Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MT372464 | GI.2 | |
|
|---|---|---|---|
| GI.P2 |
ORF1: 5..5371
ORF2: 5355..6995
ORF3: 6995..7630
LOCUS MT372464 7708 bp RNA linear VRL 28-APR-2020
DEFINITION Norovirus GI isolate Hu/US/2017/GI.2[P2]/Callao0615, complete
genome.
ACCESSION MT372464
VERSION MT372464.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7708)
AUTHORS Randazzo,W., Olortegui,M.P., Kosek,M.N., Montmayeur,A.M.,
Tatusov,R.L., Chhabra,P., Browne,H., Barclay,L. and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (22-APR-2020) 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. 11.1.2; SPAdes v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7708
/organism="Norovirus GI"
/mol_type="genomic RNA"
/strain="Callao0615"
/isolate="Hu/US/2017/GI.2[P2]/Callao0615"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122928"
/country="USA"
/collection_date="13-Aug-2017"
/note="genotype: GI.2[P2]"
gene 5..5371
/gene="ORF1"
CDS 5..5371
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QJD23061.1"
/translation="MMMASNDVVATNVASNNNANNTSATSRFLSRFKGLGGGASPPSP
IKIKSTEMALGLIGKTTPEAAGATGPPPKQQRDRPPRTQEEVQYGMGWSDKPVDQNVK
SWEELDTTVKEEILDNHKEWFDAGGLGPCTMPPTYERVKGDDTPGEQVRWSARDGVNI
GVERLTTVSGPEWNLCPLPPIDLRNMEPASEPTIGDMIEFYEGHIYHYSIYIGQGKTV
GVHSPQAAFSVARVTIQPIAAWWRVCYIPQPKHRLSYDQLKELENEPWPYAAITNNCF
EFCCQVMNLEDTWLQRRLITSGRFHHPTQSWSQQTPEFQQDSKLELVRDAILAAVNGL
VSQPFKNFLGKLKPLNILNILSNCDWTFMGVVEMVILLLELFGVFWNPPDVSNFIASL
LPDFHLQGPEDLARDLVPVILGGIGLAIGFTRDKVTKVMKSAVDGLRAATQLGQYGLE
IFSLLKKYFFGGDQTERTLKGIEAAVIDMEVLSSTSVTQLVRDKQAAKAYMNVLDNEE
EKARKLSARNADPHVISSTNALISRISMARSALAKAQAEMTSRMRPVVIMMCGPPGIG
KTKAAEHLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMTKIQDDCNK
LQAIADSAPLTLNCDRIENKGMQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVY
CSAPEVEQVRRVSPGDTSALKDCFKPDFSHLKMELAPQGGFDNQGNTPFGRGTMKPTT
INRLLIQAVALTMERQDEFQLQGKMYDFDDDRVSAFTSMARDNGLGILSMAGLGKKLR
GVTTMEGLKNALKGYKISACTIKWQAKVYSLESDGSNVNIKEERNILTQQQQSVCAAS
VALTRLRAARAVAYASCIQSAITSILQIAGSALVVNRAVKRMFGTRTATLSLEGPPRE
HKCRVHAAKAAGKGPIGHDEVVEKYGLCETEEDEEVVHAEIPTATIEGKNKGKNKKGR
GRRNNYNAFSRRGLNDEEYEEYKKIREEKGGNYSIQEYLEDRQRYEEELAEVQAGGDG
GIGETEMEIRHRVFYKSKSRRHHQEERRQLGLVTGSDIRKRKPIDWTPPKSAWADDER
EVDYNEKISFEAPPTLWSRVTKFGSGWGFWVSSTVFITTTHVIPTSAKEFFGEPLTSI
AIHRAGEFTLFRFSKKIRPDLTGMILEEGCPEGTVCSVLIKRDSGELLPLAVRMGAIA
SMRIQGRLVHGQSGMLLTGANAKGMDLGTIPGDCGAPYVYKRANDWVVCGVHAAATKS
GNTVVCAVQASEGETTLEGGDKGHYAGHEIIKHGCGPALSTKTKFWKSSPEPLPPGVY
EPAYLGGRDPRVTGGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVTSSLEQVMD
TPVPWSYSDACQSLDKTTSSGFPYHRRKNDDWNGTTFIRELGEQAAHANNMYEQAKSM
KPMYTAALKDELVKPEKVYQKVKKRLLWGADLGTVVRAARAFGPFCDAIKPHTIKLPI
KVGMNSIEDGPLIYAEHSKYKYHFDADYTAWDSTQNRQIMTESFSIMCRLTASPELAT
