Typing tool
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Typing tool
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Complete norovirus genomes
| MT409884 | GII.3 | |
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| GII.P12 |
ORF1: 4..5103
ORF2: 5084..6730
ORF3: 6730..7494
LOCUS MT409884 7532 bp RNA linear VRL 01-JUN-2020
DEFINITION Norovirus GII isolate 236-1 nonstructural polyprotein (ORF1), VP1
(ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MT409884
VERSION MT409884.1
DBLINK BioProject: PRJNA604000
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7532)
AUTHORS Ruelle,S.B., Hirneisen,K.A. and Silva,A.J.
TITLE Direct Submission
JOURNAL Submitted (29-APR-2020) Microbiology, FDA/ORA/PSFFL, 19701
Fairchild, Irvine, CA 92612, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: CLC Genomics Workbench v. 12
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7532
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="236-1"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="04-Dec-2015"
/note="genotype: GII.P12-GII.3"
gene 4..5103
/gene="ORF1"
CDS 4..5103
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QJF54132.1"
/translation="MKMASNDASAAAAANSNNDNAKSSSDGVLSSMAVTFKRALGARQ
KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVWQPD
ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
WLCRRMIQRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGK
VRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLLDTMRVGKQLKDVKTM
SELKQALKNVAIKSCQIVYGGCTYRLESDGKGDVRVDRVQNATVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTEEIASKDGC
PKPQDGEEFVISSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNERLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGRPPKPSVLEAAKKTIVNVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMEELKAHCVTLPVRVGMNMNEDGPIIFERHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQKVAEDLLSPSVMDVGDFKISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIVQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 4..993
/gene="ORF1"
/product="p48"
mat_peptide 994..2091
/gene="ORF1"
/product="NTPase"
mat_peptide 2092..2628
/gene="ORF1"
/product="p22"
mat_peptide 2629..3027
/gene="ORF1"
/product="VPg"
mat_peptide 3028..3570
/gene="ORF1"
/product="Pro"
mat_peptide 3571..5100
/gene="ORF1"
/product="RdRp"
gene 5084..6730
/gene="ORF2"
CDS 5084..6730
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QJF54133.1"
/translation="MKMASNDATPSNDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPMPD
VRNNFFHYNQGSDSRLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPEFSFNFLVPP
TVESKTKPFTLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGVLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPGP
LGTPDFRGKVFGVASQRNPDSTTRAHEAKVDTTAGRFTPKLGSLEISTESDDFDQNQP
TRFTPVGIGVDNEADFQQWSLPDYSGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRVQ"
gene 6730..7494
/gene="ORF3"
CDS 6730..7494
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QJF54134.1"
/translation="MAGAFIAGLAGDIFTNTVGSLVNAGANAINQKVDFENNKYLQNA
SFNHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRYWAPSATSTTSMSGGFTNQAVHRTTPNFKMNQAPRSTPSSGSSVRSLSTQVTSLSS
HSSGSSRSSGSTVASSLPSSNRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 tgaatgaaga tggcgtctaa cgacgcttcc gctgccgctg ctgctaatag caacaacgac
61 aacgcaaaat cttcaagtga cggagtgctc tctagcatgg ctgtcacttt taaacgagcc
121 ctcggggcgc ggcaaaaaca gcctcccccg agggaaatac cacaaaggcc tccacggcca
181 cccaccccag aactggtcaa aaagatccct cctcccccac ccaatgggga ggatgagcta
241 gtggtctctt atagcgccaa agatggcgtt tctggtttgc ctgaactcac cactgtctgg
301 caaccggatg agaccaacac ggcattcagt gttccccctc tcaaccaaag ggagaacagg
361 gacgccaagg agccgctgac cggaacaatc ctggaaatgt gggacgggga gatctatcat
421 tacggtctgt atgtggagcg aggccttgta cttggtgtgc acaaaccacc agctgccatc
481 agcctcgcca aggttgaact agcaccactc tctctatttt ggaggccagt gtacacacca
541 cagtatctca tctctccaga cactcttagg agactgcatg gagagtcgtt cccctacaca
601 gcctttgaca acaactgcta tgccttctgt tgttgggttc tggacctaaa cgactcgtgg
661 ttgtgcagga gaatgatcca gagaacaact ggcttcttca gaccttacca agaatggaac
721 aggaaacccc tccccaccat ggatgactct aaattgaaaa aggtagccaa catattcttg
781 tgtgcgctat cttcgctatt cactaggccc atcaaagaca taataggaaa ggtaagaccg
841 ctcaacatcc ttaacatcct ggcctcatgt gattggactt ttgcaggcat agtggaatct
901 ttgatcctct tggcagagct ctttggagtt ttctggacac ccccagatgt gtctgcgatg
961 atcgccccct tactaggtga ctacgaactg caggggcctg aggaccttgc agtggaactc
1021 gtaccagtag tgatgggagg gattggtttg gtgttaggat tcaccaaaga gaagatcgga
1081 aaaatgttgt catccgccgc ttccacctta agagcttgta aagaccttgg tgcatacgga
1141 ctggaaatcc taaaattggt catgaaatgg ttcttcccaa agaaagagga agcaaatgag
1201 ctagctatgg tgaggtccat cgaggatgcg gtgctggacc tcgaagcaat tgagaacaac
1261 cacatgactg ccctcctcaa agacaaagac agcttggcaa cctacatgag gacccttgac
1321 ctcgaggagg agaaagccag gaagctttca accaagtctg cttcacctga catcgtgggc
1381 acaatcaacg ctcttctggc gagaatcgct gctgcacgtt ccctggtgca tcgggcgaaa
1441 gaggagctct ccagcagacc aagacctgtt gttgttatga tatcaggtag gccagggata
1501 gggaaaactc accttgccag ggagctagcc aagaagatcg cagcttcact cacaggggac
1561 cagcgcgtgg gtctcatccc ccgcaatggc gttgaccact gggatgcata caagggagaa
1621 agagtcgtcc tatgggacga ttatggaatg agcaatccca tccacgacgc cctcaggcta
1681 caggaacttg ctgacacctg cccccttacg ctaaactgtg acaggattga gaacaaagga
1741 aaggtctttg acagtgatgc cataatcatc accactaatc tagccaaccc agcaccattg
1801 gactatgtca actttgaagc atgctcgagg cgcattgact tcctcgtgta cgcagaagcc
1861 cctgaggtcg agaaagcaaa gcgtgatttc ccaggtcaac ctgacatgtg gaagaacgca
1921 tttagctctg acttctcgca cataaaactg gcgctggctc cgcaaggtgg tttcgacaag
1981 aacggaaaca ccccacacgg gaaaggcgtc atgaaaaccc tcaccactgg ttccctcatc
2041 gcccgagcat cagggctact ccatgagagg ttggatgagt acgagctgca gggcccaact
2101 cccaccacct ttaattttga ccgcaacaag gtgcttgcgt tcagacaact tgctgccgaa
2161 aacaagtatg gattgttgga cacaatgaga gttggaaaac agctcaagga tgttaagacc
2221 atgtcagagc tcaaacaggc actcaagaat gtcgcaatca agagttgtca gatagtgtat
2281 ggtggctgca cctacaggct tgagtctgat ggcaagggtg atgtaagagt tgacagagtt
2341 cagaacgcca ctgtacagac caacaatgag cttgccggcg cactacacca tcttaggtgc
2401 gccagaatca gatattatgt caagtgtgtt caggaggccc tgtattccat catccaaatc
