Typing tool
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Typing tool
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Complete norovirus genomes
| MT420909 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..4821
ORF2: 4802..6424
ORF3: 6424..7230
LOCUS MT420909 7263 bp RNA linear VRL 01-JUN-2020
DEFINITION Norovirus GII isolate 510-3 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MT420909
VERSION MT420909.1
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 7263)
AUTHORS Ruelle,S.B., Hirneisen,K.A. and Silva,A.J.
TITLE Direct Submission
JOURNAL Submitted (01-MAY-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..7263
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="510-3"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="01-May-2015"
/note="genotype: GII.P31(GII.Pe) - GII.4"
gene <1..4821
/gene="ORF1"
CDS <1..4821
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QJI54887.1"
/translation="ELTTVRQPEETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEI
YHYGLYVERGLILGVHKPPAAISLAKVELTPLSLFWRPVYTPQYLISPDTLRRLHGES
FPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKK
VANIFLCTLSSLFTRPIKDIIGKLKPLNILNILATCDWTFAGIVESLILLAELFGVFW
TPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTL
RACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKD
KDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINSLLARIAAARSLVHRAKEELSSR
PRPVVVMISGRPGIGKTHLARELAKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVL
WDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDY
VNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDK
NGNTPHGKGVMKTLTTGSLIARASGLLHERLDEYELQGPALTTFNFDRNKILAFRQLA
AENKYGLMDTMRVGKQLKDVKTMSDLKQALKNIAIKKCQIVYNGSTYTLEADGKGSVK
VDKVQSATVQTNNELAGALHHLRCARIRYYVKCAQEALYSIIQIAGAAFVTTRIAKRM
NIQNLWSKPQVEDTEEMTNKDGCLKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTA
FSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAK
IRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNF
EAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCR
LRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRPTGELMPLAARMGTHATMKIQGRTVG
GQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQG
SEGEATLEGGDNKGTYCGAPILGPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKD
PRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQ
ACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEEGKNMTPVYTGALK
DELVKTDKVYGKIKKRLLWGSDLATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNED
GPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSP
SVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSF
YGDDEIVSTDIKLDPEKLTTKLKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRD
PAGWFGKLEQSSILRQMYWTRGPNHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYS
KISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..711
/gene="ORF1"
/product="p48"
mat_peptide 712..1809
/gene="ORF1"
/product="NTPase"
mat_peptide 1810..2346
/gene="ORF1"
/product="p22"
mat_peptide 2347..2745
/gene="ORF1"
/product="VPg"
mat_peptide 2746..3288
/gene="ORF1"
/product="Pro"
mat_peptide 3289..4818
/gene="ORF1"
/product="RdRp"
