Typing tool
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Typing tool
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Complete norovirus genomes
| OR051927 | GII.4 Den Haag | |
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| GII.P4 Den Haag |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7509
LOCUS OR051927 7509 bp RNA linear VRL 06-OCT-2023
DEFINITION Norovirus GII isolate GII/Hu/US/2014/GII.4DenHaag[P4]/NIH37.1
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION OR051927
VERSION OR051927.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7509)
AUTHORS Chaimongkol,N., Dabilla,N., Tohma,K., Matsushima,Y., Behrle
Yardley,A., Levenson,E.A., Johnson,J.A., Ahorrio,C., Oler,A.J.,
Kim,D.Y., Souza,M., Sosnovtsev,S.V., Parra,G.I. and Green,K.Y.
TITLE Norovirus Evolves as One or More Distinct Clonal Populations in
Immunocompromised Hosts
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7509)
AUTHORS Chaimongkol,N., Dabilla,N., Sosnovtsev,S.V. and Green,K.Y.
TITLE Direct Submission
JOURNAL Submitted (26-MAY-2023) LID, NIAID, 50 South Drive/R6318, Bethesda,
MD 20892, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: HIVE Hexagon/Heptagon v. 2
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7509
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="GII/Hu/US/2014/GII.4DenHaag[P4]/NIH37.1"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="Nov-2014"
/note="genotype: GII.4"
gene 1..5100
/gene="ORF1"
CDS 1..5100
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WHW97613.1"
/translation="MKMASNDASAAAVANSNDDTAKSSSDKMFSNMAVTFKRALGARP
KQPPPREIPQRPPRPPTPELIKKIPPPPPNGEGEVVVSYSAKDGVSGLPELSTVRQPE
ETNTAFSVPPLNQRESRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLYWRPVYTPQYLISPDTLKRLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIHRTTGFFRPYQDWNRKPLPTMDDSKLKKAADIFLCALSSLFTRPIKDIIGK
LKPLNIINILASCDWTFAGIVESLILLAELFGGFWTPPDVSAMIAPLLGDFELQGPED
LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEVDELAMVRSIEDAILDLEAIENNHMTTLLKDKDSLATYMKTLDIEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREI
AKRIATSLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTMGSLTARA
SGLLHERLDEFELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGKRLKDVKTM
PELKQALKNTSIKKCQIVYSGCTYTLESDGNGNVKIDKVQSTSVQTNNELTGALHHLR
CARVRYYVKCVQEALYSILQIAGAAFVTARIIKRVNIQDLWSKPQVENTEEATSKDGC
PRPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPRGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSSHVIPQGAKEFFGVPIKQIQVHKSGEFCHLRFPKPIRTDVTGMILEEGAPEG
TVVTILIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYVYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEQGKNMTPIYTGALKDELVKTDKIYGTIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVMDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCAISETTNLSPDIVQANSQFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSESMIPHSQRPVQLMSLLGEAALHGPTFYSKISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 1..990
/gene="ORF1"
/product="p48"
mat_peptide 991..2088
/gene="ORF1"
/product="NTPase"
mat_peptide 2089..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..6703
/gene="ORF2"
CDS 5081..6703
