Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| PP576343 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P4 New Orleans |
ORF1: 1..5094
ORF2: 5075..6697
ORF3: 6697..7503
LOCUS PP576343 7554 bp RNA linear VRL 01-MAY-2025
DEFINITION Norovirus GII isolate GII/Hu/US/2022/GII.4[P4]/CNH153.1
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION PP576343
VERSION PP576343.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7554)
AUTHORS Durkee-Shock,J., Cohen,A., Maghzian,N., Pezzella,G.,
Jensen-Wachspress,M., Hostal,A., Barton,K., Gangler,K., Davila
Saldana,B.J., Chaimongkol,N., Bollard,C.M., Sosnovtsev,S.V.,
Cohen,J., Nagata,B.M., Alves,D.A., Ghosh,R., Seifert,B.A.,
Freeman,A., Gonzalez,C., Notarangelo,L.D., Green,K.Y. and
Keller,M.D.
TITLE Reconstitution of norovirus-specific T-cell responses following
hematopoietic stem cell transplantation in patients with inborn
errors of immunity and chronic norovirus infection
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7554)
AUTHORS Chaimongkol,N., Sosnovtsev,S.V. and Green,K.Y.
TITLE Direct Submission
JOURNAL Submitted (02-APR-2024) LID, NIAID, 50 South Drive/R6318, Bethesda,
MD 20892, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: HIVE Hexagon/Heptagon v. V.2
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7554
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="GII/Hu/US/2022/GII.4[P4]/CNH153.1"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="16-Jan-2022"
/note="genotype: GII.4"
gene <1..5094
/gene="ORF1"
CDS <1..5094
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WYM53005.1"
/translation="MASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARPKQ
PPPREKSQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPEES
NTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLA
KVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMVQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCTLSSLFTRPIKDIIGKIR
PLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKS
ASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAK
RIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL
TLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEKAK
RDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTMPE
LKQALKNVSIKKCQIVYSGCTYMLESDGKGNVRVDRIQSAAVQTNNELTGALHHLRCA
RIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGCPK
PKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLVTG
SEIRKRNPDDFKPKGKLWADDDRNVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSL
FITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTV
VTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG
CPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPG
SAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEPRG
KPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNG
ESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLAT
MVRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHARYTYHYDADYSRWDST
QQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQ
WNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLREY
GLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNH
GDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPM
FRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..984
/gene="ORF1"
/product="p48"
mat_peptide 985..2082
/gene="ORF1"
