Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MT372463 | GI.3 | |
|
|---|---|---|---|
| GI.P3 |
ORF1: 95..5404
ORF2: 5388..7019
ORF3: 7019..7666
LOCUS MT372463 7764 bp RNA linear VRL 28-APR-2020
DEFINITION Norovirus GI isolate Hu/US/2016/GI.3[P3]/Callao0590, complete
genome.
ACCESSION MT372463
VERSION MT372463.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7764)
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..7764
/organism="Norovirus GI"
/mol_type="genomic RNA"
/strain="Callao0590"
/isolate="Hu/US/2016/GI.3[P3]/Callao0590"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122928"
/country="USA"
/collection_date="02-Sep-2016"
/note="genotype: GI.3[P3]"
gene 95..5404
/gene="ORF1"
CDS 95..5404
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QJD23058.1"
/translation="MARIRGRIGPQRGETTTKIKDANMALDLLRRSQTPSPSRKESPP
KGQRDRPPRTASEVKKVMGWDVEPEQQESTAKAWCDLTREEKEEIMRNNEKLFDAGGI
TPSTLPSTFERADPIDNPGEQQPVTWSVSGGVDIGVSELTTVRGPLWNMCPLPPLDAR
NNGPANEPLIGDMIEFYEGHIFHYAIYIGQGKTIGVHSPQAAFSIPRITIHPLAAWWR
VCYVPTNQQRLTYDQLKELENEPWPYASITNNCYEFCCRVMALDDTWLERKLVCTGKF
NHPAQDWSQDTPDFHQDTKLEMVRDAVLSAINGLVSQPFKNILSKIKPLNVLNLLSNC
DWTFMGVVELVVLLAELFDVFWTPPDISSFIASLLPEFHLQGPEDLAKDLVPLILGGI
GLAIGFTRDKVTKVMKSAVDGLRSATQLGQYGLEVFSIIKKYFFGGDQTEKTLRGIED
AVIDMEVLSSTNVTQLVKDKNLARTYMNVLDNEEEKARKLSVRNADPHIVTSVNNLIS
RISMARSALAKAQAEMTSRPRPVVIMMCGPPGIGKTKAAEHLAGRLANEIRPGGKVGL
VPRESIDHWDGYHGEDVLLWDDYGMSKITEDCNKLQAIADTAPLSLNCDRIENKGMQF
SSDAIIITTNAPGPAPVDFVNLGPVCRRVDFLVYCSAPEIEQMRRTHPGDANAIKDLY
KKDYSHLKMELAPQGGFDSQGNTPFGKGTMKPTTLNRLLIQATALAMERQDEFQLQGA
VYNFDEDRVSAFTNLARANGLGLLSMATLGKRLRSVKSMEGLRNALVGYKIGECDIVW
NTRVYSIKSDGSTVTIKEKQAPTSPQSQAISTATLALSRLRAARALAYASCLQSAVLS
ILQVAGSALVVSRAVKRMFGTRTEQPILEGKHKEHNCRVHRAEAAGHGPIGHDGIIER
YGLCESEQEEEGEQTIELPTASKEGKNKGKTKKGRGRKSNFNAFSRRGLSDEEYEEYK
KIREEKSGNYSIQEYLEDRQRYEEELAEVQAGGDGGIGETEAEIRHRVFYKSKSGMRK
QRQEERRQLGLVTGSEIRKRKPIDWTPPKNDWSEDTRTVNYDENISFEAPPSIWSRVV
KFGSGWGFWVSSTVFITTTHVIPPGAKEIFGEDLSNVAIHRVGEFTQFRFSKKMRPDL
TGMVLEEGCPEGTVCTIMIKRDSGELLPLAVRMGAVASMKIQGKLMHGQSGMLLTGAN
AKGMDLGTIPGDCGAPYVHKRGNDWVVCGVHAAATKSGNTVVCAIQGGDGEATLEGGG
QNKGHYAGHPILRYGNGPSLSTKTKFWKSNPQPLPPGTYEPAYLGGRDPRVEGGPSLQ
QVLRDQLKPFAEPRGRLPEAGLLEAAVETVTNAIEQTMDTPVAWSYNDACMSLDKTTS
SGHPHHKKKNDDWNGSSFVRELGDQAAHANSMYELGKPMKPVYTAALKDELVKPDKVY
TKIKKRLLWGADLGTVIRAARAFGPFCEAIKPHVIKLPIKVGMNAIEDGPLIYAEHAK
YKYHYDADYTSWDSTQNREIMMESFNIMCKLTANPSLAAVVAQDLLSPSEMDVGDYVI
SVKDGLPSGFPCTSQVNSINHWILTLCALSEVTGLSPDVIQSQSYFSFYGDDEIVSTD
IEFDPARLTQVLKEYGLKPTRPDKTEGPIVVKQHVDGLVFLRRTISKDAIGYQGRLDR
NSIERQLWWTRGPNHEDPFETLVPHSQRKVQLISLLGEAALHGEKFYRKIAGRVIQEV
KEGGLEIYIPGWQAMFRWMRFHDLSLWTGDRDLLPDYVNDDGV"
mat_peptide 95..1219