VVAQDLLAPSEMDVGDYVIRVKEGLPSGFPCTSQVNSINHWLITLCALSEVTGLSPDV
IQSMSYFSFYGDDEIVSTDIEFDPAKLTQVLREYGLKPTRPDKSEGPIIVRKSVDGLV
FLRRTISRDAAGFQGRLDRASIERQIYWTRGPNHSDPFETLVPHQQRKVQLISLLGEA
SLHGEKFYRKISSKVIQEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFVN
DDGV"
mat_peptide 5..1201
/gene="ORF1"
/product="p48"
mat_peptide 1202..2290
/gene="ORF1"
/product="NTPase"
mat_peptide 2291..2887
/gene="ORF1"
/product="p22"
mat_peptide 2888..3301
/gene="ORF1"
/product="VPg"
mat_peptide 3302..3844
/gene="ORF1"
/product="Pro"
mat_peptide 3845..5368
/gene="ORF1"
/product="RdRp"
gene 5355..6995
/gene="ORF2"
CDS 5355..6995
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QJD23062.1"
/translation="MMMASKDAPQSADGASGAGQLVPEVNTADPLPMEPVAGPTTAVA
TAGQVNMIDPWIVNNFVQSPQGEFTISPNNTPGDILFDLQLGPHLNPFLSHLSQMYNG
WVGNMRVRILLAGNAFSAGKIIVCCVPPGFTSSSLTIAQATLFPHVIADVRTLEPIEM
PLEDVRNVLYHTNDNQPTMRLVCMLYTPLRTGGGSGSSDSFVVAGRVLTAPSSDFSFL
FLVPPTIEQKTRAFTVPNIPLQALSNSRFPSPIQGMILSPDTSQVVQFQNGRCLIDGQ
LLGTTPATSGQLFKVRGKINQGGRTLNLTEVDGKPFMAFDSPAPVGFPDFGKCDWHMR
ISKTPNSTSSGDPMHSVSVQTNVQGFVPHLGSIQFDEAFNHSTGDYIGTIEWISQPST
PIGTDINLWEIPDYGSSLSQAANLAPPVFPPGFGEALVYFISAFPGPNSRSAPNDVPC
LLPQEYITHFVSEQAPTMGDAALLHYVDPDTNRNLGEFKLYPGGYVTCVPNGVGAGPQ
QLPLNGVFLFVSWVSRFYQLKPVGTASTARGRLGVRRI"
gene 6995..7630
/gene="ORF3"
CDS 6995..7630
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QJD23063.1"
/translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQSQRYQQDLALQRN
TFEHDKDMLSYQVQASNALLAKNLNTRYSMLVAGGLSSADASRAVAGAPVTQLIDWNG
TRVAAPRSNATTLRSGGFMAVPMPVQSKSKAPQSSGFSNPAYDMSTVSSRTSSWVQSQ
NSLRSVSPFHRQALQTVWVTPPGSTSSSSVSSTPYGVFNTDRMPLFANLRR"
ORIGIN
1 gtgaatgatg atggcgtcta acgacgttgt tgcaactaat gttgcaagca ataataatgc
61 taacaacact agtgctacat ctcgattttt atcgagattc aaaggtctag gaggtggcgc
121 aagcccccct agccctataa aaataaaaag tactgaaatg gccttggggt taattggcaa
181 gacaacccca gaggcagcag gggctactgg ccccccaccc aaacaacaga gagaccgacc
241 tcctaggacc caagaggagg ttcagtatgg tatggggtgg tctgataagc ccgttgacca
301 aaatgtcaag tcttgggaag agcttgacac tacggtcaag gaggaaatcc tggataatca
361 taaagaatgg tttgatgctg gcggtttggg cccttgcaca atgcctccaa catatgaacg
421 ggtcaagggt gatgatacac ctggcgaaca agtcaggtgg tccgcacgtg atggggtcaa
481 tattggggta gaacgcctca cgacagtgag tggacctgaa tggaatctct gccccttacc
541 ccccattgat ttgaggaaca tggaaccagc aagtgaaccc accatcggag acatgataga
601 attctatgag ggtcatatct atcattattc tatatacatt ggacaaggca agacagttgg
661 tgtccattcc ccacaggcag cgttctcagt ggctagggtg actatccagc ccatagctgc
721 ttggtggagg gtttgctaca taccccaacc caagcacagg ctaagttacg accaacttaa
781 ggaattagaa aatgaaccat ggccctatgc ggctataacc aacaactgtt ttgaattttg
841 ctgccaagtc atgaaccttg aggacacatg gctacagagg cggttgatta catcgggcag