/product="NTPase"
mat_peptide 2083..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..6697
/gene="ORF2"
CDS 5075..6697
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WYM53006.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRVYRMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGVL
TQTTRADGSTRGHKATVYTGSADFAPKLGRIQFETDTDHDFETNQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRSTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6697..7503
/gene="ORF3"
CDS 6697..7503
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WYM53007.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAVAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAVLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNSGRFSTPQPSGALPGRSNLRDAFPARGSSGKSF
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 atggcgtcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga caccgcaaaa
61 tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc cctcggggcg
121 cggcctaaac agcctccccc gagggaaaag tcacaaagac ccccacgacc acccacacca
181 gaacttgtta aaaatattcc ccccccccca cccaacggag aggatgaaat agtggtttct
241 tatagtgtca aagatggtgt ttccggcttg cctgaccttt ccaccgtcag gcagccggaa
301 gaatccaaca cggccttcag tgtccctcca ctcaatcaga gggagaatag agatgccaag
361 gaaccactca ctggaacaat tctggaaatg tgggacgggg aaatctacca ttatggcctg
421 tatgtggagc gaggtcttgt actaggcgtg cacaaaccgc cagctgctat cagcctcgct
481 aaggttgagt tagcaccact ctccttgtac tggagacctg tgtacactcc tcagtacctc
541 atctctccag acactctcaa gaaattatcc ggagaaacgt tcccctacac agcctttgac
601 aacaactgct atgccttttg ttgttgggtc ctggatctaa atgactcgtg gctgagcagg
661 agaatggtcc aaagaacaac tggtttcttc aggccctacc aagactggaa taggaaaccc
721 cttcccacta tggatgactc caaaataaag aaggtagcta acatatttct gtgtactctg
781 tcctcgctat tcaccaggcc cataaaagac ataataggga agataaggcc tctcaacatc
841 ctcaacatct tagcctcatg tgattggact tttgcgggta tagtggagtc cctgatactt
901 ttggcagaac tctttggagt cttctggaca cccccagatg tgtctgcgat gattgccccc
961 ttacttggtg actacgagct gcaaggacct gaggaccttg cagtggagct cgtccccgtg
1021 gtgatggggg gaattggttt ggtgctagga ttcactaaag agaagattgg gaaaatgctg
1081 tcatcagctg cgtccacctt aagagcttgc aaggaccttg gtgcatatgg gctagagatc
1141 ctaaagttag tcatgaagtg gttcttcccg aagaaggagg aggcaaatga gttggccata
1201 gtgaggtcta tcgaggatgc agtcttggat ctcgaagcaa ttgaaaacaa tcatatgacc
1261 accctgctta aagacaaaga cagtctggca acctacatga gaacacttga ccttgaagag
1321 gagaaagcca ggaaactctc aaccaaatct gcctcacccg acatcgtggg tacaatcaac
1381 gccctcctgg cgagaatcgc tgccgcacgc tctctagtgc atcgagcgaa ggaggagctt
1441 tccagcagac caagacctgt ggtgttgatg atatcaggca ggccaggaat agggaagacc
1501 cacctcgcta gggaagtggc taagagaatc gcagcctccc tcacaggaga ccaacgtgtt
1561 ggtctcatcc cacgcaatgg cgtcgaccac tgggacgcgt ataaggggga aagggtcgtc
1621 ctatgggacg attacggaat gagcaaccct attcacgatg ccctcaggct gcaagaactc
1681 gctgacactt gccccctcac cctgaattgt gacaggattg aaaataaagg aaaggtcttt
1741 gacagtgatg tcatcattat caccaccaat ctggccaacc cagccccact ggactatgtc
1801 aactttgaag catgctcgag gcgcattgac ttcctcgtgt atgcagaagc ccctgatgtc
1861 gaaaaggcga agcgtgactt cccaggccag cctgacatgt ggaagaacgc tttcagttct
1921 gatttctcac acataaaact agcactggcc ccacagggtg gtttcgacaa gaacgggaac
1981 accccgcacg gaaagggcgt catgaagact ctcaccactg gctcccttat tgcccgtgca
2041 tcagggctac tccatgagag gttagatgaa tttgaactgc agggcccagc tctcaccacc