/gene="ORF1"
/product="p48"
mat_peptide 1220..2308
/gene="ORF1"
/product="NTPase"
mat_peptide 2309..2908
/gene="ORF1"
/product="p22"
mat_peptide 2909..3328
/gene="ORF1"
/product="VPg"
mat_peptide 3329..3871
/gene="ORF1"
/product="Pro"
mat_peptide 3872..5401
/gene="ORF1"
/product="RdRp"
gene 5388..7019
/gene="ORF2"
CDS 5388..7019
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QJD23059.1"
/translation="MMMASKDAPTNMDGTSGAGQLVPEASTAEPISMEPVAGAATAAA
TAGQVNMIDPWIMSNYVQAPQGEFTISPNNTPGDILFDLQLGPHLNPFLSHLAQMYNG
WVGNMKVRVLLAGNAFTAGKIIISCVPPGFAAQNISIAQATMFPHVIADVRVLEPIEV
PLEDVRNVLFHNNDSTPTMRLICMLYTPLRASGSSSGTDPFVIAGRVLTCPSPDFNFL
FLVPPNVEQKTKPFSVPDLPLNVLSNSRVPSLIRSMMVSQDHGQMVQFQNGRVTLDGQ
LQGTTPTSASQLCKIRGTVYHATNGEGLNLTEIDGTPYHAFESPAPIGFPDLGDCDWH
INASPATAFTNGSIIQRLDVVQDSTFAPHLGTIHYANANYDANVSLICSLEWLSPPSN
GVPKANPWAIPRYGSTLTEAAQLAPPIYPPGFGEAIVFFMSDFPIANGSDGLSVPCTL
PQEFVTHFVNEQAPTRGEAALLHYVDPDTHRNLGEFKLYPEGFMTCVPNSSGSGPQTL
PINGVFTFISWVSRFYQLKPVGTTGPVRRLGIRRS"
gene 7019..7666
/gene="ORF3"
CDS 7019..7666
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QJD23060.1"
/translation="MAQAIIGAIAATAAGSAVGAGIQAGTEAALQHQRFQQDLTLQSN
TFKHDKEMLGLQVGASTALLQNSLNTRYNMLTNAGLSSSDAARMVVGAPATRVIDWNG
TRISAPQSTATTLRSGGFMTIPTLYKGKQQQKAPTEIGLSNPNYGSSASSRVADWVSS
QNSSRSSLGPYHPNALQTTWVTPPGSSSTSTISSVSTVPRYFNTDRLPLFANMRK"
ORIGIN
1 gtgaatgatg atggcgtcta acgacgctat tgccgttgct gatgtcagca ataacaatgc
61 taacaccaac aatgataaca ttgggtcccg ccttatggcg aggatccgtg ggcgtatagg
121 cccacaacgt ggtgaaacaa ccacaaaaat aaaagatgcc aatatggcac ttgacctgct
181 acgccggtca caaacaccct ccccatcccg gaaagagagc ccccccaagg gccagagaga
241 ccgcccccct cgaaccgctt ctgaggtgaa gaaagtgatg gggtgggatg tcgaaccaga
301 acagcaggaa agcacggcta aggcatggtg cgacctcacg cgggaagaga aggaggagat
361 aatgcgcaat aatgaaaagc tcttcgacgc tggaggaatc accccatcaa ccttgcctag
421 cacgtttgag agggccgacc cgattgacaa ccccggtgaa cagcaacctg taacatggtc
481 tgttagtggt ggggtcgata ttggtgtcag tgaactgacc accgttcgtg gcccactttg
541 gaacatgtgc cccctcccac cattggatgc tcgaaataat ggccccgcta atgagcccct
601 cataggggac atgatagaat tctatgaagg ccatatattc cattatgcca tctacattgg
661 acaaggtaag accattgggg ttcactcacc gcaagcggct ttctccatac caagaataac
721 catccaccct ctagctgcct ggtggcgtgt gtgctatgtc ccaactaacc aacagcgcct
781 tacttatgac cagcttaaag aactggagaa tgagccatgg ccctacgctt ccatcacaaa
841 caattgttac gagttctgct gcagggtaat ggcacttgat gacacgtggt tagagagaaa
901 gttggtctgc actggaaaat tcaaccaccc cgcacaagac tggtcacagg atacccctga
961 ttttcaccaa gacacgaagc ttgagatggt aagagatgcc gtgctgtcag ccattaatgg
1021 ccttgtgtca caacccttca aaaacatcct gtcaaagatt aagccactaa atgttctcaa
1081 tcttttgtca aattgtgact ggactttcat gggggtcgta gagttggttg tgctcctagc
