Typing tool
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Typing tool
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Complete norovirus genomes
| MT362912 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7506
LOCUS MT362912 7553 bp RNA linear VRL 01-JUN-2020
DEFINITION Norovirus GII isolate 432-1 nonstructural polyprotein (ORF1), VP1
(ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MT362912
VERSION MT362912.1
DBLINK BioProject: PRJNA604000
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7553)
AUTHORS Silva,A., Wolfe,J., Yang,Z., Hirneisen,K. and Ruelle,S.
TITLE Application of whole-genome sequencing for Norovirus outbreak
tracking and surveillance efforts in Orange County, CA
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7553)
AUTHORS Silva,A., Wolfe,J., Yang,Z., Hirneisen,K. and Ruelle,S.
TITLE Direct Submission
JOURNAL Submitted (21-APR-2020) Schmid College of Science and Technology,
Chapman University, 1 University Drive, Orange, CA 94526, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: CLC Genomics Workbench v. 11
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7553
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="432-1"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="10-Apr-2017"
/note="genotype: GII.4 New Orleans[P4 New Orleans]"
gene 1..5100
/gene="ORF1"
CDS 1..5100
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QJC69080.1"
/translation="MKMASNDATAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARP
KQPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVTYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTM
PELKQALKNVSIKKCQIVYNGCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPERWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
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..6703
/gene="ORF2"
CDS 5081..6703
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QJC69081.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6703..7506
/gene="ORF3"
CDS 6703..7506
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QJC69082.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGVLPGRTNLRDAVPARGSSKSSN
SSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNIS
FVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 atgaagatgg cgtctaacga cgctaccgct gccgctgttg ctaacagcaa caacgacacc
61 gcaaaatctt caagtgacgg agtgctttct agcatggctg tcacttttaa acgagccctc
121 ggggcgcggc ctaaacagcc ccccccgagg gaaaaaccac aaagaccccc acgaccaccc
181 acaccagaac tggttaaaaa tattcccccc cccccaccca acggagagga tgaaatagtg
241 gttacttata gtgtcaaaga tggtgtttcc ggcttgcctg acctttccac cgtcagacag
301 ccggaagaat ccaacacggc cttcagtgtc cctccactca atcagaggga gaacagagat
361 gctaaggaac cactcactgg aacaattctg gaaatgtggg acggggaaat ctaccattat
421 ggcctgtatg tggagcgagg tcttgtacta ggcgtacaca aaccgccagc tgccatcagc
481 ctcgctaagg ttgagttggc accactctcc ttatactgga ggcctgtgta cactcctcag
541 tacctcatct ctccagacac tctcaagaaa ttgtccgggg aaacgttccc ctacacagca
601 tttgacaaca actgctatgc cttttgttgc tgggttctgg acctaaatga ctcgtggctg
661 agcaggagaa tgatccagag gacaactggt ttcttcaggc cctaccaaga ctggaatagg
721 aaaccccttc ccactatgga tgactccaaa ataaagaagg tggccaatat atttctgtgt
781 gccctgtcct cgctattcac caggcccata aaagatataa tagggaaaat aaggcctctt
841 aacatcctca acatcttggc ctcatgtgat tggacctttg cgggcatagt agagtccctg
901 atactcttag cagagctctt tggagttttc tggacacccc cagatgtgtc tgcaatgatt
961 gcccccttac ttggtgacta cgagctacaa ggacctgagg accttgcagt ggagctcgtc
1021 cccgtggtga tggggggaat tggtttggtg ctaggattca ccaaagagaa aattgggaaa
1081 atgttgtcat cagctgcgtc caccttaaga gcttgcaaag accttggtgc atatgggcta
1141 gagatcctaa agctagtcat gaagtggttc ttcccgaaga aggaggaggc aaatgagctg
1201 gctatggtga ggtccatcga ggatgcagtc ctggatctcg aagcaattga aaacaatcat
