Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MK762640 | GII.3 | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 4..5100
ORF2: 5081..6727
ORF3: 6727..7462
LOCUS MK762640 7462 bp RNA linear VRL 13-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2014/GII.P16-GII.3/Sumner0467
nonstructural polyprotein (ORF1) and VP1 (ORF2) genes, complete
cds; and VP2 (ORF3) gene, partial cds.
ACCESSION MK762640
VERSION MK762640.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7462)
AUTHORS Barclay,L., Cannon,J.L., Wikswo,M.E., Phillips,A., Browne,H.,
Montmayeur,A.M., Tatusov,R.L., Burke,R.M., Hall,A.J. and Vinje,J.
TITLE Emergence and characterization of multiple viruses associated with
a novel GII.P16 polymerase in the United States, 2015-2018
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7462)
AUTHORS Barclay,L., Cannon,J.L., Thomas,L.S., Montmayeur,A.M.,
Tatusov,R.L., Chhabra,P. and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (05-APR-2019) Division of Viral Diseases, Centers for
Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA
30329, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. R10; SPAdes v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7462
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Sumner0467"
/isolate="Hu/US/2014/GII.P16-GII.3/Sumner0467"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="14-May-2014"
/note="genotype: GII.P16-GII.3"
gene 4..5100
/gene="ORF1"
CDS 4..5100
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QBX91147.1"
/translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDNPQKPPRPPTPELVKRIPPPPPNGEEEEPVIRYEVKSGISGLPELTTVPQP
DVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAI
SMAKVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLND
SWLNRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIG
KIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPE
DLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFF
PKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLS
TKSASPDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLARE
VARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADT
CPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVE
KAKRDFPGQPDMWKDAFKPDFSHIRLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIAR
ASGLLHERMDEFELQGPTVTTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKT
MEELKQAIKNVIIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHL
KHARIRYYVRCVQEAVYSIMQIAGAAFVTTRIARRMNIQELWSKPPLDQNESEAKEEA
PKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVT
GSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPS
LFITSTHVIPAGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGT
VATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDC
GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGP
GGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRIKGGPSLQQVMRDQLKPFTEPR
GKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEYWN
GETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTDKVYGKIKKRLLWGSDLS
TMVRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS
TQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKISINEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTKLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLKE
YGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPN
HEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 4..996
/gene="ORF1"
/product="p48"
