Typing tool
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Typing tool
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Complete norovirus genomes
| MK073889 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 1..5013
ORF2: 4994..6616
ORF3: 6616..7422
LOCUS MK073889 7431 bp RNA linear VRL 07-FEB-2019
DEFINITION Norovirus GII.4 isolate Hu/USA/2016/GII.P4 New Orleans-GII.4
Sydney/St.Louis-0113 nonstructural polyprotein (ORF1) gene, partial
cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MK073889
VERSION MK073889.1
DBLINK BioProject: PRJNA322324
KEYWORDS .
SOURCE Norovirus GII.4
ORGANISM Norovirus GII.4
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7431)
AUTHORS Soehnlen,M., Riner,D., Mosher,L., Vavricka,V., Castro,C.J.,
Marine,R. and Rodeman,K.
TITLE Direct Submission
JOURNAL Submitted (19-OCT-2018) Polio and Picornavirus Laboratory Branch,
Centers for Disease Control and Prevention, 1600 Clifton Rd. NE,
Atlanta, GA 30329, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 3.9
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7431
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/isolate="Hu/USA/2016/GII.P4 New Orleans-GII.4
Sydney/St.Louis-0113"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:489821"
/country="USA: MI, Gratiot County, St. Louis"
/collection_date="23-Apr-2016"
/note="genotype: GII.P4-GII.4"
gene <1..5013
/gene="ORF1"
CDS <1..5013
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AZJ17753.1"
/translation="SSMAVTFKRALGARPKQPPPREKLQRPPRPPTPELVKNIPPPPP
NGEDEIVVSYSVKDGVSGLPDLSTVRQPEESNTAFSVPPLNQRENRDAKEPLTGTILE
MWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELAPLSLYWRPVYTPQYLISPDTLK
KLSGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMD
DSKIKKVANIFLCALSSLFTRPIKDIIGKIRPLNILNILASCDWTFAGIVESLILLAE
LFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMGGIGLVLGFTKEKIGKMLS
SAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAIVRSIEDAVLDLEAIENNHM
TTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINALLARIAAARSLVHRAK
EELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGDQRVGLIPRNGVDHWDAYK
GERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDVIIITTNLAN
PAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNAFSSDFSHIKLALAP
QGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEFELQGPALTTFNFDRNKVL
AFRQLAAENKYGLMDTMRVGKQLKDVRTMPELKQALKNVSIKKCQIVYSGCTYMLESD
GKGNVKVDRIQSAAVQTNNELAGALHHLRCARIRYYVKCVQEALYSIIQIAGAAFVTT
RIAKRMNIQDLWSKPQVENTEETTSRDGCPKPKDDEEFVISSDDIKTEGKKGKNKTGR
GKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDKYYEEVAIARATEEDFC
EEEEAKIRQRIFRPTRKQRKEERVSLGLVTGSEIRKRNPDDFKPKGKLWADDDRSVDY
NEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAKEFFGVPIKQIQVHK
SGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRSTGELMPLAARMGTHATMKI
QGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGNTV
ICATQGSEGEATLEGGDNKGTYCGAPILGPGSAPTLSTKTKFWRSSTASLPPGTYEPA
YLGGKDPRVKGGPSLQQVMREQLKPFTEPRGKPPKPSVLEAAKKTIINVLEQTIDPPE
KWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEEGKNVTPV
YTAALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFGGLMDELKAHCVTLPIRVG
MNMNEDGPIIFERHSRYTYHYDADYSRWDSTQQRAVLAAALEIMVKFSPEPHLAQVVA
EDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLLTLCALSEVTNLSPDTIQA
NSLFSFYGDDEIVSTDIKLDPEKLTAKLREYGLKPTRPDKTEGPLIISEDLNGLTFLR
RTVTRDPAGWFGKLEQSSILRQMYWTRGPNHGDPSETMIPHSQRPIQLMSLLGEAALH
GPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDG
VE"
mat_peptide <1..903
/gene="ORF1"
/product="p48"
mat_peptide 904..2001
/gene="ORF1"
/product="NTPase"
mat_peptide 2002..2538
/gene="ORF1"
/product="p22"
mat_peptide 2539..2937
/gene="ORF1"
/product="VPg"
mat_peptide 2938..3480
/gene="ORF1"
/product="Pro"
mat_peptide 3481..5010
/gene="ORF1"
/product="RdRp"
gene 4994..6616
/gene="ORF2"
CDS 4994..6616
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="AZJ17754.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6616..7422
/gene="ORF3"
CDS 6616..7422
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="AZJ17755.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDTVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 tctagcatgg ctgtcacttt taaacgagcc ctcggggcgc ggcctaaaca gccacccccg
61 agggaaaaac tacaaagacc cccgcgacca cctactccag aactggttaa gaatatcccc
121 cctcccccac ccaacggaga ggatgaaata gtggtctctt atagtgtcaa agatggtgtt
181 tccggcttgc ctgacctttc taccgtcagg caaccggaag aatccaacac ggccttcagt
241 gtccctccac tcaatcagag ggagaataga gatgctaagg agccactcac tgggacaatt
301 ctggaaatgt gggacgggga aatctaccat tatggcctgt atgtggagcg aggtcttgta
361 ctaggtgtgc acaaaccgcc agctgccatc agccttgcta aggttgagct ggcaccactc
421 tccttgtact ggagacctgt gtacactcct cagtacctca tctctccaga cactcttaag
481 aaattgtccg gagagacgtt cccctataca gcctttgata acaactgtta tgccttttgt
541 tgctgggtcc tggacctaaa tgactcgtgg ctgagtagaa ggatgatcca gagaacgact
601 ggtttcttca ggccctacca ggactggaat aggaaacccc ttcctactat ggatgactcc
661 aaaataaaga aggtagctaa catatttctg tgtgccctgt cctcgctatt caccagaccc
721 ataaaagaca taatagggaa gataagacct cttaatatcc tcaacatctt ggcctcatgt
781 gactggacct tcgcgggtat agtggagtcc ctgatactct tggcagaact ctttggagtt
841 ttctggacac ccccagatgt gtctgcgatg attgccccct tacttggtga ctacgagcta
901 caaggacctg aggaccttgc agtggagctc gtccccgtgg tgatgggggg aattggtttg
961 gtgctaggat tcaccaaaga gaagattggg aaaatgttgt catctgctgc gtccactttg
1021 agagcttgca aagaccttgg tgcatatggg ctagagatcc taaagttagt catgaagtgg
1081 ttcttcccaa agaaggagga ggcaaatgag ctggctatag tgaggtccat cgaggacgca
1141 gtcctggatc tcgaggcaat tgaaaacaat catatgacca ccttgcttaa agataaagac
1201 agcctggcaa cctacatgag aacacttgac cttgaagagg agaaagccag gaaactctca
1261 accaagtctg cctcacccga catcgtgggt acaatcaacg ccctcctagc gagaattgct
1321 gccgcacgtt ctctggtgca tcgagcgaag gaggagcttt ccagcagacc aagacctgtg
1381 gtgttgatga tatcaggcag gccaggaata gggaagaccc acctcgctag ggaagtggct
1441 aagagaatcg cagcctccct tacaggggac cagcgtgtgg gcctcatccc acgcaatggt
1501 gtcgaccatt gggatgcgta caagggggag agggtcgtcc tgtgggacga ttatggaatg
1561 agcaacccta ttcacgatgc cctcaggctg caagaactcg ctgacacttg tcccctcact
1621 ctgaactgtg acaggattga aaataaagga aaggtctttg acagcgatgt catcattatc
1681 accaccaacc tggccaaccc agcaccactg gactatgtca actttgaagc atgctcgagg
1741 cgcattgact tcctcgtgta tgcagaagcc cctgaagtcg aaaaggcgaa gcgtgacttc
1801 ccaggccagc ctgacatgtg gaagaacgct ttcagttctg atttctcaca cataaaacta
1861 gcactggccc cacagggtgg tttcgataag aacggaaaca ccccacacgg aaagggcgtc
1921 atgaagaccc tcaccactgg ctcccttatt gcccgggcat cagggctact ccatgagagg
