Typing tool
|
Complete norovirus genomes
MG495084 | GII.24 | ||
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GII.P24 |
ORF1: 1..4868 ORF2: 4849..6477 ORF3: 6477..7241LOCUS MG495084 7249 bp ss-RNA linear VRL 17-DEC-2017 DEFINITION Norovirus GII strain Hu/US/2013/GII.P24-GII.24/EdenPrairie5457 nonstructural polyprotein gene, partial cds; and VP1 and VP2 genes, complete cds. ACCESSION MG495084 VERSION MG495084.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7249) AUTHORS Chhabra,P., Cebelinski,E., Castro,C.J., Marine,R., Ng,T. and Vinje,J. TITLE Direct Submission JOURNAL Submitted (13-NOV-2017) Division of Viral Diseases, Centers for Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA 30329, USA COMMENT ##Assembly-Data-START## Assembly Method :: Geneious v. 8 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7249 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Hu/US/2013/GII.P24-GII.24/EdenPrairie5457" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="12-Nov-2013" /note="genotype: GII.P24-GII.24" CDS <1..4868 /note="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="AUD54986.1" /translation="NGEDIVIKYTKQEDTVSGVPSVSTVDISPPHDTAYSVPPLDQRE KVDAKEPLTGSIIEMWDGEIYHYGLYVEKGLVLGVHKPPAAMSIARIELTPLSLYWRT VYTPPYLVAPDTLRKLHGETFPYTAFDNNCYSFCCWVLDLNDSWLNRKFVSRTTGFYR PYQDWNRKPMPTMDEGKLKKVANVFLCGLTGLFTRPIKDIIGKLKPLNLLNIVANCDW TFPGVVEAIILLSELFGIFWTPPDISAFVASLLGDYEMQGPEDIATEIVPVILGGIGM VLGFTKEKIGRLLSSAASSLRACREIGNYGIEVVKLVMKWFFPTKSEVNEMEMVRTIE DAVLDFEAIENNHMTALLKDKNSLATFLRALDMEEEKARKLSTKSASPDIVGTINALL ARIAAARSLVHRAKEEMSSRMRPVVIMISGRPGIGKTHLARDLAKKMAATLSGDQRVG LVPRNGVDHWDAYKGERIVLWDDYGMSNPVADALRLQELADTCPLTLNCDRIENKGKV FDSDTLIITTNLANPAPLDYVNFEACSRRIDFLVYADSPSVDKAKRDFPGQPDMWKDA FKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTHSLIARATGLLHERLDEFDLQG PELPVYNFDQNKVAAFRKLAADNKYGFMDTLRAGNKLKEVKTLDQFKEAVKDIRIKPC RIIYNSLAYDLDSNGSGKVNVKKVGDQRIQANNELNSALNKLRGARIRYYVKCFQEMI YSLLQIAGAAFVTSRMAQRMNVNKLWAKPEKQSETLTEPPTPPIEDWTITPADTVQEG KKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERQGKYSIEEYLQDRDRYYEELAI AKATEENFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDFKPKGKLW ADDDRSVNYNERIDFEAPPSLWSRIVNFGSGWGFWVSSNLFITSTHVIPQNMSEAFGV PINQIQIHRSGEFCKMRFPKAIRPDVSGMILEEGAPEGTVVTILIKRTTGELMPLASR MGTHATMKIQGRMIGGQMGMLLTGSNAKNMDLGTVPGDCGCPYVYKRGNDWVVIGVHT AAARGGNTVICATQGPDGEATLEGGDNHGTYCGAPILGPGNAPKLSTKTKFWRSSNTP LPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTAPRGKPPRPAILEAAKETICNV LEQTIEPPQKWSYAQACASLDKTTSSGHPHHKKKNDNWNGESFTGVLADQASKANLMF