Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MT712130 | GII.12 | |
|
|---|---|---|---|
| GII.P33 |
ORF1: 5..5110
ORF2: 5091..6698
ORF3: 6698..7477
LOCUS MT712130 7533 bp RNA linear VRL 12-JUL-2020
DEFINITION Norovirus GII isolate Hu/US/2011/GII.6[P7]/CA-RGDS-1086, complete
genome.
ACCESSION MT712130
VERSION MT712130.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7533)
AUTHORS Pan,C.-Y., Huynh,T., Padilla,T., Montmayeur,A.M., Chhabra,P.,
Barclay,L., Vinje,J. and Morales,C.
TITLE Direct Submission
JOURNAL Submitted (06-JUL-2020) Viral and Rickettsial Disease Laboratory,
California Department of Public Health, 850 Marina Bay Parkway,
Richmond, CA 94804, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: SPades v. 3.6; Geneious v. R10
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7533
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/US/2011/GII.6[P7]/CA-RGDS-1086"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA: California"
/collection_date="Sep-2011"
/note="genotype: GII.6[P7]"
gene 5..5110
/gene="ORF1"
CDS 5..5110
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QLD66186.1"
/translation="MKMASNDASAAAAAISNNDIAKSSSDGVLSSMAVTFKRALGARP
KQPPPRETTQKQKPPRPSTPELIKKIPPPPPNGEDDLVVSYSAKEGVSGLPELSTVRQ
PDETNTAFSVPPLNQRENRDAKEPLPGTILEMWDGEIYHYGLYVERGLVLGVHKPPAA
ISLAKVELTPLSLYWRPVYTPQYLISPETLKKLHGETFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKDII
GKLRPLNILNILASCDWTFAGVVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKDEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDLEEEKARKL
STKSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLAR
DLAKKVAATLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELAD
TCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDV
EKAKRDFPGQPDMWKDAFRPDFSHIKLMLAPQGGFDKNGNTPHGKGVMKTLTSGSLVA
RASGLLHERLDEYELQGPTPTTFNFDQNKVFAFRQLAAENKYGLMDTMRVGSQLKNVK
TVSELKQALKNIAIRRCQIVYSGLTYSLESDGKGNVRVEKVQSPAVQTNNELTGALHH
LRCARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSRPQVEDEEETTSKD
GCPKPKDEEEFVISSEDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREER
NGKYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLG
LVTGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWV
SPSLFVTSTHVIPQGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAP
EGTVATLLIKRPTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTP
GDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAVLEGGDNKGTYCGAPI
LGPGNAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFT
EPRGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTFAQACASLDKTTSSGYPHHVRKNE
HWNGESFTGKLADQASKANLMFEEGKHMTPVYTGALKDELVKTDKIYGKIKKRLLWGS
DLATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYTYHYDADYSR
WDSTQQRAVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFKISITEGLPSGVP
CTSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAK
LKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTR
GPNHEDPAETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPR
QEPMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 5..1000
/gene="ORF1"
/product="p48"
mat_peptide 1001..2098
/gene="ORF1"
/product="NTPase"
mat_peptide 2099..2635
/gene="ORF1"
/product="p22"
mat_peptide 2636..3034
/gene="ORF1"
/product="VPg"
mat_peptide 3035..3577
/gene="ORF1"
/product="Pro"
mat_peptide 3578..5107
/gene="ORF1"
/product="RdRp"
gene 5091..6698
/gene="ORF2"
CDS 5091..6698
