LOCUS C_AA014183 29771 bp ss-RNA linear VRL 11-MAY-2023
DEFINITION Severe acute respiratory syndrome coronavirus 2 isolate
SARS-CoV-2/human/CHN/SH-HG20230504-495/2023 ORF1ab polyprotein
(ORF1ab), ORF1a polyprotein (ORF1ab), surface glycoprotein (S),
ORF3a protein (ORF3a), envelope protein (E), membrane glycoprotein
(M), ORF6 protein (ORF6), ORF7a protein (ORF7a), and ORF7b (ORF7b)
genes, complete cds; ORF8 gene, complete sequence; and nucleocapsid
phosphoprotein (N) and ORF10 protein (ORF10) genes, complete cds.
ACCESSION C_AA014183
VERSION C_AA014183.1
KEYWORDS .
SOURCE Severe acute respiratory syndrome coronavirus 2
ORGANISM Severe acute respiratory syndrome coronavirus 2
Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Nidovirales; Cornidovirineae; Coronaviridae; Orthocoronavirinae;
Betacoronavirus; Sarbecovirus; Severe acute respiratory
syndrome-related coronavirus.
REFERENCE 1 (bases 1 to 29771)
AUTHORS Zhang,W.
TITLE Direct Submission
JOURNAL Submitted (11-MAY-2023) Microbe lab, Shanghai Municipal Center for
Disease Control & Prevention, west zhongshan road 1380, Shanghai
200336, China
COMMENT ##Genome-Assembly-Data-START##
Assembly Method :: Consensus sequence method v. 940-000133-00
Sequencing Technology :: MGISEQ-200
##Genome-Assembly-Data-END##
.
FEATURES Location/Qualifiers
source 1..29771
/organism="Severe acute respiratory syndrome coronavirus 2"
/mol_type="genomic RNA"
/isolate="SARS-CoV-2/human/CHN/SH-HG20230504-495/2023"
/isolation_source="Pharyngeal swab"
/host="Homo sapiens; Host_age: 25; Host_sex: Male"
/country="China:Shanghai"
/collection_date="2023-05-02"
/note="Passage_details/history: Original;
Additional_host_information: Patient infected while
traveling in the United Kingdom"
gene 242..21522
/gene="ORF1ab"
CDS join(242..13435,13435..21522)
/gene="ORF1ab"
/ribosomal_slippage
/codon_start=1
/product="ORF1ab polyprotein"
/protein_id="C_AAB29074.1"
/translation="MESLVPGFNEKTHVQLSLPVLQVRDVLVRGFGDSVEEVLSEARQH
LRDGTCGLVEVEKGVLPQLEQPYVFIKRSDARTAPHGHVMVELVAELEGIQYGRSGETL
GVLVPHVGEIPVAYRKVLLRKNGNKGAGGHRYGADLKSFDLGDELGTDPYEDFQENWNT
KHSSGVTRELMRELNGGAYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFI
DTKRGVYCCREHEHEIAWYTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSII
KTIQPRVEKKKLDGFMGRIRSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKAT
CEFCGTENLTKEGATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRK
GGRTIAFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEK
VNINIVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAK
KGAWNIGEQKSILSPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQY
SLRLIDAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKF
KEGVEFLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSII
IGGAKLKALNLGETFVTHSKGLYRKCVKSREETGLLMPLKAPKEIIFLEGETLPTEVLT
EEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPNMMVTNNT
FTLKGGAPTKVTFGDDTVIEVQGYKSVNIIFELDERIDKVLNEKCSAYTVELGTEVNEF
ACVVADAVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDED
EEEGDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVG
QQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEE
AKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSG
HNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCV
DTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQR
KQDDKKIKACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAP
YIVGDVVQEGVLTAVVIPTKKAGGXXXMLAKALRKVPTDNYITTYPGQGLNGYTVEEAK
TVLKKCKSAFYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLXXXXXXXXXXXXXX
XXKYKGIKIQEGVVDYGARFYFYTSKXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQS
TQLGIEFLKRGDKSVYYTSNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINL
HTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTT
DPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQD
AYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCG
QQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYE
LKHSTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYT
TTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCD
NIKFADDLNQLTGYKKPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVW
HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEV
VENPTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKP
NELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYM
PYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLIN
IIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIP
CSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAI
MQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCN
SSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTF
ISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVN
LDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGD
SAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGF
VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSARHIN
AQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIA
LKGGKIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTR
DIASTDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTT
NGDFLHFLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDT
NVLEGSVAYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAG
VCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLFTNMFTPLIQPIGALDISASIVAGGIVA
IVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFIVLCLTPVYSFLPGVYSVIYLYLT
FYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSF
STFEEAALCTFLLNKEMYLKLRSDVLLPFTQYNRYLALYNKYKYFSGAMDTTSYREAAC
CHLAKALNDFSNSGSDVLYQPPQISITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTL
NGLWLDDVVYCPRHVICTSEDMLNPNYEDLLIRKSNHNFLVQAGNVQLRVIGHSMQNCV
LKLKVDTANPKTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRHNFTIKGSFLNGSC
GSVGFNIDYDCVSFCYMHHMELPTGVHAGTDLEGNFYGPFVDRQTAQAAGTDTTITVNV
LAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLD
MCASLKELLQNGMNGRTILGSALLEDEFTPFDVVRQCSGVTFQSAVKRTIKGTHHWLLL
TILTSLLVLVQSTQWSLFFFLYENAFLPFAMGIIAMSAFAMMFVKHKHAFLCLFLLPSL
ATVAYFNMVYMPASWVMRIMTWLDMVDTSLKLKDCVMYASAVVLLILMTARTVYDDGAR
RVWTLMNVLTLVYKVYYGNALDQAISMWALIISVTSNYSGVVTTVMFLARGIVFMCVEY