mat_peptide 997..2094
/gene="ORF1"
/product="NTPase"
mat_peptide 2095..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..6727
/gene="ORF2"
CDS 5081..6727
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBX91148.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALDPVAGAAIAAPLTGQ
QNMIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKVIFAAIPPNFPTDNLSAAQITMCPHVIVDVRQLEPINLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFSLPILTISEMSNSRFPVPIDSLHTSPTDNIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGVLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPAP
LGTPDFRGKVFGVASQRNPDSTTRAHEAKVDTTSGRFTPKLGSLEISTESGDFDQNQP
TRFTPVGIGVDNEADFQQWTLPDYSGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGYMTIA
KSGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRVQ"
gene 6727..>7462
/gene="ORF3"
CDS 6727..>7462
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBX91149.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGAGAINQKVDFENNKYLQNA
SFNHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWSG
TRYWAPNATSTTSVSGGFTGQAVHRATPNFTTNQAPKSTPSSGSSVRSNSTQLTNLSS
HSSGSSRSSGSTMVSSLPSSSRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASSLD
TVSTVPKSVLDSWTSAFNTRRQPLFPH"
ORIGIN
1 tgaatgaaga tggcgtctaa cgacgctacc gttgccgttg cttgcaacaa caacaacgac
61 aaggaaaaat cttcaggtga aggcttattc acaaatatgt cttccacctt aaagaaagcc
121 ctcggggctc ggcctaaaca gcccgccccg agggacaacc cacaaaagcc tccaagacca
181 ccaactcccg agttggttaa gaggataccc cctcccccac ctaatggtga agaagaagaa
241 ccagtcatta ggtatgaggt taagagtggg atctctggcc tgcccgagct cacaacagtc
301 ccccaaccgg atgtggccaa cacggcattc agtgtcccac cgctgagctt gagagaaaac
361 agggaggcca aggaaccgct gacaggggca atattagaga tgtgggatgg agaaatatac
421 cactatggcc tgtacgtgga gaaaggctta gtgttgggtg tgcacaaacc acctgcagct
481 ataagcatgg caaaagtgga gctgacgccg ttgtcattgt actggcgcgt ggtctacacc
541 ccccaatacc tcatctcccc tgaaactctc aggaggctca atggagaggc attcccttac
601 accgcctttg acaacaactg ctatgccttt tgctgctggg tattagacct caatgactca
661 tggcttaaca ggaggatggt acaaagaaca acaggcttct tcagacccta ccaagagtgg
721 aacagaaaac ccctgcccac tatggatgac tccaaaatca agaaggtggc aaacatattt
781 ctgtgttcat tgtccacgct gttcaccaga cctataaaag acctcatagg aaaaattaaa
841 ccattaaata tcctgaacat cctggcaacg tgtgactgga cgttcgccgg aatagtggag
901 tctttgatat tactcgctga actctttgga gttttctgga cacccccaga tgtgtctgct
961 atgatcgctc ccttacttgg agactacgag ttgcaagggc cagaagacct cgccgttgag
1021 ctcgtacctg tggtaatggg agggattggt ttggtgctgg gattcaccaa agagaaaatt
1081 ggcaaaatgt tgtcctcagc agcatcaacg ctcagggctt gtaaagatct tggtgcctat
1141 ggcttagaga tactcaaatt ggtcatgaag tggttcttcc cgaagaaaga agaggccaat
1201 gagctagcca tggtgagagc tatagaggat gctgtactgg atcttgaggc gatagaaaat
1261 aatcacatga caactctgtt gaaagacaaa gacagcctag caacctacat gaaaacactg
1321 gacatggagg aggaaaaagc cagaagattg tccacaaaat ctgcttcccc tgacatagtt
1381 gggacgatca atgccctgct ggctcgaata gcagcggcta ggtcactagt ccacagggcc
1441 aaggaggagt tatctagcag gatgagacca gtggttgtta tgatatctgg caagccaggg
1501 ataggcaaaa ctcatttggc cagggaggtg gcaagaaagg tggcatccac tctcacaggg
1561 gatcaaagag tcgggctcat accgagaaac ggtgtggacc attgggacgc atacaaaggt
1621 gagagagtcg tgctgtggga cgactatggc atgagcaacc ccattcatga tgctctgcgc
1681 atacaagaat tggctgatac gtgtcccctt accttaaatt gtgacagaat tgaaaataag
1741 ggaaaagttt ttgacagtga agtcataata attacaacaa accttgccaa tccagctcca