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QLD66187.1"
/translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ
NNVIDPWIRLNFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKLVFAAVPPHFPLENISPGQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQQNEPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP
TVESKTKPFTLPILTIGELTNSRFPVPIDELYTSPNESLVVQPQNGRCALDGELQGTT
QLLPTAICSFRGRINQKVSGENHVWNMQVTNINGTPFDPTEDVPAPLGTPDFSGKLFG
VLSQRDHDNACRSHDAVIATNSAKFTPKLGAIQIGTWEQDDVHINQPTKFTPVGLFES
EGFNQWTLPNYSGALTLNMGLAPPVAPTFPGEQILFFRSHIPLKGGVADPVIDCLLPQ
EWIQHLYQESAPSQTDVALIRFTNPDTGRVLFEAKLHRSGYITVANTGSRPIVVPANG
YFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6698..7477
/gene="ORF3"
CDS 6698..7477
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QLD66188.1"
/translation="MAGAFIAGLAGDIVTNGIGSLVNAGANAINQKVDFENNKQLQQA
SFNHDKEMLQAQIQATKQLQADMIAIRQGVLTAGGFSPTDAARGAVNAPMTQVLDWNG
TRHWAPGAMKTTAFSGGFTSASHARTVDLTRKTSATPASMPVSRPSSTASTVSTRSTL
ISGSSNPSSLARSSSSISSQSTSSSSRTSDWVRSQNRALEPYMSGALRTTYVTPPSSR
ASSNGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRRRGESQV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgctatca gcaacaacga
61 catcgcaaaa tcttcaagtg acggagtact aagtagtatg gctgtcactt ttaaacgagc
121 cctcggggcc cggcctaaac agccgccccc gagggaaaca acacaaaaac aaaaacctcc
181 acgaccgtcc accccggagt taatcaaaaa gattccacct cccccgccca acggggagga
241 cgatttagtg gtatcctaca gtgccaaaga gggggtctcc ggcctgcctg agctatccac
301 cgtcaggcag ccggatgaga caaacacagc atttagtgtc cccccactca accagaggga
361 aaacagggat gctaaagaac cgctgcctgg caccatattg gaaatgtggg acggagagat
421 ctaccactac ggcttgtacg tggagcgggg tttggtgctt ggggtgcaca aaccaccagc
481 ggctattagc ctcgcaaagg ttgaactaac accactgtct ctgtactgga gaccagtgta
541 cacccctcag tacctcatat ccccggaaac actcaaaaag ctacatggag agacattccc
601 ttacacggcc tttgataaca actgttacgc cttctgttgt tgggtcttgg atctaaacga
661 ctcttggctc agcaggagga tgattcagag aacaactggc ttcttcagac cctaccagga
721 ctggaacagg aaacctctcc ccactatgga tgattccaaa ttgaaaaagg tggctaatat
781 agtcctgtgt gctttatcat cactattcac caggcccatt aaggacataa taggaaaact
841 aaggccctta aacatactca acatactagc ttcctgcgac tggactttcg caggagtagt
901 ggaatcccta attctccttg cagaactctt cggagttttc tggacacccc cagatgtgtc
961 tgcgatgatc gcccccttac taggtgacta cgaactacag ggacctgaag atctcgctgt
1021 agaactcgta ccagtagtaa tgggggggat aggtttggtt ctaggtttca ccaaggagaa
1081 gattggcaag atgctgtcat ccgccgcgtc caccctcaga gcttgtaaag accttggagc
1141 atatgggtta gaaatcctga agttggtcat gaaatggttc ttcccgaaga aagacgaggc
1201 aaatgaactt gcaatggtga gatccattga ggacgcagtg ctggacctcg aagcaattga
1261 aaacaatcac atgaccaccc tgctcaaaga caaagacagt ttggcaacct acatgaagac
1321 tctggatctt gaagaggaga aagctaggaa actctccacc aaatccgctt ctcctgatat
1381 tgtgggcaca atcaattcac ttctggcacg gattgcagct gcccgttccc tggtgcaccg
1441 ggcaaaagaa gagctttcca gtaggccaag acccgttgtt gttatgatat caggaaagcc
1501 aggaataggg aagacccatc ttgccagaga tttggcaaag aaagttgcag ccaccctcac
1561 aggagaccag agggtgggcc tcatcccacg gaatggtgtc gaccattggg atgcatacaa
1621 aggtgagaga gtcgtccttt gggatgacta tggaatgagt aaccccattc atgacgccct
1681 taggctacaa gaacttgctg acacttgccc cctaacatta aattgtgata gaattgagaa
1741 caaaggaaag gtttttgaca gtgatgccat aattattaca actaatttgg ctaacccggc
1801 accactggac tatgttaact ttgaagcatg ttcgaggcgt atcgacttcc ttgtgtacgc
1861 tgatgccccc gacgttgaaa aggcaaaacg cgacttccca gggcaacctg acatgtggaa