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WHW97614.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVAGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSKDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPISLDGLFTGPSNALVVQPQNGRCTTDGVLLGTT
QLSPVNICTFKGDVTHIAGSHNFTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIHGML
TQTTRGDGSTRGHKATVYTGSADFTPKLGSVQFNTDTENDFDPHQNTKFTPVGVIQDG
NTTHRNEPQQWELPSYSGRGAQNVHLAPAVAPTFPGEQLLFFRSTLPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYITVAHTGQHNFV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6703..7509
/gene="ORF3"
CDS 6703..7509
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WHW97615.1"
/translation="MAGALFAGMASDVLSSGLGSLINAGAGAINQKIDLENNKELQQA
SFQYSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAVLLEGGFSETDAARGAIN
APMTKALDWNGTRYWAPNANTTTYNTGHFSTPQSSGALSGRFNPRIPTPARGSSNTSS
NASATTSVYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSKSSSQGTVSTVPKEILDSWTGAFNTRKQPLFAQLRRRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgctgttg ctaacagcaa cgacgacacc
61 gcaaaatctt caagtgacaa aatgttttct aacatggctg tcacttttaa acgagccctc
121 ggggcacggc ctaaacagcc ccccccgagg gaaataccac aaagaccccc acgaccacct
181 actccagagc tgatcaaaaa gatccctcct cccccaccca acggggaggg tgaagtagtg
241 gtttcttaca gtgccaaaga tggtgtttcc ggtttgcctg agctttccac cgtcaggcaa
301 ccggaagaaa ccaacacggc cttcagtgtc cctccgctca accagaggga aagcagggat
361 gctaaggagc cactgactgg aacaattctg gaaatgtggg atggggaaat ctaccattat
421 ggcctgtatg ttgagcgagg tcttgtactg ggtgtgcaca aaccaccagc tgccattagc
481 ctcgccaagg tcgaactaac accactctcc ttgtactgga gacctgtgta caccccccag
541 tacctcatct ctccagacac tctcaagagg ttaagcggag aaacatttcc ctatacagcc
601 tttgacaaca actgctatgc tttttgttgc tgggtcctgg atctaaacga ctcatggctg
661 agtaggagaa tgatccatag aacaactggc ttcttcagac cctaccaaga ttggaataga
721 aaacccctcc ccactatgga tgattccaaa ttgaagaagg cagctgacat attcctgtgt
781 gccctgtctt cgctgttcac tagacccata aaagacataa taggaaagtt aaagcctctc
841 aatatcatca acatcctggc ttcatgtgat tggactttcg caggcatagt ggaatcctta
901 atactcttgg cagagctctt tggaggtttc tggacacccc cagatgtgtc tgcgatgatc
961 gcccccttac tcggtgattt cgagttacaa ggacctgagg accttgtagt ggaactcgtc
1021 cccgtagtga tgggggggat tggtttggtg ctgggattca ccaaagagaa gattgggaaa
1081 atgttgtcat ctgcagcatc caccttgaga gcttgtaaag accttggtgc atatgggtta
1141 gagatcctaa agttagtcat gaaatggttc ttcccgaaga aagaggaagt ggatgaactg
1201 gctatggtga gatctattga ggatgcaata ttggaccttg aggcgattga gaacaaccat
1261 atgaccacct tgctcaaaga caaagacagc cttgcaacat acatgaaaac ccttgacatc
1321 gaggaagaaa aagccaggaa actctcaacc aagtctgctt cacctgacat cgtgggcaca
1381 atcaacgccc tcctggcgag aatcgccgct gcacgttccc tggtgcaccg agcgaaggag
1441 gagctttcca gcagaccaag acccgtggtc ttgatgatat caggcagacc aggaataggg
1501 aagacccacc ttgctaggga aatagccaag agaatcgcaa cctccctcac aggagaccag
1561 cgcgtgggcc tcatcccacg caacggcgtc gatcactggg atgcgtacaa gggggagagg
1621 gtcgtcctgt gggacgacta tggcatgagc aaccccatcc acgacgccct caggctgcaa
1681 gaactcgctg acacttgccc cctcactcta aattgtgaca ggattgagaa taaaggaaag
1741 gtttttgaca gcgatgtcat catcataact actaatctgg ccaacccagc accactggac
1801 tatgtcaact ttgaagcatg ctcaaggcgc attgacttcc tcgtgtatgc agaggccccc
1861 gaggtcgaaa aggcaaagcg tgacttcccg ggccaacctg acatgtggaa aaacgctttt
1921 agttcagatt tctcccacat aaaactgaca ctagctccac aaggtggctt tgacaagaac
1981 gggaacaccc cacacgggaa gggcgtcatg aagactctca ccatgggctc cctcactgcc
