Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| PQ195924 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P4 New Orleans |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS PQ195924 7528 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P4]/Medina0065/2023/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ195924
VERSION PQ195924.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7528)
AUTHORS Barclay,L., Montmayeur,A.M., Cannon,J.L., Mallory,M.L., Reyes,Y.I.,
Lindesmith,L., Wall,H., Baric,R.S., Vinje,J. and Chhabra,P.
TITLE Norovirus GII.4 evolution in the United States since emergence of
GII.4 Sydney
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7528)
AUTHORS Brandt,E., Barclay,L., Montmayeur,A.M., Vinje,J. and Chhabra,P.
TITLE Direct Submission
JOURNAL Submitted (16-AUG-2024) Viral Gastroenteritis Branch, Centers for
Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA
30329, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. v. 11.1.2; SPAdes v. v. 3.6
Sequencing Technology :: Sanger dideoxy sequencing; Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7528
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.4 Sydney[P4]/Medina0065/2023/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="30-Apr-2023"
/note="genotype: GII.4 Sydney[P4]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEJ39084.1"
/translation="MKMASNDASAAAVANSNNDIAKSSSDGVLSSMAVTFKRALGARP
KQPPPREKQQKPPRPSTPELVKCIPPPPPNGEDEVVVSYSVKDGVSGLPDLTTVRQPE
ESNTAFSVPPLNLRENKDAKEPLTGTILEMWDGEIYHYGLYVDRGLVLGVHKPPAAVS
LAKIELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEKNELAMVRAIEDAVLDLEAIENNHLTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKKIASSLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSPDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLVDTMKVGRQLKDVKTM
PELKQALKNVSIKKCQIVYSGNTYILESDGKGNVKVDKVQSAAVQINNELAGALHHLR
SARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEETANKDGC
PKPKDDEEFVVSSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEELAIARATEEDFCEEEEARIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITTTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVSLLIKRPTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVAIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGNAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHVRKNDYW
NGESFTSKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGRIKKRLLWGSDL
ATMVRCARAFGGLMDELKAHCITLPIRVGMNMNEDGPIIFEKHSRYAYHYDADYSRWD
STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 5..994
/gene="ORF1"
/product="p48"
mat_peptide 995..2092
/gene="ORF1"
/product="NTPase"
mat_peptide 2093..2629
/gene="ORF1"
/product="p22"
mat_peptide 2630..3028
/gene="ORF1"
/product="VPg"
mat_peptide 3029..3571
/gene="ORF1"
/product="Pro"
mat_peptide 3572..5101
/gene="ORF1"
/product="RdRp"
gene 5085..6707
/gene="ORF2"
CDS 5085..6707
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XEJ39085.1"
/translation="MKMASSDANPSDGSAANLVPEVNSEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNFTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6707..7513
/gene="ORF3"
CDS 6707..7513
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XEJ39086.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSGALPGRANLRDAAPARGSSTKPS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRGWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga
61 catcgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc
121 cctcggggcg aggcccaaac agcctccccc gagggaaaaa caacaaaaac ccccacgacc
181 atccactcca gaattggtca aatgtatccc ccctccccca cccaacgggg aggatgaagt
241 ggtggtttcc tacagtgtca aagatggtgt ttctggcttg cctgacctta ccaccgtcag
301 gcaaccggaa gagtctaaca cggcctttag tgtccctcca ctcaacctga gggagaacaa
361 agatgccaag gagccactca ctggaacgat tctggaaatg tgggatgggg aaatctacca
421 ttatggcctg tatgtggacc ggggcctcgt actaggtgtg cacaaaccac cagctgccgt
481 tagcctcgct aagattgagc tagcaccact ctccttgtac tggagacccg tgtacacccc
541 tcagtacctc atctcaccgg acactctcaa aaagttgtcc ggagagacgt tcccctatac