1141 ggagttgttc gatgtgttct ggaccccacc agatatctca agcttcattg cctcactact
1201 acctgaattt catctgcagg ggccagaaga cctagctaaa gacctggtcc ctctcattct
1261 aggtggtata ggcctggcta ttggttttac aagagataaa gtgacaaaag tgatgaagag
1321 cgctgtcgat gggctgcgat cggcaacaca gctcggacag tacggactgg aagtattctc
1381 aataatcaag aaatatttct ttggcggaga ccaaacggaa aagaccttgc ggggtataga
1441 ggatgcagtg atagatatgg aggtattgtc cagcaccaat gtgacacaat tggttaaaga
1501 taaaaatttg gccagaactt atatgaacgt gctggataat gaggaggaaa aagcaaggaa
1561 actttcggtc cgtaatgctg acccgcacat agtgacctca gtcaacaacc tgatatcacg
1621 catatctatg gcaaggtcag ccttggctaa ggcccaggct gagatgactt ctcgtccacg
1681 cccagtggtc ataatgatgt gtggcccccc cggcatcgga aaaaccaagg ctgccgaaca
1741 tctggccggc cgattggcga acgaaatcag accgggaggt aaggttgggc ttgtgccccg
1801 ggaatccata gaccactggg acggatacca tggcgaggat gtcctgctat gggatgacta
1861 tggcatgtca aagataacag aggactgtaa caagttacaa gccatagctg acactgcacc
1921 cctatcatta aattgtgaca ggatagagaa caaaggcatg caattttcct cagatgcaat
1981 aattataacc actaacgccc ctggtccggc cccagtggat tttgtcaatc tgggccctgt
2041 gtgcaggcga gtggacttct tagtctattg ttctgcccct gaaattgaac aaatgaggag
2101 aacccaccct ggtgatgcca atgccatcaa ggacctatat aaaaaggact attcacacct
2161 aaaaatggaa ttagccccgc aaggtggctt tgacagccag ggcaatacac catttgggaa
2221 gggcacaatg aaacccacga ccctcaatag gctgctcatc caggcaactg cattagctat
2281 ggaacggcaa gatgagttcc aactccaagg ggctgtttat aactttgatg aagacagggt
2341 gtccgctttt acgaacctgg cccgtgctaa tggcttgggg ctcttgagca tggcaacgtt
2401 aggtaaaaga ctcagaagtg tcaaatctat ggagggcctg cgcaacgcac tggtgggcta
2461 caaaatagga gagtgtgata tagtctggaa caccagagtg tattcaatta aaagtgatgg
2521 tagcactgtc acaatcaagg aaaaacaagc cccaacctca cctcaaagcc aggccattag
2581 cacagccact cttgcactct ccagactgcg ggctgctaga gctcttgcct atgcctcctg
2641 cctacagagt gcagtgctgt caatacttca agttgctggc tctgccctgg tggtgagtag
2701 agctgtgaaa cgcatgtttg gcacgcgcac tgaacaacct atattagaag gcaagcacaa
2761 ggaacacaac tgcagggtgc accgtgcaga ggcagctggc catggtccta ttggacatga
2821 tgggatcatt gaacgctatg gtctttgtga gagtgaacaa gaagaagaag gcgagcaaac
2881 aattgagtta cccactgcca gtaaggaagg taaaaacaag ggcaaaacca aaaagggccg
2941 tggacgcaag tccaatttca acgctttctc aagacgtggt ctcagtgatg aggagtatga
3001 agagtacaaa aagatcagag aagaaaagag tggtaactac agcatccagg agtacctcga
3061 ggatcgccaa cgctatgagg aagaacttgc cgaagtgcag gctggtgggg atggtggaat
3121 tggtgaaact gaggcagaga ttcgccatcg ggttttctat aaatcaaagt ccggcatgag
3181 aaaacaacgc caagaagaac ggcgccagtt aggcctcgtc accggttctg agatccgcaa
3241 acgcaagccc atagattgga cccctcctaa gaatgattgg tcagaagaca ccagaactgt
3301 caactatgat gaaaacatta gctttgaagc ccccccctca atttggagta gggtagtgaa