EQGKHMQPVYTGALKDELVKTSKIYENIKKRLLWGSDLGTMIRCARAFGGLMEEMKAN CVRLPVRVGMNMNEDGPIIFEKHSKYRYHYDADYSRWDSTQQRYVLGAALEIMVRFSA EPELAQIVAEDLLSPSVMDVGDFKITINEGLPSGVPCTSQWNSIAHWLLTLCAMAEVS GLSPDVIQSNSCFSFYGDDEIVSTDIKLDSQKLTDKLKEYGLIPTRPDKTEGPLIIKE SLEGLTFLRRDVCRDPVGWFGKLDQSSIMRQLYWTKGPNHEDPNETMIPHSQRPVQLM SLLGEAALHGPAFYKKVSKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNL APEGVNEDGVE" CDS 4849..6477 /note="ORF2; major capsid protein" /codon_start=1 /product="VP1" /protein_id="AUD54987.1" /translation="MKMASNDAAPSNDGAANLVPEANKEVMALEPVAGGAIAAPLTGQ TNIIDPWIMNNFVQAPNGEFTISPRNSPGEVLLNLELGPDLNPFLAHLSRMYNGYAGG VEVQVIMAGNAFTAGKVIFAAVPPHFPVDNLSPPQVTMFPHVIVDVRTLEPILLPLPD VRNNFYHYNQVNDSRMRLIAMLYTPLRSNGSSDDVFTVSCRVLTRPTPDFEFNYLVPP TVESRTKPFSVPILTIGEMTNSRFPLPIDMLYTSPTENIVVQPQNGRCTLEGELLGTT QLVTPNICALRGEIRGHEGSGDNHKWHFMVRSPNGAAFDPTEDVPAPLGTPDFIGDVF GVLSQRNRNTDSGQSGPANRSHDAVVSTRDNRFTPKLGSVMIATWETDDIQDQPTRFT PVGLENPDHYNQWQLPNYSGALTLNMGLAPSVFPTYPGEQILFFRSYIPLKGGYGDSH IDCLVPQEWIQHFYQESAPSQTDVALIRYVNPETGRVLFEAKLHRQGYITVARSGSSP INVPANGYFRFDSWVNQFYSLAPMGTGNGRRRIQ" CDS 6477..7241 /note="ORF3; minor structural protein; minor capsid protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="AUD54988.1" /translation="MAGAFLAGLAGDIATNTMGSLVNAGANAINQKVDFENNKFLQGE SFKHDKEMLNAQVEATKKLQMDMINIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG TRYWAPNATTTTSMSGGFTSQVVHRPTPNFGNKQAPRPAPSSASSVRSNSTQLTSLGS HSSGSSRSSGSTVVSSLPSSSRTREWVNSQNLNLEPHLPGSLKTAFVTPPSSAASSSG TVSTVPKGVLDSWTSAFNTRRQPLFAHLRRRGESNV" 3'UTR 7241..7249 ORIGIN 1 caaatggtga ggacatagta atcaagtata ccaaacaaga ggacacggtc agtggggtgc 61 ctagcgtttc caccgtagac atatcccctc cacatgacac tgcatacagt gtcccccccc 121 tggaccaaag ggagaaggtg gatgcaaaag aacccctgac tggttcaata atagagatgt 181 gggatggtga gatctatcat tatgggctct acgtagagaa ggggctagtt cttggcgtgc 241 acaaacctcc agctgccatg agcattgcgc gcatcgagct aacccctctc tctctgtact 301 ggagaacagt atacacaccc ccttacctgg ttgcccctga cacccttagg aaacttcatg 361 gtgaaacctt tccctataca gcatttgaca acaactgtta ctcattctgt tgctgggttt 421 tggacctgaa cgattcctgg ctcaacagaa agtttgtgtc tcgaaccacg ggcttctaca 481 gaccctacca agattggaac agaaaaccaa tgccaaccat ggacgaggga aaacttaaga 541 aagtggccaa tgtgtttctg tgcggcctga ctgggctgtt caccaggccc atcaaagaca 601 tcataggtaa gttgaaaccg ctgaatctcc ttaacatcgt tgccaattgc gactggacct 661 tccctggtgt tgtggaagca ataattctcc tctcagaact ttttggcatc ttttggacac 721 caccagatat atctgctttc gttgcctcct tactaggtga ctacgaaatg caaggccctg 781 aagacatcgc aaccgagatc gttccagtca tcctcggcgg tattggcatg gttctaggct 841 tcaccaaaga gaaaattggc cgactgctga gctctgcggc