Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MK588004 | GII.14 | |
|
|---|---|---|---|
| GII.P7 |
ORF1: 1..5085
ORF2: 5066..6676
ORF3: 6676..7470
LOCUS MK588004 7506 bp RNA linear VRL 10-APR-2019
DEFINITION Norovirus GII isolate Hu/USA/2017/GII.P7-GII.14/RGDS-1012
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION MK588004
VERSION MK588004.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7506)
AUTHORS Pan,C.-Y., Huynh,T., Castro,C.J., Ng,T.F.F., Marine,R.L. and
Wadford,D.A.
TITLE Norovirus GII.P7-GII.14 genome from an elementary school outbreak,
California, 2017
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7506)
AUTHORS Pan,C.-Y., Huynh,T., Castro,C.J., Ng,T.F.F., Marine,R.L. and
Wadford,D.A.
TITLE Direct Submission
JOURNAL Submitted (01-MAR-2019) Viral and Rickettsial Disease Laboratory,
California Department of Public Health, 850 Marina Bay Parkway,
Richmond, CA 94804, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. R10; SPAdes v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7506
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/USA/2017/GII.P7-GII.14/RGDS-1012"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA:CA"
/collection_date="Dec-2017"
/note="genotype: GII.P7-GII.14"
gene <1..5085
/gene="ORF1"
CDS <1..5085
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QBT58249.1"
/translation="ASNDATAALGSQKSVNDSENATPSNKEEVGTFSNIKVGFKKMLG
AVPKGTKTPSSDQHCPTVKIGPKTLTIPPEPPNGEDTVQFDAKSETIIGLPDLTTVQN
EHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPPAAI
SLATIELTPISLYWRPVYTPNYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELND
TWLNRRCISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLG
KLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQGPE
DLAVELVPVVMGGVGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFF
PKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLS
TKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARH
LAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQELADT
CPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIE
KVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTAR
VAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKSVKT
LEDLKAALRDVKFNECEIIYKNSKYRVSSNGKGSVSVDKVEDNASQTVNEVHSALLRL
RQARARYYISCFQDLVYTLIQVAGASFVVSRISRRFCWERWVKPTETQEVNEPEKEVV
QGGWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIE
EYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTGSDI
RKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLIT
TTHVLPKGIKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSV
LVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPY
IYKRGNDIIVAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPGKAP
KLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLRPFTEPRGKPP
RPAILEEAKKTVMNVLEQTIDPAKPWSYSQACASLDKTTSSGSPHHVKKNDHWNGESF
TGPLADQASKANLMYEQAKHMQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIR
CARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQR
SILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNS
IAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREYGLV
PTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENP
HESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRW
MRFSDLSTWEGDRNLAPEGVNEDGVE"
mat_peptide <1..993
/gene="ORF1"
/product="p48"
mat_peptide 994..2091
/gene="ORF1"
/product="NTPase"
mat_peptide 2092..2610
/gene="ORF1"
/product="p22"
mat_peptide 2611..3009
/gene="ORF1"
