggtgca tatgggctag agatcctaaa gttagtcatg aagtggttct
1141 tcccgaagaa agaggaagca aatgaactgg ctatggtgag atccattgag gatgcagtcc
1201 tggatctcga ggcaattgaa aacaaccata tgaccacctt gctcaaagac aaagacagtc
1261 tggcaaccta catgaggacc cttgaccttg aggaggagaa agccaggaaa ctctcaacca
1321 agtctgcttc acctgacatc gtgggcacaa tcaacgccct tctggcgaga atcgctgctg
1381 cacgttctct ggtgcatcga gcgaaggagg agctttccag cagaccaaga cctgtagtat
1441 tgatgatatc aggtagacca ggaataggga agacccacct tgctagggaa gtggctaaga
1501 gaatcgcagc ctcccttaca ggagaccagc gtgtaggcct cgtcccacgc aatggcgtcg
1561 accattggga tgcgtataaa ggggagaggg tcgtcctatg ggacgactat ggaatgagca
1621 atcccatcca cgatgccctc aggttgcaag aactcgctga cacttgcccc ctcactctaa
1681 actgtgacag gattgagaat aaaggaaagg tctttgacag cgatgtcatc attatcacca
1741 ctaatctggc taacccagca ccactggact atgtcaactt tgaagcatgc tcgaggcgca
1801 tcgacttcct cgtgtatgca gaagcccctg aagtcgaaaa ggcgaagcgt gacttcccag
1861 gtcaacctga catgtggaag aacgccttca gttctgactt ctcacacata aaactaacat
1921 tggctccaca gggtggcttt gacaagaacg ggaacacccc tcacggaaag ggcgtcatga
1981 agactctcac caccggctcc cttattgccc gggcatcagg actactccat gaaagactag
2041 atgaatttga actacagggc ccaactctca ccaccttcaa ctttgatcgc aataaagtgc
2101 ttgccttcag gcaacttgct gctgaaaaca aatatgggtt gatggacaca atgaaagttg
2161 ggaggcagct caaggatgtc agaaccatgc cagagcttaa acaagcactc aataatatct
2221 caatcaagaa gtgccagata gtgtataatg gttgcaccta cacacttgag tctgatggca
2281 agggcaatgt gagagttgac agagttcaga gcgcctctgt gcagaccaac aatgagctga
2341 ctggcgccct gcaccatcta aggtgcgcca gaatcagata ctatgtcagg tgtgtccagg
2401 aggccctgta ttccatcatc cagattgctg gggctgcatt tgtcaccacg cgcatcgtca
2461 agcgcatgaa catacaagat ctatggtcca agccacaagt ggaaaacaca gaggagactg
2521 ccagcaagga cgggtgccca aaacccaaag atgatgaaga gtttgtcatt tcatctgacg
2581 acatcaaaac tgagggcaag aaagggaaga acaagactgg ccgcggcaag aagcacacag
2641 ccttctcaag caaaggtctc agtgatgaag agtatgatga gtacaagagg attagagaag
2701 aaaggaatgg caggtactcc atagaagagt atcttcagga cagggacaaa tactatgagg
2761 aggtagccat tgccagggcg actgaggaag acttctgtga agaggaggag gccaagatcc
2821 gtcaaaggat cttcaggcca acaaggaaac aacgcaagga ggaaagagct tctctcggtt
2881 tagttacagg ttctgaaatt aggaaaagaa acccagatga tttcaaaccc aaggggaaac
2941 tgtgggctga cgatgacaga agtgtggact acaatgagaa actcagtttt gaggccccac
3001 caagcatctg gtcgagaata gtcaactttg gttcaggttg gggattctgg gtctccccca
3061 gcctgttcat aacgtcaacc catgtcatac cccagggcgc aaaggagttc tttggagtcc
3121 ctatcaaaca gattcaggtg cacaagtcag gcgaattctg tcgcttgagg ttcccaaagc
3181 caatcaggac tgatgtgaca ggcatgatct tagaagaagg tgcacccgag ggcaccgtgg
