Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MW305605 | GII.7 | |
|
|---|---|---|---|
| GII.P7 |
ORF1: 1..5063
ORF2: 5044..6666
ORF3: 6666..7439
LOCUS MW305605 7509 bp RNA linear VRL 18-JUL-2024
DEFINITION Norovirus GII isolate Arg4379 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305605
VERSION MW305605.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7509)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A.U.A., Ford-Siltz,L.A., Green,K.Y.,
Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N.,
Ushijima,H. and Parra,G.I.
TITLE Genome-wide analyses of human noroviruses provide insights on
evolutionary dynamics and evidence of coexisting viral populations
evolving under recombination constraints
JOURNAL PLoS Pathog 17 (7), e1009744 (2021)
PUBMED 34255807
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7509)
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..7509
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Arg4379"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Argentina"
/collection_date="2004"
/note="genotype: GII.7[GII.P7]"
gene <1..5063
/gene="ORF1"
CDS <1..5063
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59151.1"
/translation="FGSQNSVNDSNDATPSNKEEAGAFSNIKVGFKKMLGAVPKGTKA
PSSGQHCPTVKIGPKTLTIPPEPPNGEDTVQFDAKSETIIGLPDLTTVQNEHENTPYT
VPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPPAAISLATIELT
PISLYWRPVYTPNYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLNRRCI
SRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLL
HLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFVASLIGDFELQGPEDLAVELVP
VVMGGVGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAE
METLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDI
VGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKSIANT
MSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQELADTCPVTLNCD
RIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIEKVKRDFPG
QPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHER
RDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKNVKTLEDLKVAL
RDVKFNECEIIYKNSKYRVSSNGKGSVSVGKVEDNASQTVNEVQSALLRLRQARARYY
ISCFQDLVYTLIQVAGASFVVNRISRRFCWERWVKPTETQEVNESEKEVVQDRWEIEP
KDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDR
YYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTGSDIRKRRPDDF
QPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKG
VKELFGVEIKQIQVHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSILIKRPTGE
MIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDI
VVAGVHTAAARGGNTVICATQGQDGEAILEGNEDLGTYCGAPILGPGKAPKLSTKTKF
WRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLRPFTEPRGKPPRPAVLEEA
KKTVMNVLEQTIDPAKPWSYSQACASLDKTTSSGSPHHVKKNDHWNGESFTGPLADQA
SKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIRCARAFGGL
MDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQRSILSAAME
VMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTL
SAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREYGLVPTRPDKTE
GPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPHS
QRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRWMRFSDLST
WEGDRNLAPEGVNEDGVE"
mat_peptide <1..971
/gene="ORF1"
/product="p48"
mat_peptide 972..2069
/gene="ORF1"
/product="NTPase"
mat_peptide 2070..2588
/gene="ORF1"
/product="p22"
mat_peptide 2589..2987
/gene="ORF1"
/product="VPg"
mat_peptide 2988..3530
/gene="ORF1"
/product="Pro"
mat_peptide 3531..5060