/product="VPg"
mat_peptide 3010..3552
/gene="ORF1"
/product="Pro"
mat_peptide 3553..5082
/gene="ORF1"
/product="RdRp"
gene 5066..6676
/gene="ORF2"
CDS 5066..6676
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBT58250.1"
/translation="MKMASNDATPSDDGAAGLVPEINNEVMALEPVAGASLAAPVVGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGELLLDLELGPELNPYLAHLARMYNGHAGG
MEVQIVLAGNAFTAGKILFAAIPPTFPYENLSPAQLTMCPHVIVDVRQLEPVLLPMPD
IRNVFYHYNQNNSPKLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFQFTFLVPP
TVESKTKNFTLPVLKVSEMTNSRFPVVLDQMYTSRNENIVVQPQNGRCTTDGELLGTT
ILQSVSICNFKGTMQAKLNEEPRYQLQLTNLDGSPIDPTDDMPAPLGTPDFQAMLYGV
ASQRSSRDNATRAHDAQIDTAGDTFAPKIGQVRFKSSSSDFDLHDPTKFTPIGVNVDD
QHPFRQWSLPNYGGHLALNNHLAPAVTPLFPGEQILFFRSYIPSAGGHTDGAMDCLLP
QEWIEHFYQEAAPSQSEIALVRFINPDTGRVLFEAKLHKQGFLTIAASGDHPIVMPTN
GYFRFEAWVNPFYTLAPVGTGSGRRRIQ"
gene 6676..7470
/gene="ORF3"
CDS 6676..7470
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBT58251.1"
/translation="MAGAFLAGLAGDVVTSSLGSLVGAGANAINQKVEYDFNRQLQEA
SFRHDKDMLKAQVAATAGLQQAMIDIKREALTAGGFSPADAARGAVKAPMTQILDWNG
SRYWAPNSMKTTGYSGTFASQGIRSSPHLSNQTPSAVKSIKSLPSISSSSSVYSFPST
APSQSTQSTTLSAGTGSSRPSTVSTKTSTLSRTSDWVRGQNEMFGPFMSGALQTAYVT
PPSSRASSQGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 gcgtctaacg acgctaccgc tgcccttggc agtcaaaaat ctgtcaatga cagtgaaaat
61 gccacccctt ctaacaaaga agaggttggt acattctcca acattaaagt tggattcaag
121 aaaatgctgg gtgccgtacc caaaggtacc aaaacaccca gcagcgatca gcattgcccc
181 acagttaaga tcggacctaa aacattaaca atcccccctg aacccccaaa tggtgaggac
241 accgtacaat ttgatgcaaa gtcagaaact ataattgggc taccggactt gacaacggtg
301 caaaacgaac acgaaaacac tccatacact gtccccccat taagtgagag ggagcacaga
361 ccggccactg aaccacttcc tggcacaata ttggagatgt gggatggtga gttttaccat
421 tactccgtgt acgtcagcga tggcaaagct ctgggggtcc acaaaccacc ggcggctata
481 agtctcgcga cgatagagct cacccctata tcactctact ggagacctgt ttacaccccc
541 aactacttgg tctctccaga cacactaaag ggcctcgctg gtgagaagtt cccctacacg
601 gccttcagca acaactgtta caatttctgt tgttgggtgc ttgagctcaa cgacacgtgg
661 cttaacagaa gatgcatctc cagaaccacc ggcttcttta aaccatacca gtcttggaat
721 agaaaacctc tcccaactgt tgatgatgga aagattaaga aggtggccaa cgcgatcctc
781 tgtgcactcg gctcgctgtt ctcaaaacca atcaaagacc tactaggcaa actcaagcca
841 ttgaatctac tacacttgct cgcgtcttgt gattggacgt ttgcgggtat agtggagaca
901 gtcatcttaa tggcggagct tttcaatgtc ttctggactc cgccagatgt ctctaatttc
961 atagcctcct tgataggtga ctttgaattg caagggcctg aagatttggc tgtggagctc
1021 gttcccgtgg ttatgggtgg cgtagggatg gttctcggct tcaccgctga gaagataggc
1081 cgcatgctgt cgtctgctgc atcaacactg cgggcgtgca aagacctagg gaactatgcc
1141 cttgacatac tcaaattggt tatgaaatgg ttcttcccga agaaggagga gaaggctgag
1201 atggagacct tgagggcgat tgaagacgct gtccttgata tggaagctat agggaacaac
1261 cacctcacaa ccctcctcaa ggacaaagac agcctcacag ctttcatgaa aacactggat
1321 ctagaggagg agaaggcgag gaaactgtcc actaaatcat cttcaccgga catagtcggc
1381 accattaacg ccatactagc taggatagct gctgctagat ccctactaca taaggccaaa
1441 gaggagatgt tcagcaggat cagaccagta gtcgtcatga tctcaggcag acctggcatt
1501 ggaaaaaccc acatggcgag acacttggct aagagcatcg ccaacaccat gagtggcgat
1561 cagagagtcg gactcgtccc acgcaatggt gtcgatcact gggacgccta caggggagag
1621 agagtggtct tgtgggacga ctacggtatg gggagccctg ttaaagacgc cctgacactg
1681 caagagttgg ccgacacgtg tccagtcacc ttaaattgtg ataggatcga gaataagggg
1741 aagatgtttg atagtgatgt catcataatt acgaccaacc tagtcaaccc cgcgcccctc