3241 tcacactact catcaaaagg tctactggag aactcatgcc cctagcagct aggatgggga
3301 cccatgcgac catgaaaatc caagggcgca ctgttggagg tcaaatgggc atgcttctga
3361 caggatccaa cgccaaaagc atggatctgg gcaccacacc aggtgattgt ggctgtccct
3421 acatctacaa gagaggaaat gactatgtgg tcattggagt ccacacggct gccgctcgtg
3481 ggggaaacac tgtcatatgt gccacccaag ggagtgaggg agaggctaca ctcgaaggtg
3541 gtgacaataa ggggacatac tgtggtgcac caatcctagg cccagggagt gccccaaaac
3601 tcagcaccaa gaccaaattc tggagatcgt ccacagcacc actcccacct ggcacctatg
3661 aaccagccta ccttggtggc aaggatccca gagtcaaggg cggcccttca ctgcagcaag
3721 tcatgaggga tcagttgaag ccatttacag agcccagggg caagccacca aagccaagtg
3781 tgctagaagc tgccaagaaa accatcatca atgtccttga gcaaacaatt gatccacctg
3841 agaaatggtc attcgcacaa gcttgcgcgt cccttgataa gaccacttcc agtggccacc
3901 cgcaccacat gcggaaaaac gactgctgga acggggagtc tttcacaggc agactggcag
3961 accaggcttc caaggccaac ctgatgtttg aagaagggaa gaacatgacc ccagtctaca
4021 cagctgcgct taaggatgaa ttagttaaaa ctgacaaaat ttacggtaag atcaagaaga
4081 ggcttctctg gggctcggat ttagcgacca tgatccggtg tgctcgagca ttcggaggcc
4141 taatggatga actcaaagca cactgtgtca cacttcccat tagagttggt atgaatatga
4201 acgaagatgg ccccatcatc ttcgagaggc attccaggta cacatatcac tatgatgctg
4261 attactcccg gtgggattca acacaacaga gagccgtgtt ggcagcagct ctagaaatca
4321 tggttaaatt ctccccagaa ccacatttgg ctcaggtagt cgcagaagac cttctttctc
4381 ccagcgtggt ggacgtgggt gacttcacaa tatcaatcaa cgagggtctt ccctctgggg
4441 tgccctgcac ctcccaatgg aactccatcg cccactggct tctcactctc tgtgcgctct
4501 ctgaagttac aaacttgtcc cctgacacta tacaggctaa ttccctcttc tctttctatg
4561 gtgatgacga gattgttagc acagacataa agttggaccc agagaagttg acagcaaagc
4621 tcagggaata tgggttaaag ccaacccgcc ctgacaaaac tgaaggaccc ctcgtcatct
4681 ctgaagactt gaatggcctg actttcctgc ggagaactgt gacccgcgac ccagctggtt
4741 ggtttggaag attagagcag agttcaatac tcaggcaaat gtactggact aggggctcca
4801 accatgaaga cccatctgaa acaatgattc cacactccca aagacccata caattgatgt
4861 ccctactggg ggaggccgca ctccacggcc cagcattcta cagtaaaatc agcaagttag
4921 tcattgcaga gctaaaagaa ggtggcatgg atttttacgt gcccagacaa gagccaatgt
4981 tcaggtggat gagattctca gatctgagca cgtgggaggg cgatcgcaat ctggctccca
5041 gttttgtgaa tgaagatggc gtcgagtgac gccgccccat ctgatgggtc cacagccaac
5101 ctcgtcccag aggtcaataa tgaggttatg gctttggagc ccgttgttgg tgccgctatt
5161 gcggcacctg tagcgggcca acaaaatgta attgacccct ggattagaaa taattttgta
5221 caagcccctg gtggagaatt cacagtatcc cctagaaacg ctccaggtga gatactgtgg
5281 agcgcgcctt tgggccctga tttgaatccc tacctttccc atttggctag aatgtacaat
5341 agttatgcag gtggttttga agtgcaggta atcctcgcgg ggaacgcgtt caccgccgga