/gene="ORF1"
/product="RdRp"
gene 5044..6666
/gene="ORF2"
CDS 5044..6666
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59152.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEVMPLEPVAGASLATPVVGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGEILLDLELGPELNPYLAHLARMYNGHAGG
MEVQIVLAGNAFTAGKIIFAAIPPGFPYENLSPSQITMCPHVIIDVRQLEPVLLPMPD
IRNNFFHYNQGNDPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTKPSPDFEFTFLVPP
TVESKTKQFTLPILKISEMTNSRFPVPVEMMYTARNENQVVQPQNGRVTLDGELLGTT
PLLAVNICKFKGEVIAKNGDVRSYRMDMEITNTDGTPIDPTEDTPGPIGSPDFQGILF
GVASQRNKNEQNPATRAHEANINTGGDQYAPKLAQVKFFSESQDFEAHQPTVFTPVGV
AGDSSHPFRQWVLPRYGGHLTNNTHLAPAVAPLFPGEQILFFRSQIPSSGGHELGYMD
CLVPQEWVQHFYQEAATAQSEVALIRFINPDTGRVLFEAKLHKQGFITVAHTGDNPIV
MPPNGYFRFEAWVNQFYSLAPVGTGNGRRRIQ"
gene 6666..7439
/gene="ORF3"
CDS 6666..7439
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59153.1"
/translation="MASAFFANLAGGVASNGISSLINAGANAINQKVEFDYNKQLQNA
SFSHDKEMLQAQIEATKRLQQEMIDIKQGVLTAAGFSPTDAARGSVGAPMTKLVDWSG
TRYWAPGAMRTTGYSGTFTHLPPMQSAPYVNNQNRQLLKVDPSPPSSSGSSVSSVKTQ
STTLSGTSRVGSSSQSTLSTRPSTRTSDWVRSQNERLSPFMNGALQTTYVTPPSSRAS
SASTVSTVPKEVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 cctttggcag tcaaaactct gtcaatgaca gtaacgacgc caccccttct aacaaagaag
61 aggctggtgc attctccaac atcaaagttg gattcaagaa aatgctgggt gccgtaccca
121 agggtaccaa agcacccagc agtggtcaac attgccccac agttaagatc gggcctaaaa
181 cattaacaat cccccctgag cccccaaatg gtgaagacac cgtacagttt gatgcaaagt
241 cagaaactat aattgggcta ccggacttga caacggtgca aaacgaacac gaaaacaccc
301 catacactgt ccctccatta agtgagaggg agcacagacc ggccactgaa ccacttcctg
361 gcacaatatt ggagatgtgg gatggtgagt tttaccatta ctccgtgtac gtcagcgatg
421 gtaaagctct gggggtccac aaaccaccgg cggctataag cctcgcgacg atagagctca
481 cccccatatc actttattgg aggcccgttt atacccccaa ttatttggtc tccccggaca
541 cattaaaggg cctcgctggt gagaagttcc cctacacggc cttcagtaac aactgttata
601 acttctgctg ctgggtgctt gagctcaacg acacgtggct taacagaaga tgcatttcca
661 gaactaccgg attcttcaaa ccataccagt cttggaacag gaaacctctc ccaaccgttg
721 atgatggaaa gatcaaaaag gtggccaacg cgatcctctg tgcactcggt tcgctgtttt
781 caaaaccaat taaagatctg ttaggcaaac tcaagccatt gaatctacta cacttgcttg
841 cgtcttgtga ttggacgttt gcgggtatag tggagacagt catcttaatg gcggaacttt
901 ttaatgtctt ctggaccccg ccagatgtct ctaattttgt ggcctccctg ataggtgatt
961 ttgagttgca agggcctgag gacctggctg tggagctcgt tcccgtggtt atgggtggtg
1021 taggaatggt tctcggtttt accgctgaga agataggccg catgctgtcg tccgctgcat
1081 caacattgcg ggcgtgcaaa gacctaggga actatgccct tgacatactc aaattggtca
1141 tgaagtggtt cttcccaaag aaggaagaga aagctgagat ggaaaccttg agggcgattg
1201 aagatgccgt cctagatatg gaagctatag ggaataacca cctcacaacc cttctcaagg
1261 acaaagacag cctcacggct tttatgaaga ccctggacct agaagaggag aaggccagga
1321 aactgtccac taaatcatct tcaccggaca tagtcggcac catcaatgcc atactagcta
1381 ggatagctgc tgctagatcc cttctacata aagccaaaga agagatgttc agcaggatca
1441 gaccagtggt cgttatgatc tcaggcagac ctggcattgg aaaaacccac atggcgagac
1501 atttggctaa gagcatcgcc aacaccatga gtggcgacca gagagtcggg ctcgttccgc
1561 gcaacggtgt cgaccactgg gacgcctaca ggggagagag ggtggtcctg tgggacgact
1621 atggtatggg gagccctgtt aaagacgccc taacactaca agagctggcc gacacatgtc
1681 cagtcacttt aaattgtgat aggattgaga ataaggggaa gatgtttgac agtgatgtca
1741 tcataatcac gaccaaccta gtcaaccccg cgcccctcga ctatgtgaac ttcgaggcgt
1801 gttctaggag agttgacttc ctggtctatg cagagtcacc agaaattgaa aaggtcaaga
