Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MK773580 | GII.2 | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 1..5010
ORF2: 4991..6619
ORF3: 6619..7369
LOCUS MK773580 7369 bp RNA linear VRL 14-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2016/GII.P16-GII.2/Mecklenburg0359
nonstructural polyprotein (ORF1) gene, partial cds; VP1 (ORF2)
gene, complete cds; and VP2 (ORF3) gene, partial cds.
ACCESSION MK773580
VERSION MK773580.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7369)
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JOURNAL Unpublished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 7369)
AUTHORS Barclay,L., Cannon,J.L., Rath,S., Montmayeur,A.M., Tatusov,R.L.,
Chhabra,P. and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (09-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..7369
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Mecklenburg0359"
/isolate="Hu/US/2016/GII.P16-GII.2/Mecklenburg0359"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="02-Oct-2016"
/note="genotype: GII.P16-GII.2"
gene <1..5010
/gene="ORF1"
CDS <1..5010
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QBY34777.1"
/translation="NMSSTLKKALGARPKQPAPRDKPQKPPRPPTPELVKRIPPPPPN
GEEEEEPVIRYEVKSGISGLPELTTVPQPDVANTAFSVPPLSLRENREAKEPLTGAIL
EMWDGEIYHYGLYVEKGLVLGVHKPPAAVSMARVELTPLSLYWRVVYTPQYLISPEAL
RRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQRTTGFFRPYQEWNRKPLPTM
DDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNILNILATCDWTFAGIVESLILLA
ELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMGGIGLVLGFTKEKIGKML
SSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRAIEDAVLDLEAIENNH
MTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVGTINALLARIAAARSLVHRA
KEELSSRMRPVVVMISGKPGIGKTHLAREVARKVASTLTGDQRVGLIPRNGVDHWDAY
KGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRIENKGKVFDSEVIIITTNLA
NPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKDAFKSDFSHIKLQLA
PQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEFELQGPTITTFNFDRNRI
TAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQAIRNVTIKRCRIIYGGSTYDLES
DGKGKVLVEKVKNTSVQTNNELAGALHHLKHARIRYYVKCVQEAVYSIMQIAGAAFVT
TRIARRMNIQELWSKPQLDQNESETKEEAPKSEDDEFIISSKDIKEEGKKGKNKTGRG
KKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEELAIAKATEEDFCE
EEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYN
EKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIPAGITEAFGVSIKQIQIHKS
GEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPTGELMPLAARMGTHATMKIQ
GRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGNDYIVIGVHTAAARGGNTVI
CATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKTKFWRSSNTPLPPGTYEPAY
LGGRDPRVKSGPSLQQVMRDQLKPFTEPRGKPPRPSVLEAAKQTIINVLEQTLDPPQK
WTYAQACASLDKTTSSGHPYHVRKNEFWNGETFTGKLADQASKANLMFEEGKHMTPVY
TAALKDELVKTEKIYGRIKKRLLWGSDLSTMIRCARSFGGLMDEMKAHCISLPVRVGM
NMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAALEIMVRFSAEPQLAQVVAE
DLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAHWLLTLCALSEVTKLSPDIIQAN
SMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPTRPDKTEGPLIISEDLNGLTFLRR
TVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNETMIPHSQRPIQLMALLGEASLHG
PSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPNFVNEDGV
