Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MW305569 | GII.14 | |
|
|---|---|---|---|
| GII.P7 |
ORF1: 1..5030
ORF2: 5011..6627
ORF3: 6627..7421
LOCUS MW305569 7460 bp RNA linear VRL 18-JUL-2024
DEFINITION Norovirus GII isolate B17-c1 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MW305569
VERSION MW305569.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7460)
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 7460)
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..7460
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="B17-c1"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Central African Republic"
/collection_date="21-Feb-1976"
/note="genotype: GII.14[GII.P7]"
gene <1..5030
/gene="ORF1"
CDS <1..5030
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59043.1"
/translation="NTTPSNKEEAGAFSNIKVGFKKMLGAVPKGTKTPSGDQHCPTVK
IGPKTLMVPPEPPNGEDVVQFDAKSETVRGLPDLTTVQNEHENTPYTVPPLSEREHRP
ATEPLPGTILEMWDGEFYHYSVYVSSGKALGVHKPPAAISLATIELTPISLYWRPVYT
PNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLCRRCISRTTGFFKPYQ
SWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLLHLLASCDWTFA
GIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQGPEDLAVELVPVVMGGIGMVLG
FTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAEMETLRAIEDAV
LDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDIVGTINAILARI
AAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKSIANTMSGDQRVGLVP
RNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQELADTCPVTLNCDRIENKGKMFDS
DVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIEKVKRDFPGQPDMWKDHFKP
DFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHERRDEFQLQGNDL
QTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKNVKTLEDLKVALRDVKFNECEII
YRNSKYRVSSNGKGSVSVDKVEDHASQTANEVSSALLRLRQARARYYVSCFQDLVYTL
IQVAGASFVVNRISKRFCWERWVKPTETQETSEPEKETAQGRWEIEPKDAEPEGKKGK
NKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDRYYEEVAVARAT
EEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTGSDIRKRRPDDFQPKGNLWADDT
RSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKGLKELFGVEVKQ
IQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSILVKRPTGEMIPLAVRMGTH
ASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDIVVAGVHTAAAR
GGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPGKAPKLSTKTKFWRSSPDALPPG
TYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPAVLEEAKKTVMNVLEQT
IDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNGESFTGPLADQASKANLMYEQAK
HVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIRCARAFGGLMDSMKASCIAL
PCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQRSILSAAMEVMVRFSAEPEL
AQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTLSAMAEVSGLSP
DVVQAHSCFSFYGDDEIVSTDINLDPAKLTQKLREYGLVPTRPDKTEGPLVITEDLAG
LTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPHSQRATQLMALLG
EASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRWMRFSDLSTWEGDRNLAPEG
VNEDGVE"
mat_peptide <1..938
/gene="ORF1"
/product="p48"
mat_peptide 939..2036
/gene="ORF1"
/product="NTPase"
mat_peptide 2037..2555
/gene="ORF1"
/product="p22"
mat_peptide 2556..2954
/gene="ORF1"
/product="VPg"
mat_peptide 2955..3497
/gene="ORF1"
/product="Pro"
mat_peptide 3498..5027
/gene="ORF1"
/product="RdRp"
gene 5011..6627
/gene="ORF2"
CDS 5011..6627
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59044.1"