901 gttccatcac cccacccaat cgtggtcaca gcagacccct gaattccagc aagatagcaa
961 attagagttg gtcagagacg ctatactagc tgcggtgaat ggccttgtct cgcaaccctt
1021 taaaaacttc ttgggtaaac tcaaacccct caacatactc aacatcctgt ccaactgtga
1081 ttggaccttt atgggagtgg ttgaaatggt catactatta cttgaactct ttggtgtatt
1141 ttggaaccca cctgatgtgt ctaatttcat agcgtccctc ctccctgact ttcatctcca
1201 ggggcccgaa gatttagcac gagacctagt cccagtgatc cttggcggca taggactagc
1261 tattgggttc accagggaca aggtcacaaa agtcatgaaa agtgctgtag atggtcttcg
1321 agctgctacg cagcttgggc agtatgggtt agagatattc tcactactca aaaagtactt
1381 cttcgggggg gaccagacag aacgcactct caaaggcatt gaggcagcag tcatagatat
1441 ggaggtatta tcctccacat cagtaacaca actagtgagg gacaagcagg cagctaaagc
1501 ttacatgaac gtcttagaca atgaagaaga aaaggctagg aaactctctg ctaggaacgc
1561 tgacccacat gtgatctcct caacaaatgc cctgatatcg cgcatatcca tggcacggtc
1621 tgcattggct aaggcccaag ctgagatgac cagtcggatg agaccagttg tcatcatgat
1681 gtgtggtcca cctgggattg gcaagacgaa ggctgctgag catttagcaa agcgcctagc
1741 caatgagatc agacccggtg gcaaggtggg gctagtaccc cgcgaagctg tcgaccactg
1801 ggatggttat catggtgagg aagtcatgct gtgggatgat tatggcatga caaaaataca
1861 agatgactgc aacaaacttc aagctattgc tgattcggcc ccactcactc taaattgtga
1921 caggattgaa aataaaggga tgcaattcgt gtcagatgca atagtcatca ccaccaacgc
1981 cccaggcccc gcccctgtgg actttgtcaa ccttggtcca gtgtgcaggc gggtcgactt
2041 cctagtttat tgctctgctc ctgaagtgga gcaagtgagg agagtcagcc ctggtgatac
2101 atcagcactg aaagactgct ttaaaccaga cttctcccac ctaaaaatgg aattggcccc
2161 acaaggtggg ttcgacaatc aggggaacac accgtttggt agaggcacta tgaagccaac
2221 aactatcaat aggctcctca tacaagctgt ggccctcact atggagagac aagatgagtt
2281 ccagctgcag ggaaagatgt atgactttga tgatgacaga gtgtcagcat ttacctccat
2341 ggcacgtgac aatggcctgg gtattttgag catggcaggt cttggtaaga agctacgcgg
2401 tgtcacgaca atggagggct tgaagaacgc actgaaggga tacaaaatta gtgcatgcac
2461 aataaaatgg caagccaaag tgtactcatt agaatcagat ggcagtaatg tcaatattaa
2521 agaagagagg aacatcttga cccaacagca gcagtcagta tgtgctgcct ccgtcgcgct
2581 tactcgtctc cgggctgcgc gtgcggtggc ttatgcttca tgtatccaat cagctataac
2641 ttccatatta caaattgctg gctcagccct agtggtcaac agggcagtga agagaatgtt
2701 tggcactcgc actgccactt tgtccctaga aggccccccc agggaacaca aatgcagggt
2761 tcacgcggcc aaggccgcag gaaagggacc tattggccat gatgaagtcg tggaaaagta
2821 cggactttgt gagactgagg aggatgaaga agtggtccac gctgaaatcc caactgccac
2881 catagaaggc aagaataaag gaaagaacaa gaaaggacgt ggccggagga acaactacaa
2941 cgccttctcc cgtaggggac tcaatgatga ggagtatgaa gagtataaga agatacgtga
3001 ggagaaaggc ggcaattaca gtatacaaga gtacctagaa gacagacaaa ggtacgaaga
3061 agagctcgca gaagtccagg caggcggaga tggaggaatc ggggaaactg aaatggaaat
3121 tcgccacaga gtgttctata aatctaagag cagaagacac caccaggaag aaaggcgcca
