Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MZ265063 | GII.1 | |
|
|---|---|---|---|
| GII.P33 |
ORF1: 1..5106
ORF2: 5087..6694
ORF3: 6694..7467
LOCUS MZ265063 7487 bp RNA linear VRL 27-MAY-2021
DEFINITION Norovirus GII isolate Hu/US/2011/GII.1[P33]/CA-RGDS-1112
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION MZ265063
VERSION MZ265063.2
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7487)
AUTHORS Pan,C.-Y., Huynh,T., Padilla,T., Montmayeur,A.M., Chhabra,P.,
Barclay,L., Vinje,J., Wadford,D.A. and Morales,C.
TITLE Direct Submission
JOURNAL Submitted (19-MAY-2021) Viral and Rickettsial Disease Laboratory,
California Department of Public Health, 850 Marina Bay Parkway,
Richmond, CA 94804, USA
COMMENT On May 27, 2021 this sequence version replaced MZ265063.1.
##Assembly-Data-START##
Assembly Method :: Geneious v. R10; SPades v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7487
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="CA-RGDS-1112"
/isolate="Hu/US/2011/GII.1[P33]/CA-RGDS-1112"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="26-Feb-2011"
/note="Amplicon sequencing: first 35 nt does represent
primer sequence;
genotype: GII.1[P33]"
gene 1..5106
/gene="ORF1"
CDS 1..5106
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QVQ56621.2"
/translation="MKMASNDASAAAAATSNNDIAKSSSDGVLSSMAVTFKRALGARP
KQPPPRETTQKQKPPRPPTPELIKKIPPPPPNGEDDIVVSYSAKDGVSGLPELSTVRQ
PGETNTAFSVPPLNQRENRDAKEPLPGTILEMWDGEIYHYGLYVERGLVLGVHKPPAA
ISLAKVELTPLSLYWRPVYTPQYLISPETLKKLHGETFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKDII
GKLRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKDEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDLEEEKARKL
STKSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLAR
DLAKKVAATLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELAD
TCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDV
EKAKRDFPGQPDMWKDAFRSDFSHIKLMLAPQGGFDKNGNTPHGKGVMKTLTSGSLVA
RASGLLHERLDEYELQGPTPTTFNFDQNKVFAFRQLAAENKYGLMDTMRVGSQLKNVK
TVSELKQALKNISIRRCQIVYGGLTYSLESDGKGNVRVEKVQSPAVQTNNELTGALHH
LRCARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSRPQVEDEEEATSKD
GCPKPKDEEEFVISSEDIKAEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREER
NGKYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLG
LVTGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWV
SPSLFITSTHVIPQGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAP
EGTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTP
GDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAVLEGGDNKGTYCGAPI
LGPGNAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFT
EPRGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTFAQACASLDKTTSSGHPHHVRKNE
HWNGESFTGKLADQASKANLMFEEGKHMTPVYTGALKDELVKTDKIYGKIKKRLLWGS
DLATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYTYHYDADYSR
WDSTQQRAVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFKISITEGLPSGVP
CTSQWNSIAHWLLTLCALSEVTDLSPDIIQTNSLFSFYGDDEIVSTDIKLDPERLTVK
LKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTR
GPNHEDPSETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPR
QEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 1..996
/gene="ORF1"
/product="p48"
mat_peptide 997..2094
/gene="ORF1"
/product="NTPase"
mat_peptide 2095..2631
/gene="ORF1"
/product="p22"
mat_peptide 2632..3030
/gene="ORF1"
/product="VPg"
mat_peptide 3031..3573
/gene="ORF1"
/product="Pro"