/translation="MKMASNDATPSDDGAAGLVPEINNEVMALEPVAGASLAAPVVGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGELLLDLELGPELNPYLAHLARMYNGHAGG
MEVQIVLAGNAFTAGKILFAAIPPSFPYENLSPAQLTMCPHVIVDVRQLEPVLLPMPD
IRNVFYHYNQNNSPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFQFTFLVPP
TVESKTKNFTLPVLRVSEMTNSRFPVVLDQMYTSRNENIIVQPQNGRCTTDGELLGTT
ILQSVSICNFKGTMQAELSDQPRYQYQLQLTNLDGSPIDPTDDVPAPLGTPDFQAMLY
GVASQRSSRDNATRAHDAQIDTAGDTFAPKIGQVRFKSSSNDFDLHDPTKFTPIGVNV
DDQHPFRQWSLPNYGGHLALNNHLAPAVTPLFPGEQILYFRSYIPSAGGHTDGAMDCL
LPQEWIEHFYQEAAPSQSDIALVRFINPDTGRVLFEAKLHKQGFLTIAASGDHPIVMP
TNGYFRFEAWVNPFYTLAPVGTGSGRRRIQ"
gene 6627..7421
/gene="ORF3"
CDS 6627..7421
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59045.1"
/translation="MAGAFLAGLAGDVVTSSLGSLAGAGANAINQKVEYDFNRQLQEA
SFRHDKDMLKAQVAATAGLQQAMIDIKREALTAGGFSPADAARGAVRAPMTQILDWNG
SRYWAPNSMRTTGYSGTFVSQGVKNIPHLSSQAPSASRPSRALPSISSSSSVYSSPST
APSQSTQLTTLSAGTGSSRPNTVSTGTSTLSRTSDWVRGQNEMLGPFMSGALQTAYVT
PPSSKASSQGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 ctaacaccac cccttctaat aaagaagagg ctggtgcatt ttccaacatt aaagttggat
61 ttaagaaaat gctgggtgcc gtgcccaagg gcaccaaaac gcccagcggt gaccaacact
121 gccccacagt taagatcgga cctaaaacat taatggtccc acctgaacct ccaaatggag
181 aagatgtcgt gcagtttgat gcgaagtcag aaactgtacg tgggctacca gacttgacaa
241 cggtacaaaa tgagcatgaa aataccccat acacagtccc cccactgagt gaaagggaac
301 atagaccagc cactgagccc ctccctggca caatactgga gatgtgggac ggtgagttct
361 accactactc cgtctatgtc agcagtggca aagccctggg ggtccacaaa ccccctgcag
421 ctataagcct cgcgacaatt gagctcaccc ccatatccct ttactggcgg cccgtttaca
481 ctcccaacta cttggtttgc ccagacacat taaagggcct tgctggtgag aagttcccct
541 acactgcctt cagcaacaac tgttacaact tctgttgttg ggtgctggag ctcaatgaca
601 cgtggctttg tagaagatgc atctccagaa ccaccggctt ctttaaaccg taccagtctt
661 ggaataggaa gcctcttcca accgtcgatg atgggaaaat caaaaaggtg gccaacgcaa
721 ttctctgtgc gcttggctcg ctgttttcaa aaccaatcaa agatctatta ggcaaactca
781 aaccactgaa tctgctgcac ctgctcgcgt catgtgactg gactttcgcg ggtatagtgg
841 aaacggtcat cttaatggcg gaactcttca acgtcttttg gaccccgccg gatgtctcca
901 atttcatagc ctccctgata ggtgacttcg agttgcaagg gcctgaggac ttggccgtgg
961 agctcgtccc tgtggtcatg ggtggcatag gaatggttct cggtttcact gctgagaaga
1021 taggccgcat gttgtcatct gctgcgtcaa ccttgcgggc atgtaaagat ctggggaact
1081 atgccctcga tatactcaag ttagtcatga agtggttctt tccaaagaaa gaagagaaag
1141 ccgagatgga gaccttaaga gcgattgagg acgccgtctt ggacatggag gctataggaa
1201 acaaccacct cacgactctc ctcaaggaca aggatagcct cacggctttc atgaagaccc
1261 tagacctgga agaggagaaa gcaaggaagc tgtcaaccaa atcatcttcg ccggatattg
1321 tcggcaccat taatgccata ctggccagaa tagctgccgc cagatccctc ctacataaag
1381 ccaaagagga gatgtttagc aggatcagac cagtggttgt tatgatctca ggcagacccg
1441 gcattggcaa aacccatatg gcaagacacc tggctaagag catcgccaat accatgagtg
1501 gtgaccagag agtcgggctc gttccgcgca acggggtcga ccactgggac gcctacaggg
1561 gggagagggt ggttttatgg gatgactacg gcatggggag ccctgtcaaa gatgctttaa
1621 cactacaaga attggccgac acctgcccgg tcaccttaaa ttgtgacagg attgagaaca
1681 agggaaagat gtttgacagt gacgtcatta taatcacaac caatttagtt aaccctgcac
1741 ccctcgacta tgtgaacttc gaggcatgct ccagaagagt tgactttcta gtctatgcag
1801 agtcaccaga aatcgaaaag gttaaaagag atttccctgg tcaacctgat atgtggaaag
1861 accacttcaa gccggacttt tctcatataa agctgacttt agccccccag ggcgggtttg