atcatccctt agagcatgca 901 gagagatcgg caactacggg atagaggtgg taaaactggt gatgaaatgg ttcttcccga 961 ccaaaagtga ggttaatgag atggaaatgg tcagaacaat agaggatgca gtgcttgact 1021 ttgaggcgat agagaacaac cacatgacag ctttgctcaa agacaagaat agtctggcca 1081 cctttctcag agcattagac atggaagagg aaaaggcgcg gaaactgtca accaaatccg 1141 cctcacctga catagtcggc accataaacg cactcttggc gaggatcgcc gctgccagat 1201 ccctagttca cagggccaag gaagagatgt catctaggat gcgtccagtc gtcatcatga 1261 tttctgggcg acctgggatt gggaaaacac acctggcacg cgacctggcc aaaaagatgg 1321 cggccacctt atcgggtgac cagagagtgg gccttgtccc aagaaacggt gtcgatcact 1381 gggatgcata caaaggggag aggatcgtcc tctgggatga ttatggcatg agcaaccctg 1441 tggcagatgc tctccggctc caggaacttg ccgacacctg ccccttgaca ctcaactgtg 1501 acaggataga gaacaaaggg aaggtctttg acagtgacac cctgattatc accaccaatc 1561 tggccaatcc agctcctctc gactatgtaa actttgaggc ctgttcacgc cgcatagact 1621 tccttgtcta cgcagattcc ccctcagttg acaaagcaaa aagagacttc ccaggccaac 1681 cggacatgtg gaaggacgcc ttcaagccag atttctcaca cataaagcta caattagcac 1741 cacaaggagg atttgacaag aatggaaaca ccccccatgg gaagggcgtc atgaaaacac 1801 tgactacaca ctccctcata gcacgcgcca ctggcttgct tcatgagagg ttggatgaat 1861 ttgacctgca aggtccagag ttaccagtgt acaattttga tcaaaacaag gtggccgcgt 1921 tccgaaaact cgcagctgac aacaagtatg gtttcatgga caccttgaga gcaggtaaca 1981 aactgaagga agtcaaaacc ctggaccagt ttaaagaagc agtgaaggac atacgcataa 2041 aaccatgcag gataatctac aactcactag cctatgattt ggactcaaat gggtcaggaa 2101 aggtcaatgt caaaaaggtg ggggaccaac ggatccaggc caacaatgag ctcaactctg 2161 cactcaataa actgcgcggg gccagaatca gatactatgt gaaatgtttc caagaaatga 2221 tctactcact tctccaaatt gctggtgcgg ccttcgtcac gtctagaatg gcgcagagga 2281 tgaatgtcaa caaactgtgg gccaagccag aaaaacagtc agagaccctc acggaaccac 2341 ctacccctcc aattgaagat tggaccataa caccagcaga cacagtccaa gagggtaaga 2401 aaggtaaaaa caagagtggc agaggcaaga agcacactgc gttctccagc aagggtctca 2461 gtgatgagga gtatgatgaa tacaaaagga tcagggaaga acgtcaagga aagtactcta 2521 tagaggaata cctccaagac agggaccggt actatgaaga attggctata gccaaagcaa 2581 cagaagagaa tttctgtgaa gaggaagaaa tcaaaattag gcagaggatc ttccgcccaa 2641 ccaggaagca acgtaaggag gagagggcca ccctaggtct tgttacaggt agtgagataa 2701 ggaagaggaa ccccgatgac ttcaagccaa aaggtaagct gtgggccgat gatgaccgca 2761 gtgtcaacta caatgaaaga atagactttg aagccccccc tagtctttgg tccaggatag 2821 tcaacttcgg gtcaggatgg ggtttttggg tttcctctaa cctgttcatc acttccacac 2881 atgtcatccc acaaaacatg tctgaagcct ttggagtgcc aataaatcag atacaaatac 2941 acaggagtgg ggaattctgc aaaatgagat tcccgaaagc catcagaccc gacgtttctg 3001 