1921 ggatgctttt agacctgact tctcacacat aaagttaatg ttggctcctc agggtggttt
1981 tgataagaac ggcaacaccc cacatggaaa aggtgtcatg aaaaccctca catctggctc
2041 cctcgttgcc cgtgcttcag gactcctcca cgaaagactg gacgagtacg agttgcaagg
2101 gccaacaccc acaaccttca atttcgacca aaacaaggtg ttcgccttta ggcagctcgc
2161 cgctgaaaat aaatacgggc tgatggacac catgagagtg ggaagccagc tcaagaatgt
2221 caaaactgtg tcagagctca aacaggcact caagaacatt gcaattagaa ggtgccagat
2281 agtctacagt ggtctcacat actcacttga atctgatggc aaaggtaatg taagggttga
2341 gaaggtgcaa agtccagctg tgcagaccaa caatgagcta actggcgcac tacaccatct
2401 gaggtgcgct aggattagat attatgttaa gtgtgttcag gaagctttgt attccatcat
2461 ccaaattgct ggggccgcgt ttgtcaccac gcgcattgca aagcgcatga acatacaaaa
2521 cctctggtcc agaccacagg tggaggatga ggaagagacc accagcaaag acgggtgccc
2581 aaaaccaaag gatgaggagg agtttgtcat ctcgtctgaa gacatcaaag tcgaaggcaa
2641 gaagggaaag aacaagtctg gccgtggcaa gaaacacaca gccttttcga gtaaaggtct
2701 tagtgatgag gagtacgatg agtataaaag aattagagaa gaaagaaatg gtaagtactc
2761 catagaagaa tacctccagg acagagacaa gtactatgag gaggtggcca tagccagggc
2821 tactgaagag gacttctgtg aggaagaaga agccaagatt cgtcagagga ttttcagacc
2881 aacaaggaaa caacgcaagg aggagagggc ttcactcgga ctggttacag gctcagaaat
2941 caggaaaagg aacccggatg acttcaaacc caaaggaaaa ctgtgggctg atgatgacag
3001 gagtgtcgat tacaatgaaa agctcagttt tgaggccccc ccaagcatct ggtcgagaat
3061 agtcaacttt ggatcaggtt ggggcttctg ggtctcacca agcctttttg taacatccac
3121 ccatgtcata cctcaagggg cacaggaatt tttcggtgtt tccatcaaac agatccaaat
3181 tcacaagtcg ggtgaattct gccgactaag attcccaaaa ccaattagaa ctgatgtgac
3241 aggtatgatc ctggaggagg gggcccctga agggactgtg gccacactgc tcataaagag
3301 gccaactgga gagctgatgc cactggcagc tagaatgggt acccatgcaa ctatgaggat
3361 ccagggtcga actgtcgggg ggcagatggg gatgctcctg acgggatcca acgccaagag
3421 catggatttg ggtaccacac caggtgactg tggatgccca tacatataca aaagaggaaa
3481 tgactacgta gtcatcgggg tccacacagc tgccgcccgc ggagggaaca ctgtcatctg
3541 tgcaacacaa ggaagtgagg gcgaggctgt gcttgaaggt ggcgacaaca aaggcaccta
3601 ttgtggcgcc ccaatcctag gtccaggaaa tgcccccaaa ctcagtacta aaaccaaatt
3661 ctggaggtcc tcaacagcac cactcccacc tggcacatat gaaccagctt acctcggagg
3721 caaagacccc agagtaaaag gtggcccctc attacagcaa gttatgagag accaactgaa
3781 accatttaca gaacccagag gtaagccacc aaagcccagt gtactagaag cagccaaaaa
3841 gacaatcatt aatgtccttg agcaaacaat agacccaccc caaaaatgga cgttcgcaca
3901 ggcgtgcgca tccctcgaca aaacaacctc tagtggctac ccgcaccacg tgcggaagaa
3961 tgaacattgg aatggggaat ctttcacagg aaaattggct gatcaggctt caaaagctaa
4021 cctgatgttt gaggaaggta aacacatgac accagtctac acaggagccc tcaaggatga
4081 gttagtcaaa actgataaaa tatatggcaa gatcaagaag aggttgctat ggggttcaga
4141 tctggcgacc atgatccgct gcgctcgagc gttcggaggg ttaatggatg aactcaaggc
4201 tcactgtgtc acactcccca tcagggtagg gatgaacatg aatgaggatg gccccatcat
4261 ttttgagaaa cactctagat acacctacca ttatgatgca gactactctc ggtgggactc
4321 aacacagcag agagctgttt tagctgcagc cctggagatc atggtaaaat tttccccaga
4381 accacacctg gcccagatcg ttgcagagga tctcctatct cccagcgtga tggacgtggg
4441 cgacttcaaa atatcaatca ctgaaggact cccctctggg gtgccttgca cctcacaatg
4501 gaattctatt gctcattggc tcctcacgct ttgtgcactc tctgaggtaa cagatttgtc
4561 tcctgacatc atccaagcaa actcactctt ctctttctat ggtgacgatg aaattgtgag
4621 cacagacatc aaattagatc cagaaaagct gacagctaaa ctaaaagagt atggtctcaa
4681 gccaacccgt cctgacaaga ctgaagggcc tctggtcatt tctgaggact tagatggtct
