Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| OR069406 | GII.14 | |
|
|---|---|---|---|
| GII.P7 |
ORF1: 1..5094
ORF2: 5075..6685
ORF3: 6685..7479
LOCUS OR069406 7525 bp RNA linear VRL 06-OCT-2023
DEFINITION Norovirus GII isolate GII/Hu/US/2019/GII.14[P7]/NIH129.1
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION OR069406
VERSION OR069406.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7525)
AUTHORS Chaimongkol,N., Dabilla,N., Tohma,K., Matsushima,Y., Behrle
Yardley,A., Levenson,E.A., Johnson,J.A., Ahorrio,C., Oler,A.J.,
Kim,D.Y., Souza,M., Sosnovtsev,S.V., Parra,G.I. and Green,K.Y.
TITLE Norovirus Evolves as One or More Distinct Clonal Populations in
Immunocompromised Hosts
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7525)
AUTHORS Chaimongkol,N., Dabilla,N., Sosnovtsev,S.V. and Green,K.Y.
TITLE Direct Submission
JOURNAL Submitted (26-MAY-2023) LID, NIAID, 50 South Drive/R6318, Bethesda,
MD 20892, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: HIVE Hexagon/Heptagon v. 2
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7525
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="GII/Hu/US/2019/GII.14[P7]/NIH129.1"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="May-2019"
/note="genotype: GII.14"
gene 1..5094
/gene="ORF1"
CDS 1..5094
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WID03734.1"
/translation="MKMASNDASAAFGSQKPVNDSNNATPSDKEEVGTFSNIKVGFKK
MLGAVPKGTKAPSSDQHCPTVKIGPKTLTIPPEPPNGEDIVQFDAKSETVIGLPDLTT
VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPP
AAISLATIELTPISLYWRPVYTPNYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
LNDTWLNRRCISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSRPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
EIEKVKRDFPGQPDMWKDHFKSDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERKDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKS
VKTLEDLKFALRDVKFNECEIIYKSSKYRVSSNGKGSVSVDKVEDNASQTVNEVHSAL
LRLRQARARYYISCFQDLVYTLIQVAGASFVVSRISRRFCWERWVKPTETQEVNEPEK
EVAQGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTG
SDIRKRRPDDFQPKGNPWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPKGIKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSVLVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLHQVMRDQLRPFTEPRG
KPPRPAILEEAKKTVMNVLEQTIDPAKPWSYSQACASLDKTTSSGSPHHVKKNDHWNG
ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVIQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
mat_peptide 1..1002
/gene="ORF1"
/product="p48"
mat_peptide 1003..2100
/gene="ORF1"
/product="NTPase"
mat_peptide 2101..2619
/gene="ORF1"
/product="p22"
mat_peptide 2620..3018
/gene="ORF1"
/product="VPg"
mat_peptide 3019..3561
/gene="ORF1"
/product="Pro"
mat_peptide 3562..5091
/gene="ORF1"
/product="RdRp"
gene 5075..6685
/gene="ORF2"
CDS 5075..6685
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WID03735.1"
/translation="MKMASNDATPSDDGAAGLVPEINNEVMALEPVAGASIAAPVVGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGEVLLDLELGPELNPYLAHLARMYNGHAGG
MEVQIVLAGNAFTAGKILFAAIPPSFPYENLSPAQLTMCPHVIVDVRQLEPVHLPMPD
IRNVFYHYNQDNSSRLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFQFTFLVPP
TVESKTKNFTLPVLRVSEMTNSRFPVVLDQMYTSRNENIIVQPQNGRCTTDGELLGTT
