Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MW305570 | GII.2 | |
|
|---|---|---|---|
| GII.P35 |
ORF1: 1..5060
ORF2: 5041..6669
ORF3: 6669..7441
LOCUS MW305570 7441 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate B17-c2 nonstructural polyprotein (ORF1) gene,
partial cds; VP1 (ORF2) gene, complete cds; and VP2 (ORF3) gene,
partial cds.
ACCESSION MW305570
VERSION MW305570.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7441)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Genome-wide analyses of human noroviruses reveal coexistence of
viral populations evolving under recombination constraints
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7441)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Direct Submission
JOURNAL Submitted (23-NOV-2020) CBER/OVRR/DVP/LHV, U.S. Food and Drug
Administration, 10903 New Hampshire Avenue, Silver Spring, MD
20993, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: High-performance Integrated Virtual
Environment (HIVE) v. 2
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7441
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="B17-c2"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Central African Republic"
/collection_date="21-Feb-1976"
/note="genotype: GII.2[GII.P35]"
gene <1..5060
/gene="ORF1"
CDS <1..5060
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59046.1"
/translation="NSNNDTEKSSSDGVLSSMAVTFKRALGARPKQPPPREVPQRPPR
PPTPELVKKIPPPPPNGEDEPVVSYSVKDGVSGLPELSTVRQPDETSTAFSVPPLNQR
ENRDAKEPLTGTIIEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSLFWR
PVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFF
RPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPLNILNILASCD
WTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPEDLAVELVPIVMGGIG
LVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEASELAMVRSI
EDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINAL
LARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLARELAKKIATSLTGDQRV
GLIPRNGVDHWDAYKGERVVLWDDYGMSNPVHDALRLQELADTCPLTLNCDRIENKGK
VFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPGVEKAKRDFPGQPDMWKN
AFSPDFSHIKLMLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEYELQ
GPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGGQLKGVRTMPELKQALKNISIKR
CQIVYGGSTYTLESDGKGNVKVDRVQSTTVQTNNELAGALHHLRCARIRYYVKCVQEA
LYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTEETASKDGCPKPKDDEEFVVSSD
DIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYEEYKRIREERNGKYSIEEYLQDRDKY
YEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPDDFK
PKGKLWADDDRSVDYNERLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGA
QEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPTGEL
MPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRENDYV
VIGVHTAAARGGNTVICATQGNEGEATLEGGDNKGTYCGAPILGPGSAPKLSTKTKFW
RSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLEAAK
KTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHIRKNDCWNGESFTGKLADQAS
KANLMFEEGKSMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFGGLM
DELKAHCVTLPVRVGMNMNEDGPIIFERHSRYRYHYDADYSRWDSTQQRAVLAAALEI
MVKFSPEPHLAQIVAEDLLSPSVMDVGDFKISINEGLPSGVPCTSQWNSIAHWLLTLC
ALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEG
PLIISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSETMIPHSQ
RPIQLMSLLGEAALHGPAFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTW
EGDRNLAPSFVNEDGVE"
mat_peptide <1..950
/gene="ORF1"
/product="p48"
mat_peptide 951..2048
/gene="ORF1"
/product="NTPase"
mat_peptide 2049..2585
/gene="ORF1"
/product="p22"
mat_peptide 2586..2984
/gene="ORF1"
/product="VPg"
mat_peptide 2985..3527
/gene="ORF1"
/product="Pro"
mat_peptide 3528..5057
/gene="ORF1"
/product="RdRp"
gene 5041..6669
/gene="ORF2"
CDS 5041..6669
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59047.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMFTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDNHNVSGHNQPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLKVNQPAKFT
PVGLNDMEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYLPLKGGYGNPA
IDCLVPQEWIQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRIQ"
gene 6669..>7441
/gene="ORF3"
CDS 6669..>7441
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59048.1"
/translation="MAGAFMAGLAGDVLSNGLGSLINAGANAINQRAEFDFNQRLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTSYSGRFTSTAPARQADFQHTQSRPSSGSSVSSYSTQSSRPTLTTIA
GSSHSSTSSNSTRSTNLPSTISRATSRTSEWVRDQNRNLEPYMHGALQTAFVTPPSSR
ASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 ctaacagcaa caacgacacc gaaaaatctt caagtgacgg agtgctttct agcatggctg
61 tcactttcaa acgagccctc ggggcacggc ctaaacagcc gcccccgagg gaagtaccac
121 agaggccccc acgaccaccc actccagaac tggtcaaaaa gatccctcct cccccaccca
181 acggggagga cgaaccagtg gtttcttata gcgtcaaaga tggcgtctcc ggtttgcctg
241 agctttccac tgtcaggcaa ccggatgaaa ccagcacggc gttcagtgtt cccccactca
301 accagaggga gaatagagat gccaaggaac cactaactgg gactattata gaaatgtggg
361 atggggagat ctaccattat ggcctgtatg tggaacgagg ccttgtgctt ggcgtgcaca
421 aaccaccagc tgccatcagc ctcgctaagg tcgaactaac accactttct ctattttgga
481 gacctgtata cactccccag tacctcatct ccccagacac tcttaggaga ctgcacgggg
541 aatcgttccc ctacacagcc tttgacaaca actgctatgc cttctgttgt tgggtcttag
601 acctaaatga ttcatggctg agtaggagaa tgatacagag aacaacaggc ttcttcagac
661 cctaccaaga ctggaatagg aaacccctcc ccactatgga tgattctaaa ttgaagaagg
721 tagccaacat atttctgtgt gccctatctt cgctattcac cagacctatt aaagacataa
781 tagggaagct gagacctctt aacatcctta acatcttagc ctcatgtgac tggacttttg
841 caggcatagt ggaatccctg atactcttgg cagagctctt tggagttttc tggacacccc
901 cagatgtgtc tgcaatgatt gcccccttac taggtgattt cgagctgcag gggcctgagg
961 accttgcagt ggaactcgtt ccaatagtga tggggggaat tggtttggtg ctagggttca
1021 ccaaagagaa gattgggaag atgttgtcgt ctgctgcatc caccttaaga gcttgtaaag
1081 atcttggtgc atacggactg gaaatcttaa aactggtcat gaagtggttc ttcccaaaga
1141 aagaggaagc aagtgagctg gctatggtga ggtccattga ggatgcggtg ctggacctcg
1201 aagcaattga aaacaaccac atgactaccc tgcttaagga caaagatagc ctggcaacct
1261 acatgagaac ccttgacctt gaggaggaga aagccagaaa gctctcaacc aagtctgctt
1321 cacctgacat tgtgggcaca atcaacgccc tcctggcgag gattgctgct gcccgctccc
1381 tggtgcaccg ggcaaaggaa gaactttcca gtaggccaag acccgttgtt gtgatgatat
1441 caggcaaacc agggataggg aagacccacc ttgccaggga actggccaag aagatcgcaa
1501 cctccctcac aggggaccag cgggtaggtc tcatcccacg caatggcgtt gaccactggg
1561 acgcatacaa gggagagagg gtcgtcctct gggatgacta tggaatgagt aatcccgtcc
1621 atgatgccct caggttacaa gaactcgctg atacttgccc cctcacacta aattgtgaca
1681 gaattgagaa caaaggaaag gtctttgaca gtgatgctat aattattacc accaatttgg
1741 ccaacccagc accactggac tatgtcaact ttgaggcatg ctcgaggcgc atcgactttc
1801 tcgtgtatgc cgatgcccct ggagtcgaaa aggcgaaacg tgatttccca ggccaacctg