4741 gaccttctta cggaggactg tgacccgtga cccagcaggt tggtttggaa aattggaaca
4801 aagctcaata cttagacaga tgtattggac caggggcccc aaccatgagg atcccgctga
4861 aacaatgata ccacactccc aaagacccat acagttgatg tccctattag gtgaagctgc
4921 attacatggc ccatcattct acagcaaaat cagcaaattg gtcatctcag agttaaaaga
4981 aggtggcatg gacttttacg tgccaaggca agagccaatg tttcgatgga tgaggttctc
5041 agacttgagc acgtgggagg gcgatcgcaa tctggctccc aattttgtga atgaagatgg
5101 cgtcgaatga cgccgctcca tctaatgatg gtgcagccgg tctcgtacca gaggtcaaca
5161 atgagaccat ggcacttgaa ccggtggctg gggcttcaat agccgcccca ctcaccggtc
5221 aaaataatgt tatagacccc tggattagat taaactttgt gcaagctccc aatggagagt
5281 ttacagtttc accccgcaat tcgcctgggg aagtcctact aaacttggaa ttaggccctg
5341 aactaaatcc atatttggca cacctttcca gaatgtacaa tggttatgca ggtggagttg
5401 aggtgcaagt actactggct gggaacgcgt tcacggctgg aaaactggta ttcgccgcag
5461 ttccccctca ttttccatta gaaaacataa gccctggcca aataaccatg ttccctcatg
5521 taattattga tgttaggact ttagaaccag tcctattgcc tcttccagat gttaggaaca
5581 atttctttca ctacaatcag caaaatgaac cgaggatgag gcttgtggca atgctctata
5641 ccccccttag gtctaatggt tctggtgatg atgtatttac tgtctcctgt agagtgctta
5701 ctcgaccctc tcctgatttt gatttcaatt atttggtacc ccctacagtt gaatctaaaa
5761 ctaaaccctt cacactcccc atcttgacca taggggagtt aaccaattcc agattccctg
5821 tgcctataga tgaactctac actagcccca atgagagttt ggtggtacaa ccccagaacg
5881 ggagatgcgc gctggatggg gagttgcagg gtactactca gctcctcccc acggcgatct
5941 gctcgttcag gggtcggatt aatcagaaag tgagtggaga gaaccatgtt tggaatatgc
6001 aagtcaccaa cattaacgga accccttttg atccaacaga ggatgttcca gctcctctag
6061 gtacaccaga cttttctggc aagctctttg gcgtcctaag ccagagggac catgataatg
6121 cctgtaggag ccatgatgca gtgattgcaa ctaattctgc taaatttacc ccaaaattgg
6181 gcgctataca aattggcaca tgggaacaag atgatgtaca catcaaccaa cccaccaaat
6241 ttactccagt tggcttgttt gaaagtgaag gttttaatca gtggacactc cctaattatt
6301 ctggagcctt aacactcaac atggggttgg ccccccctgt ggcccccaca tttcctggcg
6361 agcaaattct tttcttcaga tcccacattc ctcttaaagg aggtgtggca gacccagtta
6421 ttgattgtct cttgccccaa gagtggatcc aacaccttta tcaggagtca gccccttcac
6481 aaacagatgt agcactgatc agattcacaa atccagacac agggcgtgtc ctatttgaag
6541 caaaattgca caggagtggc tacatcacag tggccaacac tggtagcaga ccaattgtgg
6601 tgccagctaa tggttacttc aggtttgact cttgggttaa tcagttttat tctctcgccc
6661 ccatgggaac tgggaatggg cgcagaaggg tgcagtaatg gctggagctt tcatagcagg
6721 tcttgctggt gatatagtca ccaatggtat tggctcactc gtgaacgctg gggccaatgc
6781 aataaaccaa aaagtagact ttgaaaacaa taagcaacta cagcaggcat ccttcaatca
6841 tgacaaagag atgctgcaag ctcaaattca agccaccaaa cagctacagg ctgatatgat
6901 tgcaatcaga caaggggtgt tgaccgcggg cggcttctcc cccactgatg cagcaagagg
6961 tgcagtcaac gcacccatga cacaggtctt ggactggaac gggactagac attgggcccc
7021 cggagccatg aaaacaactg ctttctccgg tgggttcacc agtgcttctc atgccaggac
7081 cgttgacctg actaggaaaa catcagccac accagcctct atgcctgtct ctaggcccag
7141 ttctactgcc tctactgttt ccacccgttc taccttgatt agtggatcct ctaatccttc
7201 ttctctagct aggagttctt ccagtatttc ttcccaatct acttcctcat cctctcggac
7261 tagtgattgg gtacgtagcc aaaacagagc actggagcct tatatgagcg gggcgctgcg
7321 tacaacctac gtgacacctc catccagtag ggcttctagc aatggcacag tctcaaccgt
7381 gccaaaagag gttttggact cctggacatc tgcattcaat acacacagac aaccgctgtt
7441 tgctcatctc cgtcggagag gggagtcaca agtttagtga aaagatggtc ttttctttca
7501 ttcctttgaa atctctatct tttaaaaaaa aaa
//