1861 gagacttccc tggccagcct gacatgtgga aagaccattt taagccagac ttttcccaca
1921 tcaagctgac tctagccccc cagggtgggt ttgacaaaaa tggcaacacc ccacacggca
1981 agggcaccat gcggtcccta acccaggggt ccctgactgc gagagttgca ggccttgtcc
2041 atgagaggag agatgagttc cagctccaag gaaatgacct ccaaacatac aactttgaca
2101 ccaacagagt ctccgcattc aggaaattgg ctgcagataa caagtatggg atcatggaga
2161 cgatgagagt gggtgcggca ctcaagaatg tgaagacctt ggaagatctc aaagttgcat
2221 tgagggatgt gaaattcaat gagtgtgaaa taatttacaa gaactctaag tatcgagtct
2281 cttccaacgg taaaggctca gtttctgttg gcaaagttga ggacaatgca tcccagactg
2341 taaacgaggt acaatcagca cttctcaggc tcaggcaagc gagggccagg tattacatca
2401 gctgcttcca agacctcgtc tacactctca tacaggttgc cggagcatca ttcgttgtca
2461 acaggatctc cagaaggttc tgctgggaaa ggtgggtcaa accaaccgag acccaggagg
2521 tgaatgagtc cgaaaaggaa gtggttcaag atagatggga aattgagccc aaggatacag
2581 aaccagaagg caagaagggt aagaacaaga aaggaagggg taagaaacac acagctttct
2641 ctagcaaagg cctgagtgat gaagagtatg acgagttcaa gagaatcagg gaagaaagga
2701 acggaaagta ctccattgag gaatacctgc aagaccgaga ccgctattat gaagaagtgg
2761 cagttgcccg ggcgacagag gaggacttct gtgaagagga agaggccaaa ataagacaaa
2821 gaattttccg cccgacaaag aaacagagga aggaggaaag gggtgtgctt ggcttagtca
2881 ccggctcaga catcagaaag aggagaccag acgattttca accaaaaggc aacctatggg
2941 cagatgacac cagaagtgtg gactacaatg agaggcttga ttttgaagcg cccccaagtg
3001 tttggtcaag aatagtccca ttaggcactg gttggggatt ctgggtttca tccaaccttc
3061 tgatcacaac aacacacgtc ctgcctaaag gggttaagga actctttgga gttgaaatca
3121 agcaaattca agttcataag tctggagagt tttgcaggtt taggttccca agacctatca
3181 ggccagatgt cacaggactc gtgctggagg aaggtgcccc agagggcact gtttgttcta
3241 tactcataaa aaggcccaca ggtgagatga ttcccttggc agtgaggatg ggcacacatg
3301 catccatgaa aatacagggc aggaccgttg gtggccagat ggggatgctt ctcacaggag
3361 caaacgcgaa gaacatggat ctcggcaccg gtcctggtga ctgcggttgt ccctacatct
3421 acaaacgtgg caatgacatt gttgtcgcgg gtgtccacac cgcagcagcc cggggaggca
3481 acactgtcat atgcgccacc caagggcaag atggggaagc aatccttgag ggaaatgagg
3541 accttggtac ctactgtggc gccccaattc tgggccctgg caaggcgcct aaactcagca
3601 cgaagaccaa gttttggcgc tcatcaccag atgccttgcc acctggcaca tatgagcctg
3661 cttacctagg aggcaaagac cccagagtgg aaaaagggcc ctccctgcag caagttatga
3721 gagaccagtt gagacccttc acagaaccca ggggcaaacc acctagacct gcagtcttag
3781 aagaagccaa aaagacagtg atgaatgttc tagaacaaac cattgacccc gccaagccat
3841 ggtcctattc gcaggcatgt gcctcactgg acaaaaccac ctctagtggt agtccccatc
3901 acgttaagaa aaatgaccac tggaatgggg agtccttcac tggtcccctt gcagatcagg
3961 catctaaagc caacctcatg tatgagcagg ctaagcatgt gcagcccgtg tacacggccg
4021 cgcttaaaga tgagcttgtt aagactgaca agatttacaa aaagataaag aagaggctcc
4081 tatgggggtc ggaccttggc acaatgatca ggtgcgccag ggcttttggt ggtctcatgg
4141 acagcatgaa ggctagttgt atagctcttc catgcagggt gggaatgaac atgaatgaag
4201 atggccccat catatttgac aaacattcta agtacaggta ccactatgat gctgactatt
4261 ctaggtggga ctcaacccaa caaaggagca ttctttctgc cgccatggaa gtgatggtgc
4321 ggttttctgc tgaaccagaa ttggcacaag tggttgcgga agaccttttg gcacctagcc
4381 agcttgatgt tggcgatttt gtcatctcag tccaggaggg tctgccatca ggagtcccat
4441 gtacatcaca atggaattca atagcacact ggatcctaac tttgagtgca atggcagaag
4501 tgtcaggtct ctcaccagat gttgtccaag ctcactcttg tttttcattt tatggggacg
4561 atgagatcgt cagtactgat atcaaccttg accccatgaa gttgacacag aaactcaggg
4621 agtacggtct ggtccccacc cggcctgata aaactgaagg tcccctcgtc ataactgaag