CPIFFITGNTLQCIMLVYCFLGYFCTCYFGLFCLLNRYFRLTLGVYDYLVSTQEFRYMN
SQGLLPPKNSIDAFKLNIKLLGVGGKPCIKVATVQSKMSDVKCTSVVLLSVLQQLRVES
SSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLLSMQGAVDINKLCEEMLDNRATLQ
AIASEFSSLPSYAAFATAQEAYEQAVANGDSEVVLKKLKKSLNVAKSEFDRDAAMQRKL
EKMADQAMTQMYKQARSEDKRAKVTSAMQTMLFTMLRKLDNDALNNIINNARDGCVPLN
IIPLTTAAKLMVVIPDYNTYKNTCDGTTFTYASALWEIQQVVDADSKIVQLSEISMDNS
PNLAWPLIVTALRANSAVKLQNNELSPVALRQMSCAAGTTQTACTDDNALAYYNTIKGG
RFVLALLSDLQDLKWARFPKSDGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNL
NRGMVLGSLAATVRLQAGNATEVPANSTVLSFCAFAVDAAKAYKDYLASGGQPITNCVK
MLCTHTGTGQAITVTPEANMDQESFGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTT
CANDPVGFTLKNTVCTVCGMWKGYGCSCDQLREPMLQSADAQSFLNRVCGVSAARLTPC
GTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDNLIDSYFVVKRHTFSNYQ
HEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTMADLVYALRHFDEGNCD
TLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQALLKTVQFCDAMRNA
GIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPILTLTRALTAESHVD
TDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLDDRCILHCANFNVLF
STVFPLTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRLSFKELLVYAA
DPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSKGFFKEGSSV
ELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVI
VNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNR
ARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP
HLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGS
SLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYEC
LYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQ
NNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIV
KTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSVML
TNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDHV
IPTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLY
KNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIA
TVREVLSDRELHLSWEFGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYGDAVVY
RGTTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHYVRITGLYPTLNISDEFSSNVANYQ
KVGMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDK
CSRIIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVN
ARLCAKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAE
IVDTVSALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAW
RKAVFISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAI
TRAKVGILCIMSDRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKVITGLHPTQA
PTHLSVDTKFKTEGLCVDVPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRH
VRAWIGFDVEGCHATREAVGTNLPLQLGFSTGVNLVAVPTGYVDTPNNTDFSRVSAKPP
PGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKNLSDRVVFVLWAHGFELTSMKYFVK
IGPERTCCLCDRRATCFSTASDTYACWHHSIGFDYVYNPFMIDVQQWGFTGNLQSNHDL
YCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWTIEYPIIGDELKINAACRKVQHMVVK
AALLADKFPVLHDIGNPKAIKCVPQADVEWKFYDAQPCSDKAYKIEELFYSYATHSDKF
TDGVCLFWNCNVDRYPANSIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAF
VNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRLYL
DAYNMMISAGFSLWVYKQFDTYNLWNTFTRLQSLENVAFNVVNKGHFDGQQGEVPVSII
NNTVYTKVDGVDVELFENKTTLPVNVAFELWAKRNIKPVPEVKILNNLGVDIAANTVIW
DYKRDAPAHISTIGVCSMTDIAKKPIETICAPLTVFFDGRVDGQVDLFRNARNGVLITE
GSVKGLQPSVGPKQASLNGVTLIGEAVKTQFNYYKKVDGVVQQLPETYFTQSRNLQEFK
PRSQMEIDFLELAMDEFIERYKLEGYAFEHIVYGDFSHSQLGGLHLLIGLAKRFKESPF
ELEDFIPMDSTVKNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKSQDLSVVSKVVKVTI
DYTEISFMLWCKDGHVETFYPKLQSSQAWQPGVAMPNLYKMQRMLLEKCDLQNYGDSAT
LPKGIMMNVAKYTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGTAVLRQWLPTGTL
LVDSDLNDFVSDADSTLIGDCATVHTANKWDLIISDMYDPKTKNVTKENDSKEGFFTYI
CGFIQQKLALGGSVAIKITEHSWNADLYKLMGHFAWWTAFVTNVNASSSEAFLIGCNYL
GKPREQIDGYVMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSLKEGQINDMI
LSLLSKGRLIIRENNRVVISSDVLVNN"
mat_peptide 242..781
/gene="ORF1ab"
/product="leader protein"
mat_peptide 782..2695
/gene="ORF1ab"
/product="nsp2"
mat_peptide 2696..8530
/gene="ORF1ab"
/product="nsp3"
mat_peptide 8531..10030
/gene="ORF1ab"
/product="nsp4"
mat_peptide 10031..10948
/gene="ORF1ab"
/product="3C-like proteinase"
mat_peptide 10949..11809
/gene="ORF1ab"
/product="nsp6"
mat_peptide 11810..12058
/gene="ORF1ab"
/product="nsp7"
mat_peptide 12059..12652
/gene="ORF1ab"
/product="nsp8"
mat_peptide 12653..12991
/gene="ORF1ab"
/product="nsp9"
mat_peptide 12992..13408
/gene="ORF1ab"
/product="nsp10"
mat_peptide join(13409..13435,13435..16203)
/gene="ORF1ab"
/product="RNA-dependent RNA polymerase"
mat_peptide 16204..18006
/gene="ORF1ab"
/product="helicase"
mat_peptide 18007..19587
/gene="ORF1ab"
/product="3'-to-5' exonuclease"
mat_peptide 19588..20625
/gene="ORF1ab"
/product="endoRNAse"
mat_peptide 20626..21519
/gene="ORF1ab"
/product="2'-O-ribose methyltransferase"
CDS 242..13450
/gene="ORF1ab"
/codon_start=1
/product="ORF1a polyprotein"
/protein_id="C_AAB29077.1"
/translation="MESLVPGFNEKTHVQLSLPVLQVRDVLVRGFGDSVEEVLSEARQH
LRDGTCGLVEVEKGVLPQLEQPYVFIKRSDARTAPHGHVMVELVAELEGIQYGRSGETL
GVLVPHVGEIPVAYRKVLLRKNGNKGAGGHRYGADLKSFDLGDELGTDPYEDFQENWNT
KHSSGVTRELMRELNGGAYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFI
DTKRGVYCCREHEHEIAWYTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSII
KTIQPRVEKKKLDGFMGRIRSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKAT
CEFCGTENLTKEGATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRK
GGRTIAFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEK
VNINIVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAK
KGAWNIGEQKSILSPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQY
SLRLIDAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKF
KEGVEFLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSII
IGGAKLKALNLGETFVTHSKGLYRKCVKSREETGLLMPLKAPKEIIFLEGETLPTEVLT
EEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPNMMVTNNT
FTLKGGAPTKVTFGDDTVIEVQGYKSVNIIFELDERIDKVLNEKCSAYTVELGTEVNEF
ACVVADAVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDED
EEEGDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVG
QQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEE
AKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSG
HNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCV
DTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQR
KQDDKKIKACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAP
YIVGDVVQEGVLTAVVIPTKKAGGXXXMLAKALRKVPTDNYITTYPGQGLNGYTVEEAK
TVLKKCKSAFYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLXXXXXXXXXXXXXX
XXKYKGIKIQEGVVDYGARFYFYTSKXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQS
TQLGIEFLKRGDKSVYYTSNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINL
HTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTT
DPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQD
AYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCG
QQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYE
LKHSTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYT
TTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCD
NIKFADDLNQLTGYKKPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVW
HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEV
VENPTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKP
NELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYM
PYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLIN
IIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIP
CSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAI
MQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCN
SSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTF
ISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVN
LDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGD
SAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGF
VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSARHIN
AQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIA
LKGGKIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTR
DIASTDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTT
NGDFLHFLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDT
NVLEGSVAYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAG
VCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLFTNMFTPLIQPIGALDISASIVAGGIVA
IVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFIVLCLTPVYSFLPGVYSVIYLYLT
FYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSF
STFEEAALCTFLLNKEMYLKLRSDVLLPFTQYNRYLALYNKYKYFSGAMDTTSYREAAC
CHLAKALNDFSNSGSDVLYQPPQISITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTL
NGLWLDDVVYCPRHVICTSEDMLNPNYEDLLIRKSNHNFLVQAGNVQLRVIGHSMQNCV
LKLKVDTANPKTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRHNFTIKGSFLNGSC
GSVGFNIDYDCVSFCYMHHMELPTGVHAGTDLEGNFYGPFVDRQTAQAAGTDTTITVNV
LAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLD
MCASLKELLQNGMNGRTILGSALLEDEFTPFDVVRQCSGVTFQSAVKRTIKGTHHWLLL
TILTSLLVLVQSTQWSLFFFLYENAFLPFAMGIIAMSAFAMMFVKHKHAFLCLFLLPSL
ATVAYFNMVYMPASWVMRIMTWLDMVDTSLKLKDCVMYASAVVLLILMTARTVYDDGAR
RVWTLMNVLTLVYKVYYGNALDQAISMWALIISVTSNYSGVVTTVMFLARGIVFMCVEY
CPIFFITGNTLQCIMLVYCFLGYFCTCYFGLFCLLNRYFRLTLGVYDYLVSTQEFRYMN
SQGLLPPKNSIDAFKLNIKLLGVGGKPCIKVATVQSKMSDVKCTSVVLLSVLQQLRVES
SSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLLSMQGAVDINKLCEEMLDNRATLQ
AIASEFSSLPSYAAFATAQEAYEQAVANGDSEVVLKKLKKSLNVAKSEFDRDAAMQRKL
EKMADQAMTQMYKQARSEDKRAKVTSAMQTMLFTMLRKLDNDALNNIINNARDGCVPLN
IIPLTTAAKLMVVIPDYNTYKNTCDGTTFTYASALWEIQQVVDADSKIVQLSEISMDNS
PNLAWPLIVTALRANSAVKLQNNELSPVALRQMSCAAGTTQTACTDDNALAYYNTIKGG
RFVLALLSDLQDLKWARFPKSDGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNL
NRGMVLGSLAATVRLQAGNATEVPANSTVLSFCAFAVDAAKAYKDYLASGGQPITNCVK
MLCTHTGTGQAITVTPEANMDQESFGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTT
CANDPVGFTLKNTVCTVCGMWKGYGCSCDQLREPMLQSADAQSFLNGFAV"
mat_peptide 242..781
/gene="ORF1ab"
/product="leader protein"
mat_peptide 782..2695
/gene="ORF1ab"
/product="nsp2"
mat_peptide 2696..8530
/gene="ORF1ab"
/product="nsp3"
mat_peptide 8531..10030
/gene="ORF1ab"
/product="nsp4"
mat_peptide 10031..10948
/gene="ORF1ab"
/product="3C-like proteinase"
mat_peptide 10949..11809
/gene="ORF1ab"
/product="nsp6"
mat_peptide 11810..12058
/gene="ORF1ab"
/product="nsp7"
mat_peptide 12059..12652
/gene="ORF1ab"
/product="nsp8"
mat_peptide 12653..12991
/gene="ORF1ab"
/product="nsp9"
mat_peptide 12992..13408
/gene="ORF1ab"
/product="nsp10"
mat_peptide 13409..13447
/gene="ORF1ab"
/product="nsp11"
stem_loop 13443..13470
/gene="ORF1ab"
/note="Coronavirus frameshifting stimulation element
stem-loop 1"
stem_loop 13455..13509
/gene="ORF1ab"
/note="Coronavirus frameshifting stimulation element
stem-loop 2"
gene 21530..25339
/gene="S"
CDS 21530..25339
/gene="S"
/codon_start=1
/product="surface glycoprotein"
/protein_id="C_AAB29078.1"
/translation="MFVFLVLLPLVSSQCVNLITRTQSYTNSFTRGVYYPDKVFRSSVL
HSTQDLFLPFFSNVTWFHAIHVSGTNGTKRFDNPALPFNDGVYFASTEKSNIIRGWIFG
TTLDSKTQSLLIVNNATNVVIKVCEFQFCNDPFLDVYQKNNKSWMESEFRVYSSANNCT
FEYVSQPFLMDLEGKEGNFKNLREFVFKNIDGYFKIYSKHTPINLERDLPQGFSALEPL
VDLPIGINITRFQTLLALHRSYLTPVDSSSGWTAGAAAYYVGYLQPRTFLLKYNENGTI
TDAVDCALDPLSETKCTLKSFTVEKGIYQTSNFRVQPTESIVRFPNITNLCPFHEVFNA
TTFASVYAWNRKRISNCVADYSVIYNFAPFFAFKCYGVSPTKLNDLCFTNVYADSFVIR
GNEVSQIAPGQTGNIADYNYKLPDDFTGCVIAWNSNKLDSKPSGNYNYLYRLFRKSKLK
PFERDISTEIYQAGSTPCNGVEGFNCYSPLQSYGFRPTYGVGHQPYRVVVLSFELLHAP
ATVCGPKKSTNLVKNKCVNFNFNGLTGTGVLTESNKKFLPFQQFGRDIADTTDAVRDPQ
TLEILDITPCSFGGVSVITPGTNTSNQVAVLYQGVNCTEVPVAIHADQLTPTWRVYSTG
SNVFQTRAGCLIGAEYVNNSYECDIPIGAGICASYQTQTKSHRRARSVASQSIIAYTMS
LGAENSVAYSNNSIAIPTNFTISVTTEILPVSMTKTSVDCTMYICGDSTECSNLLLQYG
SFCTQLKRALTGIAVEQDKNTQEVFAQVKQIYKTPPIKYFGGFNFSQILPDPSKPSKRS
FIEDLLFNKVTLADAGFIKQYGDCLGDIAARDLICAQKFNGLTVLPPLLTDEMIAQYTS
ALLAGTITSGWTFGAGAALQIPFAMQMAYRFNGIGVTQNVLYENQKLIANQFNSAIGKI
QDSLSSTASALGKLQDVVNHNAQALNTLVKQLSSKFGAISSVLNDILSRLDKVEAEVQI
DRLITGRLQSLQTYVTQQLIRAAEIRASANLAATKMSECVLGQSKRVDFCGKGYHLMSF
PQSAPHGVVFLHVTYVPAQEKNFTTAPAICHDGKAHFPREGVFVSNGTHWFVTQRNFYE
PQIITTDNTFVSGNCDVVIGIVNNTVYDPLQPELDSFKEELDKYFKNHTSPDVDLGDIS
GINASVVNIQKEIDRLNEVAKNLNESLIDLQELGKYEQYIKWPWYIWLGFIAGLIAIVM
VTIMLCCMTSCCSCLKGCCSCGSCCKFDEDDSEPVLKGVKLHYT"
gene 25348..26175
/gene="ORF3a"
CDS 25348..26175
/gene="ORF3a"
/codon_start=1
/product="ORF3a protein"