2041 cgggcatcag ggctgctcca tgagagactg gatgagtttg aactacaagg cccaactctc
2101 accaccttca actttgaccg caacaaagtg cttgccttca ggcagcttgc tgctgaaaac
2161 aaatatgggt tgatggacac aatgaaagtc gggaagcggc tcaaggatgt caaaaccatg
2221 ccagaactta aacaagcact caagaacacc tcaatcaaga aatgccaaat tgtgtacagt
2281 ggttgcacct acacactcga gtctgatggc aatggtaatg tgaaaattga caaagttcag
2341 agcacctccg tccagaccaa caatgagctg actggcgccc tgcaccatct aaggtgcgcc
2401 agagtcaggt actatgtcaa gtgtgttcag gaagccctct attctatcct ccagattgct
2461 ggggctgcat ttgttaccgc gcgcatcatc aagcgtgtga acattcaaga cttatggtcc
2521 aagccacaag tggaaaacac agaggaggct accagcaagg acgggtgccc aaggcccaaa
2581 gacgatgagg agttcgtcat ttcatctgac gacattaaaa ctgagggtaa gaaagggaag
2641 aataaaactg gtcgtggcaa gaagcacaca gccttctcga gtaaaggtct cagtgatgaa
2701 gagtatgatg agtacaagag aattagagag gaaagaaatg gcaagtattc catagaagag
2761 taccttcagg acagggacaa atactatgag gaggtggcca tcgccagggc gaccgaggaa
2821 gacttctgtg aagaggagga ggccaagatc cggcaaagga tcttcaggcc gaccaggaaa
2881 caacgcaagg aagaaagggc ttctctcggt ttagtcacag gttctgaaat taggaaaaga
2941 aacccagaag atttcaagcc cagggggaaa ctatgggctg acgatgacag gagtgtggac
3001 tataatgaaa aactcagttt tgaggcccca ccaagcatct ggtcaagaat agtcaacttt
3061 ggctcaggtt ggggcttctg ggtctcccct agcctgttca taacgtcatc ccacgtcata
3121 ccccagggtg caaaggagtt ctttggagtc ccaataaaac aaatccaggt gcacaagtcg
3181 ggcgaattct gtcacttgag attcccaaaa ccaatcagga ctgatgtgac tggtatgatc
3241 ttggaagaag gtgcgcccga aggcaccgtg gtcacaatac tcatcaaaag atccactgga
3301 gaactcatgc ccctagcagc tagaatgggg acccatgcaa ccatgaaaat ccaaggacgc
3361 accgttggag gccaaatggg catgcttcta acaggatcca acgccaaaag catggatcta
3421 ggcaccacac caggtgattg cggctgtccc tatgtctaca agagaggaaa tgactacgtg
3481 gtcattggag tccacacggc tgctgctcgt gggggaaaca ctgtcatatg tgcaacccaa
3541 gggagtgagg gggaagccac acttgaaggt ggtgacagta aggggacata ctgtggtgca
3601 ccaatcctag gcccagggag tgccccaaaa cttagcacca aaaccaagtt ctggagatca
3661 tccacagcac cgctcccacc tggcacctat gaaccagcct accttggtgg caaagacccc
3721 agagtcaagg gtggcccctc gctgcagcaa gttatgaggg accagttaaa accatttaca
3781 gagcctaggg gtaaaccacc aaagccaagt gtgttggaag ctgccaagaa aaccatcatc
3841 aatgtccttg agcagacaat tgacccacct gagaagtggt cgttcgcaca agcttgcgcg
3901 tcccttgaca agaccacttc tagcggccat ccgcaccaca tgcggaaaaa cgactgctgg
3961 aacggggaat ccttcacagg caagctggca gaccaggctt ccaaggccaa cctgatgttt
4021 gaacagggaa agaacatgac cccaatctac actggtgcac ttaaggatga gttagtcaaa
4081 actgacaaaa tttatggcac tatcaagaag aggcttctct ggggctcgga cttagcaacc
4141 atgatccggt gcgctcgagc atttgggggc ttgatggatg aactcaaagc acactgtgtc
4201 acactccctg tcagagttgg tatgaacatg aatgaagatg gccccatcat cttcgagaag
4261 cactccaggt acaaatacca ttatgatgct gattactctc ggtgggattc aacacaacag
4321 agggccgtgc tggcagctgc tctagaaatc atggttaaat tctcctcaga accacatttg
4381 gctcaggtgg tggcagaaga tcttctctcc cctagcgtga tggatgtagg tgacttcaca
4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc
4501 gcccactggc tcctcaccct ctgtgcaatc tccgagacca caaatttgtc cccagacatc
4561 gtgcaggcta actctcaatt ctccttctat ggtgatgatg aaattgtcag tacagatata
4621 aaattggacc cagaaaagtt aacagcaaag ctcaaggaat atgggctgaa accaacccgc
4681 cctgacaaaa ctgaaggacc tctcgtcatt tctgaagact tagacggttt gactttcctg
4741 cggagaactg tgacccgcga cccagctggt tggtttggaa aactggaaca gagttcaata