1801 gactatgtga acttcgaggc gtgttccagg agagttgact tcctggtcta tgcagagtca
1861 ccagaaattg aaaaggtcaa gagagatttc cctggccagc ctgacatgtg gaaagatcat
1921 ttcaagccag acttttccca cattaagctg acactagccc cccagggtgg gtttgacaaa
1981 aatggcaaca ccccacacgg caagggcacc atgcggtctc tgacccaggg gtccctaact
2041 gcgagagttg caggccttgt ccatgagagg agggacgagt tccagctcca aggaaatgac
2101 ctccaaacat acaattttga caccaacaga gtctccgcat ttagaaaatt ggccgcggac
2161 aacaagtatg ggatcatgga gacgatgaga gttggcgcag cactcaagag tgtgaagacc
2221 ttggaggatc ttaaagccgc attgagggat gtaaaattca atgagtgtga aataatttac
2281 aagaactcta agtaccgagt ctcttccaat ggtaaaggct cagtctctgt tgacaaagtt
2341 gaagacaatg cttcccagac tgtgaacgag gtacattcag cactcctcag actcaggcag
2401 gcgagggcca gatactacat cagctgcttc caagacctcg tctacactct catacaggtt
2461 gccggggcat catttgttgt cagtaggatc tccaggaggt tctgctggga aaggtgggtc
2521 aaaccgaccg aaacccagga ggtgaatgag cctgaaaagg aagtggtcca aggtggatgg
2581 gaaattgagc ccaaggacac agaaccagaa ggcaagaagg gcaagaacaa gaaaggaaga
2641 ggcaagaaac acacagcctt ctctagcaaa ggtctgagtg atgaagagta tgacgagttc
2701 aagaggatca gggaagaaag gaacggcaag tactccattg aggaatacct gcaggaccga
2761 gaccgctact atgaagaagt agcagtcgct cgggcgacag aggaggactt ctgtgaagag
2821 gaagaggcca agataagaca aaggattttc cgcccgacaa ggaagcagag gaaggaggaa
2881 aggggcgtgc ttggcttggt caccggctca gacatcagaa agaggagacc agacgatttc
2941 caaccaaaag gcaacctgtg ggcagatgac accagaagtg tggactacaa tgaaaggctt
3001 gattttgaag cacccccgag tgtctggtca agaatagtcc cattaggcac tggttggggg
3061 ttttgggttt catccaacct tctgatcaca acgacacacg tcctgcctaa agggatcaag
3121 gaactttttg gagttgaaat caaacagatc caaattcaca aatctggaga gttttgcagg
3181 tttagattcc caagacctat caggccagat gttacaggac tcgtgctgga ggaaggcgcc
3241 ccagagggca ctgtctgttc tgtactcgtg aaaagaccca caggtgaaat gatccccctt
3301 gcagtgagga tgggcacaca cgcatccatg aaaatacagg gcaggactgt tggtggccag
3361 atgggaatgc ttctcacagg agcaaacgca aagaacatgg accttggcac cggccctggt
3421 gactgcggtt gcccctacat ctacaagcgt ggcaacgaca ttattgttgc tggcgtccac
3481 accgcagcag cccggggagg caacactgta atatgtgcca cccaagggca agatggggaa
3541 gcagtccttg agggaaatga ggaccttggt acatactgtg gtgccccaat tctgggccct
3601 ggcaaggcgc ctaaactcag cacgaagacc aagttttggc gctcatcacc agatgccctg
3661 ccacctggta catatgaacc tgcttaccta ggaggcaaag accctagagt ggaaaaaggc
3721 ccctccctgc agcaagtcat gagagaccag ttgaggccct tcacagaacc cagaggcaaa
3781 ccacctagac cagcaatctt agaggaagcc aaaaagacag tgatgaatgt tctagagcaa
3841 accattgacc ccgccaagcc atggtcctat tcgcaggcat gtgcctcatt ggacaaaact
3901 acctctagtg gtagtcccca tcacgttaag aaaaatgacc actggaatgg ggagtccttc
3961 actggtcccc ttgcagatca ggcttctaaa gccaacctca tgtatgagca ggccaaacat
4021 atgcagcccg tatatacggc cgcgcttaaa gatgagcttg ttaagactga caagatctac
4081 aagaagataa agaaaaggct tctatggggg tcagaccttg gcacgatgat caggtgcgcc
4141 agggcttttg gtggtctcat ggacagtatg aaggcaagct gtatagccct tccttgcagg
4201 gtaggaatga acatgaatga agatggcccc atcatatttg ataaacactc taagtacagg
4261 taccactatg atgctgacta ttctaggtgg gactcaaccc aacaaaggag catcctctct
4321 gccgccatgg aagtgatggt gcggttttct gctgaaccag aattggcaca agtggttgca
4381 gaggacctct tggcacctag ccaacttgat gttggcgact ttgtcatctc agtccaggaa
4441 ggcctaccat caggagtccc atgcacatca caatggaatt caatagcaca ctggatactc
4501 actttgagtg cgatggcaga agtgtcaggt ctctcaccag atgttgtcca agctcactct
4561 tgcttttcat tttatgggga cgatgagatc gtcagcactg atatcaacct tgaccccatg
4621 aagttaacac aaaaactcag ggagtatggt ctggttccca cccggcctga caaaactgaa