2461 gctggggctg catttgttac cacgcgcatt gtcaagcgca tgaacataca agatctctgg
2521 tccaagccac aggtggagga tacagaggaa atcgctagca aggatgggtg cccaaaaccc
2581 caggatggtg aagagtttgt tatctcatcc gacgacatca aaaccgaggg caagaaaggg
2641 aagaacaagt ctggccgtgg caagaaacac acagcatttt caagtaaagg tctcagtgat
2701 gaagagtacg atgagtacaa aagaattaga gaagaaagaa atggcaaata ctccatagag
2761 gaatacctcc aggacagaga caggtattat gaggaggtgg ccatcgccag ggcaaccgaa
2821 gaggacttct gtgaagaaga agaggccaag atccgacaga ggatcttcag gccaacaagg
2881 aaacaacgca aagaggagag agcctctctc ggtttggtca caggttctga aatcaggaag
2941 aggaacccag acgacttcaa gcctaaagga aagctgtggg ctgatgatga caggagtgtt
3001 gactacaatg agagactcag ttttgaagcc ccaccaagca tctggtcgag gatagtcaac
3061 tttggctcag gttggggttt ttgggtttcc cccagcctgt tcataacatc aactcatgtc
3121 ataccccagg gcgcacagga gttctttggt gtacccatca aacaaatcca gatacacaaa
3181 tcaggtgaat tctgccgctt gaggtttcca aagccgatca gaactgacgt gacaggcatg
3241 atcttagaag aaggtgcacc cgaagggacc gtggtcacat tactcatcaa aagaccaact
3301 ggagagctca tgcccctggc agccagaatg ggaacccacg caaccatgaa gatacaaggg
3361 cgcactgtcg gaggtcaaat gggcatgctc ctaacagggt ccaacgccaa gagtatggac
3421 ctgggcacca caccaggtga ctgtggctgc ccctacattt acaagagggg gaatgactac
3481 gtggtcattg gggtccatac agctgccgcc cgtggaggaa acactgtcat ttgtgccacc
3541 caggggagcg agggagaagc cacacttgaa ggcggtgata gcaaggggac ctactgcggt
3601 gcaccaatct taggtccagg aagtgcccca aaactcagca ccaagaccaa gttctggagg
3661 tcatccacgg caccactccc acctggtacc tatgaaccag cttacctcgg tggcaaggac
3721 cccagagtta agggtggccc ttcactgcaa caagttatga gggatcaact gaaaccattc
3781 actgagccta ggggtaggcc accaaaacca agtgtgctag aagctgccaa gaaaaccatc
3841 gtcaatgtcc tagaacagac aattgaccca cctcaaaagt ggtcgtttgc gcaggcatgc
3901 gcatcccttg acaagaccac ttctagcggt catccgcacc acatgcggaa gaatgactgc
3961 tggaacgggg agtccttcac aggaaaattg gcagaccagg cttccaaggc caacctgatg
4021 tttgaggagg gaaagaacat gaccccagtt tacacgggtg cgcttaagga tgagctggtc
4081 aagactgaca agatttatgg taagatcaaa aagaggcttc tctggggttc tgacctggcg
4141 accatgattc ggtgcgctcg agcattcggg ggtctgatgg aggaactcaa agcacattgt
4201 gtcacactac ctgttagggt gggtatgaat atgaatgagg atggccctat catctttgag
4261 agacactcca gatataaata tcattatgat gctgattact cccggtggga ttcaacacaa
4321 caaagagctg tgttggcggc agccttagaa atcatggtca agttttcccc agagccgcac
4381 ctggcccaaa aggttgcaga agaccttctt tctcccagcg tgatggacgt gggtgatttc
4441 aaaatatcaa tcaatgaggg tctcccctcc ggagtgccct gcacctccca atggaattcc
4501 atcgcccact ggctcctcac tctctgtgca ctctccgagg ttacaaacct gtcccctgac
4561 attgttcagg ctaactctct cttttctttc tacggtgatg atgaaattgt gagtacagac
4621 ataaaattgg acccagaaaa actgacagca aaactcaagg aatacgggtt gaaaccgacc
4681 cgccctgaca aaactgaagg gcctctcgtc atttccgaag acctgaatgg cctaaccttc
4741 ctgcggagga ccgtgactcg cgacccagca ggttggtttg gaaagttgga acagagctca
4801 atactcaggc aaatgtactg gactaggggc cccaaccatg aagatccatc tgaaacaatg
4861 ataccacact cccagaggcc catacaattg atgtccttgc tgggagaggc agcactccac
4921 ggcccagcat tctacagcaa aatcagtaaa ctggtcattg cagagttgaa ggagggtggc