/protein_id="C_AAB29079.1"
/translation="MDLFMRIFTIGTVTLKQGEIKDATPSDFVRATATIPIQASLPFGW
LIVGVALLAVFQSASKIITLKKRWQLALSKGVHFVCNLLLLFVTVYSHLLLVAAGFEAP
FLYLYALVYFLQSINFVRIIMRLWLCWKCRSKNPLLYDANYFLCWHTNCYDYCIPYNSV
TSSIVITSGDGTTSPISEHDYQIGGYTEKWESGVKDCVVLHSYFTSDYYQLYSTQLSTD
IGVEHVTFFIYNKIVDEPEEHVQIHTIDGSSGVVNPVMEPIYDEPTTTTSVPL"
gene 26200..26427
/gene="E"
CDS 26200..26427
/gene="E"
/codon_start=1
/product="envelope protein"
/protein_id="C_AAB29080.1"
/translation="MYSFVSEEIGALIVNSVLLFLAFVVFLLVTLAILTALRLCAYCCN
IVNVSLVKPSFYVYSRVKNLNSSRVPDLLV"
gene 26478..27146
/gene="M"
CDS 26478..27146
/gene="M"
/codon_start=1
/product="membrane glycoprotein"
/protein_id="C_AAB29081.1"
/translation="MADSNGTITVEELKKLLEEWNLVIGFLFLTWICLLQFAYANRNRF
LYIIKLIFLWLLWPVTLTCFVLAAVYRINWITGGIAIAMACLVGLMWLSYFIASFRLFA
RTRSMWSFNPETNILLNVPLHGTILTRPLLESELVIGAVILRGHLRIAGHHLGRCDIKD
LPKEITVATSRTLSYYKLGASQRVAGDSGFAAYSRYRIGNYKLNTDHSSSSDNIALLVQ
"
gene 27157..27342
/gene="ORF6"
CDS 27157..27342
/gene="ORF6"
/codon_start=1
/product="ORF6 protein"
/protein_id="C_AAB29082.1"
/translation="MFHLVDFQVTIAEILLIIMRTFKVSIWNLDYIINLIIKNLSKSLT
ENKYSQLDEEQPMEIL"
gene 27349..27714
/gene="ORF7a"
CDS 27349..27714
/gene="ORF7a"
/codon_start=1
/product="ORF7a protein"
/protein_id="C_AAB29083.1"
/translation="MKIILFLALITLATCELYHYQECVRGTTVLLKEPCSSGTYEGNSP
FHPLADNKFALTCFSTQFAFACPDGVKHVYQLRARSVSPKLFIRQEEVQELYSPIFLIV
AAIVFITLCFTLKRKTE"
gene 27711..27842
/gene="ORF7b"
CDS 27711..27842
/gene="ORF7b"
/codon_start=1
/product="ORF7b"
/protein_id="C_AAB29084.1"
/translation="MIELSLIDFYLCFLAFLLFLVLIMLIIFWFSLELQDHNETCHA"
gene 27849..28214
/gene="ORF8"
misc_feature 27849..28214
/gene="ORF8"
/note="similar to ORF8 protein"
gene 28229..29479
/gene="N"
CDS 28229..29479
/gene="N"
/codon_start=1
/product="nucleocapsid phosphoprotein"
/protein_id="C_AAB29075.1"
/translation="MSDNGPQNQRNALRITFGGPSDSTGSNQNGGARSKQRRPQGLPNN
TASWFTALTQHGKEDLKFPRGQGVPINTNSSPDDQIGYYRRATRRIRGGDGKMKDLSPR
WYFYYLGTGPEAGLPYGANKDGIIWVATEGALNTPKDHIGTRNPANNAAIVLQLPQGTT
LPKGFYAEGSRGGSQASSRSSSRSRNSSRNSTPGSSKRTSPARMAGNGGDAALALLLLD
RLNQLESKMSGKGQQQQGQTVTKKSAAEASKKPRQKRTATKAYNVTQAFGRRGPEQTQG
NFGDQELIRQGTDYKHWPQIAQFAPSASAFFGMSRIGMEVTPSGTWLTYTGAIKLDDKD
PNFKDQVILLNKHIDAYKTFPPTEPKKDKKKKADETQALPQRQKKQQTVTLLPAADLDD
FSKQLQQSMSRADSTQA"
gene 29504..29620
/gene="ORF10"
CDS 29504..29620
/gene="ORF10"
/codon_start=1
/product="ORF10 protein"
/protein_id="C_AAB29076.1"
/translation="MGYINVFAFPFTIYSLLLCRMNSRNYIAQVDVVNFNLT"
stem_loop 29555..29590
/gene="ORF10"
/note="Coronavirus 3' UTR pseudoknot stem-loop 1"
stem_loop 29575..29603
/gene="ORF10"
/note="Coronavirus 3' UTR pseudoknot stem-loop 2"
stem_loop 29674..29688
/note="Coronavirus 3' stem-loop II-like motif (s2m)"
ORIGIN
1 taacaaacca accaactttc gatctcttgt agatctgttc tctaaacgaa ctttaaaatc
61 tgtgtggctg tcactcggct gcatgcttag tgcactcacg cagtataatt aataactaat
121 tactgtcgtt gacaggacac gagtaactcg tctatcttct gcaggctgct tacggtttcg
181 tccgtgttgc agccgatcat cagcacatct aggttttgtc cgggtgtgac cgaaaggtaa