4681 acctcaccgg cctgacgttc cttcgcaggt cgattgctcg ggacccagct ggttggtttg
4741 gaaaattgga ccaagattca atcctcaggc aactgtactg gacaaggggg cctaaccatg
4801 agaacccgta cgagagcatg gttcctcatt ctcagcgggc cacacagctc atggcccttc
4861 ttggtgaggc ctcactgcat ggtccccagt tttacaagaa agttagcaag atggtcatca
4921 atgagattaa gagtggtggt ctggagtttt atgtgcccag acaagaggcc atgttcaggt
4981 ggatgagatt ctctgacctc agcacatggg agggcgatcg caatctagct cccgaaggtg
5041 tgaatgaaga tggcgtcgaa tgacgcagct ccatctaatg atggtgcagc aggcctcgtg
5101 ccagagatca acaatgaggt catgcccctt gagcccgtgg ctggtgcatc gctggcgaca
5161 ccagttgtcg ggcaacagaa tataattgat ccctggataa gaaataattt tgtacaagct
5221 cctgcaggtg agtttacagt ctcccctaga aattctcctg gtgaaatttt gcttgatttg
5281 gagttgggac cagaattgaa cccctacctt gctcatctgg cccgtatgta caatgggcac
5341 gctggtggta tggaagtgca aattgtgttg gctgggaatg cgttcacagc tggcaagatc
5401 atatttgctg ccatccctcc agggttccca tatgagaatt tgtcaccttc acaaattaca
5461 atgtgccctc atgttataat tgatgtcaga caattagaac cagtcctatt acctatgcca
5521 gatatcagaa ataacttctt ccattacaat cagggcaatg atccaaaatt gagattggta
5581 gctatgctct acaccccttt aagggctaat aattctggtg atgatgtgtt cacagtttct
5641 tgtagggtcc tcactaaacc gtcacctgat tttgaattca catttctggt tccccccacg
5701 gttgaatcca agactaagca gtttacattg cccatcctca agatatcaga gatgaccaac
5761 tcaagattcc cagtgccagt ggaaatgatg tacacagcta ggaatgagaa ccaagttgtc
5821 cagccacaga atggtagggt cacacttgat ggcgaactac taggcaccac acccttgttg
5881 gctgtcaaca tctgcaaatt caagggagag gttatagcca agaatggaga tgtgagatcc
5941 tataggatgg acatggaaat caccaacact gatggcaccc caattgaccc cacagaagac
6001 acacctggtc ccattggttc acctgatttt caaggtatac tttttggcgt tgctagccaa
6061 cgcaacaaga atgagcaaaa ccccgccacg agagcccacg aagccaacat taacactggt
6121 ggggaccaat acgcccccaa attggcccaa gtgaaattct tctcagagtc ccaggatttc
6181 gaggcgcacc agcccacagt tttcacccca gttggtgtgg caggcgactc ttcccaccct
6241 ttcagacagt gggtcctgcc tcgatacggt ggacatctca ccaataacac ccacttggct
6301 ccagcagtgg cccctctatt cccaggtgag cagattctat tctttagatc acaaatacct
6361 agctcaggcg gccatgaatt gggttacatg gactgccttg tcccacaaga atgggtccaa
6421 cacttctatc aagaagctgc cacagctcag tctgaggtgg cactcataag gtttatcaac
6481 ccagacactg gcagagttct ctttgaggcc aaactgcaca agcaaggctt tataactgtg
6541 gctcacactg gtgataaccc aattgtcatg ccaccaaatg ggtactttag atttgaagcc
6601 tgggttaatc agttttactc actcgccccc gtgggaactg ggaatgggcg caggaggatc
6661 cagtaatggc tagtgctttc tttgcaaatt tggcaggagg cgttgcctcc aatggaatta
6721 gttcactcat aaatgctggg gctaatgcta ttaatcaaaa ggttgagttt gattataata
6781 aacaactcca aaatgcatcc ttctcccatg ataaggaaat gctccaagcc caaattgaag
6841 ccactaaacg tctgcaacaa gagatgattg acataaaaca aggggtgttg acagccgcgg
6901 gattctctcc tacggatgcc gcgaggggtt ctgtcggcgc gccaatgaca aaattagttg
6961 attggagtgg cactagatat tgggcacctg gcgccatgag gacaacaggt tactcaggga
7021 cttttactca cttaccccct atgcagtctg ctccatatgt taataatcaa aacagacaac
7081 ttcttaaagt agatccttct cctccctctt cgagtggttc ttctgtttct tctgtcaaaa
7141 cacaatcaac taccctctcg ggcacttcaa gggtgggctc ctcatctcag tcaaccctgt
7201 cgaccaggcc gagcacaagg acatctgatt gggtgcgtag ccaaaatgaa aggttgagcc
7261 ccttcatgaa tggagcgttg caaacaacgt atgtaacgcc accatccagt agggcatcaa
7321 gtgccagcac agtctcgacc gtgccgaaag aggttttgga ctcctggacg cctatgttta
7381 acactcacag gcagccactc ttcgcccact tgcgtaggcg aggggagtca cagatttagt
7441 gaaaagattg gtttggaaag tttgattagt ttgttcttct tttctactat tcctttaatt
7501 ctttctttt
//