gene 4802..6424
/gene="ORF2"
CDS 4802..6424
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QJI54888.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLERLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSAEFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPLQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYITVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6424..7230
/gene="ORF3"
CDS 6424..7230
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QJI54889.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGTLPGRANLRDAVPVRGSSSKSS
NSSTATTVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 gagctcacca ctgttagaca accggaagaa accaacacgg cgttcagtgt ccccccactc
61 aaccaaaggg agagcaggga cgccaaggag ccactaactg gaacaattat tgaaatgtgg
121 gatggagaaa tttaccatta cggcctgtac gtggagcgag gtcttatact tggtgtgcac
181 aagccaccgg cagccatcag ccttgccaag gttgagctaa caccgctctc tttgttctgg
241 agacctgtat acacccccca gtatctcatc tctccagaca ctcttaggag attacatgga
301 gagtcattcc cttacactgc atttgacaac aattgctacg ccttttgttg ttgggtgtta
361 gacctaaacg actcatggct aagcaggaga atgattcaga gaacaacagg tttcttcagg
421 ccgtaccagg attggaacag gaagcccctc cccactatgg atgattccaa attaaagaag
481 gtagccaaca tattcttgtg cactttgtct tcactattca ccagacccat taaggacata
541 atagggaagt tgaaacctct taacatcctc aacattctgg ctacatgtga ctggaccttc
601 gcaggcatag tggaatcttt aatactctta gcagaactct ttggagtttt ctggacaccc
661 ccagatgtgt ctgcgatgat cgcccccttg ctaggtgatt atgaactgca aggacctgag
721 gaccttgcag tggaactggt cccaatagtg atggggggga taggtttggt gctaggattt
781 accaaagaga aaattggaaa gatgctatca tccgctgcat ccactttaag agcttgtaaa
841 gaccttggtg catacggact ggaaatctta aaattggtca tgaagtggtt cttcccaaag
901 aaagaggaag caaatgaact ggctatggtg agatccatcg aggatgcagt gctagacctc
961 gaggcaattg aaaacaacca catgaccacc ctactcaaag acaaagacag cttggcaacc
1021 tatatgagaa cccttgacct tgaggaggag aaagccagga aactctcaac caaatctgct
1081 tcacccgata ttgtgggcac aatcaactct cttctggcaa gaatcgctgc tgcacgctcc
1141 ctagtgcatc gggcgaaaga agagctctcc agcaggccga gacctgtcgt tgtgatgata
1201 tcgggaagac cagggatagg gaagactcac cttgccaggg aactggccaa gaagatcgcg
1261 gcctccctca caggggacca gcgtgtgggt cttatcccac gcaatggtgt cgatcactgg
1321 gacgcataca agggcgaaag agttgtccta tgggacgact atggaatgag caaccccatc
1381 catgacgccc tcaggttgca ggagcttgct gacacttgcc ctctcacgct gaattgtgac
1441 agaattgaga acaaagggaa agtctttgac agtgatgcca taattatcac caccaatctg
1501 gccaacccag caccactgga ttatgtcaac tttgaagcgt gctcgagacg tattgacttc
1561 ctcgtgtacg cagaagcccc tgaggtggag aaggcaaagc gcgacttccc aggtcaacct
1621 gacatgtgga agaacgcttt cagtcctgac ttctcacaca taaaactgtc attggctcca
1681 cagggtggtt ttgacaagaa cggcaacacc ccgcatggaa aaggggtcat gaagaccctc
1741 accactggct ccctcatcgc ccgagcatca gggttgctcc atgagaggct ggacgaatat
1801 gaactgcaag gcccagccct caccactttc aactttgacc gcaacaagat acttgctttt
1861 aggcagctcg ctgctgaaaa caagtatggg ctgatggaca caatgagagt tggaaaacag
1921 ctcaaggatg tcaagaccat gtcagacctc aaacaagcac tcaagaacat cgcgatcaag
1981 aagtgccaga tagtgtacaa tggtagcacc tacacacttg aggccgatgg caagggtagt
2041 gtgaaagttg acaaagtgca aagtgccact gtgcagacca acaatgaact agccggtgcc