mat_peptide 3574..5103
/gene="ORF1"
/product="RdRp"
gene 5087..6694
/gene="ORF2"
CDS 5087..6694
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QVQ56622.1"
/translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ
NNVIDPWIRMNFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPFLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKLVFAAIPPHFPLENLSPGQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQQPEPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP
TVESKTKPFTLPILTIGELSNSRFPVPIDELYTSPNEGVVVQPQNGRSTLDGELLGTT
QLVPSNICALRGRINAQVPDDHHQWNLQVTNANGTSFDPTEDVPAPLGTPDFLANIYG
VTSQRNPDNTCRAHDGVLATWSPKFTPKLGSVVLGTWEESDLDLNQPTRFTPVGLYDT
NHFDQWILPNYSGRLTLNMNLAPSVAPLFPGEQILFFRSHIPLKGGTSNGAIDCLLPQ
EWIQHFYQESAPSPTDVALIRYTNPDTGRVLFEAKLHRQGFITVANSGSRPIVVPPNG
YFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6694..7467
/gene="ORF3"
CDS 6694..7467
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QVQ56623.1"
/translation="MAGAFVAGLAGDIVTNGIGSLVNAGANAINQKVDFENNKQLQQA
SFNHDKEMLQAQIQATKQLQADMIALRQGVLTAGGFSPTDAARGAVNAPMTQVLDWNG
TRYWAPGATKTTAFSGGFTSSPNTRTIDLPRKTSTTPAPTPVSRPSSSASTVSTRSTI
VSGTSSFSSSTRSSYNSQPISSSSRTSEWVRSQNRALEPYMRGALQTAYVTPPSSRAS
SNGTVSTVPKEVLDSWTSVFNTHRQPLFAHLRRRGESQV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgctgctg ctaccagcaa caacgacatc
61 gcaaaatctt caagtgacgg agtactaagt agtatggctg tcacttttaa acgagccctc
121 ggggcccggc ctaaacagcc gcccccgagg gaaacaacac aaaaacaaaa acctccacga
181 ccgcccaccc cggagttaat taaaaagatt ccacctcccc cgcccaacgg ggaggacgat
241 atagtggtat cctacagtgc caaagatggt gtctccggtc tgcctgagct atccaccgtc
301 aggcagccgg gtgagacaaa cacagcattt agtgtccccc cactcaacca gagggaaaac
361 agggatgcta aagaaccgct gcctggcacc atcttggaga tgtgggacgg agagatttac
421 cactacggct tgtacgtgga gcggggcttg gtgcttgggg tgcacaaacc accagcggcc
481 attagccttg caaaggttga actgacacca ctgtctctgt actggagacc agtgtacacc
541 cctcagtacc tcatatcccc ggaaactctc aaaaagctac atggagagac attcccttac
601 acggcctttg acaacaactg ttacgccttc tgttgttggg tcttagatct aaatgactct
661 tggctcagca gaaggatgat acagagaaca actggcttct tcagacccta ccaggactgg
721 aacaggaaac ctctccccac tatggatgat tccaaattga aaaaggtggc taatatagtc
781 ctgtgtgctt tgtcatcact attcaccagg cccattaagg acataatagg aaaactaagg
841 cccttaaaca tactcaatat actagcttcc tgcgactgga ctttcgcagg aatagtagaa
901 tccctaattc tccttgcaga actcttcgga gttttctgga cacccccaga tgtgtctgcg
961 atgatcgccc ccttgctagg tgactacgaa ctacagggac ctgaagatct cgctgtagaa
1021 ctcgtaccag tagtaatggg ggggataggt ttggttctag gtttcaccaa ggagaagatt
1081 ggcaagatgc tatcgtctgc cgcgtccacc ctcagagctt gtaaagacct tggagcatat
1141 ggattggaaa ttctgaagtt ggtcatgaag tggttcttcc cgaagaaaga cgaggcaaat
1201 gaacttgcaa tggtgagatc cattgaagac gcagtgctag acctcgaagc aattgaaaac
1261 aatcacatga ccaccctact caaagacaaa gacagcttag caacctacat gaagactctg
1321 gatcttgagg aagagaaagc taggaaactc tccaccaaat ccgcttctcc tgacattgtg
1381 ggcacgatca attcacttct ggcacggata gcagctgccc gttccctggt gcatcgggca
1441 aaagaagagc tttccagtag gccaagaccc gttgttgtca tgatatcagg aaagccaggg
1501 atagggaaga cccaccttgc cagagatttg gcaaagaaag ttgcggccac cctcacagga
1561 gaccagaggg tgggcctcat cccacggaat ggtgtcgacc attgggatgc atacaaaggt
1621 gagagagtcg tcctttggga tgactatgga atgagtaacc ccattcatga cgcccttagg
1681 ctacaagaac ttgctgacac ttgcccccta acattaaatt gtgatagaat tgagaacaaa
1741 ggaaaggtct ttgacagtga tgccataatt atcacaacta acctggctaa cccggcacca