1861 acatgtggaa gaacgctttc agtcctgact tctcgcacat aaaactgatg ctggctccac
1921 agggtggctt tgacaagaac ggcaacaccc cgcatgggaa gggcgtcatg aagaccctca
1981 ctaccggctc cctcatcgcc cgagcatcag gacttctcca cgagagatta gacgaatatg
2041 agctgcaggg tccaactctc acaaccttca actttgaccg caacaaagta cttgctttca
2101 gacagcttgc tgctgaaaat aagtacggac tgatggacac gatgagagtt ggagggcagc
2161 tcaagggtgt caggaccatg ccagaactca aacaagcact caagaacatc tcaatcaaga
2221 ggtgccagat agtgtatggt ggcagcacct atacactcga atctgatggc aagggtaatg
2281 tgaaagttga cagagttcag agtaccactg tgcagaccaa caacgaactg gctggcgctc
2341 tacaccacct cagatgtgcc agaattaggt actatgtcaa gtgtgtccag gaggccctgt
2401 attccatcat ccaaattgct ggagctgcat ttgtcaccac gcgcattgtc aaacgcatga
2461 acatacagga cctctggtct aagccacagg tggaagacac agaagagacc gccagcaagg
2521 atgggtgccc aaaacccaaa gatgatgagg agttcgtcgt ttcatccgac gacattaaga
2581 ctgagggcaa gaaaggaaag aacaagtctg gccgtggcaa gaaacacaca gccttctcga
2641 gcaaaggtct cagtgatgaa gagtacgaag agtacaagag aatcagagaa gaaagaaacg
2701 gtaagtactc catagaagag taccttcagg acagggacaa gtactatgag gaggtggcca
2761 ttgccagggc gaccgaagag gacttctgtg aagaagaaga ggccaagatt cggcagagaa
2821 tttttaggcc aacaaggaaa caacgcaaag aggagagggc ctctcttggt ttggtcacag
2881 gctctgaaat caggaagagg aacccagatg acttcaaacc caaaggaaaa ctgtgggctg
2941 atgacgacag gagtgttgat tacaatgaga ggctcaactt tgaagctcca ccaagcatct
3001 ggtcaaggat agtcaacttt ggttcgggtt ggggattttg ggtttctccc agcctgttca
3061 taacatcaac ccacgtcata ccccaaggtg cacaggagtt ctttggagtc cccatcaaac
3121 agattcagat acacaagtca ggcgaattct gtcgcttgag atttccaaaa ccaatcagaa
3181 ctgatgtgac gggcatgatc ttggaagaag gggcccccga agggaccgtg gctacactac
3241 tcatcaagag gccaaccgga gaactcatgc ccttggcagc cagaatggga acccatgcaa
3301 ccatgaagat ccaaggacgc actgttggag gccagatggg catgctccta acagggtcca
3361 acgctaagag catggaccta ggcactacac caggtgactg tggctgtccc tacatttaca
3421 aaagggaaaa tgactacgtg gtcatcggag ttcacacggc cgctgctcgt ggaggaaaca
3481 ctgtcatatg tgccacccag gggaatgaag gagaagccac gctcgaaggt ggtgacaaca
3541 aagggaccta ctgtggtgca ccaatcttag gtccagggag tgccccaaag ctcagcacca
3601 agactaagtt ttggagatca tctacaacac cactccctcc tggcacctac gaaccagctt
3661 accttggtgg caaggatccc agagttaagg gtggtccctc gttacaacaa gtcatgaggg
3721 accagctaaa accattcaca gaacccaggg gcaaaccacc aaaaccaagt gtgttggagg
3781 ctgccaagaa aaccatcata aatgtccttg aacaaacaat tgacccacct caaaagtggt
3841 cattcgcgca agcttgcgcg tcccttgaca agaccacctc cagtggtcat ccgcaccaca
3901 tacggaaaaa tgattgctgg aacggtgaat ccttcacagg caaactggca gaccaggctt
3961 ccaaggccaa cctgatgttc gaggaaggga agagcatgac cccggtctac acaggtgcgc
4021 tcaaggatga gctggtcaaa actgacaaaa tttatggtaa gatcaagaag agacttctct
4081 ggggctcgga cctggcaacc atgatccggt gcgctcgggc atttggaggt ctaatggatg
4141 aactcaaggc tcactgtgtc acacttcctg tcagagttgg tatgaacatg aatgaggacg
4201 gtcctatcat ctttgagaga cactccagat acagatacca ctatgatgct gattactctc
4261 ggtgggactc aacacaacag agagcagtgc tagcagcagc cctagaaatc atggttaaat
4321 tctccccaga accacacctg gcccagatag ttgcagaaga tctcctctct cccagtgtga
4381 tggatgtagg tgactttaaa atatcaatta atgagggcct cccctctggg gtgccctgca
4441 cctcacagtg gaactccatc gcccattggc tcctcaccct ctgtgcactc tctgaagtta
4501 caaacctgtc ccccgacatc atccaggcta attccctttt ctctttttat ggtgatgatg
4561 aaattgtgag tacagatata aagttggacc cagaaaaatt gacagcaaaa ctcaaagaat