1981 ttggatgaat ttgaactgca gggtccggct ctcaccacct tcaatttcga ccgcaataaa
2041 gtgcttgcct ttagacagct tgctgctgaa aacaaatatg gattgatgga cacaatgagg
2101 gttgggaaac agctcaagga tgtcagaacc atgccagaac tcaaacaagc actcaagaat
2161 gtctcaatca agaagtgcca aatagtgtat agtggttgca cttacatgct tgagtctgat
2221 ggcaagggca atgtgaaagt tgacagaatc caaagtgccg ccgtgcagac caacaatgag
2281 ctggctggtg ccctacacca cttgaggtgc gccagaatca gatactatgt caagtgtgtc
2341 caggaagccc tgtattccat catccaaatc gctggggctg catttgtcac cacgcgcatt
2401 gccaagcgca tgaacataca agacctatgg tccaagccac aagtggaaaa cacagaggag
2461 actaccagca gggacgggtg cccaaaacct aaggatgatg aggagttcgt catttcatcc
2521 gacgacatca aaactgaggg caagaaaggg aagaacaaga ctggccgtgg caagaagcac
2581 acagcatttt caagcaaagg cctcagtgat gaagagtatg atgaatacaa gaggattaga
2641 gaagaaagga atggcaagta ctctatagaa gagtaccttc aggacaggga caaatactat
2701 gaggaggtgg ccattgccag ggcgactgag gaagacttct gtgaagagga ggaggccaag
2761 atccggcaaa ggatctttag accaacgagg aaacaacgca aggaggaaag ggtctctctt
2821 ggcctggtca caggctctga aattaggaaa agaaacccag atgacttcaa acccaagggg
2881 aagttgtggg ctgacgatga caggagtgtg gactacaatg agaaactcag ctttgaggcc
2941 ccaccaagca tttggtcgag aatagtcaac tttggttcag gctggggatt ctgggtctcc
3001 cccagtctgt tcataacatc aacccatgtc ataccccaag gcgcaaagga gttctttgga
3061 gtccccatca aacaaataca ggtacacaag tcaggcgagt tctgtcgctt gagattccct
3121 aaaccaatca ggactgatgt gacgggcatg atcttggaag aaggcgcacc tgagggcacc
3181 gtggtcacac tactcatcaa aaggtccact ggggaactca tgcccctagc agctaggatg
3241 gggacccatg cgaccatgaa gatccaaggg cgcactgttg gaggccagat gggcatgctt
3301 ctgacagggt ccaacgccaa gagcatggac ctgggtacta caccaggtga ttgtggctgc
3361 ccctacatct acaagagagg taatgactat gtggtcattg gagtccacac ggctgccgca
3421 cgtgggggaa acactgtcat atgtgccacc caagggagtg aaggggaggc tacgcttgag
3481 ggtggtgaca acaaagggac atactgtggt gcaccaatcc taggcccagg gagtgcccca
3541 actcttagca ccaagaccaa attctggaga tcgtccacag catcacttcc acctggtacc
3601 tatgaaccag cctatcttgg tggcaaggac cctagagtca agggtggccc ttcactgcag
3661 caagtcatga gggaacagtt gaagccgttc acagagccca ggggcaagcc accaaaacca
3721 agtgtattag aagctgccaa gaagaccatc attaacgtcc ttgagcaaac aattgatcca
3781 cctgagaaat ggtcgttcgc acaagcttgc gcgtcccttg acaagaccac ttccagtggc
3841 catccgcacc acatgcggaa aaacgactgc tggaacgggg agtccttcac gggcaagctg
3901 gcagaccagg cttccaaggc caacctgatg tttgaagaag ggaagaacgt gaccccagtc
3961 tacacagctg cactcaagga tgagttagtt aaaactgaca aaatttatgg taagatcaag
4021 aagaggcttc tctggggctc ggatttggca accatgattc ggtgtgctcg agcattcgga
4081 ggcctaatgg atgaactcaa agcgcactgt gtcacactcc ccattagagt tggcatgaat
4141 atgaatgagg atggccccat catcttcgag aggcattcca ggtacacgta ccactacgat
4201 gctgactact ctcgatggga ttcaacacaa cagagagccg tgttggcagc agctctagaa
4261 atcatggtta aattctcccc agaaccacat ttggctcagg tagtcgcgga agaccttctt
4321 tcccccagtg tggtggacgt gggcgacttc acaatatcaa tcaatgaggg tcttccctct
4381 ggggtgccct gcacctccca atggaactcc atcgcccact ggcttctcac tctctgtgcg
4441 ctctctgaag tcacaaacct gtctcctgat accatacagg ctaattccct cttctctttt
4501 tatggtgatg atgaaattgt tagcacagac ataaaattgg acccagagaa actgacagca
4561 aaactcagag aatatgggtt aaaaccaacc cgccctgaca aaactgaagg accccttatc
4621 atctctgaag acctgaatgg tctaactttc ctgcggagaa ctgtgacccg cgacccagct
4681 ggttggtttg gaaaactgga gcagagttca atactcaggc aaatgtactg gactaggggt