gcatgatcct tgaggagggt gcccctgaag ggacagttgt gaccatattg atcaaaagaa 3061 caactggtga actcatgcca ttagcatccc gcatgggcac ccatgccacc atgaagatac 3121 aaggtagaat gattggaggc cagatgggga tgcttctcac aggatccaac gccaaaaaca 3181 tggaccttgg caccgtccct ggtgactgtg gctgtcccta tgtctacaag aggggcaatg 3241 actgggtcgt cattggggtg cacactgccg ccgctagagg cggcaacaca gtgatctgtg 3301 ccacccaggg gccagatggt gaagccaccc tcgagggagg tgacaaccat gggacgtact 3361 gtggtgcacc catactaggg cctggaaacg ccccaaaact cagtaccaag accaaattct 3421 ggagatcatc caacacccca ctcccccctg gcacatacga acctgcctac ctcggaggta 3481 aagacccaag ggtcaaagga ggcccgtcac tacaacaagt catgagggaa cagcttaagc 3541 ccttcacagc cccaagagga aaaccgccaa gaccagcgat cttggaggcc gcaaaggaaa 3601 ccatctgtaa tgtactagaa cagaccattg aaccacccca aaagtggtcc tacgcgcaag 3661 cctgcgcgtc cctagacaag acaacttcaa gcggacaccc acaccataaa aagaaaaatg 3721 acaattggaa tggtgaatct ttcactggtg ttctggctga tcaggcgtca aaggccaacc 3781 tcatgtttga gcagggaaaa cacatgcaac ctgtgtacac aggagccctc aaagatgaac 3841 ttgtcaaaac cagtaaaatc tatgagaaca ttaagaagag gcttttatgg ggatcagact 3901 tgggcacgat gatacgctgt gctagagcat ttggtggtct catggaggag atgaaggcaa 3961 actgtgtgag gttaccagtc agggttggta tgaacatgaa tgaggatggg cccataatct 4021 ttgagaaaca ttcaaaatac agataccatt atgatgctga ctattctagg tgggactcaa 4081 cacaacagag atatgtctta ggtgctgccc ttgaaataat ggttaggttc tcagccgagc 4141 cagaattggc acaaattgtg gctgaagatc tcttgtcgcc cagcgtcatg gacgtcggtg 4201 acttcaagat tactataaat gaaggcttgc cctccggggt cccatgcacg tcccagtgga 4261 attcaattgc ccattggttg ttgacattat gtgccatggc agaggtctca ggattgtcac 4321 cagatgtgat acagtcaaat tcctgcttct ccttttacgg agacgatgag atagttagca 4381 cagatatcaa attggactct caaaagttga cagacaagct aaaagagtac ggcttgatcc 4441 caaccagacc tgacaagaca gagggccccc taataatcaa agaaagtttg gagggtttaa 4501 cctttctgag aagggatgtg tgtagagatc cagttgggtg gtttggtaag cttgatcagt 4561 cttcaatcat gagacaactg tattggacca aaggacccaa tcatgaagac cctaatgaaa 4621 caatgatacc acattctcaa aggcctgtgc agctgatgtc cctacttggt gaagcagccc 4681 tacatggacc agctttctac aaaaaggtca gcaaattggt tatcactgaa ctcaaagaag 4741 gtggaatgga tttctatgtg cccaggcaag agcctatgtt tagatggatg aggttctccg 4801 atctgagcac gtgggagggt gatcgcaatc tagctcccga gggtgtgaat gaagatggcg 4861 tcgaatgacg ctgctccatc taatgatggt gctgccaacc tcgtaccaga ggccaacaaa 4921 gaggttatgg cattggaacc agtggcaggc ggggcaatcg ccgcacccct cactggtcaa 4981 acaaatataa ttgacccctg gatcatgaat aattttgtgc aagcaccaaa tggtgaattt 5041 acaatatctc ccagaaattc cccaggagag gtgttgttga acctagagtt gggaccagac 5101 ctcaaccctt tccttgccca