2101 ttcaatttcg atcgcaataa agtgcttgcc tttagacagc ttgccgctga aaataaatat
2161 ggattgatgg atactatgag ggttgggaaa cagctcaagg atgtcaaaac catgccagaa
2221 ctcaaacaag cactcaagaa tgtctcaatc aagaagtgtc aaatagtgta tagtggctgc
2281 acctacatgc ttgagtctga tggcaagggc aatgtgagag ttgacaggat ccaaagcgcc
2341 gccgtgcaga ccaacaatga gctgactggt gccctgcacc acttgaggtg cgccagaatc
2401 agatactatg tcaagtgtgt ccaggaagcc ctgtattcca tcattcaaat tgctggggct
2461 gcatttgtca ccacgcgcat tgccaagcgc atgaacatac aagacctatg gtccaagcca
2521 caagtggaaa acacagagga gactaccagc aaggacgggt gcccaaaacc taaggatgat
2581 gaggagtttg tcatttcatc cgacgatatc aaaactgagg gcaagaaagg gaagaacaag
2641 actggccgtg gtaagaagca cacagcattt tcaagcaaag gcctcagtga tgaagagtac
2701 gatgaataca aaaggatcag agaagaaaga aatggcaagt actctataga agaatacctt
2761 caggacaggg acaaatacta tgaagaggtg gccattgcca gagcgactga ggaagacttc
2821 tgtgaagagg aggaagccaa gatccgacaa aggattttta ggccaacaag gaaacaacgc
2881 aaggaggaaa gagtctctct cggtttggtc acaggttctg aaattaggaa aagaaaccca
2941 gatgacttca aacccaaggg gaaattgtgg gctgacgatg acaggaatgt ggattacaat
3001 gagaaactca gttttgaggc cccaccaagc atttggtcaa gaatagtcaa ctttggttca
3061 ggctggggat tctgggtctc ccccagcttg ttcataacat caacccatgt tataccccag
3121 ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtacacaa gtcaggcgag
3181 ttctgtcgct tgagattccc taaaccaatt aggactgatg tgacgggcat gatcttagaa
3241 gaaggcgcac ctgagggcac cgtggtcaca ctactcatca aaaggtccac tggggaactt
3301 atgcccctag cagctaggat gggaacccat gcgaccatga agatccaagg gcgcaccgtt
3361 gggggccaga tgggcatgct tctgacagga tccaacgcca aaagtatgga cctgggtacc
3421 acaccaggtg attgtggttg tccctacatc tacaagagag gtaatgacta tgtggtcatt
3481 ggagtccaca cggctgccgc acgtgggggg aacactgtca tatgtgccac ccaggggagt
3541 gaaggagagg ctacacttga gggtggcgac aacaagggga catactgtgg tgcaccaatc
3601 ctaggcccag ggagtgcccc aacactcagc accaagacca aattctggag gtcgtccaca
3661 gcatcgctcc cacctggcac ctatgaacca gcctatcttg gtggcaagga ccctagagtc
3721 aagggtggcc cttcactgca gcaagttatg agggaacagt tgaaaccatt cacagagccc
3781 aggggtaagc caccaaagcc aagtgtgtta gaggctgcca agaaaaccat cattaatgtc
3841 cttgagcaaa caattgatcc acctgagaaa tggtcgttcg cacaagcttg cgcgtctctt
3901 gacaagacca cttccagtgg tcacccgcac cacatgcgga aaaacgactg ctggaacggg
3961 gagtccttca caggcaagct agcagaccag gcttctaagg ccaacctgat gtttgaagaa
4021 gggaagaaca tgaccccagt ctacacagct gcgctcaagg atgagttagt taaaactgac
4081 aaaatttatg gtaagatcaa gaagaggctt ctttggggct cggacttggc gaccatggtc
4141 cggtgcgctc gagcattcgg aggcctaatg gatgaactca aagcgcactg tgtcacacta
4201 cccattagag ttggcatgaa tatgaatgag gatggaccca tcatcttcga gaggcatgcc
4261 aggtacacat accactatga tgctgattac tctcgatggg attcaacaca acagagagcc
4321 gtgttggcag cagctctaga aatcatggta aaattctccc cagaaccaca tttagctcag
4381 gtagttgctg aagacctcct ctctcctagc gtggtggacg tgggcgactt cacaatatca
4441 attaacgagg gtcttccctc tggggtgcct tgcacttccc aatggaactc catcgcccac
4501 tggctcctca ctctctgtgc gctctccgaa gtcacaaacc tgtctcctga taccatacaa
4561 gctaattctc tcttctcttt ttatggtgat gatgaaattg ttagcacaga tatcaaattg
4621 gacccagaga aattgacagc aaagctcaga gaatatgggt taaagccaac ccgccctgac
4681 aaaactgaag gaccccttgt catctctgaa gacctgaatg gcctaacctt cctgcggagg
4741 actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagttc aatactcagg