1801 cttgattatg tcaactttga ggcctgttcc aggagaattg actttctggt gtacgccgag
1861 gcaccagatg tagaaaaggc aaagcgagac tttcctggcc aaccagatat gtggaaggac
1921 gccttcaagc cggacttttc acatatcagg ttgcaacttg cacctcaggg cggctttgac
1981 aagaatggta acaccccaca tgggaaagga gtgatgaaga ctctcaccac cggttccctt
2041 attgcccgtg catcaggctt actgcatgag aggatggatg aatttgaact ccaaggcccc
2101 acagtcacca ccttcaattt cgaccggaac agaatcaccg cattcagaca attggctgca
2161 gaaaacaagt atgggttagt ggacaccatg agagttggca atcaattaaa aggggtgaaa
2221 accatggaag aacttaaaca agcaatcaaa aatgtgatca tcaagaggtg ccgaatcatc
2281 tacggtggct caacgtatga ccttgaatct gatggcaagg gcaaagtttt ggtggaaaag
2341 gtaaagaata cctctgtaca gaccaacaac gagttggctg gagccctgca ccacctcaaa
2401 catgcccgaa tcagatacta tgtcagatgt gtgcaagaag cagtctactc tatcatgcaa
2461 attgctggcg ctgcttttgt caccacacgc attgcgcgcc gcatgaacat acaagaactt
2521 tggtcgaagc caccattaga ccaaaatgag tcagaggcta aggaagaggc ccccaagtca
2581 gaagatgacg agttcatcat atcttctaag gacatcaagg aggaaggaaa gaagggcaaa
2641 aacaaaactg gccgtggcaa gaaacacact gcattctcta gtaagggtct gagcgatgag
2701 gagtatgacg agtacaagag gataagagaa gagagaaatg ggaagtactc tatagaggag
2761 taccttcaag acagagacag gtactatgag gaactcgcca tcgccaaggc cacggaagaa
2821 gatttctgtg aggaggagga gatcaagatc cgtcagagga tcttccgtcc caccaggaaa
2881 caaaggaaag aagagagggc cacactaggg ctagtgactg gttcagaaat cagaaaaaga
2941 aaccctgatg acttcaaacc taaagggaaa ctgtgggccg atgacaacag aagtgttgac
3001 tacaatgaga aactggactt tgaggccccc ccaagcatat ggtctaggat tgtgagcttt
3061 ggttctggct ggggcttttg ggtatcacca agcctgttca taacatcaac tcatgtaatc
3121 cctgcaggca taacagaggc atttggagtc cccatcaagc aaatccaggt ccacaaatca
3181 ggtgaatttt gccggttcag attcccaaaa ccaattagac cagatgtgac aggaatgatc
3241 ttagaagaag gtgcgcctga gggcactgtg gcaaccgtgc tcatcaaacg ccctaccgga
3301 gagctcatgc cccttgcagc cagaatgggg acacacgcaa ccatgaaaat acaaggccgc
3361 atggttggcg gacagatggg tatgttgctc actggttcaa atgctaaagg aatggatttg
3421 gggacaactc ctggtgattg tggctgtccc tacatctaca aaaggggcaa tgactatata
3481 gtcattgggg tgcatacagc agcagcccgt ggtggaaaca ccgtcatctg tgccacacag
3541 ggaagtgagg gtgaggcaac tcttgaaggt ggagatgata aaggaacata ttgtggggca
3601 cccatcctag gccctggagg ggcaccaaaa ttgagcacta aaaccaaatt ttggaggtca
3661 tcaaacacgc ctcttccacc agggacatat gagcctgcct acctcggtgg ccgtgacccg
3721 cgtatcaagg gtgggccctc cttgcagcag gtaatgagag atcagttgaa gccattcact
3781 gagcccaggg gtaaacctcc aagaccaagt gtgttggaag cagccaaaca aaccatcatc
3841 aatgtccttg aacaaaccct ggaccctcca caaaagtgga cttacgcaca ggcgtgtgct
3901 tcacttgaca aaaccacctc cagcgggcat ccccatcacg tccggaagaa tgaatactgg
3961 aacggtgaga ccttcactgg taaattggca gaccaagcat caaaagcaaa tctaatgttt
4021 gaggaaggga aacacatgac accagtgtac acagcagccc tcaaggacga gctggtcaag
4081 actgacaaag tctatggaaa gatcaaaaag agactgctct ggggctctga cttgtccacc
4141 atggtccggt gcgccaggtc ctttggtggg ctcatggatg agatgaaggc acactgcata
4201 tcactcccag tccgagtagg catgaacatg aatgaagatg gtccaataat atttgagaag
4261 cactccagat acaagtacca ttatgatgca gactactccc gctgggattc aacacagcag
4321 agggcagtac tagcagcagc cttggaaatc atggtcaggt tctctgcaga gccacaactg
4381 gcacagatag tcgctgagga tctgttggcc cccagtgtgg tagatgtagg agactttaaa
4441 atttcaataa atgaagggct cccttctggt gtaccatgca cttctcaatg gaactccatc
4501 gcacactggt tgctaactct ctgtgccttg tctgaagtca ccaaactgtc ccctgacatt
4561 gtacaggcaa attccatgtt ctcattctac ggtgatgacg agattgtcag caccgatata