E"
mat_peptide <1..906
/gene="ORF1"
/product="p48"
mat_peptide 907..2004
/gene="ORF1"
/product="NTPase"
mat_peptide 2005..2535
/gene="ORF1"
/product="p22"
mat_peptide 2536..2934
/gene="ORF1"
/product="VPg"
mat_peptide 2935..3477
/gene="ORF1"
/product="Pro"
mat_peptide 3478..5007
/gene="ORF1"
/product="RdRp"
gene 4991..6619
/gene="ORF2"
CDS 4991..6619
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBY34778.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDVPAPLGAPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VIVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6619..>7369
/gene="ORF3"
CDS 6619..>7369
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBY34779.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLIAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTVSSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAH"
ORIGIN
1 aatatgtctt ccaccttaaa gaaagccctc ggggctaggc ccaaacagcc tgccccgaga
61 gacaaaccac aaaagccccc aagaccacca actcccgagt tggtcaagag gataccccct
121 cctccaccta atggcgaaga agaagaagaa ccagtcatta ggtatgaggt taagagtggg
181 atctctggcc tgcccgagct cacaacagtc ccccaaccgg acgtggccaa cacagcattc
241 agtgttccac cactgagctt gagagaaaac agggaggcca aggaaccgct aacaggggca
301 atattagaga tgtgggatgg agagatatac cactatggcc tgtacgtgga gaaaggctta
361 gtgttgggtg tgcacaaacc acctgcagcc gtaagcatgg caagagtgga gctgacgccg
421 ctgtcattgt actggcgtgt ggtgtacact ccccaatacc tcatctcccc tgaagctctc
481 aggagactca acggagaggc attcccttac accgcctttg acaataactg ctatgccttt
541 tgctgctggg tgttagacct caatgactca tggcttagca ggaggatggt gcaaagaaca
601 acgggcttct tcagacctta ccaagagtgg aacagaaaac ccctgcccac catggatgac
661 tccaaaatta agaaggtagc aaatatattc ctatgttcat tgtccacatt attcaccaga
721 cccataaaag acctcatagg aaaaattaaa ccattaaaca tattgaatat cctggcaacg
781 tgtgactgga cttttgccgg aatagtggag tctctgatat tacttgctga actcttcgga
841 gttttctgga cacccccaga tgtgtctgct atgatcgctc ccttactcgg ggactacgag
901 ttgcaggggc cagaagacct cgccgttgaa ctcgtacctg tggtaatggg ggggattggt
961 ttggtgttgg gattcaccaa agagaaaatt ggcaaaatgt tgtcctcagc agcctcaaca
1021 ctcagggctt gcaaagatct tggtgcctat ggcttagaga tactcaaatt ggtcatgaag
1081 tggttcttcc caaagaaaga ggaggccaat gagttagcca tggtgagggc catagaggat
1141 gctgtactag atcttgaagc aatagaaaat aaccacatga caaccctgtt gaaagacaaa
1201 gacagcttag caacatacat gaaaacactg gacatggagg aggagaaagc caggaggttg
1261 tccacaaaat ctgcatcccc tgacatagtt gggacaatca acgccctgct ggctcgaata
1321 gcagcggcca ggtcattagt ccacagggcc aaggaagagc tatctagcag gatgagacca
1381 gtagttgtta tgatatctgg caaaccagga ataggcaaaa ctcatctggc cagggaggtg
1441 gcaagaaagg tggcatccac tctcacaggg gatcaaagag tcggactcat accaagaaac
1501 ggtgtggacc attgggatgc atacaaaggt gagagagtcg tgctgtggga tgactatggc
1561 atgagtaacc ccattcatga tgctctccgc atacaagaat tggctgatac gtgtcccctc
1621 accttaaatt gtgacagaat tgaaaataag ggaaaagttt ttgacagtga ggtcataata
1681 atcacaacaa accttgccaa tccagcccca cttgattatg ttaactttga ggcctgttcc
1741 aggagaattg atttcctggt gtacgctgag gcaccagaag tagaaaaggc aaaacgggac
1801 tttcctggtc agccagatat gtggaaggac gccttcaagt cggacttttc acacatcaag
1861 ctacagcttg caccccaggg cggctttgac aagaatggca acaccccaca tgggaaagga
1921 gtgatgaaga ccctcactac cggttctctg attgcccgtg catcaggcct actgcatgag