4801 caaatgtact ggactagggg tcccaaccat ggagacccat ctgaaacaat gattccacac
4861 tcccaaagac ccatacagtt gatgtcccta ttgggggagg ccgctctcca cggcccagca
4921 ttttacagta aaatcagtaa attggtcatt gcagagctaa aagaaggtgg tatggatttt
4981 tacgtgccca gacaagagcc aatgtttaga tggatgagat tctcagatct gagcacgtgg
5041 gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga gtgacgccaa
5101 cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg ttatggctct
5161 ggagcccgtt gttggtgccg ccattgcggc acctgtagcg ggccaacaaa acgtaattga
5221 cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag tgtcccccag
5281 aaacgctcca ggtgaaatac tatggagcgc gcccttaggc cctgatttaa atccctacct
5341 atcccatttg gccagaatgt ataatggtta tgcaggtggt tttgaagtgc aggtaattct
5401 cgcggggaac gcgttcaccg ccggaaaagt catatttgca gcagtcccac caaattttcc
5461 aactgaaggc ttgagcccta gccaggtcac tatgttcccc catatagtag tagatgttag
5521 gcaactagaa cctgtgttga tccccttacc cgatgttagg aacaatttct atcattataa
5581 ccaatcaaat gaccccacta ttaagttgat agcaatgttg tacacaccac ttagggctaa
5641 taatgctggg gacgatgtct tcacagtctc ttgccgagtt ctcacgagac catcccccga
5701 ttttgatttc atatttctag tgccacccac agttgagtct agaactaaac cattctctgt
5761 cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctc tggaaaagtt
5821 gttcacgggt cccagcagtg cctttgttgt ccaaccacag aacggtagat gcacgactga
5881 tggcgtgctc ttaggcacca cccaattgtc tcctgtcaac atctgcacat tcagagggga
5941 tgtcacccac attgcaggta gtcgcgtcta cagaatgaat ctggcttctc aaaattggaa
6001 caattatgac ccaacagaag aaatcccagc ccctctagga gctccagatt ttgtggggaa
6061 gattcaaggc gtgctcaccc aaaccacaag agcagatggc tcaacacgcg gccacaaagc
6121 tacggtgtac actgggagcg ccgactttgc tccaaaactg ggcagaattc aatttgaaac
6181 tgacacagac catgattttg aaactaacca aaacacaaag ttcaccccag tcggtgtcat
6241 ccaagatggc agcaccaccc accgaaatga accccaacag tgggtgctcc caagttactc
6301 aggcagaagc actcacaatg ttcatctggc ccccgctgta gcccctactt ttccgggtga
6361 gcaacttctc ttctttaggt ccactatgcc cggatgtagt gggtacccca acatggattt
6421 ggactgcctg ctcccccagg aatgggtgca gtacttctac caagaggcag ccccagcaca
6481 atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt tgtttgagtg
6541 taaacttcat aaatcaggct atgttacagt ggctcacact ggccaacatg atttggttat
6601 cccccccaat ggttatttta ggtttgattc ctgggttaac cagttctaca cacttgcccc
6661 catgggaaat ggaacggggc gtagacgtgt ggtataatgg ctggagcttt ctttgctgga
6721 ttagcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg ggctgtggcc
6781 atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcatc cttccaattt
6841 agcagtaatc tacaacaggc ttcttttcaa catgacaaag aaatgctcca agcacaaatt
6901 gaggccacca aaaagctaca acaggaaatg atgaaagtta agcaagcagt gctcctagag
6961 ggtgggttct ctgagacaga tgcagcccgc ggggcaatca acgcccccat gacaaaagct
7021 ttggactgga gcgggacaag gtactgggct cctgatgcta ggactacaac atacaattca
7081 ggccgctttt ccacccctca accatcgggg gcactgccag gaagatctaa tcttagggat
7141 gctttccctg ctcggggttc ctctggtaaa tcttttaact cttctactgc tacttctgtg
7201 tattcaaatc aaaccacttc aacgagactt ggttctacag ctggttctgg taccagtgtc
7261 tcgagtctcc cgtcgactgc aaggactagg agctgggttg aggatcaaaa caggaatttg
7321 tctcctttca tgaggggggc ccacaacata tcgtttgtca ccccaccatc tagcagatcc
7381 tctagccaag gcacagtctc aaccgtgcct aaagaggttt tggactcctg gactggcgct
7441 ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga gtcacgggtg
7501 taatgtgaaa agacaaaatt gattattttt ctttctcttt ctttagtgtc tttt
//