4981 atggattttt acgtgccaag acaagagcca atgttcagat ggatgagatt ctcggatctg
5041 agcacgtggg agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgaa
5101 tgacgccact ccatctaatg atggtgccgc cggcctcgtc ccagagatca acaatgaggc
5161 aatggcgcta gaaccagtgg cgggtgcagc gatagcagca cccctcaccg gccagcaaaa
5221 tataattgat ccctggatta tgaataattt tgtgcaagca cctggtggtg agttcacagt
5281 gtctcctagg aattcccctg gtgaagtgct cctcaatttg gaattgggcc cagagataaa
5341 cccctatctg gcccatcttg ctagaatgta taatggttat gcaggtgggt ttgaagtgca
5401 ggtggtcctg gctggaaatg cgtttacagc aggaaagata atctttgcag ctataccccc
5461 taacttccca attgacaatc taagtgcagc acagatcaca atgtgtccac acgtgattgt
5521 ggatgtcagg cagttggaac cggtcaacct cccgatgcct gacgttcgta acaacttctt
5581 ccactacaac caagggtctg attcgagatt gcgcttggtt gcaatgctgt atacacctct
5641 tagggcaaat aactctgggg atgatgtttt cactgtgtct tgtagagtgc tgactagacc
5701 tagtcctgaa ttttcattta acttccttgt gccccccact gtggaatcaa agacaaaacc
5761 ctttaccctc ccaattctga ctatctctga aatgtctaat tctaggtttc cagtgccgat
5821 tgattctctg cacaccagcc caactgagaa tattgttgtc cagtgtcaga atggacgcgt
5881 cactcttgat ggtgagttga tgggcaccac tcagctctta cctagtcaaa tctgtgcttt
5941 caggggcgtg ctcactagat caacaagcag ggctagtgac caggccgaca cagcaacccc
6001 tagattgttt aattattatt ggcacataca attggataat ctaaatggga ctccttatga
6061 tcctgcagaa gacataccag gccccctagg gacaccagat ttccgaggca aagtctttgg
6121 cgtggccagc caaagaaacc ccgacagtac aactagagca catgaagcaa aggtggacac
6181 aacagctggt cgcttcaccc caaaactagg ctcattagag atatccactg aatctgatga
6241 ctttgaccaa aaccaaccaa caagattcac cccagttggc attggggttg acaacgaggc
6301 agacttccaa caatggtcct taccagacta ctctggccag ttcactcaca acatgaactt
6361 agccccagct gttgctccca atttccctgg tgagcagctc cttttcttcc gctcacagtt
6421 accatcttct ggtgggcgat ccaatgggat tctagactgc ctggtccccc aagaatgggt
6481 ccagcacttc taccaagaat cagcccccgc ccaaacccag gtggctctgg ttagatatgt
6541 caaccctgac actggtagag tgttgtttga ggccaagctg cacaaattag gtttcatgac
6601 tatagctaag aatggtgact ctccaataac tgtcccccca aatggatact ttaggtttga
6661 atcttgggtg aacccatttt atacacttgc ccccatggga actgggaacg ggcgtagaag
6721 agttcaataa tggctggtgc ttttatagca ggattagctg gtgatatatt cacaaacact
6781 gtagggtctc tagttaatgc aggggctaat gctattaatc aaaaagttga ttttgaaaat
6841 aacaaatact tgcaaaatgc ttccttcaat catgataagg aaatgttaaa tgcacagatt
6901 gaggcaacaa agaggttaca ggctgacatg attgctatca aacagggggt tttgaccgct
6961 ggcggctttt cccccactga tgcagctcgc ggggcaatta acgcccccat gacaaaagtc
7021 ctagattgga atggaacaag gtactgggca ccaagtgcca cctctacaac ctcgatgtcg
7081 ggtggcttca caaaccaggc tgtgcacaga accacgccaa attttaaaat gaaccaggcc
7141 cccagatcca cacccagcag tgggtcttca gtgaggtcac tctcaaccca agtcactagt
7201 ctgagctcac actcgtccgg gtcgtctcga tctagcgggt ctacagttgc tagctcatta
7261 ccatcctcta acaggactag ggactgggtc aatcagcaaa atttcaattt ggaaccacac
7321 atgcctgggt cgcttaggac ggcttttgtc actccaccat ctagtacagc ctctagttca
7381 ggcactgtct caaccgtgcc caaaaatgtt ttggactcct ggacatctgc gtttaacacg
7441 cgcagacagc cgctattcgc acaccttcgt agaagggggg agtcaaatgt ttagtgaaaa
7501 ggttatttta aatttgattt aaatttgatt tg
//