5401 aaaatcatat ttgcagcagt cccaccaaat tttccaactg aaggcttgag ccccagccag
5461 gttactatgt tcccccatat aatagtagat gttaggcaac tagaacctgt gttgatcccc
5521 ttacctgatg ttaggaataa tttctatcat tacaatcaat caaatgaccc cactatcaaa
5581 ttgatagcga tgctgtatac accacttagg gctaataatg ctggggatga tgtcttcaca
5641 gtctcttgtc gagttctcac gaggccatcc cccgattttg atttcatatt tttggtgcca
5701 cccacagttg agtcaagaac caaaccattc tctgtcccaa ttctaactgt tgaggagatg
5761 accaattcaa gattccccat tcctttggaa aagttgttca cgggccccag cagtgccttt
5821 gttgttcaac cacaaaatgg caggtgcacg actgatggcg tactcttagg taccacccaa
5881 ctgtctcctg tcaacatctg caccttcaga ggggatgtca cccacattgc aggtactcaa
5941 aattacacaa tgaacctggc ctcccaaaat tggaacaatt atgacccaac agaagaaatc
6001 ccagccccac tgggaactcc agatttcgtg ggaaggatcc aaggcgtgct cacccaaacc
6061 acaaggaggg atggctcgac ccgcggccac aaagctacag tgagcactgg aagtgtccac
6121 tttaccccaa agctgggcag tatccaattc tccactgata caagcaatga ctttgaaact
6181 ggccaaaaca cgagattcac cccagtcggt gttgtccagg atggtggtac cacccatcaa
6241 aatgaacccc agcaatgggt gcttccagat tattcaggca gagatagcca taatgtacac
6301 ctagcccctg ccgtggcccc ctcttttccg ggtgaacaac ttcttttctt taggtccact
6361 atgcccggat gcagcgggta tcctaacatg aatctggatt gcctactccc ccaagagtgg
6421 gtgcagcact tctaccaaga ggcagcccca gcacaatctg atgtggctct gctaagattt
6481 gtgaatccag acacaggtag ggttctgttt gagtgcaagc ttcataaatc aggctatgtc
6541 acagtggctc acactggcca acatgatttg gttatccccc ccaatggtta ttttagattt
6601 gattcctggg tcaaccaatt ctacacactt gcccccatgg gaaatggaac ggggcgtaga
6661 cgtgcattat aatggctgga gctttctttg ctggattggc atctgatgtc cttggctctg
6721 gacttggttc cctaatcaat gctggggctg gggccatcaa ccaaaaagtt gaatttgaaa
6781 acaacagaaa attacaacaa gcttccttcc aatttagcag caacctacaa caggcttcct
6841 ttcaacatga taaagagatg ctccaagcac aaattgaggc caccaaaaag ttgcaacagg
6901 aaatgatgaa agttaaacag gcaatgctcc tagagggtgg gttctctgag acagatgcag
6961 cccgtggggc agtcaacgcc cccatgacaa aggctttgga ctggagcgga acaaggtact
7021 gggctcccga tgctaggact acaacataca atgcaggccg cttttccacc cctcaaccct
7081 cgggggcact gacaggaaga actaatctca gggctactgt ccccgctcga ggctcctctg
7141 gtacaccttc taatacttct actgctgctt ctgtgtactc aaatcaaact gcttcaacga
7201 gacttggttc tacagctggt tctggtacca gtgtctcgag cctcccgtca actgcaagga
7261 ctaggagctg ggttgaggat caaaacagga atttgtcacc ttttatgagg ggggcccaca
7321 acgtatcgtt tgtcacccca ccatctagta gatcctctag ccaaggcaca gtctcaaccg
7381 tgcctaaaga agttttggac tcctggactg gcgctttcaa cacgcgcagg cagcctctct
7441 tcgctcacat tcgtaagcga ggggagtcac gggcataatg tgaaaagaca aaattgatta
7501 tcttccttct ctttagtgtc tttt
//