3181 actaggattg gtgacaggtt ccgacattcg caagagaaag ccaatcgact ggaccccacc
3241 caagtcagca tgggcagatg atgaacgtga ggtggactac aatgagaaga tcagctttga
3301 ggcgccccct actctatgga gtagagtgac aaagtttggg tccggatggg gcttctgggt
3361 cagttctaca gtcttcataa ccacaacgca cgttatacca actagtgcga aagaattctt
3421 tggtgagccc ttaaccagca tagctatcca cagggcaggc gagttcactc tcttcaggtt
3481 ctcaaagaaa atcaggcctg acctcacagg tatgatcctt gaggagggtt gccccgaggg
3541 tacggtgtgt tcggtactaa taaagagaga ctctggtgaa ctgttgccac tggccgtgag
3601 aatgggcgca atagcatcaa tgcgcataca gggccgcctt gtccacggac aatctggcat
3661 gttgctcact ggggccaatg ccaaaggcat ggatcttgga actataccag gagattgtgg
3721 tgccccttat gtctataaaa gagccaatga ttgggtggtt tgtggcgtgc acgctgctgc
3781 caccaaatca ggtaatactg tagtgtgtgc cgtccaggcc agtgaagggg agactacact
3841 tgaaggtggc gataagggtc actatgctgg gcatgaaata attaagcatg gctgtggacc
3901 agccctgtca actaaaacaa agttctggaa atcatcccct gaaccactac cccctggggt
3961 ttatgaacct gcatatcttg gaggccgaga ccctagggtg actggtggcc cctcactcca
4021 acaagtgttg cgggaccagt tgaaaccatt tgctgaacca cgagggcgca tgccagagcc
4081 aggcctcttg gaagctgcag tcgagactgt gacttcatca ttagagcagg ttatggatac
4141 ccccgtccct tggagttaca gcgatgcgtg ccagtccctt gacaagacca ctagttctgg
4201 cttcccctac cacaggagaa agaatgatga ctggaatggc accaccttca tcagggagtt
4261 aggggagcag gcagcacatg ctaacaacat gtatgagcaa gctaaaagca tgaaacccat
4321 gtacacggca gcgcttaaag atgaattagt aaaaccagaa aaagtgtacc aaaaagtcaa
4381 aaagcgcttg ttgtggggag cagacttggg cacggtggtc cgtgctgcac gggctttcgg
4441 gcctttctgt gatgccataa agccccacac aatcaaatta cctatcaaag ttgggatgaa
4501 ttcaattgag gatgggccat tgatttatgc tgaacattca aagtataaat atcattttga
4561 tgcagattat acggcttggg actcaactca aaataggcaa atcatgactg agtcgttttc
4621 aatcatgtgc cgacttacag catcacccga attagctacg gtggtggctc aagacctact
4681 tgcaccttca gaaatggatg ttggcgacta tgtcataaga gtcaaggagg gcctcccgtc
4741 tgggttccca tgtacatcac aagtcaatag tataaatcat tggctgataa ccctgtgtgc
4801 cctttctgaa gtgaccgggc tgtcaccaga tgttatccaa tccatgtcat acttttcctt
4861 ctatggtgat gatgagatag tatcaactga catagaattt gacccagcaa aactaacaca
4921 agttctcaga gagtatggac ttaagcccac ccgccctgac aagagcgagg gcccaataat
4981 cgtaaggaag agtgtggatg gtttggtctt cttacgtcgc accatttccc gtgacgctgc
5041 gggatttcaa gggcgattgg accgggcatc tattgaaaga cagatctact ggaccagggg
5101 gcctaatcac tcggaccctt ttgagaccct agtgccacac caacaaagga aggttcaatt
5161 aatatcattg ctaggtgaag cctcactaca tggtgaaaag ttttacagaa agatttcaag
5221 caaggtcatc caagagatta agacaggggg tcttgagatg tatgtgccag ggtggcaagc
5281 catgttccgt tggatgcggt ttcacgatct tggcttgtgg acaggagatc gcaatctcct
5341 acccgaattt gtaaatgatg atggcgtcta aggacgcccc ccaaagcgct gatggcgcaa
5401 gcggcgcagg tcaactggtg ccggaggtta atacagctga ccccttaccc atggaacccg