ILQSVSICNFKGTMQAKLNEEPQYQLQLTNLDGSPIDLTDDMPAPLGTPDFQAMLYGV
ASQRSSRDNATRAHDAQIDTAGDTFAPKIGQVRFKSSSSDFDLHDPTKFTPIGVNVDD
QHPFRQWSLPSYGGHLALNNHLAPAVTPLFPGEQILFFRSYIPSAGGHTDGAMDCLLP
QEWIEHFYQEAAPSQSDIALVRFINPDTGRVLFEAKLHKQGFLTIAASGDHPIVMPTN
GYFRFEAWVNPFYTLAPVGTGSGRRRIQ"
gene 6685..7479
/gene="ORF3"
CDS 6685..7479
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WID03736.1"
/translation="MAGAFLAGLAGDVVTSSLGSLVGAGANAINQKVEYDFNRQLQEA
SFRHDKDMLKAQVAATTGLQQAMIDIKREALTAGGFSPADAARGAVKAPMTQILDWNG
SRYWAPNSMKTTGYSGTFSSQGIRSSPHLSNQTPSVVKSTRSLPSISSSSSVYSSPST
APSQSTQSTTLSAGTGSSRPDTVSTKTSTLSRTSDWVRGQNEMLDPFMSGALQTAYVT
PPSSKASSQGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gcctttggca gtcaaaaacc tgtcaatgac
61 agtaataatg ccaccccttc tgacaaagaa gaggttggta cattctccaa cattaaagtt
121 ggattcaaga aaatgctggg tgccgtaccc aaaggtacta aggcacccag cagtgatcag
181 cattgtccca cagttaagat cgggcctaaa acattaacaa tcccccctga acccccaaat
241 ggtgaagaca tcgtacaatt tgatgcaaag tcagaaactg taattgggct accggacttg
301 acaacggtgc aaaacgaaca cgaaaacact ccatacactg tccccccatt aagtgagagg
361 gagcacagac cagctaccga accacttcct ggcacaatat tggagatgtg ggatggtgag
421 ttttaccatt actccgtgta cgtcagcgat ggcaaagctc tgggggtcca taaaccaccg
481 gcggctataa gtctcgcgac gatagaactc acccccatat cactctactg gagacccgtc
541 tacactccca actacttggt ctccccagac acattaaagg gcctcgccgg tgagaagttc
601 ccctacacgg ccttcagcaa caactgttat aacttctgct gttgggtgct tgagctcaac
661 gacacatggc ttaacagaag atgcatatcc agaactaccg gcttctttaa accataccag
721 tcttggaata ggaaacctct cccaactgtt gatgatggaa agatcaaaaa ggtggccaac
781 gcgatcctct gtgcactcgg ctcgctgttt tcgagaccaa tcaaagatct attaggtaaa
841 ctcaagccat tgaatctact acacttgctt gcatcctgtg attggacgtt tgcgggtata
901 gtagagacag tcatcttaat ggcggagctt ttcaatgtat tctggacccc gccagatgtc
961 tctaatttta tagcctccct gataggtgat tttgagttgc aaggtcctga agacttggct
1021 gtggagctcg ttcccgtggt tatgggtggc atagggatgg ttctcggctt caccgctgag
1081 aagataggcc gcatgctgtc gtccgctgca tcaacactac gggcgtgcaa agacctaggg
1141 aactatgccc ttgacatact caaattggtc atgaaatggt tcttcccaaa gaaggaagag
1201 aaagctgaga tggagacctt gagggcgatt gaagatgctg tccttgatat ggaagctata
1261 gggaataacc acctcacaac ccttctcaag gacaaagata gcctcacggc ttttatgaaa
1321 accctggatc tagaagagga gaaagcgagg aaactgtcca ctaaatcatc ttcaccggac
1381 atagtcggca ccatcaacgc catattagct agaatagctg ctgctagatc cctactacat
1441 aaggccaaag aggagatgtt tagcaggatt agaccagtag ttgtcatgat ctcaggcaga
1501 cctggcattg gaaaaaccca catggcaaga cacttggcta agagcatcgc caacaccatg
1561 agtggcgatc agagggtcgg actcgtcccg cgcaatggtg tcgatcactg ggacgcctac
1621 agaggagaga gagtggtctt gtgggacgac tacggtatgg ggagccctgt caaagacgcc
1681 ctgacactgc aagaattggc cgacacatgt ccagtcacct taaattgtga taggattgag
1741 aataagggga agatgtttga cagtgatgtt atcataatca cgaccaacct agtcaacccc
1801 gcgcccctcg actatgtgaa cttcgaggcg tgttccagga gagttgactt cctggtctat
1861 gcagagtcac cagaaattga aaaggtcaag agagacttcc ccggccagcc tgacatgtgg
1921 aaagaccatt ttaagtcaga cttttcccac attaagctga ctctagcccc ccagggtgga
1981 tttgacaaga atggcaacac cccacatggc aagggcacca tgcggtccct aacccagggg
2041 tccctaaccg cgagagttgc aggccttgtc catgagagga aggacgagtt ccagctccaa
2101 ggaaatgacc ttcaaacata caattttgac accaacagag tctccgcatt tagaaaattg