4621 aaattggacc ctgaaaagtt aaccaccaaa ttgaaagagt acggcctgaa accaactcgc
4681 ccagacaaaa ccgagggacc cctgatcatc agtgaggatt tgaacggact cactttcctc
4741 cggaggacgg tgactcgtga cccagctggc tggtttggaa aattggacca aagttcaata
4801 ttgaggcaga tgtactggac tagaggacca aaccatgaag atcccaatga gacaatgata
4861 ccccactctc aaagacccat acagctcatg gcattacttg gtgaggcctc ccttcacgga
4921 ccctctttct acagcaagat tagtaaatta gtcataactg aactcaaaga aggtgggatg
4981 gacttttacg tgccaaggca ggaacccatg ttcaggtgga tgaggttttc tgatttgagc
5041 acgtgggagg gcgatcgcaa tctggctccc aattttgtga atgaagatgg cgtcgaatga
5101 cgctgctcca tctaatgatg gtgccgccgg cctcgtacca gagatcaata atgaggcaat
5161 ggcgctagat ccagtggcgg gtgcagcgat agcagcaccc cttactggcc agcaaaacat
5221 gatagatccc tggattatga ataattttgt acaagcacct ggtggtgagt ttacagtttc
5281 acctaggaac tcccctggtg aagtacttct aaatttagaa ttaggcccag aaataaatcc
5341 ctatctggcg catcttgcta ggatgtacaa tggttatgca ggtgggtttg aggtgcaggt
5401 ggtcctggct ggaaacgcgt ttacagcagg gaaagtgatc tttgcagcca taccccccaa
5461 ttttccaact gataatttga gtgcagcgca gatcacgatg tgtcctcatg taattgtgga
5521 cgtcagacag ttggaaccaa tcaacctccc gatgcctgat gtccgcaaca atttcttcca
5581 ttacaatcaa ggttctgatt cgaggttacg cttaattgca atgttgtata caccccttag
5641 ggcaaataat tctggagatg atgttttcac tgtgtcatgt agggtgttga ctaggcccag
5701 tcctgatttc tcattcaatt tcctcgtccc gcccactgtg gaatcaaaga caaaaccttt
5761 ttccctccct attttgacta tctctgagat gtctaattct agatttccag tgccaattga
5821 ctctctgcac accagtccaa ctgataacat tgttgttcag tgccaaaatg ggcgcgtcac
5881 ccttgatggt gagctaatgg gcaccactca actcttgccg agtcagatat gtgcttttag
5941 gggtgtgctc accaggtcaa caagcagggc cagtgaccaa gctgacacag caacccccag
6001 actcttcaac tactactggc acatacaact agacaaccta aatgggaccc cgtatgatcc
6061 tgcagaggac ataccagccc ctctggggac gccagacttt cggggcaaag tctttggcgt
6121 agccagccag agaaaccctg acagcacaac gagggcacat gaggcaaaag tggacacaac
6181 atctggccgc ttcaccccaa agttgggctc cctagaaata tccactgaat ctggtgactt
6241 tgaccaaaat caaccaacaa gattcacccc agttggcatt ggagttgaca atgaggcaga
6301 cttccaacaa tggaccttac ctgactattc tggtcagttc acccacaaca tgaatctggc
6361 cccagctgtc gctccaaatt ttcccggtga acagcttctt ttctttcgct cacagttgcc
6421 atcctctggc gggcggtcca atggcattct agactgcttg gtcccccagg aatgggtcca
6481 acacttctac caggaatccg cccctgccca aacgcaggtg gctctggtca ggtatgtcaa
6541 ccctgatact ggtagggtgt tatttgaggc taagctgcat aagctaggct acatgaccat
6601 agctaagagt ggtgattctc caataactgt acccccaaat ggatacttta ggtttgaatc
6661 ttgggtgaac cccttttaca cattagcccc catgggaact gggaatgggc gtagaagggt
6721 tcaataatgg ctggagcctt tatagcagga ttggctggtg acatgctcac aaatactgta
6781 gggtctttag ttaatgcagg ggctggtgct attaatcaaa aagttgattt tgaaaataat
6841 aaatatttac aaaatgcatc ttttaatcat gataaggaga tgttaaatgc acaaattgaa
6901 gcaacaaaga ggctgcaggc tgacatgatt gccatcaaac aaggggtttt gaccgctggc
6961 ggtttttccc ccactgatgc agcccgtggg gccattaatg cccccatgac aaaagttctg
7021 gactggagtg gaaccaggta ctgggcacca aatgccacct ccacaacttc agtgtcaggt
7081 ggcttcacag gtcaagctgt gcacagagct acaccaaatt ttacaaccaa tcaagcccca
7141 aaatccacac ccagcagtgg gtcttcagtg aggtcaaact caacccaact taccaatttg
7201 agctcacact catctgggtc ttctcgatcc agcggatcca cgatggtcag ctcgttacca
7261 tcttccagta gaactagaga ctgggtcaac caacagaatt ttaatttgga accacacatg
7321 cctggatctc tcaggacagc ttttgtcact ccaccatcta gtacagcctc tagcttagac
7381 acggtctcaa ccgtgcccaa gagtgttttg gactcctgga catctgcgtt taacacgcgc
7441 agacagccgc ttttcccaca cc
//