4621 acgggttgaa accaacccgc cctgacaaaa ctgagggacc cctgattatt tctgaagacc
4681 tgaatggttt gaccttcctg cggaggactg taacccgtga cccagctggt tggtttggaa
4741 aattagaaca gagctcaata cttaggcaga tgtactggac taggggcccc aatcatgaag
4801 atccatctga aacaatgata ccacactccc agaggcccat acaattaatg tctttgctgg
4861 gtgaggcggc actccacggc ccagcattct acagtaaaat cagtaagcta gttattacag
4921 agctgaagga aggtggcatg gatttttacg tacccagaca agagccaatg ttcagatgga
4981 tgagattctc agatctgagt acgtgggagg gcgatcgcaa tctggctccc agttttgtga
5041 atgaagatgg cgtcgaatga cgccgctcca tctactgatg gtgcagccgg cctcgtgcca
5101 gaaagtaaca atgaggtcat ggctcttgaa cccgtggctg gcgctgcctt ggcagctcca
5161 gtcactggcc aaacaaacat tatagaccct tggattagag caaattttgt ccaggcccct
5221 aatggtgaat tcactgtttc cccacgtaat gcccctggtg aagtgctact gaatctagag
5281 ttgggtccag aattaaaccc ttatctggca cacttggcaa ggatgtataa cgggtatgcc
5341 ggtggaatgg aggtgcaggt catgctagct ggaaatgcgt ttacagctgg aaagttggtc
5401 ttcgccgcag tcccgcctca tttcccggtt gaaaacctta gcccgcagca aatcactatg
5461 ttcccccatg taattataga tgttagaact ttggaacctg tcctattacc acttcctgat
5521 gtcaggaata atttctttca ttataatcaa aaggatgacc ccaagatgag aattgtggct
5581 atgctttaca ctccccttag atcgaatggt tctggtgatg atgtattcac agtttcttgc
5641 agggtgttaa ctaggccctc ccctgacttt gatttcacat atttggtgcc accaacagtg
5701 gaatctaaaa caaaaccatt tacacttcca atccttacac tcggggagct ttccaattcc
5761 agattcccgg tatctataga ccaaatgttc actagcccta atgaagtcat atctgtgcag
5821 tgtcagaatg gcaggtgcac actggacggg gagctccaag ggacaacaca gctccaagtc
5881 agtggtattt gtgcattcaa aggagaagtg accgcccatt tacacgataa tgaccacctc
5941 tacaatgtca ccatcacaaa tttgaatggg tccccttttg acccctctga ggacatcccc
6001 gctcccctgg gtgtgcccga tttccaaggg agggtcttcg gcatcattag ccaaagagat
6061 aatcacaatg tcagtggaca taaccagcct gcaaacaggg ggcatgacgc tgtggtccca
6121 acctatacag ctcaatacac cccaaaattg ggtcaaattc aaattggcac gtggcagact
6181 gatgacctaa aagttaacca acctgccaag ttcaccccag ttggtctcaa tgatatggag
6241 cattttaatc aatgggtggt tcccagatac gctggtgcac taaatttaaa cacaaatctt
6301 gccccttccg ttgcaccagt attcccagga gaacggttgc tcttcttcag atcatacctt
6361 cctctcaaag gtggttacgg caacccagcc attgactgcc tggtgccaca ggaatggata
6421 cagcacttct accaagaagc tgccccctca atgagtgagg ttgcccttgt taggtacatc
6481 aacccggaca ctggtcgggc gctgtttgag gccaagctcc acagggctgg ttttatgaca
6541 gtctcgagta acaccagtgc tccggtggtc gtgcctgcca atggatactt tagatttgac
6601 tcctgggtga accaatttta ctctcttgcc cccatgggaa ctggcaatgg gcgtagaagg
6661 attcaataat ggctggtgct tttatggctg gtttagcagg agacgtgctc agcaatgggc
6721 tcggctcatt aattaatgca ggtgctaatg caataaatca gagagcagag tttgatttta
6781 atcagaggtt acagcaaaat tcttttaatc atgataagga gatgttgcag gctcagatac
6841 aggcaactaa gcagctgcag gcagacatga tggccataaa gcagggggtg ttgaccgctg
6901 gcggcttctc ccctgctgat gcagccaggg gtgctgtaaa cgcacccatg acacaagcgc
6961 tagattggaa tggtacaagg tactgggcac caggctccat gagaacaact tcctactccg
7021 gaaggttcac atcaaccgct ccagcaagac aggctgactt ccaacacacc cagagtcggc
7081 cttcgagtgg ttcttccgtg tcctcctact ctacacaatc ctcaagacca accttaacca
7141 caattgcagg gtcttcacac agctcaacct catccaattc gacccgtagc acaaatctcc
7201 cctcgactat ttctagagcc acttctagga ctagtgaatg ggttagagac caaaatagga
7261 atttggaacc ctacatgcat ggtgctttac aaacggcctt tgttacacca ccttctagca
7321 gggcatccga tgggacggtc tcaaccgttc ccaagggtgt tttggactcc tggacacctg
7381 cgttcaacac ccgcaggcag ccgctttttg cacacctccg taagaggggg gagtcacaag
7441 c
//