1981 aggatggatg aatttgaact ccaaggtccc acaatcacca ccttcaattt cgaccggaac
2041 agaatcacag cattcagaca attggctgca gagaacaagt atggattggt ggacaccatg
2101 aaagttggca atcaactaaa aggagtgaaa accatggagg aacttaaaca agcaatcagg
2161 aatgtgacca tcaagaggtg ccggatcatc tacggtggct ccacgtatga ccttgaatct
2221 gatggcaagg gcaaagtttt ggtggaaaag gtcaagaaca cctctgtaca gaccaacaac
2281 gagttggctg gggccctgca ccatcttaaa cacgcccgaa tcaggtacta tgtcaaatgt
2341 gtgcaagaag cggtctattc catcatgcaa attgccggcg ctgcgtttgt caccacgcgc
2401 attgcacgcc gcatgaacat acaagaactc tggtcgaagc cacaattaga tcaaaatgaa
2461 tcagagacta aggaagaggc ccccaagtca gaagatgacg agttcatcat atcttctaag
2521 gacatcaagg aggaaggaaa gaagggcaaa aacaaaactg gccgtggcaa gaaacacact
2581 gcattctcca gcaagggctt gagcgacgag gagtatgacg agtacaagag gataagagaa
2641 gagagaaatg ggaagtactc catagaggag tatcttcaag acagagacag gtactatgag
2701 gagctcgcca ttgccaaggc cacggaagaa gatttctgtg aagaggagga gatcaaaatc
2761 cgtcagagaa ttttccgtcc caccaggaaa caaagaaagg aagagagggc cacattaggg
2821 ctagtaacag gttcagaaat cagaaaaaga aaccctgatg acttcaaacc caaagggaag
2881 ctgtgggccg atgacaacag gagtgttgac tacaatgaga aactggactt tgaggccccc
2941 ccaagcatat ggtctaggat tgtgagcttt ggttctggct ggggcttctg ggtgtcacca
3001 agccttttca taacatcaac tcatgtaatc cccgcaggca taacagaagc atttggagtc
3061 tccatcaaac aaattcagat ccacaaatca ggtgaatttt gccgattcag attcccaaaa
3121 ccaattagac cagatgtgac agggatgatc ttggaagaag gtgcgcctga gggcaccgtg
3181 gcaactgtgc tcatcaaacg ccccaccgga gagctcatgc ctcttgcagc cagaatggga
3241 acgcacgcaa ccatgaaaat tcaaggccgc atggttggcg gacagatggg tatgttgctc
3301 actggatcaa atgctaaagg aatggatttg ggaacaactc ctggtgactg tggctgtcct
3361 tacatctata aaaggggcaa tgactatata gtcattgggg tgcacactgc agcagcccgt
3421 ggtggaaaca ccgtcatctg tgccacacag ggaagtgagg gtgaggcaac tcttgagggt
3481 ggagatgaca aaggaacata ctgtggggca cccattctag gccctggggg tgcaccaaag
3541 ttgagcacca aaaccaaatt ttggaggtca tcgaacacgc cccttccacc agggacatat
3601 gagcctgcct acctcggtgg ccgtgatccg cgtgttaaga gtgggccctc cctgcagcag
3661 gtaatgagag accagttgaa gccattcact gaacccaggg gcaaacctcc aagaccaagt
3721 gtattggaag cagccaaaca aaccatcatc aatgtcctcg aacaaaccct ggaccctcca
3781 caaaaatgga catacgcaca ggcgtgtgcc tcacttgaca aaaccacctc cagcgggcat
3841 ccctatcacg tccgaaagaa tgaattctgg aatggtgaga ccttcactgg taaattggca
3901 gaccaagcat cgaaagcaaa cctaatgttt gaggaaggga aacacatgac accagtgtac
3961 acagcagcac tcaaggacga gctagtcaag actgagaaaa tctatggaag gatcaagaag
4021 agactgctct ggggctctga cttgtccacc atgatccggt gcgctaggtc atttggtggg
4081 ctcatggacg agatgaaggc acactgtata tcactcccag tccgagttgg catgaatatg
4141 aatgaagatg gcccaataat atttgagaaa cattccagat acaaatatca ctatgatgca
4201 gactactctc gttgggactc aacacaacag agggcagtac tagcagcagc cttggaaatt
4261 atggtcagat tctctgcaga accacaattg gcacaagtgg tcgctgagga tctgctggcc
4321 cctagtgtag tagatgtagg agactttaaa attacaataa atgaagggct cccctctggt
4381 gtgccatgca cttctcaatg gaactccatc gcacactggc tgctaactct ctgtgccttg
4441 tctgaagtca ccaagctgtc ccctgacatt atacaggcaa attccatgtt ctcattttac
4501 ggtgatgacg agattgtcag caccgacata aaattggacc ctgaacagtt aaccgccaaa
4561 ttgaaggagt acggcctgaa accaacccgc ccagacaaaa ccgagggacc cctgattatc
4621 agtgaagatt tgaacgggct cactttcctc cgaaggacag tgactcgtga cccagctggc