241 gatggagagc cttgtccctg gtttcaacga gaaaacacac gtccaactca gtttgcctgt
301 tttacaggtt cgcgacgtgc tcgtacgtgg ctttggagac tccgtggagg aggtcttatc
361 agaggcacgt caacatctta gagatggcac ttgtggctta gtagaagttg aaaaaggcgt
421 tttgcctcaa cttgaacagc cctatgtgtt catcaaacgt tcggatgctc gaactgcacc
481 tcatggtcat gttatggttg agctggtagc agaactcgaa ggcattcagt acggtcgtag
541 tggtgagaca cttggtgtcc ttgtccctca tgtgggcgaa ataccagtgg cttaccgcaa
601 ggttcttctt cgtaagaacg gtaataaagg agctggtggc cataggtacg gcgccgatct
661 aaagtcattt gacttaggcg acgagcttgg cactgatcct tatgaagatt ttcaagaaaa
721 ctggaacact aaacatagca gtggtgttac ccgtgaactc atgcgtgagc ttaacggagg
781 ggcatacact cgctatgtcg ataacaactt ctgtggccct gatggctacc ctcttgagtg
841 cattaaagac cttctagcac gtgctggtaa agcttcatgc actttgtccg aacaactgga
901 ctttattgac actaagaggg gtgtatactg ctgccgtgaa catgagcatg aaattgcttg
961 gtacacggaa cgttctgaaa agagctatga attgcagaca ccttttgaaa ttaaattggc
1021 aaagaaattt gacaccttca atggggaatg tccaaatttt gtatttccct taaattccat
1081 aatcaagact attcaaccaa gggttgaaaa gaaaaagctt gatggcttta tgggtagaat
1141 tcgatctgtc tatccagttg cgtcaccaaa tgaatgcaac caaatgtgcc tttcaactct
1201 catgaagtgt gatcattgtg gtgaaacttc atggcagacg ggcgattttg ttaaagccac
1261 ttgcgaattt tgtggcactg agaatttgac taaagaaggt gccactactt gtggttactt
1321 accccaaaat gctgttgtta aaatttattg tccagcatgt cacaattcag aagtaggacc
1381 tgagcatagt cttgccgaat accataatga atctggcttg aaaaccattc ttcgtaaggg
1441 tggtcgcact attgcctttg gaggctgtgt gttctcttat gttggttgcc ataacaagtg
1501 tgcctattgg gttccacgtg ctagcgctaa cataggttgt aaccatacag gtgttgttgg
1561 agaaggttcc gaaggtctta atgacaacct tcttgaaata ctccaaaaag agaaagtcaa
1621 catcaatatt gttggtgact ttaaacttaa tgaagagatc gccattattt tggcatcttt
1681 ttctgcttcc acaagtgctt ttgtggaaac tgtgaaaggt ttggattata aagcattcaa
1741 acaaattgtt gaatcctgtg gtaattttaa agttacaaaa ggaaaagcta aaaaaggtgc
1801 ctggaatatt ggtgaacaga aatcaatact gagtcctctt tatgcatttg catcagaggc
1861 tgctcgtgtt gtacgatcaa ttttctcccg cactcttgaa actgctcaaa attctgtgcg
1921 tgttttacag aaggccgcta taacaatact agatggaatt tcacagtatt cactgagact
1981 cattgatgct atgatgttca catctgattt ggctactaac aatctagttg taatggccta
2041 cattacaggt ggtgttgttc agttgacttc gcagtggcta actaacatct ttggcactgt
2101 ttatgaaaaa ctcaaacccg tccttgattg gcttgaagag aagtttaagg aaggtgtaga
2161 gtttcttaga gacggttggg aaattgttaa atttatctca acctgtgctt gtgaaattgt
2221 cggtggacaa attgtcacct gtgcaaagga aattaaggag agtgttcaga cattctttaa
2281 gcttgtaaat aaatttttgg ctttgtgtgc tgactctatc attattggtg gagctaaact
2341 taaagccttg aatttaggtg aaacatttgt cacgcactca aagggattgt acagaaagtg
2401 tgttaaatcc agagaagaaa ctggcctact catgcctcta aaagccccaa aagaaattat
2461 cttcttagag ggagaaacac ttcccacaga agtgttaaca gaggaagttg tcttgaaaac
2521 tggtgattta caaccattag aacaacctac tagtgaagct gttgaagctc cattggttgg
2581 tacaccagtt tgtattaacg ggcttatgtt gctcgaaatc aaagacacag aaaagtactg
2641 tgcccttgca cctaatatga tggtaacaaa caataccttc acactcaaag gcggtgcacc
2701 aacaaaggtt acttttggtg atgacactgt gatagaagtg caaggttaca agagtgtgaa