1261 atgaccacct tgcttaaaga taaagacagt ctggcaacct acatgagaac actcgatctt
1321 gaagaggaga aagccaggaa actctcaacc aagtctgcct cacctgacat cgtgggcaca
1381 atcaacgccc tcctggcgag aatcgctgcc gcacgttctc tggtgcatcg agcgaaggag
1441 gagctttcca gcagaccaag acctgtggtg ttgatgatat caggtaggcc aggaataggg
1501 aagacccacc tcgctaggga agtggctaag agaatcgcag cctcccttac aggagaccag
1561 cgtgttggtc tcatcccacg caatggcgtc gaccactggg atgcgtataa gggggagagg
1621 gtcgtcctat gggacgatta tggaatgagc aaccctattc acgatgccct caggctgcaa
1681 gaactcgctg acacttgccc cctcactctg aactgtgaca ggattgaaaa taagggaaag
1741 gtctttgaca gcgatgtcat cattatcacc actaatctgg ccaacccagc cccactggac
1801 tatgtcaact ttgaagcatg ctcgaggcgc attgacttcc tcgtatatgc agaagcccct
1861 gatgtcgaaa aggcgaagcg tgacttccca ggccagcctg acatgtggaa gaacgctttc
1921 agttccgatt tctcacacat aaaactagca ctggccccac agggtggttt cgacaagaac
1981 gggaacaccc cacacggaaa gggcgtcatg aagactctca ccactggctc ccttattgcc
2041 cgggcatcag ggctactcca tgagaggtta gatgaatttg aactgcaggg cccagctctc
2101 accaccttca atttcgatcg caataaagtg cttgccttta gacagcttgc tgctgaaaac
2161 aaatatggac tgatggacac aatgagggtt gggaaacagc tcaaggatgt caaaaccatg
2221 ccagaactca aacaagcact caagaatgtc tcaatcaaga agtgtcaaat agtgtataat
2281 ggttgcacct acatgcttga gtctgatggc aagggcaatg tgaaagttga caggatccag
2341 agcgccgccg tgcagaccaa caatgagctg gctggtgccc tgcaccactt gaggtgcgcc
2401 agaatcagat actatgtcaa gtgtgtccag gaagccctgt attccatcat tcaaattgct
2461 ggggctgcat ttgtcaccac gcgcattgcc aagcgcatga acatacagga tctatggtcc
2521 aagccacaag tggaaaatac agaggaaact accagcaagg acgggtgccc aaaacccaag
2581 gatgatgagg agtttgtcat ttcatccgac gacatcaaaa ctgagggcaa gaaagggaag
2641 aacaagactg gccgtggcaa gaagcacaca gcattttcaa gcaaaggcct cagtgatgaa
2701 gagtacgatg aatacaagag gatcagagaa gaaaggaatg gcaagtactc tatagaagag
2761 tacctccagg acagggacaa atattatgag gaggtggcca ttgccagagc gactgaggaa
2821 gacttctgtg aagaggagga agccaagatc cgacaaagga tctttaggcc aacaaggaaa
2881 caacgcaagg aggaaagagt ctctctcggt ttagtcacgg gctctgaaat taggaaaaga
2941 aacccagatg atttcaaacc caaagggaaa ttgtgggctg acgatgacag gagtgtggac
3001 tacaatgaga aactcagttt tgaggccccg ccaagcattt ggtcaagaat agtcaacttt
3061 ggttcaggct ggggattctg ggtctccccc agcttgttca taacatcaac ccatgttata
3121 ccccagggcg caaaggagtt ctttggagtc cccatcaaac aaatacaggt acacaagtca
3181 ggcgagttct gtcgcttgag attccctaaa ccaatcagga ctgatgtgac gggcatgatc
3241 ttagaagaag gcgcacctga gggcaccgtg gttacactac tcatcaaaag gtccaccggg
3301 gaacttatgc ccctagcagc taggatgggg acccatgcga ccatgaagat ccaagggcgc
3361 actgttgggg gccagatggg catgcttctg acagggtcca acgccaagag tatggacctg
3421 ggtactacac caggtgattg tggctgcccc tacatctaca agagaggtaa tgactatgtg
3481 gtcattggag tccacacggc tgccgcacgt ggggggaaca ctgtcatatg tgccacccag
3541 gggagtgaag gagaggctac acttgagggt ggtgacaaca aggggactta ctgtggtgca
3601 ccaatcctag gcccagggag tgccccaaca cttagcacca agaccaaatt ctggagatcg
3661 tccacagcat cactcccacc tggcacctat gaaccagcct atcttggtgg caaggaccct
3721 agagtcaagg gtggcccttc actacagcaa gtcatgaggg aacagttgaa gccattcaca
3781 gagcccagag gtaagccacc aaaaccaagt gtgttagaag ctgccaagaa aaccatcatc
3841 aatgttcttg agcaaacaat tgatccacct gagagatggt cgttcgcaca agcttgcgcg
3901 tctcttgaca agaccacttc cagtggtcat ccgcatcaca tgcggaaaaa cgactgctgg
3961 aacggggagt ccttcacagg caagctggca gaccaggctt ctaaggccaa cctgatgttt
4021 gaagaaggaa agaacatgac cccagtctac acagctgcgc tcaaggatga gctagttaaa
4081 actgacaaaa tttatggtaa gatcaagaag aggcttcttt ggggctcgga cttggcgacc
4141 atgatccggt gtgctcgggc attcggaggc ctaatggatg aactcaaagc acactgtgtc
4201 acacttcccg ttagagttgg catgaatatg aatgaggatg gccccatcat cttcgagagg
4261 cattccaggt acacgtacca ctatgatgct gattactctc gatgggattc aacacaacag
4321 agagccgtgt tggcggcagc tctagaaatc atggtaaagt tctccccaga accacatttg