1801 ctggactatg ttaattttga agcatgttcg aggcgcatcg acttcctagt gtatgctgat
1861 gcccccgacg ttgaaaaggc aaaacgcgac ttcccagggc agcctgacat gtggaaggat
1921 gcttttagat ctgacttctc acacataaag ttgatgttgg ctcctcaggg tggttttgat
1981 aagaacggca acaccccaca tggaaaaggt gtcatgaaaa ccctcacatc tggctccctc
2041 gttgcccgtg cttcgggact cctccacgaa agactggacg agtacgagtt acaagggcca
2101 acacccacaa ccttcaattt cgaccaaaac aaggtgttcg cctttagaca gctcgccgct
2161 gaaaataaat acgggctgat ggacaccatg agagtgggaa gccagctcaa gaatgtcaaa
2221 accgtgtcag agctcaaaca ggcacttaag aacatctcaa ttagaaggtg ccagatagtc
2281 tacggtggtc ttacatattc acttgaatct gatggcaaag gtaatgtgag ggttgagaag
2341 gtgcaaagtc cagctgtgca aaccaacaat gagctaactg gcgcgctaca ccatctgaga
2401 tgcgctagga ttaggtatta tgttaagtgt gtccaggaag ctttgtattc catcatccaa
2461 attgctggag ccgcgtttgt caccacgcgc attgcaaagc gcatgaacat acaaaacctc
2521 tggtccagac cacaggtgga ggatgaggaa gaggccacca gcaaagacgg gtgcccaaaa
2581 ccaaaggatg aggaggagtt tgtcatctcg tctgaagaca tcaaagccga aggcaagaag
2641 ggaaagaaca agtctggccg tggcaagaaa cacacagcct tctcgagtaa gggtcttagt
2701 gatgaggagt acgatgagta caagagaatt agagaagaaa gaaatggcaa gtactccata
2761 gaggaatacc tccaagacag agacaagtac tatgaggagg ttgccatagc cagggctact
2821 gaagaggact tctgtgagga agaagaagcc aagattcggc agaggatttt cagaccaaca
2881 aggaaacaac gcaaggagga gagggtttca ctcggactgg ttacaggctc agaaatcagg
2941 aaaaggaatc cggatgactt caaacccaaa ggaaagttgt gggctgatga cgacaggagt
3001 gtcgattaca atgaaaaact cagttttgaa gcccccccaa gcatctggtc gagaatagtc
3061 aactttggat caggttgggg cttctgggtc tcaccaagtc tctttataac atccacccat
3121 gttatacctc aaggggcaca agagttcttc ggtgtttcca tcaaacagat ccaaattcat
3181 aagtcaggtg agttctgccg actaagattt ccgaagccaa ttagaactga tgtgacaggt
3241 atgatcctgg aggagggggc ccctgaaggc actgtggcca cactgctcat aaagaggcca
3301 actggagagc tgatgccact ggcagctaga atgggcaccc atgcaactat gaagatccaa
3361 ggtcgaactg tcgggggaca gatggggatg ctcctgacag gatccaacgc caagagcatg
3421 gatttgggta ctacaccagg tgactgtgga tgcccatata tctacaaaag aggaaatgac
3481 tacgtggtca tcggagtcca cacagctgcc gcccgcggag ggaacactgt catctgtgca
3541 actcaaggaa gtgagggcga ggccgtactt gaaggtggtg acaacaaagg cacctattgt
3601 ggcgctccaa tcctaggtcc aggaaatgcc cccaagctca gtactaaaac caaattctgg
3661 aggtcctcaa cagcaccact cccacctggc acatatgaac cagcttacct cggaggcaaa
3721 gaccccaggg taaaaggtgg cccctcgtta cagcaagtta tgagagacca actgaaaccg
3781 ttcacagaac ccagaggtaa gccaccaaag cccagtgtat tggaagcagc caaaaagaca
3841 atcattaatg tccttgagca aacaatagac ccaccccaaa aatggacgtt cgcacaggcg
3901 tgcgcatccc ttgataaaac aacctctagt ggtcacccgc accacgtgcg gaagaatgaa
3961 cattggaatg gggaatcttt cacaggaaaa ttggctgatc aggcttcaaa agctaacttg
4021 atgtttgagg aaggaaaaca catgacacca gtctacacag gagctctcaa agatgagtta
4081 gtcaaaactg acaaaatata tggtaagatc aagaaaaggt tattatgggg ttcagatctg
4141 gcaaccatga tccgttgcgc acgagcgttc ggagggttga tggacgaact caaggcccac
4201 tgtgttacac tccccatcag ggtggggatg aacatgaatg aggatggtcc catcattttt
4261 gaaaaacact ctaggtacac ctaccattat gatgcagact actctcggtg ggactcaaca
4321 cagcagagag ctgtcttagc tgcagccctg gagatcatgg taaaattttc cccagaacca
4381 cacctagctc agattgtcgc agaagacctc ctatctccca gcgtgatgga cgtgggcgat
4441 tttaaaatat caatcactga aggactcccc tctggggtgc cttgcacttc acaatggaac
4501 tccattgctc attggctcct cacgctctgt gcactatctg aggtaacaga tttatctcct
4561 gatatcatcc aaacaaactc actcttctct ttctatggtg atgatgaaat tgtgagcaca
4621 gacattaaac tagatccaga aaggctaaca gtcaaactaa aagagtatgg tctcaagcca