2161 gccgcagaca acaagtatgg gatcatggag acgatgagag ttggcgcagc gctcaagagt
2221 gtgaagacct tggaagatct taaatttgca ttgagggatg taaaattcaa tgaatgtgaa
2281 ataatttaca agagttctaa gtaccgagtc tcttccaacg gtaaaggttc agtctctgtt
2341 gacaaagttg aagacaatgc ttcccagact gttaacgagg tgcattcagc actcctcaga
2401 ctcaggcagg cgagggctag atattacatc agctgcttcc aagacctcgt ctacactctc
2461 atacaggttg ccggggcatc atttgttgtc agtaggatct ctagaaggtt ctgctgggaa
2521 aggtgggtca aaccgaccga gacccaggag gtgaatgagc ccgaaaagga agtggcccaa
2581 ggcaggtggg aaattgagcc caaggacaca gaaccagaag gcaagaaggg taagaacaag
2641 aaaggaaggg gcaagaaaca tacagccttc tctagcaaag gtctgagtga tgaagagtat
2701 gacgagttca agaggattag ggaagaaaga aatgggaagt actccattga ggaatacctg
2761 caggaccgag accgctatta tgaagaagta gcagttgctc gggcgacaga ggaggacttc
2821 tgtgaagagg aagaggccaa gataagacaa aggattttcc gcccgacaag gaaacaaagg
2881 aaggaggaaa ggggtgtgct cggcttggtc accggctcag acatcaggaa gagaagacca
2941 gacgattttc aaccaaaagg caatccatgg gcagatgaca ccagaagtgt ggactacaat
3001 gagaggcttg attttgaagc acccccgagt gtctggtcaa gaatagtccc actaggcacc
3061 ggttgggggt tttgggtttc atccaacctt ctgattacaa caacacacgt cctacctaaa
3121 gggattaagg agctctttgg agttgaaatc aaacaaatcc aaattcataa gtctggagag
3181 ttttgcaggt ttagattccc aagacctatc aggccagatg tcacaggact cgtgctggag
3241 gagggcgccc cagagggcac tgtttgctct gtgctcgtga aaagacccac gggtgaaatg
3301 atcccccttg cagtgaggat gggtacacat gcatccatga aaatacaggg caggaccgtt
3361 ggtggccaga tgggaatgct cctcacaggg gcaaacgcaa agaacatgga tcttggcacc
3421 ggccctggtg actgcggttg cccctacatc tacaagcgtg gcaacgacat cgttgttgcg
3481 ggtgtccaca ccgcagcagc ccggggaggc aacactgtaa tatgtgctac ccaggggcaa
3541 gatggggaag cagtccttga gggaaatgag gaccttggca cctactgtgg tgccccaatt
3601 ctgggccctg gcaaggcgcc caaactcagc acgaagacca agttttggcg ctcatcacca
3661 gatgccctgc cacctggcac atatgaacct gcttacctag gaggcaaaga ccctagagtg
3721 gaaaaaggtc cctccctgca tcaagtcatg agagaccagt tgaggccctt cacagaaccc
3781 agaggcaaac cgcctagacc tgcaattttg gaggaagcca aaaagacagt aatgaatgtc
3841 ctagaacaaa ccattgaccc cgccaagcca tggtcctatt cgcaggcatg tgcctcattg
3901 gacaaaacca cttcaagtgg tagtccccac cacgttaaga aaaatgacca ctggaatggg
3961 gagtccttca ctggtcccct tgcagaccag gcttctaaag ccaacctcat gtatgagcag
4021 gctaaacatg tgcagcccgt gtatacggct gcgcttaaag atgagcttgt taagactgac
4081 aaaatctaca agaagataaa gaagaggctt ctatgggggt cagatcttgg cacaatgatc
4141 agatgcgcca gggcttttgg tggtctcatg gatagtatga aggcaagttg catagctctt
4201 ccttgcaggg tgggaatgaa catgaatgaa gatggcccca tcatatttga caaacactct
4261 aagtacaggt accactatga tgctgactat tctaggtggg actcaaccca acaaaggagc
4321 atcctctctg ccgctatgga agtgatggtg cggttttctg ctgaaccaga attggcacaa
4381 gtggttgcag aggacctttt ggcacctagt cagcttgatg ttggcgactt tgtcatctca
4441 gtccaggaag gcctgccatc aggagtccca tgcacatcgc aatggaattc aatagcacac
4501 tggatactca ctttgagcgc gatggcagaa gtatcaggcc tctcaccaga tgttatccaa
4561 gctcactctt gtttttcctt ttatggggac gatgagatcg tcagcactga catcaacctt
4621 gaccctatga aattgacaca aaaacttagg gagtatggcc tggtccccac ccggcctgac
4681 aaaactgaag gtcccctcgt cataactgaa gacctcaccg gcctgacgtt ccttcgtagg
4741 tcgattgctc gggacccagc tggctggttt ggaaaactag accaagattc aatcctcagg
4801 caactgtact ggacaagggg gcctaaccat gagaacccgt acgaaagcat ggttcctcat