tttgtctaga atgtataatg gatatgcggg gggagtggag 5161 gtgcaagtga ttatggctgg caacgctttc accgcgggaa aagtcatctt cgcagctgta 5221 ccaccgcact tcccagttga caacctcagc ccccctcagg tgactatgtt tccacatgtt 5281 atagttgatg ttaggactct tgagccaatc ctacttcccc ttccagatgt gagaaataac 5341 ttctatcatt ataatcaggt gaatgattca aggatgaggt tgattgctat gttgtatacc 5401 ccattgagat caaatggttc ttctgatgat gttttcactg tatcatgtag agttttgact 5461 aggcccaccc cagactttga gttcaactac ctggtcccac ctactgttga atcaagaaca 5521 aaacccttca gtgtgcccat cctaactatt ggagaaatga caaattcaag gttcccactg 5581 cccatagaca tgctgtacac cagcccaact gaaaacatag tagttcagcc ccaaaatggt 5641 aggtgcacgt tggaaggaga actactgggt acaacccagt tagtgacccc gaacatctgc 5701 gcgctacgtg gggagatcag ggggcatgaa ggcagtggtg acaaccacaa atggcatttt 5761 atggtgagga gccccaatgg ggcagctttt gacccaactg aggatgtacc cgccccccta 5821 ggcacccctg atttcatagg tgatgtgttt ggagtcctct cacaaagaaa cagaaacact 5881 gacagtggtc agtctggtcc tgcaaacaga tcacatgatg ctgttgtttc cacaagggac 5941 aacagattca ctccaaaact aggatctgtg atgatagcca cctgggagac cgatgacatc 6001 caagaccagc ccaccagatt cactccagta ggccttgaaa accctgatca ttacaaccaa 6061 tggcaattac caaattattc aggggcacta actctaaaca tggggctggc cccatctgtg 6121 tttccaacct accccggaga acaaatcctc ttcttccgct cgtacatccc actcaagggc 6181 ggatatggag attcccacat tgattgcctg gtaccacagg aatggatcca acatttctac 6241 caagaatcag ccccctcaca aactgatgtg gcattaatca ggtatgtgaa ccccgaaaca 6301 ggacgtgtcc tgttcgaggc caaattgcat aggcaaggct acataacagt tgcaaggagt 6361 ggcagcagcc ccatcaatgt cccggccaat ggctatttta gattcgactc ctgggtcaac 6421 caattctatt cactcgcccc catgggaact ggaaacgggc gcagaagaat ccaataatgg 6481 caggagcttt cttagcagga ttggcaggcg atatcgccac taacaccatg gggtctttgg 6541 tcaatgcagg ggctaatgca atcaatcaga aagttgattt tgagaataat aaatttctcc 6601 aaggtgaatc ttttaagcat gataaggaaa tgttgaatgc acaggttgaa gccacaaaga 6661 aactccagat ggacatgatt aacatcaaac agggggtctt gactgctggg ggattttccc 6721 ccactgatgc agcccggggg gccatcaacg cacccatgac taaggtgctg gattggaatg 6781 ggacaaggta ctgggcaccg aatgccacca ccacaacctc aatgtctggt ggcttcacta 6841 gtcaggtcgt gcacaggcca acaccaaatt ttggaaacaa gcaagccccc aggcctgcgc 6901 ctagcagtgc ttcatctgtg agatcaaatt ctacccaact caccagtctg ggctcccact 6961 cctctggatc ttcgaggtcc agtggatcca ccgtggtcag ctcactgccc tcttcgagta 7021 ggactaggga gtgggtaaac agtcaaaatc tcaatttgga accccatttg cctgggtcgc 7081 tgaagacagc ctttgtcacc ccaccatcaa gtgctgcttc aagctcagga acagtctcaa 7141 ctgtgcctaa aggtgttttg gactcctgga catctgcgtt taacacgcgc agacagccgc 7201 tcttcgcaca ccttcgtaga aggggggagt caaatgtcta gtgaaaaga //