4681 ggtcccctcg tcataactga agacctcact ggcctgacgt tccttcgtag gtcgattgct
4741 cgggacccag ctggctggtt tggaaaacta gaccaagatt caatcctcag gcaactatac
4801 tggacaaggg ggcctaacca tgagaacccg cacgagagca tggttccaca ttcccagcgg
4861 gccacacaac tcatggccct tcttggtgag gcctcgttgc atggtcctca attttacaag
4921 aaagttagca aaatggtcat caatgaaatt aagagtggtg gtctggagtt ttacgtgccc
4981 agacaagagg ccatgttcag gtggatgagg ttctctgacc tcagcacgtg ggagggcgat
5041 cgcaatcttg ctcccgaagg tgtgaatgaa gatggcgtcg aatgacgcaa ctccatctga
5101 tgatggtgca gccggcctcg taccagagat caacaatgag gttatggctc ttgaacccgt
5161 cgctggggcc tcccttgcag cccccgtagt cggtcaacag aatataattg atccctggat
5221 tagaaacaat tttgtacaag cccctgctgg cgaatttaca gtctccccta gaaattcccc
5281 tggagaactc ttacttgatc tggaattggg tcctgaactt aatccctatc ttgcacattt
5341 ggccaggatg tacaatgggc atgcaggagg aatggaagtg caaatagtac tggctgggaa
5401 tgcgttcaca gctggtaaga tcctgtttgc cgccatccca cccaccttcc cctacgaaaa
5461 cttgtcaccc gcccaattga ctatgtgccc ccatgtgata gtggatgtga gacaattaga
5521 accagtgctc ttgccaatgc cagatataag aaatgttttc tatcattata atcagaataa
5581 tagtcccaaa cttaggctta tagctatgct ttatactcct ctgagggcta acaattcagg
5641 tgatgacgtg ttcacggtgt cttgccgcgt tttaacacgc ccttctccag atttccagtt
5701 cactttcctg gtcccaccca cagttgagtc taaaactaag aacttcaccc tccccgttct
5761 caaagtctca gagatgacaa actcaaggtt ccccgttgtt ttggatcaaa tgtacacgag
5821 caggaatgaa aacatcgttg tccaacccca aaacggcaga tgcacaactg acggtgagct
5881 gcttggcact accatcttac agtctgtgtc tatttgcaat ttcaaaggaa caatgcaggc
5941 aaagctgaat gaagaaccac gataccaatt gcaactcacc aacttggatg ggtcacctat
6001 agatccaaca gatgatatgc ctgcccctct tggcacacca gacttccagg ccatgttata
6061 tggcgttgca agccaacgct cttccaggga caacgccacc agagcacatg atgcacaaat
6121 tgacactgcg ggtgacacgt tcgccccaaa aattggccag gttcgattta aatcaagctc
6181 cagtgatttc gacctacatg accctacaaa attcacgcct attggtgtca atgtggatga
6241 ccagcaccct ttcagacagt ggtccctgcc aaactacggt ggtcaccttg ccctgaacaa
6301 tcatttagcc ccagctgtga caccgctctt ccctggcgaa caaatcttgt tctttaggtc
6361 atacattcca agcgccgggg gccacacgga cggtgctatg gactgtttgc tgccccaaga
6421 gtggatagag cacttctacc aggaggcggc tccttcccaa tctgaaatcg cactggtgag
6481 gttcatcaac cctgacacag gaagagtgct ctttgaagca aaattgcaca aacaaggttt
6541 cctcacaatt gcagcatctg gagaccaccc tattgtgatg cccactaatg gttatttcag
6601 gtttgaagct tgggtcaacc ctttctacac tctcgccccc gtgggaactg ggtctgggcg
6661 caggagaatt caataatggc tggagctttc cttgcaggct tggcaggtga cgttgttact
6721 tccagcttgg gctcacttgt gggtgctgga gccaacgcca tcaatcagaa ggtggagtat
6781 gacttcaaca ggcaactcca ggaggcatct tttagacatg acaaggatat gctcaaagcc
6841 caggttgcag caacagcagg ccttcaacag gccatgatag acatcaagcg ggaggcattg
6901 accgcaggcg gcttttcccc cgctgatgct gcaagaggtg cagttaaagc gcctatgacg
6961 cagatccttg actggaatgg ttctagatat tgggctccta actccatgaa aacaactggc
7021 tattcaggca catttgcttc ccaaggcatt agaagttccc ctcatctgtc taatcaaacc
7081 ccaagtgctg ttaagtccat taaatcttta ccatctatat ctagttcttc tagtgtgtat
7141 agctttcctt ctactgcccc ctcacaatca acacaatcaa caacgctgtc tgcagggaca
7201 gggtcctcca ggcccagcac tgtgtccaca aagacctcca cattgtcaag gacaagtgac
7261 tgggtcaggg gtcaaaatga gatgtttggc ccgttcatga gtggtgcact ccaaactgct
7321 tatgtcacac caccatcgag cagggcctca tcacaaggga cggtctcgac cgtacccaag
7381 gctgttttgg actcctggac tcccatgttt aacacccaca ggcagcctct cttcgcccac
7441 ttgcgtaggc gaggggagtc acagatttag tgaaaaggat gattagggtt tcttccttcc
7501 cctttt
//