4801 ctcaggcaaa tgtactggac taggggtccc aaccacgaag acccatctga atcaatgatc
4861 ccacactctc aaaggcccgt acaattgatg tccttgctgg gagaggccgc actccacggc
4921 ccaacattct acagtaaaat cagcaaattg gtcattacag agctcaaaga aggtggcatg
4981 gatttttacg tgcccagaca agaaccaatg ttcaggtgga tgagattctc agatctgagc
5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgaatga
5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggttat
5161 ggctttggag cccgtcgccg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt
5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggagaat tcacagtatc
5281 ccctagaaac gctccgggtg aaatactatg gagcgcgccc ttaggtcctg atctgaatcc
5341 ctacctatct catttggcca gaatgtataa tggttatgca ggtggttttg aagtgcaggt
5401 gatcctcgcg gggaacgcgt tcaccgcggg aaaaattata tttgcagcag tcccaccaaa
5461 ttttccaact gaaggcttga gtcccagtca ggttactatg ttcccccaca taatagtaga
5521 tgttaggcaa ttagaacctg tgttaattcc cttacctgat gttaggaaca atttctacca
5581 ttataatcag tcaaaagatt ccaccatcaa attgatagca atgctgtata caccacttag
5641 ggccaataat gctggggatg atgtcttcac agtctcctgt cgagttctca cgagaccatc
5701 ccctgatttt gactttatat tcttggtacc acccacagtt gagtcaagaa ctaaaccttt
5761 cactgtccca atcctgactg ttgaagaaat gaccaattca agattcccca tttctctgga
5821 cgggttgttt acgggtccca gcaatgccct tgttgtccaa ccacaaaatg gcagatgcac
5881 gactgatggc gtgcttttgg gcaccaccca actgtctcct gttaacatct gtactttcaa
5941 aggggacgtc acccacattg caggttctca caatttcaca atgaatttgg cttctctaaa
6001 ttggaacaat tatgacccaa cagaagaaat tccagcccct ttgggaactc cagatttcgt
6061 gggcaagatc catggtatgc tcactcaaac tacaagagga gatggctcga cccggggcca
6121 caaggccaca gtatacactg gaagtgctga cttcactcca aagctgggca gtgttcaatt
6181 taacactgat acagaaaatg attttgaccc tcaccaaaac acaaaattca ccccagtcgg
6241 tgtcatccag gatggtaaca ccacccaccg aaatgaaccc caacaatggg agctcccaag
6301 ttattcaggt agaggtgccc aaaatgtaca cctagcccct gctgtggccc ccactttccc
6361 gggtgaacaa cttcttttct tcagatccac tctccccgga tgcagcgggt atcccaacat
6421 ggatttagat tgcctactcc cccaagagtg ggtgcagcac ttctaccagg aagcagctcc
6481 agcacaatct gatgtggctc tattaagatt tgtgaatcca gacacgggta gggtcctgtt
6541 tgaatgcaaa cttcataaat caggctatat cacagtggct cacaccggcc agcataattt
6601 tgtcatcccc cccaatggct acttcaggtt tgactcctgg gttaatcaat tctacacact
6661 tgcccccatg ggaaatggaa cggggcgtag gcgtgctcta taatggcagg agctctcttt
6721 gctggaatgg catctgatgt ccttagctct ggacttggtt ccctaatcaa tgctggggct
6781 ggggctatca accaaaagat tgatcttgaa aataacaaag aattgcagca agcttccttc
6841 cagtatagca gtaacctgca gcaggcctcc tttcaacatg ataaagagat gctccaagca
6901 caaattgaag ccactaaaag gttgcaacag gaaatgatga aagtcaaaca ggcagtgctc
6961 ttagagggtg gattctctga aacagatgca gcccgtgggg caatcaacgc ccccatgaca
7021 aaggctttgg attggaacgg aacgaggtac tgggccccta atgctaatac cacaacatac
7081 aatacaggcc acttttccac tccgcaatct tcgggggcgc tgtcaggaag atttaatccc
7141 aggattccca cccccgctcg gggctcctct aatacatctt ctaatgcttc tgctaccact
7201 tctgtgtatt caaatcaaac tgtttcaacg agacttggtt ctacagctgg ttctggcacc
7261 aatgtctcga gtctcccgtc aactgcaagg actaggagtt gggttgagga tcaaaacaga
7321 aacttgtcac ctttcatgag gggggcccac aacatatcgt ttgtcacccc accatctagc
7381 aaatcctcta gccaaggcac agtctcaacc gtgcctaaag aaattttgga ctcctggact
7441 ggcgctttca acacgcgcaa gcagcctctc ttcgcccaac ttcgtaggcg aggggagtca
7501 cgggtgtaa
//