4681 tggtttggaa aactggacca aagttcaatt ttgaggcaga tgtactggac tagaggacca
4741 aatcatgaag accccaatga gacaatgata ccccattctc aaagacccat acagctcatg
4801 gcactactcg gcgaagcctc tcttcacgga ccctctttct acagtaaaat tagtaaattg
4861 gtcataactg agctcaaaga aggtgggatg gacttttacg tgccaaggca ggaacccatg
4921 ttcaggtgga tgaggttttc tgacttgagc acgtgggagg gcgatcgcaa tctggctccc
4981 aattttgtga atgaagatgg cgtcgaatga cgccgctcca tctactgatg gtgcagccgg
5041 cctcgtgcca gaaagtaaca atgaggtcat ggctcttgaa cccgtggctg gtgccgcctt
5101 ggcagccccg gtcactggtc aaacaaatat tatagaccct tggattagag caaattttgt
5161 ccaggccccc aatggtgaat ttacagtctc tccccgtaat gcccctggtg aagtgctact
5221 gaatctagag ttgggtccag aattaaatcc ttatctggca catttagcaa gaatgtacaa
5281 tgggtatgcc ggtgggatgg aggtgcaggt catgttggct gggaacgcgt tcacagccgg
5341 caagttggtc ttcgccgccg tgccgcctca cttcccggtt gaaaacctta gcccacagca
5401 aatcaccatg ttccctcatg tgatcataga tgtgagaacc ttggaacctg ttttattacc
5461 actccctgat gttaggaata atttcttcca ttataatcag aaagatgatc ccaagatgag
5521 aattgtggct atgctttata cccccctcag gtctaatggt tcaggtgatg atgtgtttac
5581 agtctcctgc agagtgttga ctagaccttc ccctgacttt gacttcacat acctggtgcc
5641 accaacagtg gagtctaaaa caaaaccatt caccctccca atcctcacac ttggggaact
5701 ttctaattcc aggttcccag tgtccataga ccagatgtat accagcccta atgaagttat
5761 atcagtgcag tgtcaaaatg gtaggtgcac actggacggg gagctccagg ggacaacgca
5821 actccaagtc agtggcatct gtgctttcaa aggtgaagtg accgcccact tgcatgacaa
5881 tgatcaccta tataatgtta ccatcacaaa cttgaatggg tccccttttg atccctccga
5941 ggatgtccct gcccctctgg gtgcgcctga cttccaggga agggtttttg gtatcatctc
6001 ccaaagagac aaacacaata gtcctgggca taatgaacca gcaaacaggg gacacgacgc
6061 tgtggtcccc acttacacag cacagtacac tccaaaactg ggacaaattc aaattggcac
6121 atggcagact gacgacctta cagtcaatca accagtcaaa ttcactccag ttggactcaa
6181 tgatactgaa cattttaacc aatgggtggt ccctaggtat gctggtgccc taaacctcaa
6241 tacaaacctt gccccttctg ttgctccagt atttccagga gagcgcctgc tcttcttcag
6301 atcatacatc cccctcaagg gcggttatgg aaacccagcc attgattgcc tactaccaca
6361 agagtgggtg caacacttct atcaggaagc agccccctca atgagtgagg tggccctcgt
6421 cagatacatc aacccggaca ctggtcgggc actgtttgag gccaagctcc acagagctgg
6481 tttcatgaca gtctcgagca acaccagtgc cccggtgatt gtgcctgcca acgggtattt
6541 cagatttgat tcttgggtga accaatttta ttctctcgcc cccatgggaa ctgggaatgg
6601 gcgcagaagg gttcaataat ggctggagct tttgtagctg gtcttgcagg ggacgtgctc
6661 agcaatgggc ttagttcatt aatcaatgca ggtgccaatg caataaatca gagggcagaa
6721 tttgatttta atcagaaatt gcagcaaaat tcttttaatc atgataagga gatgttgcag
6781 gctcagattc aggcaactaa gcagctgcag gcagacatga tggctataaa gcaaggggtc
6841 ttgatcgctg gcggcttttc ccctgctgat gcagccagag gtgctgtgaa cgcgcccatg
6901 acacaagcgc tggattggaa tggtacaagg tattgggcac caaactccat gaggaccacg
6961 tcttattctg gaaaattcac atcaaccgcc ccagtgaggc aggccgactt ccagcacacc
7021 cagagccggc cttcgagtgg ctcctctgtg tcttcctttg ccactcagtc ttcaaggcca
7081 actctgacca caaccactgg ttcctcacat ggcacagtct catcaaattc aactcgcagc
7141 acaagcctct cccaatcaac ggtctccaga gctacatcta ggactggtga gtgggttaga
7201 gatcaaaata gaaatttgga accctacatg catggtgcct tacagacagc ctttgtcacc
7261 ccaccttcca gcagggcatc tgacgggaca gtctcaaccg tcccgaaagg tgttttggac
7321 tcctggacac ctgcgtttaa cacccgcagg cagccgcttt ttgcacacc
//