4861 tctcagcggg ccacacaact catggccctt ctcggtgaag cctcattgca tggtcctcag
4921 ttttacaaga aagttagcaa aatggtcatc aatgaaatta agagtggtgg tctggaattt
4981 tacgtgccca gacaagaggc catgttcaga tggatgagat tctctgacct cagcacgtgg
5041 gagggcgatc gcaatcttgc tcccgagggt gtgaatgaag atggcgtcga atgacgctac
5101 tccatctgat gatggtgcag ccggcctcgt accagagatc aacaatgagg ttatggctct
5161 tgaacccgtt gctggggcct ccattgcagc ccccgtagtc ggtcaacaga atataattga
5221 tccctggatt agaaataatt ttgtacaagc ccctgctggt gaatttacag tttcccctag
5281 aaactctcct ggagaagtcc tacttgattt ggaattgggt cctgaactta acccctatct
5341 tgcacacttg gccagaatgt acaatgggca cgcaggagga atggaagtgc agatagtact
5401 ggctgggaat gcgttcacag ctggtaagat cctatttgcc gccatcccac ctagcttccc
5461 ttatgaaaat ttgtcacctg cccaattgac tatgtgcccc catgtgatag tggatgtgag
5521 acaattggaa ccagtacact tgccaatgcc agatataaga aatgttttct atcattataa
5581 tcaggataat agttccagac ttaggcttgt agctatgctt tatactcctc tgagggccaa
5641 taattcaggt gatgatgtgt tcacggtgtc ttgtcgcgtc ctaacgcgcc cttctccaga
5701 tttccagttc actttcctgg tcccacctac agttgagtct aaaactaaga acttcaccct
5761 ccccgttctc agagtctcag agatgacaaa ctcaaggttc cccgttgttt tggaccaaat
5821 gtacacaagc aggaatgaaa acatcattgt ccaaccccaa aacggcagat gcacaactga
5881 tggtgagctg cttggtacca ctatcttaca atctgtgtct atttgcaatt tcaaaggaac
5941 aatgcaggca aagctgaatg aagaaccaca ataccaatta caactcacca acttggatgg
6001 gtcacccata gatctaacag atgatatgcc tgcccctctt ggcacaccag acttccaggc
6061 catgttatat ggcgttgcaa gccaacgctc ttccagagat aatgccacca gggcacatga
6121 tgcacagatt gacactgcgg gtgacacatt cgccccgaaa attggccagg ttcgatttaa
6181 atcaagctcc agtgattttg atctacatga ccctacaaaa ttcacaccta ttggtgtcaa
6241 tgtggatgac cagcacccct ttagacagtg gtccctgcca agctacggtg gtcaccttgc
6301 cctgaataac catttagccc cagctgtgac accgctcttt cctggcgagc agatcttgtt
6361 ctttaggtca tacattccaa gtgccggagg ccatacagac ggtgctatgg actgtttgct
6421 gccccaagag tggatagagc acttctacca ggaggcggct ccttcccaat ctgacatcgc
6481 actggtaagg ttcatcaacc ctgacacagg aagagtgctc tttgaagcta aattgcataa
6541 acaaggtttc ctcacaattg cagcatctgg agaccacccc attgtgatgc ccactaatgg
6601 ttactttagg tttgaagctt gggttaatcc tttctatact ctcgcccccg tgggaactgg
6661 gtctgggcgc aggaggatcc aataatggct ggagctttcc ttgcaggttt ggcaggtgac
6721 gttgtgactt ccagcttggg ctcactcgtg ggtgctggag ccaacgccat caaccagaaa
6781 gtggagtatg acttcaacag gcaactccag gaggcatctt ttagacatga taaggatatg
6841 ctcaaagccc aggttgcagc aacaacaggt ctccaacagg ccatgataga catcaagcgg
6901 gaggcattga ccgcaggcgg cttttccccc gctgacgctg caagaggcgc agtcaaagca
6961 cctatgacgc agatccttga ttggaatggt tctagatatt gggctcctaa ctccatgaag
7021 acaactggct actcaggtac attttcttct caaggcatta gaagttcccc tcacctgtct
7081 aatcaaaccc caagtgttgt taaatctact agatctttac catctatatc tagttcttct
7141 agtgtgtata gttctccttc tactgccccc tcgcaatcaa cacaatcaac aacgctgtct
7201 gcagggacag ggtcctccag acctgacact gtgtccacaa agacttccac attgtcgagg
7261 acaagtgatt gggtcagagg tcaaaatgag atgcttgacc cgttcatgag tggtgcactc
7321 caaactgctt atgtcacacc accatcgagc aaggcctcat cacaagggac ggtctcgacc
7381 gtacccaagg ctgttttgga ctcctggact cccatgttta acacccacag gcagcctctc
7441 ttcgcccact tacgtaggcg aggggagtca cagatttagt gaaaaggatg attagggttt
7501 cttcctttcc ccttcttatt ctttt
//