1921 ataagaatgg caacactccg catggtaagg gtaccatgcg atccttaacc caggggtccc
1981 taactgcaag agttgctggg cttgtccatg agaggagaga tgaattccag ctccaaggga
2041 acgacctcca aacatataat tttgacacca acagggtctc cgcatttagg aagctggctg
2101 cagacaacaa gtatggaatc atggagacaa tgagagtggg tgcagcgctc aagaatgtta
2161 agactttgga agacctaaaa gtcgctctga gagacgtgaa gttcaatgag tgtgaaatta
2221 tttacaggaa ctccaagtat cgagtctctt ccaacggcaa aggctcagtt tctgttgata
2281 aggtcgagga ccacgcatcc caaactgcaa atgaggtgag ctcagcactc ctaaggctca
2341 ggcaagcaag ggccagatac tatgtcagct gcttccaaga ccttgtctac actctcatac
2401 aggttgctgg ggcgtcattc gttgtcaaca ggatctccaa gagattctgc tgggaaaggt
2461 gggttaaacc aactgagacc caggagacga gtgaacccga gaaggagacc gctcagggca
2521 ggtgggagat tgaacccaag gacgcagaac cagaaggcaa gaagggtaag aacaagaaag
2581 ggagaggcaa gaaacacaca gctttctcca gtaaaggcct aagtgatgaa gagtatgacg
2641 aattcaaaag aatcagagaa gaaagaaatg gaaagtactc cattgaggag tacctgcaag
2701 atcgggaccg ctactacgag gaagtggcag ttgcccgagc aacagaggag gacttctgtg
2761 aagaggaaga ggccaagata agacaaagaa tcttccgccc gacaaagaaa caaaggaagg
2821 aggaaagagg tgtgctcggc ttggtcaccg gctcggacat cagaaagagg aggccagatg
2881 acttccaacc aaaaggcaac ctatgggcgg atgacactag aagtgtggac tataatgaga
2941 gactcgactt tgaggcccct ccaagtgttt ggtcgaggat agtcccattg ggtactggtt
3001 ggggtttctg ggtctcatcc aacctcttga tcacgacaac acacgtcctt cctaagggac
3061 tcaaagaact ttttggagtt gaagtcaaac aaatccaaat tcacaaatct ggagagttct
3121 gcaggtttag attcccaaga ccaatcaggc cagatgtcac agggcttgtg ttggaagaag
3181 gtgctccaga gggcactgtt tgctccatac ttgtaaagag acctacaggt gaaatgatcc
3241 ccttggcagt gagaatgggc actcatgcgt ccatgaaaat tcagggcaga accgtcggtg
3301 gccagatggg aatgcttctt acaggagcga acgcgaagaa catggatctt ggcaccggtc
3361 ctggtgactg cggctgtccc tacatttaca agcgcggtaa tgacatagtt gttgcaggag
3421 ttcacaccgc ggcagcccgg gggggcaaca ctgtcatctg tgccacccaa gggcaagatg
3481 gggaggcagt ccttgaggga aacgagaatc ttggcacata ctgtggtgcc ccaattctcg
3541 gtccaggcaa ggcgcccaaa ctcagcacga agaccaaatt ctggcgttca tcaccagacg
3601 ccttgccacc tggcacatat gaacctgctt acctaggagg caaggaccct agagtagaaa
3661 aagggccctc cctgcagcaa gtcatgagag accagttaaa accctttaca gagcctaggg
3721 gtaaaccacc gagacctgca gtcctagaag aggccaaaaa gacagtgatg aatgttttgg
3781 aacaaaccat tgaccctgcc aagccatgga cttactcaca agcatgtgcc tcattggata
3841 aaaccacttc cagtggtagc ccccaccacg tcaggaaaaa tgaccactgg aatggagaat
3901 ccttcacagg tcccctcgca gatcaagcat ctaaagccaa cctcatgtat gaacaggcca
3961 aacatgtgca gcccgtgtat acggccgcac tcaaggatga acttgttaag actgataaaa
4021 tctacaagaa gataaagaag aggctcctat gggggtcgga ccttggcacg atgatcaggt
4081 gcgccagggc ttttggtggc ctcatggaca gcatgaaggc gagttgcata gctcttccat
4141 gcagggtggg aatgaacatg aatgaggacg gtcccatcat ctttgacaag cactccaaat
4201 atagatacca ctatgatgct gactactcta ggtgggattc aacccaacaa aggagcatcc
4261 tttctgctgc tatggaagtg atggtgcgat tctccgcaga accagaattg gcacaagtgg
4321 ttgcagagga ccttctggcg cctagtcaac tagatgttgg cgattttgtc atctcagttc
4381 aggaaggtct accatcaggg gtcccatgca cgtcacaatg gaattcaata gcacactgga
4441 tcctaacctt gagtgcaatg gcagaagtat caggcctttc accagatgtt gtccaagccc
4501 actcctgttt ttctttctat ggtgatgatg agattgtcag cactgacatc aacctcgacc
4561 ctgcaaaatt gacacagaaa ctcagggagt acggtctggt tcctacccga cctgacaaaa
4621 ctgaaggtcc ccttgtcata actgaagacc tagctggcct tacgttcctg cgtaggtcaa