3361 atttgggagt ggctggggct tttgggtgag ctcaacagtg ttcataacta caacccatgt
3421 cataccacct ggggccaaag aaatcttcgg cgaagacctc agcaatgtgg ccatccacag
3481 ggttggcgag ttcactcagt tccgcttctc caaaaagatg agacctgacc tcaccggtat
3541 ggttttagaa gaaggttgcc cagaaggaac agtgtgtacc ataatgatca agagagactc
3601 cggcgagcta ctgccactcg ccgttcggat gggagcagtg gcatcaatga agatccaagg
3661 taagcttatg catggacaat caggaatgtt actcaccggt gctaatgcta aaggcatgga
3721 ccttgggact atacctggtg attgtggggc accctatgtt cacaagaggg ggaatgattg
3781 ggtagtctgt ggagtgcacg cagccgctac aaaatcaggc aacactgtag tatgtgccat
3841 acagggtggt gatggtgaag ccacgctaga aggcggcggt cagaataagg gtcactatgc
3901 agggcatccg atactaaggt atgggaatgg cccctcacta tcaactaaga caaagttctg
3961 gaagtcaaac ccccagccct tgccccctgg tacatatgag ccagcttacc ttggtggtag
4021 agaccccaga gttgaagggg gcccatcctt gcagcaagtg ttaagggacc agctgaaacc
4081 atttgccgag cctcgtggca gattgcccga agcgggcttg ttagaagccg cagttgaaac
4141 agtcaccaac gcaattgaac aaaccatgga cacaccagtg gcatggagct acaatgatgc
4201 ttgtatgtcc ttggacaaaa caactagttc tggccacccc caccataaga agaaaaatga
4261 tgattggaat gggagttcat ttgtgaggga attaggcgac caggcggcgc atgccaacag
4321 catgtatgaa ctcggcaagc ccatgaaacc tgtgtacaca gcagccctaa aggatgagct
4381 agtcaaacca gacaaggtgt acacgaaaat caaaaagaga ttgctttggg gcgcggacct
4441 tggcaccgtc attcgcgctg ctagagcatt tgggccgttc tgtgaggcca taaagcccca
4501 tgtgatcaaa ttgcctataa aagtgggtat gaatgctata gaggatggtc ctttgattta
4561 cgcagagcat gctaaatata agtaccatta tgatgctgac tacacatctt gggactcaac
4621 acaaaacaga gagatcatga tggaatcctt caatatcatg tgtaagctca cagccaaccc
4681 ctccttggcc gcagtggtgg cacaagacct actctctcca tctgaaatgg atgttggcga
4741 ctatgtgatc agtgtcaaag atggactgcc atctggcttt ccatgcactt cacaggtgaa
4801 cagcattaac cactggatcc taaccctatg tgcattatca gaagtcaccg gcttatctcc
4861 agatgtgata caatcacaat cctacttctc attttatggt gatgatgaaa tagtctcaac
4921 agatatagaa tttgacccag caagattgac acaagtgctg aaggaatatg gtttgaagcc
4981 cacaagacct gacaaaactg agggtccaat cgtcgtcaaa caacacgtcg atggcctggt
5041 cttcctccgg cgtaccatct ctaaggatgc cattggatac cagggacggc ttgaccgtaa
5101 ctccattgaa agacagcttt ggtggacccg tgggccaaac cacgaggacc catttgagac
5161 attggtccca cattcacaga gaaaggtcca gttaatatcc ctgctaggtg aagcagcact
5221 ccatggtgaa aagttctaca ggaagatagc tggtagggtc attcaagaag tcaaagaggg
5281 ggggcttgaa atctatatcc ctggctggca ggccatgttc cgctggatgc gattccatga
5341 tctaagcttg tggacagggg accgcgatct cctgcccgat tatgtaaatg atgatggcgt
5401 ctaaggacgc cccaacaaac atggatggca ccagtggtgc cggtcagctg gttccagagg
5461 ccagtacagc tgaacctata tcaatggaac ctgtggctgg tgctgccaca gcagcagcaa
5521 ccgcaggtca agttaatatg attgacccct ggattatgag taattatgtt caagcccctc