2101 ctacaccacc taaggtgcgc tagaatcaga tactatgtca agtgcgccca ggaggcactg
2161 tactccatca tccaaatcgc tggggctgca ttcgtcacca cgcgcatcgc taagcgcatg
2221 aatatacaga atctctggtc caagccacag gtggaagaca cagaagagat gaccaacaaa
2281 gatggttgcc taaaacccaa agatgatgaa gagtttgtcg tctcatctga tgacatcaaa
2341 actgagggca agaaagggaa gaataagtcc ggccgtggta agaagcacac agccttttca
2401 agcaaaggac tcagtgatga ggagtacgat gagtacaaga gaatcagaga agaaaggaat
2461 ggtaagtact ccatagaaga gtaccttcag gacagagaca ggtactacga ggaggtggcc
2521 attgccaggg caaccgaaga ggacttctgt gaagaagaag aggccaaaat ccggcagaga
2581 attttcagac caacaaggaa acaacgcaaa gaggagaggg cctctctcgg cttggtcaca
2641 ggctctgaaa tcaggaagag aaacccagaa gacttcaaac ccaagggaaa gctgtgggct
2701 gatgatgaca gaagtgttga ttacaatgag aaactcaact ttgaggcccc accaagcatt
2761 tggtcgcgga tagtcaactt tggttcaggc tggggcttct gggtctcccc cagtctgttt
2821 ataacatcaa cccatgtcat accccaaggt gcaaaagagt tcttcggagt ccctatcaag
2881 cagatccaga tacacaaatc aggtgagttc tgccggttga gattcccaaa accaatcaga
2941 actgacgtga cgggcatgat tctagaagaa ggtgcgcccg agggaaccgt ggtcacactg
3001 ctcatcaaga gaccaactgg agaactcatg cctctggcag ctagaatggg gacccatgca
3061 accatgaaaa ttcaggggcg cacagtcgga gggcaaatgg gtatgctcct gacaggatcc
3121 aacgccaaga gtatggacct aggcacaaca ccaggcgact gcggctgtcc ctacatctac
3181 aagaggggga atgactacgt ggtcatagga gtccatacgg ccgctgcccg tggaggaaac
3241 actgtcatat gtgccaccca ggggagtgag ggagaagcca cacttgaagg aggtgacaat
3301 aaagggacat actgtggcgc accaatcttg ggcccaggga gcgctccgaa gctcagtacc
3361 aagaccaagt tttggagatc atccacaaca ccactcccac ctggcaccta cgaaccagcc
3421 tacctcggtg gcaaagaccc cagggtcaaa ggtggccctt cattgcaaca agttatgagg
3481 gaccagctaa agccattcac agaacccaga ggcaaaccac caagaccaaa tgtgttggaa
3541 gctgccaaga aaaccatcat caatgtcctt gagcaaacaa ttgatccacc ccaaaaatgg
3601 tcgtttgcgc aagcttgcgc atcccttgac aaaaccacct ccagcggcca cccacaccac
3661 atgcggaaaa acgattgttg gaatggggag tccttcacag gaaaattggc tgatcaagcc
3721 tccaaggcca acctaatgtt tgaagaggga aagaacatga ctccagtcta cacaggtgca
3781 cttaaagatg agttggtaaa gaccgataaa gtttatggta agatcaagaa gaggcttctg
3841 tggggttcag atctggcgac catgatacgg tgcgcccgag cttttggagg ccttatggat
3901 gaactcaagg cgcactgtgt cacgcttcct gtcagagttg gtatgaacat gaatgaggat
3961 ggccccatca tctttgagaa gcactccaga tatagatatc actatgatgc tgattattcc
4021 cggtgggact caacacaaca aagggatgtg ctagcagcag cactagaaat catggtcaag
4081 ttctctccag aaccacacct ggcccaggta gttgcagaag acctcctttc ccctagcgta
4141 atggatgtag gtgactttca aatatcaata agtgagggtc ttccctctgg ggtaccttgc
4201 acctcccagt ggaattccat cgcccactgg ctcctcactc tttgtgcact ctctgaagtc
4261 acggacctgt cccctgacat catccaggcc aactcccttt tctccttcta tggtgatgat
4321 gagattgtga gcacagatat aaagttggac ccagagaaac tgacaacaaa actcaaggag
4381 tacgggctga aaccaacccg ccccgacaaa actgaggggc cccttgttat ctctgaagac
4441 ctggatggcc tgacattcct ccggagaact gtgacccgtg acccagctgg ctggtttgga
4501 aaattggaac aaagttcaat tctcagacaa atgtactgga ccaggggtcc caaccatgaa
4561 gatccatttg aaacaatgat accacactcc caaagaccca tacaattgat gtccttgctg
4621 ggcgaggctg cactccacgg cccggcattt tatagcaaga ttagcaaatt agtcattgca