4381 gcccaggtag tcgctgaaga ccttctttct cctagcgtgg tggacgtggg cgacttcaca
4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc
4501 gcccactggc ttctcactct ctgcgcgctc tccgaagtca caaacctgtc tcctgacacc
4561 atacaggcta attctctctt ttctttttat ggtgatgatg aaattgttag cacagacata
4621 aaattggacc cagagaaatt gacagcaaaa ctcaaagaat acgggttaaa accaacccgc
4681 cctgacaaaa ctgaaggacc ccttgtcatc tctgaagacc tgaatggcct aactttcctg
4741 cggagaactg tgacccgcga cccagctggt tggtttggaa aactggagca gagttcaata
4801 ctcaggcaaa tgtactggac taggggtccc aaccatggag acccatctga aacaatgatt
4861 ccacattccc aaagacccat acaattgatg tccctactgg gggaggccgc tctccacggc
4921 ccagcatttt acagtaagat tagcaaattg gtcattgcag agctaaaaga aggtggtatg
4981 gatttttacg tgcccagaca agagccaatg ttcagatgga tgagattctc agatctgagc
5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga
5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggttat
5161 ggctctggag cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt
5221 aattgacccc tggattagaa acaattttgt acaagcccct ggtggagagt ttacagtgtc
5281 ccccagaaac gctccaggtg aaatactatg gagcgcgccc ttaggccctg atttaaatcc
5341 ctacctatcc cacttggcca gaatgtataa tggttatgca ggtggttttg aagtgcaggt
5401 gattctcgcg gggaacgcgt tcaccgccgg gaaggtcata tttgcagcag tcccaccaaa
5461 ttttccaact gaaggcttga gccccagcca ggtcactatg ttcccccata tagtagtgga
5521 tgttaggcaa ctagaacctg tgttgattcc cttacccgat gttaggaata atttctacca
5581 ttacaatcaa tcaaatgacc ccaccattaa gttgatagca atgttatata caccacttag
5641 ggctaataat gctggggatg atgtcttcac agtttcttgc cgagttctca cgaggccatc
5701 ccccgatttt gatttcatat ttctagtgcc acccacagtt gagtctagaa ccaaaccatt
5761 ttccgtccca gttttgactg ttgaggagat gaccaattca agattcccca ttcctttgga
5821 aaagttgttc acgggcccca gtagtgcctt tgttgttcaa ccacaaaacg gtaggtgcac
5881 gactgatggc gtgctcctag gcaccaccca attgtctcct gtcaacatct gcaccttcag
5941 aggggatgtc acccacatta caggtagtcg taactacaca atgaatttgg cttctcaaaa
6001 ttggaacaat tatgacccaa cagaagaaat cccagcccct ctaggagctc cagattttgt
6061 ggggaagatt caaggcatgc tcacccaaac cacaagggca gatggctcaa cacgcggcca
6121 caaggctacg gtgtacactg ggagcgccga cttcgctcca aaactgggca gagttcaatt
6181 tgaaactgac acagaccatg attttgaagc taaccaaaac acaaagttca ctccagtcgg
6241 tgtcatccaa gatggcagca ccacccaccg aaatgaaccc caacagtggg tgctcccaag
6301 ttactcaggc agaaatactc ataatgttca tctggccccc gctgtggccc ccacttttcc
6361 gggtgaacaa cttctcttct ttagatccac catgcccgga tgtagcgggt atcccaacat
6421 ggatttggac tgtttgctcc cccaggaatg ggtgcagtac ttctaccaag aggcagcccc
6481 agcacaatct gatgtggccc tgctaagatt tgtgaatcca gacacaggta gggttttgtt
6541 tgaatgcaaa cttcataaat caggctatgt tacagtggct cacactggcc aacatgattt
6601 ggtcatcccc cccaatggtt attttaggtt tgattcctgg gtcaaccagt tctacacgct
6661 tgcccccatg ggaaatggaa cggggcgtag acgcgtagta taatggctgg agctttcttt
6721 gctgggttag catctgatgt cctcggctct ggacttggtt cccttatcaa tgctggggct
6781 ggggccatca accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc
6841 caatttagca gcaatttaca acaggcttcc tttcaacatg acaaagaaat gcttcaagca
6901 caaattgagg ccactaaaaa gctacaacag gaaatgatga aagttaagca ggcaatgctc
6961 ctagagggtg ggttctctga aacagatgca gcccgcgggg caatcaacgc ccccatgaca
7021 aaagctttgg actggagcgg gacaaggtac tgggctcctg atgctaggac tacaacttat
7081 aatgcaggcc gcttttccac ccctcaacca tcgggggtac taccaggaag gactaatctt
7141 agggatgctg tccctgctcg gggttcctct aaatcttcta actcttctac tgctacttct
7201 gtgtactcaa atcaaaccac ttcaacgaga cttggttcta cagctggttc tggcaccagt
7261 gtctcgagtc tcccgtcaac tgcaaggacc aggagctggg ttgaggatca aagtaggaat
7321 ttgtctcctt tcatgagggg ggcccacaac atatcgtttg tcaccccacc atctagcaga
7381 tcctctagcc aaggcacagt ctcaaccgtg cctaaagagg ttttggactc ctggactggc
7441 gccttcaaca cgcgcaggca gcctctcttc gctcacattc gtaaacgagg ggagtcacgg
7501 gcgtaatgtg aaaagacaaa attgattatc tttctttttc tttagtgtct ttt
//