4681 ttgcacggga cccagctggg tggtttggaa aattggatca ggactcaatc ctcaggcaat
4741 tgtattggac aagagggccc aaccatgaga acccatacga aagtatggtc ccccattctc
4801 agcgagctac acagctcatg gccctcctag gtgaagcctc attgcatgga ccccaatttt
4861 acaagaaggt tagtaagatg gttatcaatg agattaagag tggtggtctg gaattttatg
4921 tgcccagaca agaggccatg ttcaggtgga tgagattctc tgacctcagc acatgggagg
4981 gcgatcgcaa tcttgctccc gagggtgtga atgaagatgg cgtcgaatga cgctactcca
5041 tctgatgatg gtgcagccgg cctcgtacca gagatcaaca atgaggttat ggctcttgaa
5101 cccgtcgctg gggcctccct tgcagccccc gtcgtcggac aacagaatat aattgatccc
5161 tggattagga ataattttgt acaagcccct gctggtgaat ttacagtctc ccctagaaat
5221 tctcctggag aacttttgct tgatttagag ctgggccctg aactaaatcc ctatcttgca
5281 catttggcta gaatgtacaa tgggcatgca ggaggaatgg aagtgcagat agtactagct
5341 gggaatgcgt tcacagctgg taagatccta tttgctgcca tcccacctag tttcccctac
5401 gaaaatttgt cacccgctca actgaccatg tgcccccacg tgatagtgga tgtgagacaa
5461 ttggaaccgg tgctcctgcc aatgcctgac ataaggaatg ttttctatca ctacaaccag
5521 aacaacagtc ccaaacttag gcttgtagct atgctgtaca ctcctctgag agctaacaac
5581 tcaggtgatg acgtgttcac ggtgtcatgc cgcgttttaa cacgtccctc tccagatttt
5641 caattcacct ttctggtccc acccacagtt gagtctaaaa ccaaaaattt cacccttcct
5701 gttctcagag tctccgagat gacaaactca aggtttccag tcgttctgga ccaaatgtac
5761 acgagcagga atgaaaacat cattgtccaa ccccaaaatg gcaggtgcac gactgacggt
5821 gagctccttg gcactaccat cttgcagtct gtgtctattt gcaactttaa aggaaccatg
5881 caggcagaat tgagtgatca accacgatac cagtaccaat tgcaactcac caacttggat
5941 ggctcaccta tagacccaac agatgacgtg cctgcccctc ttggcacacc agattttcag
6001 gctatgttgt atggcgttgc gagtcaacgt tcctccagag acaacgccac tagggcacat
6061 gatgcacaaa ttgacactgc gggtgacaca ttcgccccaa agattggcca ggttcgtttt
6121 aaatcaagtt ccaatgattt tgacctacat gaccccacaa aattcacgcc cattggtgtc
6181 aatgtggatg atcagcaccc tttcagacag tggtctctac caaattacgg tggacatctt
6241 gccctgaata atcatttggc ccccgctgta acaccactct tccctggcga gcagatttta
6301 tacttcaggt catacattcc aagcgctgga ggtcacacag acggtgctat ggactgcttg
6361 ctaccccaag aatggattga acatttctac caagaggcag ccccttccca atctgacatc
6421 gcactagtga ggttcataaa ccctgacaca ggaagagtgc tctttgaggc caaattgcac
6481 aaacaaggtt tcctcacaat tgcagcatct ggagaccacc ccattgtgat gcccactaat
6541 ggttatttca ggtttgaagc ttgggttaac cccttctaca ctctcgcccc cgtgggaact
6601 gggtctgggc gcaggaggat ccaataatgg caggagcttt ccttgcaggc ttggcaggtg
6661 acgttgtaac ttccagtttg ggctcacttg cgggcgctgg agccaacgcc atcaaccaaa
6721 aagtggagta tgacttcaac agacagctcc aggaggcatc tttcagacat gataaggaca
6781 tgctcaaagc ccaggttgca gcaacagcag gccttcaaca ggctatgatt gacatcaaac
6841 gggaggcatt gaccgcaggc ggcttttccc ccgctgatgc tgcaagaggt gcagtcagag
6901 cacctatgac acagatcctg gattggaatg gttccaggta ttgggctccc aactccatga
6961 ggacaacagg ttattcaggt acatttgttt cccagggtgt caaaaatatt ccccacctgt
7021 ctagtcaagc tccaagcgct tctagaccct ccagagcttt accatctatt tctagttctt
7081 ctagtgtgta tagttctccc tctactgctc cttcgcaatc aacacaatta acaacgctgt
7141 ctgcggggac tgggtcgtct aggcctaaca ccgtgtccac aggaacatcc acactgtcta
7201 gaacaagtga ttgggttaga ggtcaaaatg agatgcttgg cccgttcatg agtggtgcac
7261 ttcaaactgc ttacgtcaca ccaccatcga gcaaggcctc atcacaaggg acagtctcga
7321 ctgtgcccaa ggctgttttg gactcctgga ctcctatgtt caacacccat aggcagcctc
7381 tcttcgccca cttgcgtagg cgaggggagt cacagattta gtgaaaagga tgattagggt
7441 tttcttcctt tccccttcta
//