4681 gagttgaagg aaggtggcat ggatttttac gtgcccagac aagagccaat gttcagatgg
4741 atgagattct cagatctgag cacgtgggag ggcgatcgca atctggctcc cagttttgtg
4801 aatgaagatg gcgtcgagtg acgccaaccc atctgatggg tccgcagcca acctcgttcc
4861 agaggtcaac aatgaggtta tggctctgga gcccgttgtt ggtgccgcta ttgcggcacc
4921 tgtagcgggc caacaaaatg taattgaccc ctggattaga aacaattttg tacaagcccc
4981 tggtggagag tttacagtat cccctagaaa cgctccaggt gaaatactat ggagcgcgcc
5041 cttgggacct gatctaaatc cctacctatc ccatttggcc agaatgtaca atggttatgc
5101 aggtggtttt gaagtgcagg taattctcgc ggggaacgcg ttcaccgccg ggaaggtcat
5161 atttgcagca gtcccaccaa attttccaac tgaaggcttg agccccagcc aggtcactat
5221 gttcccccat atagtagtgg atgttaggca actagaacct gtgttgattc ccttacccga
5281 tgttaggaat aatttctatc attataatca atcaaatgac cccaccatta agttgatagc
5341 aatgttgtat actccactca gggctaataa tgctggggat gatgtcttca cagtttcttg
5401 ccgagttctc acgagaccat cccccgattt tgatttcata tttctagtgc cacccacagt
5461 tgagtcaaga actaaaccat tctctgtccc agttttaact gttgaggaga tgaccaattc
5521 aagattcccc attcctttgg aaaggctgtt cacgggtccc agcagtgcct ttgttgttca
5581 accacaaaac ggcaggtgca cgactgatgg cgtgctccta ggcaccaccc aactgtctcc
5641 tgtcaacatc tgcaccttca gaggagatgt cacccacatc acaggtagtc ataactacac
5701 aatgaatttg gcttctcaaa attggaacaa ttatgaccca acagaagaaa tcccagcccc
5761 cctaggaact ccagactttg tggggaagat tcaaggcgtg ctcacccaaa ccacaaggac
5821 agatggctca acacgcggcc acaaagccac agtgtacact gggagcgccg aatttgctcc
5881 aaaactgggt agagttcaat ttgaaactga cacaaaccat gattttgaag ctaaccaaaa
5941 cacaaaattc accccagtcg gtgtcatcca agatggtagc accacccacc gaaatgaacc
6001 cctacaatgg gtgctcccaa gttactcagg cagaaatact cataatgtgc atctggcccc
6061 cgctgtagcc cccacctttc cgggtgagca acttctcttc ttcagatcca ccatgcccgg
6121 atgcagcggg taccccaaca tggatttgga ctgtctactc ccccaggaat gggtgcagta
6181 cttctaccaa gaggcagccc cagcacaatc tgatgtggct ctgctaagat ttgtgaaccc
6241 agacacaggt agggttttgt ttgagtgtaa gcttcataaa tcaggctata ttacagtggc
6301 tcacactggc caacatgatt tggttattcc ccccaatggt tattttagat ttgactcctg
6361 ggtcaaccag ttctacacgc ttgcccccat gggaaatgga acggggcgta gacgtgcagt
6421 ataatggctg gagctttctt tgctggattg gcatctgatg tccttggctc tggacttggt
6481 tcccttatca atgctggggc tggggccatc aaccaaaaag ttgagtttga aaacaacaga
6541 aaattgcagc aagcatcctt ccaatttagc agcaatctac aacaggcttc ctttcaacat
6601 gacaaagaga tgctccaagc acaaattgag gccaccaaaa agttacaaca ggaaatgatg
6661 aaagtcaagc aggcaatgct cctagagggt gggttctctg agacggatgc agcccgcggg
6721 gcaatcaacg cccccatgac aaaagctttg gactggagcg ggacaaggta ctgggctccc
6781 gatgctagga ccacaacata caatgcaggc cgcttctcca cccctcaacc atcggggaca
6841 ctgccaggaa gagctaatct tagggatgct gtccctgttc ggggttcctc cagtaaatct
6901 tctaactcct ctactgctac tactgtgtat tcaaatcaaa ctacttcaac gagacttggt
6961 tctacagctg gttctggtac cagtgtctcg agcctcccgt caactgcaag gactaggagc
7021 tgggttgagg atcagagtag gaatttgtca cctttcatga ggggggcaca caacatatcg
7081 tttgtcaccc caccatctag cagatcctct agccaaggca cagtctcaac cgtgcctaaa
7141 gaggttttgg actcctggac tggcgctttc aacacgcgca ggcagccact cttcgctcac
7201 attcgtaagc gaggggagtc acgggcgtaa tgtgaaaaga caaaattgat tatctttctt
7261 ttt
//