5581 aaggagagtt cacaatttcc cctaataaca ctcccggtga catattgttt gatttacaat
5641 taggccccca tttaaaccca ttcctgtcac acttagccca gatgtacaac ggttgggttg
5701 gtaatatgaa agttagggtg ctgcttgctg gtaacgcttt cacagcgggc aaaataataa
5761 tcagttgtgt ccccccgggt tttgcagccc agaatatctc aatagcccaa gctactatgt
5821 tccctcacgt tattgcagat gtgcgggtgc ttgaaccaat tgaggtccca ttagaggatg
5881 ttaggaatgt gcttttccat aataatgatt ctactcctac tatgaggttg atctgcatgc
5941 tttacacccc tcttcgcgct agtggtagct cctctggcac agatccattt gttatagctg
6001 gtcgggttct cacctgtccc agtcctgact ttaacttttt atttcttgtg ccccccaatg
6061 ttgaacagaa aactaaacca ttcagtgtac ctgaccttcc tctcaatgtt ctctcgaatt
6121 ctagagtccc ctccttgata agatccatga tggtctctca agaccatgga cagatggtgc
6181 aattccaaaa tggtagggtt acattggacg gacagctcca aggcaccacc cccacttcag
6241 ctagtcagct ctgcaagatt cgagggacgg tttatcacgc aactaatggt gaagggctta
6301 atttaactga aattgatggc accccctacc acgcatttga aagccctgcc ccaattggct
6361 tccccgattt aggtgattgt gattggcata ttaatgcatc tcctgccact gcctttacaa
6421 atggtagcat tatacaaaga cttgatgtgg ttcaggattc cacttttgct ccccatttag
6481 gcactatcca ttatgccaat gctaattatg atgcaaatgt tagcctgatt tgttcacttg
6541 aatggctttc tcctccaagt aatggtgtcc caaaggcaaa cccatgggcc atccctcggt
6601 atggttcaac tttaactgag gctgcccaat tggccccacc aatatatccc cctggttttg
6661 gtgaagcaat tgttttcttc atgtctgatt ttccaatagc caatggttca gatggcctaa
6721 gtgtcccttg cactttacca caagagtttg tgacccattt cgtcaatgaa caagctccaa
6781 cccgtgggga agctgccctt cttcattatg ttgaccctga tacacaccgc aatctaggtg
6841 aatttaaatt ataccctgaa ggattcatga cctgtgtacc aaattctagt ggcagtggcc
6901 cccaaacact acccatcaat ggggtcttca ccttcatctc ttgggtttcc cgtttttatc
6961 aattaaagcc tgtgggaacg accggtccgg ttcgtaggct cgggatcagg agatcataat
7021 ggcccaagca ataattggag caatagctgc gacggctgct ggcagtgctg taggtgcggg
7081 cattcaggct ggtactgagg ctgcgctcca acatcagcgc ttccagcagg acttgacgtt
7141 gcagagtaac actttcaaac atgacaagga gatgttagga ctgcaggttg gtgcctctac
7201 tgccctttta caaaatagcc tcaacacacg ctacaacatg ctcactaatg ccggcctctc
7261 atcttcggat gcagctcgca tggtggttgg cgcgcccgct acgcgcgtta tagattggaa
7321 tggtaccagg atatcagcac cgcagtccac tgccaccaca ctgaggtctg gcggattcat
7381 gacaatccca actctataca agggcaagca acagcagaaa gctccaactg aaattggttt
7441 gtctaatcca aattatgggt cgtctgcatc ttcaagggtt gctgattggg tttcttctca
7501 gaattcatct cgctcgtcct tgggtccata ccatcccaat gctttacaaa caacatgggt
7561 gacaccaccc ggttcaagtt ctacttctac tatttcttct gtgtctactg tacctagata
7621 tttcaatact gataggttgc ctctattcgc aaatatgagg aaataatttt tgtaatatga
7681 aatgtgggca tcatattcaa ttggattcaa ttaattatta atttggtcta attatcaatt
7741 tggtttgatt tggaatttga tgtt
//