4681 acccgtcctg acaagactga agggcctctg gtcatttctg aggacttaga tggtctgacc
4741 ttcttgcgga gaactgtgac ccgtgaccca gcaggttggt ttggaaaatt ggaacaaagc
4801 tcaatactta gacagatgta ttggaccagg ggccccaatc atgaggaccc ctctgaaaca
4861 atgataccac actcccaacg acccatacag ttgatgtccc tattaggtga agccgcatta
4921 catggcccat cgttctacag caaaatcagc aaattggtca tatcagagtt gaaagaaggt
4981 ggcatggact tttacgtgcc aaggcaagaa ccaatgttcc gatggatgag gttctcagac
5041 ttgagcacgt gggagggcga tcgcaatctg gctcccagtt ttgtgaatga agatggcgtc
5101 gaatgacgcc gctccatcta atgatggtgc agccggtctc gtaccagagg tcaacaacga
5161 gacgatggca cttgagccgg tggctggggc ttccatagct gcccctctaa ccggccaaaa
5221 taatgtgata gacccctgga ttagaatgaa ctttgtccaa gctccaaatg gtgaatttac
5281 agtatccccc cgtaattccc caggtgaagt gttgttaaat ttggaattag gccctgaatt
5341 aaatccattc ctggcacacc tttcaagaat gtacaatggt tatgctggtg gggttgaagt
5401 gcaggtgcta ctcgctggga atgcgttcac agcaggaaaa ctagtgtttg cagcaatccc
5461 cccacacttc cctcttgaga atctgagtcc tggtcaaatt acaatgttcc ctcatgtaat
5521 tattgatgtt agaactttag aacctgtcct cttaccttta ccagatgtta gaaataattt
5581 ctttcattac aatcagcagc ctgagccccg tatgagactt gtggctatgt tgtatactcc
5641 tcttagatct aatggttctg gtgatgatgt gttcacagtc tcttgtaggg tcctcactcg
5701 cccctctcca gattttgatt ttaattattt ggtcccccca actgtggaat ctaaaaccaa
5761 accattcacc ctgccaatat tgaccatcgg agaattgtca aattctaggt tcccagtacc
5821 aatagatgaa ttgtacacca gccctaatga aggagtggtt gtgcaacctc aaaatggcag
5881 atcaacactc gatggtgaac tgcttggcac cacacaactt gtaccatcaa acatctgtgc
5941 cttgcgaggg cgcatcaacg cccaagtgcc agacgatcac catcaatgga acttgcaggt
6001 tacaaatgca aatgggactt cctttgaccc cactgaagat gtccctgcac cattgggcac
6061 gccggatttc ctggcaaaca tctacggagt cactagtcaa agaaaccctg acaacacttg
6121 ccgtgcccat gatggggttt tggcaacctg gagccctaaa tttacaccca agttaggatc
6181 tgtggttttg ggtacttggg aagaaagtga tcttgatctc aatcaaccta ccagatttac
6241 acctgttggt ttgtatgata caaaccactt tgatcagtgg attctaccca actattctgg
6301 aagattgacc ttaaacatga atttggcgcc ctccgttgct cccctcttcc caggtgaaca
6361 aatactcttc tttaggtccc acataccact taaaggaggc acttccaacg gtgccattga
6421 ctgtctactc cctcaggagt ggatccagca tttctatcag gagtcagccc cgtcacccac
6481 agatgttgct ctgattaggt acaccaaccc tgacacgggc cgtgtccttt ttgaggccaa
6541 actacataga cagggattca tcacagtagc aaattctggt tctagaccta ttgttgtccc
6601 tcctaatggt tattttaggt ttgattcttg ggttaatcag ttttattctc tcgcccccat
6661 gggaactggg aatgggcgta gaagggtgca gtaatggctg gagcttttgt agcagggctt
6721 gccggtgata tagtcaccaa tggcattggt tcacttgtga acgctggagc caatgcaata
6781 aaccaaaaag tagattttga aaacaacaaa caactacaac aggcctcttt caaccatgat
6841 aaggaaatgt tgcaagctca aattcaggcc acaaaacaat tacaggctga catgattgcg
6901 ctcagacaag gggtattgac cgcaggcggc ttctccccta ctgatgcagc aagaggtgcg
6961 gttaatgcgc ccatgacgca agtcttggac tggaatggga ctaggtactg ggcccccgga
7021 gccacgaaaa caactgcttt ctccggcggg ttcacaagct ctcccaatac caggactatt
7081 gatttgccta ggaaaacatc aaccacacca gcccccacgc ctgtgtctag acctagttct
7141 tctgcttcta ctgtttctac ccgctcaaca attgttagcg ggacttctag cttttcttct
7201 tcgactagga gctcttataa ttcccagccc atctcctctt cttctcggac tagcgaatgg
7261 gtgcgtagtc aaaacagggc gctggagccc tacatgaggg gagcgttaca aactgcttac
7321 gtgacgcctc cctctagtag agcctccagc aatggcacag tctcaaccgt gccaaaagaa
7381 gttttggact cctggacatc tgtgttcaac acccacagac aaccgctttt cgctcatctc
7441 cgtcggagag gggagtcaca ggtttagtga aaagatgatt tttcttc
//