5461 tggctgggcc tactacagcc gtagccactg ctgggcaagt taatatgatt gacccttgga
5521 ttgttaacaa ctttgtccag tcaccacaag gtgagtttac aatatcccct aacaataccc
5581 ccggtgatat tttgtttgat ttacaattag gcccacattt aaaccctttc ttgtcacatt
5641 tgtcccagat gtataatggc tgggttggaa atatgagagt tagaattctc cttgctggga
5701 atgcattctc agctggaaag atcatagttt gttgtgtccc ccctggcttt acttcttcct
5761 ctcttaccat agcccaggct acattgttcc cccatgtgat tgctgatgtg aggactcttg
5821 aaccaataga aatgccactt gaggatgtgc gtaacgtcct ctatcatacc aatgataacc
5881 aaccaacaat gcgattggtg tgtatgctgt acacgccact ccgcactggt ggaggatctg
5941 gcagttctga ttctttcgta gttgctggta gggtgctcac ggcccctagc agcgacttta
6001 gcttcttgtt tctcgttcca cccactatag aacagaaaac tcgggccttc actgtgccta
6061 acattccctt gcaagccttg tccaattcta ggttcccctc ccccatccaa ggaatgattc
6121 tatcccctga cacatcccaa gtggttcaat tccagaatgg gcgttgcctc atagacggtc
6181 aactcctagg taccacacct gctacatcag gacagctatt caaagtaaga ggaaagataa
6241 accaaggagg ccgtacactc aatcttacag aagtggatgg taaaccattc atggcatttg
6301 actcccctgc acctgtgggg ttccctgact ttggaaaatg tgattggcat atgaggatca
6361 gtaaaactcc aaatagtaca agttcaggtg accctatgca tagtgtcagc gtgcaaacta
6421 acgtgcaggg ttttgtgcct catttgggaa gtatacaatt tgatgaagca ttcaaccact
6481 ccacaggtga ttacattggt actattgaat ggatttccca gccatctaca cccattggaa
6541 cggacatcaa cttgtgggag attcccgact atgggtcatc cctttcccaa gcagctaatc
6601 tggcccctcc ggtattcccc cctggatttg gtgaggctct tgtgtacttt atttctgctt
6661 tcccaggtcc caatagccgt tcagctccaa atgatgtgcc ctgtcttctt ccccaagagt
6721 acataaccca ctttgttagt gagcaggccc caactatggg tgacgcagct ttgctgcatt
6781 acgtcgatcc tgacactaat aggaaccttg gggaattcaa actataccct ggaggttatg
6841 tcacctgtgt gccaaatggg gttggtgctg ggccacaaca gctccctctt aatggtgtct
6901 ttctttttgt ctcttgggta tctcgctttt atcagctcaa gcctgtggga acagccagta
6961 cggcaagagg taggcttggt gtgcgccgca tataatggcc caagccatta taggagcaat
7021 tgccgcgtca gctgctggct cagcactggg tgcaggcatc caggctggtg ccgaagctgc
7081 gctccagagt cagagatacc aacaggactt agccctacaa aggaacacat ttgaacatga
7141 taaagacatg ctttcctacc aagttcaggc aagtaatgca ctcctagcta agaacctcaa
7201 cacccgctat tctatgcttg ttgcaggagg cctttccagt gctgatgctt caagggctgt
7261 tgctggagct ccagtgacac aattaattga ttggaacggt actcgggtag ctgcccccag
7321 atctaatgca acaaccctga ggtctggtgg tttcatggca gtccctatgc ctgttcagtc
7381 taaatccaag gcaccgcaat cttctgggtt ctctaacccc gcttatgaca tgtcaacagt
7441 ttcttctagg acttcttctt gggtacaatc acaaaattcc ttacgaagtg tgtcaccatt
7501 ccataggcaa gcccttcaga ccgtgtgggt caccccacct gggtctactt cttcttcttc
7561 tgtttcttcc acaccttatg gtgtttttaa tacagataga atgccgctat tcgcaaatct
7621 gcggcgctga tgttgtaata taatgcagca gtgggcacta tattcaattt ggtttaattg
7681 gtaactaatt tgattattga ttagtgct
//