601 agcctttgac aacaactgtt atgccttttg ctgctgggtc ctggacctaa atgactcgtg
661 gctgagcagg agaatgatcc agagaacaac tggtttcttc aggccctacc aagattggaa
721 taggaagccc cttcccacca tggatgactc caaaataaag aaggtagcca acattttcct
781 gtgtgctctg tcctcactgt tcaccagacc cataaaggat ataataggga agataaggcc
841 actcaacatc ctcaacatct tagcctcatg tgattggact tttgcaggca tagtagagtc
901 cctgattctc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gatcgccccc ttactcggtg actacgagct gcaaggacct gaagaccttg cggtggagct
1021 tgtccccgtg gtgatggggg ggattggttt ggtgctagga ttcaccaaag agaagattgg
1081 gaaaatgttg tcatcagctg catctacatt gagagcttgt aaagaccttg gcgcatatgg
1141 gctggagatc ctaaagttgg tcatgaaatg gttcttccca aagaaggagg agaaaaatga
1201 actggctatg gtgagggcta tcgaggatgc agtcctagat ctcgaggcaa ttgaaaacaa
1261 ccacttgacc accttgctca aagacaaaga cagtctggca acctatatga gaacacttga
1321 ccttgaggag gagaaagcca ggaaactctc aaccaagtct gcctcgcctg atatcgtggg
1381 cacaatcaac gccctcttgg cgagaatcgc cgctgcacgc tcgctggtgc atcgagcgaa
1441 ggaggagctt tccagcagac caaggcctgt agtgttgatg atatcaggta gaccgggaat
1501 agggaagacc cacctcgcta gggaagtggc taagaaaatc gcatcctccc tcacagggga
1561 ccagcgtgtg ggcctcatcc cacgcaatgg tgtcgaccat tgggatgcgt acaaggggga
1621 gagggtcgtc ctatgggacg attatggaat gagcaacccc atccacgacg ccctcaggct
1681 gcaagaactc gctgacacct gccccctcac attaaactgt gatagaattg agaataaagg
1741 aaaggtcttt gacagtgatg tcattatcat caccaccaat ctagccaacc cagcaccact
1801 ggactatgtc aactttgaag cgtgctcgag acgcatcgat ttcctcgtgt atgcagaagc
1861 ccctgaggtc gaaaaggcga agcgtgactt cccaggccaa cctgacatgt ggaaaaacgc
1921 cttcagtcct gatttctcac acataaaact agcactggcc ccacagggcg gtttcgacaa
1981 gaacgggaac accccacacg ggaagggcgt catgaagact ctcaccactg gctccctcat
2041 tgcccgggca tcagggctac tccatgaaag gttagatgaa tttgaactac agggcccagc
2101 tctcaccacc ttcaatttcg accgcaacaa ggtgctcgcc ttcagacagc ttgctgcaga
2161 aaacaaatat ggattggtgg acacaatgaa agttgggaga caactcaagg atgtcaaaac
2221 catgccagaa ctcaaacaag cactcaagaa tgtctcgatc aagaaatgcc aaatagtgta
2281 tagtggtaac acctacatac ttgagtctga tggcaagggc aatgtgaaag ttgacaaagt
2341 ccaaagcgcc gctgtacaaa tcaacaatga gttggccggt gccctgcacc acttgaggag
2401 cgccagaatc aggtactatg tcaaatgtgt ccaggaggcc ctgtactcca tcattcaaat
2461 tgctggagct gcatttgtca ctacgcgcat tgccaagcgc atgaacatac aaaacctatg
2521 gtccaaacca caagtggaag acacagagga gactgccaac aaggacgggt gcccaaaacc
2581 taaggatgat gaggagttcg tcgtttcatc cgacgacatc aagactgagg gcaagaaggg
2641 gaagaacaag actggccgtg gcaagaaaca cacagcattt tcaagcaaag gtctcagtga
2701 tgaagagtac gatgagtaca agaggatcag agaagaaagg aatggtaagt actccataga
2761 agagtacctt caggacagag acaaatacta tgaggagttg gctattgcca gggcgactga
2821 ggaagacttc tgcgaagaag aggaggccag gatccggcaa aggattttta gaccaacaag
2881 gaaacaacgc aaggaggaaa gagcttctct cggtctggtc acaggctctg aaattagaaa
2941 gaggaaccct gaagacttca aacccaaggg gaaactgtgg gctgacgatg acaggagtgt
3001 ggactacaat gaaaagctca gctttgaggc cccaccaagc atctggtcaa gaatagttaa
3061 ctttggttca ggttggggat tctgggtctc ccccagcctg ttcataacaa caactcatgt
3121 cataccccag ggtgcaaaag agttctttgg agtccccatc aaacaaatac agatacacaa
3181 atcaggcgag ttctgtcgct tgagattccc aaaaccaatc aggactgatg tgacgggcat
3241 gatcttagaa gaaggagctc ctgagggcac cgtggtctca ctgctcatca agaggcccac
3301 tggagaactc atgcccctag cagttaggat ggggacccac gcgaccatga agattcaagg
3361 gcgcaccgtt ggaggccaga tgggcatgct cctaacagga tccaacgcca aaagcatgga
3421 cctgggtacc acaccaggtg attgtggctg tccctacatc tacaagagag gtaatgacta
3481 tgtggccatt ggagttcaca cagctgccgc acggggggga aacaccgtca tatgtgccac
3541 ccaggggagt gaaggagagg ccacacttga aggtggtgac aacaaaggga catactgtgg
3601 tgcaccaatc ttgggcccag ggaatgctcc aacacttagc actaaaacca aattctggag
3661 gtcatccaca gcatcactac cacctggcac atatgaacca gcgtaccttg gtggcaagga
3721 tcccagagtc aagggtggcc cttcactaca acaggttatg agagagcagt tgaaaccatt
3781 tacagagcca agaggcaagc caccaaaacc aagtgtatta gaagctgcca agaagaccat
3841 cattaatgtc cttgagcaaa caattgatcc acctgagaaa tggtcgttcg cacaagcctg
3901 cgcgtccctc gacaagacca cttccagtgg tcatccgcac cacgtgcgga agaacgacta