4741 cccaaccatg gagacccatc tgaaacaatg attccacact cccaaagacc catacaattg
4801 atgtccctac tgggggaggc cgctctccac ggcccagcat tttacagcaa aatcagcaaa
4861 ttggtcattg cagagctaaa agaaggtggt atggattttt acgtgcccag acaagagcca
4921 atgttcagat ggatgagatt ctcagatctg agcacgtggg agggcgatcg caatctggct
4981 cccagctttg tgaatgaaga tggcgtcgag tgacgccaac ccatctgatg ggtccgcagc
5041 caacctcgtc ccagaggtca acaatgaggt tatggctctg gagcccgttg ttggtgccgc
5101 cattgcggca cctgtagcgg gccaacaaaa tgtaattgac ccctggatta gaaacaattt
5161 tgtacaagcc cctggtggag agtttacagt gtcccctaga aacgctccag gtgaaatact
5221 atggagcgcg cccttaggcc ctgatctaaa tccctaccta tcccatttgg ccagaatgta
5281 taatggttat gcaggtggtt ttgaagtgca ggtaattctc gcggggaacg cgttcaccgc
5341 cgggaaggtc atatttgcag cagtcccacc aaattttcca actgaaggct tgagccccag
5401 ccaggtcact atgttccccc atatagtagt agatgttagg caactagaac ctgtgttgat
5461 tcccctaccc gatgttagga ataatttcta ccattacaac caatcaaatg accccaccat
5521 taagttgata gcaatgttgt atacaccact tagggctaat aatgccgggg acgatgtctt
5581 cacagtttct tgccgagttc tcacaagacc atcccccgat tttgatttca tatttttagt
5641 gccacccaca gttgagtcaa gaactaaacc attctctgtc ccagttttaa ctgttgagga
5701 gatgaccaat tcaagattcc ccatcccttt ggaaaagttg ttcacgggtc ccagcagtgc
5761 ctttgttgtt caaccacaaa acggcaggtg cacgactgat ggcgtgctcc taggtaccac
5821 ccaactgtct cctgtcaaca tctgcacctt cagaggggat gtcacccata tcacaggcag
5881 tcgtaactac acaatgaatt tggcttctca aaattggaac aattatgacc caacagaaga
5941 aatcccagcc cctctaggaa ctccagactt tgtggggaag atccaaggca tgctcaccca
6001 aaccacgagg actgatggct caacacgcgg ccacaaagcc acagtgtaca ctgggagcgc
6061 cgactttgct ccaaaactgg gtagagtcca atttgaaact gacacagacc atgattttga
6121 agctaaccaa aacacaaagt tcaccccagt cggtgtcatc caagatggta gcaccaccca
6181 ccgaaatgaa ccccaacagt gggtgctccc aagttactca ggcagaaata ctcataatgt
6241 gcatttggcc cccgctgtag cccccacttt tccgggtgag caacttctct tcttcagatc
6301 caccatgccc ggatgcagcg ggtaccccaa catggatttg gactgtctgc tcccccagga
6361 atgggtgcag cacttctacc aagaggcagc cccagcacaa tctgatgtgg ctctactaag
6421 atttgtgaat ccagatacag gtagggtttt gtttgagtgt aagcttcata aatcaggcta
6481 tgttacagtg gctcacactg gccaacatga tttggttatc ccccccaatg gttattttag
6541 gtttgattct tgggtcaacc agttctacac gcttgccccc atgggaaatg gaacggggcg
6601 tagacgtgta gtataatggc tggagctttc tttgctggat tggcatctga tgtccttggc
6661 tctggacttg gttccctcat caatgctggg gctggggcca tcaaccaaaa agttgatttt
6721 gaaaataaca gaaaattgca acaggcatcc ttccaattta gcagcaatct gcaacaggct
6781 tcctttcaac atgacaaaga gatgctccaa gcacaaattg aggccaccaa aaagctacaa
6841 caggaaatga tgaaagttaa gcaggcaatg ctcctagagg gtgggttctc tgagacagat
6901 gcagcccgcg gggcaattaa cgctcccatg acaaaagctt tggactggag cgggacaagg
6961 tactgggctc ccgatgctag gactacaaca tataatgcag gccgcttttc cacccctcaa
7021 ccatcggggg cactgccagg aagagctaat cttagggata ctgtccctgc tcggggttcc
7081 tctagcaaat cctctaactc ttctactgct acttctgtgt actcaaatca aaccacttca
7141 acgagacttg gttctacagc tggttctggt accagtgtct cgagcctccc gtcaactgca
7201 aggactagga gctgggttga ggatcaaagt aggaatttgt cacctttcat gaggggggcc
7261 cacaacatat cgtttgtcac cccaccatct agcagatcct ctagccaagg cacagtctca
7321 accgtgccta aagaggtttt ggactcctgg actggcgctt tcaacacgcg cagacagcct
7381 ctcttcgctc acattcgtaa gcgaggggag tcacgggcgt aatgtgaaaa g
//