3961 ctggaacggg gagtcattca caagcaagct agcagaccaa gcatccaagg ccaatcttat
4021 gtttgaagaa gggaagaaca tgaccccagt ctatacagct gcactcaagg atgagttggt
4081 taaaactgac aaaatctatg gtaggatcaa gaagaggctg ctctggggct cggacctggc
4141 aaccatggtc cggtgcgctc gagcattcgg gggcttaatg gatgaactca aagcacactg
4201 catcacgctt cctatcagag ttggtatgaa catgaacgag gatggtccca tcatcttcga
4261 gaagcattcc aggtacgcat accattatga tgctgattac tctcgatggg attcaacaca
4321 acaaagggcc gtgttggcag cagctctaga aatcatggtc aaattctcct cagaaccgca
4381 tctggcacaa gtagttgcag aagacctcct ttcccctagt gtggtggacg tgggcgattt
4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc
4501 catcgcccac tggctactca ctctctgtgc actctctgaa gttacaaacc tgtcccctga
4561 taccatacag gccaactccc tcttctcttt ctatggtgat gatgaaattg tcagcacaga
4621 cataaaattg gacccggaga aattgacagc aaaactcaga gagtatgggt taaaaccaac
4681 ccgccctgac aaaactgaag gaccccttgt catttctgaa gacctgaatg gcctaacctt
4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagttc
4801 aatactcagg caaatgtact ggactagggg ccctaaccac ggagatccat ctgaaacaat
4861 gattccacac tcccaaagac ccatacaatt gatgtcccta ctgggtgagg ccgctcttca
4921 cggcccagcc ttctatagca aaatcagtaa attggtcatt gcagaactaa aagagggtgg
4981 catggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt accagaggtc aacagtgagg
5161 ttatggcttt ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtggg gagtttacag
5281 tatcccctag aaatgctcca ggtgaaatac tatggagcgc gcccctaggt cctgacctaa
5341 atccctacct atcacatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc
5401 aggtaattct cgcggggaac gcgttcaccg ccgggaagat tatatttgca gcagtcccac
5461 caaattttcc aactgaaggc ttaagtccta gccaggtcac tatgtttccc catataatag
5521 tagatgttag acaattggaa cctgtgctga tccccttacc cgatgttagg aataacttct
5581 atcattacaa tcagtcaaat gattccacta ttaagttgat agcaatgttg tacacaccac
5641 ttagggctaa taatgctggg gatgatgttt tcacagtctc gtgccgagtt ctcacgagac
5701 catcccccga ttttgatttt atattcttag taccacccac agttgagtca agaactaaac
5761 cattctctgt cccaatttta actgttgagg agatgaccaa ttcaagattc cccattcctt
5821 tggaaaaatt gttcacaggc cccagcagtg catttgttgt tcaaccacaa aacggcaggt
5881 gcacaactga tggcgtgctc ctaggcacca cccaactttc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac atcgcaggta gtcgcaactt cactatgaac ttggcttctc
6001 aaaattggaa caactatgac ccaacagaag aaatcccagc ccccctagga actccagatt
6061 ttgtggggaa gatccaaggc atgctcaccc aaaccacaag gacagatggt tcaacacgcg
6121 gccacaaagc cacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagtcc
6181 aatttgaaac tgacacagac catgactttg aagctaatca aaacacaaag ttcaccccag
6241 tcggtgtcat ccaagatggt agcaccaccc accgaaacga accccaacag tgggtgctcc
6301 caagttactc aggcagaaat acccacaatg tacatttggc ccccgctgta gcccccacct
6361 ttccgggtga gcaactcctc ttcttcagat ccaccatgcc cgggtgcagc gggtacccca
6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag
6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttc
6541 tgtttgagtg caagctccac aaatcaggct atgttacagt ggctcacact ggccaacatg
6601 atttggttat cccccccaat ggttacttta ggtttgattc ctgggtcaat cagttctaca
6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgc agtataatgg ctggagcttt
6721 ctttgctgga ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg
6781 ggctggggcc atcaaccaaa aggttgagtt tgaaaataac agaaaattgc aacaagcatc
6841 cttccaattt agcagcaatt tgcaacaggc ttcctttcaa catgacaaag agatgctcca
6901 agcacaaatt gaggccacca aaaagctaca gcaggaaatg atgagagtta agcaggcaat
6961 gctcctagag ggtgggttct ctgagacaga tgcagcccgc ggggcaatta acgcccccat
7021 gacaaaggct ttggactgga gcgggacaag gtactgggct ccagatgcta gaattacaac
7081 atacaatgca ggccactttt ccacccctca accatcgggg gcactgccag gaagggctaa
7141 tcttagggat gctgcccctg ctcgtggatc ctccaccaaa ccttctaact cttctactgc
7201 tacctctgtg tattcaaatc aaactatttc aacgagactt ggttctacag ctggttctgg
7261 aaccagtgtc tcgagcctcc cgtcaactgc aagaactagg ggctgggttg aggatcagaa
7321 taggaatttg tcacctttca tgaggggggc ccacaacata tcattcgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagaagttt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tcttttcgct cacattcgta agcgagggga
7501 gtcacgggta taatgtgaaa agacaaaa
//