LOCUS C_AA060754 29393 bp ss-RNA linear VRL 11-MAR-2024
DEFINITION Severe acute respiratory syndrome coronavirus 2 isolate
SARS-CoV-2/human/CHN/HainanCDC20230753/2023 ORF1ab polyprotein
(ORF1ab) and ORF1a polyprotein (ORF1ab) genes, partial cds; 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_AA060754
VERSION C_AA060754.1
KEYWORDS .
SOURCE Severe acute respiratory syndrome coronavirus 2
ORGANISM Severe acute respiratory syndrome coronavirus 2
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Nidovirales; Cornidovirineae; Coronaviridae; Orthocoronavirinae;
Betacoronavirus; Sarbecovirus; Severe acute respiratory
syndrome-related coronavirus.
REFERENCE 1 (bases 1 to 29393)
AUTHORS Cui,l.
TITLE Direct Submission
JOURNAL Submitted (11-MAR-2024) Microbiology laboratory, HainanCDC, No.40,
Haifu Road, Meilan District, Haikou, Hainan 570203, China
COMMENT ##Genome-Assembly-Data-START##
Assembly Method :: IPH-NANO v. 1.12
Sequencing Technology :: Nanopore
##Genome-Assembly-Data-END##
.
FEATURES Location/Qualifiers
source 1..29393
/organism="Severe acute respiratory syndrome coronavirus 2"
/mol_type="genomic RNA"
/isolate="SARS-CoV-2/human/CHN/HainanCDC20230753/2023"
/host="Homo sapiens; Host_age: Unknown"
/country="China:Hainan,Haikou"
/collection_date="2023-12-13"
gene <1..21233
/gene="ORF1ab"
CDS join(<1..13146,13146..21233)
/gene="ORF1ab"
/ribosomal_slippage
/codon_start=1
/product="ORF1ab polyprotein"
/protein_id="C_AAG31585.1"
/translation="SLPVLQVRDVLVRGFGDSVEEVLSEARQHLRDGTCGLVEVEKGVL
PQLEQPYVFIKRSDARTAPHGHVMVELVAELEGIQYGRSGETLGVLVPHVGEIPVAYRK
VLLRKNGNKGAGGHRYGADLKSFDLGDELGTDPYEDFQENWNTKHSSGVTRELMRELNG
GAYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEI
AWYTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFM
GRIRSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATT
CGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVG
CHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIA
IILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPL
YAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITIXDGISQYSLRLIDAMMFTSDLAT
NNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKF
ISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFV
THSKGLYRKCVKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQP
TSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGGAPTKVTFGDD
TVIEVQGYKSVNIIFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADAVIKTLQPVS
ELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEEEEFEPSTQ
YEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQTTTIQTI
VEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVY
LKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVN
KGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNL
YDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTT
TLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVLTAVV
IPTKKASGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYILPSI
ISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDY
GARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSV
SSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVY
YTSNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFG
PTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTK
KWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCAL
ILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMG
TLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNY
QCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCT
EIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKK
PASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTW
CIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVK
TTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHG
LAAVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRS
TNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLI
YSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPS
LETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNS
WLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRV
ECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRP
INPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPIN
VIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTF
SSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKL
SHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVK
DFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKGGKIVNNWLKQLIK
VTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADF
DTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVG
NICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDT
RYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYY
RSLPGVFCGVDAVNLFTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRA
FGEYSHVVAFNTLLFLMSFIVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWM
VMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKE
MYLKLRSDVLLPFTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSGSD
VLYQPPQISITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDVVYCPRHVI
CTSEDMLNPNYEDLLIRKSNHNFLVQAGNVQLRVIGHSMQNCVLKLKVDTANPKTPKYK
FVRIQPGQTFSVLACYNGSPSGVYQCAMRHNFTIKGSFLNGSCGSVGFNIDYDCVSFCY
MHHMELPTGVHAGTDLEGNFYGPFVDRQTAQAAGTDTTITVNVLAWLYAAVINGDRWFL
NRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCASLKELLQNGMNGR
TILGSALLEDEFTPFDVVRQCSGVTFQSAVKRTIKGTHHWLLLTILTSLLVLVQSTQWS
LFFFLYENAFLPFAMGIIAMSAFAMMFVKHKHAFLCLFLLPSLATVAYFNMVYMPASWV
MRIMTWLDMVDTSLKLKDCVMYASAVVLLILMTARTVYDDGARRVWTLMNVLTLVYKVY
YGNALDQAISMWALIISVTSNYSGVVTTVMFLARGIVFMCVEYCPIFFITGNTLQCIML
VYCFLGYFCTCYFGLFCLLNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKNSIDAFKL
NIKLLGVGGKPCIKVATVQSKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDIL
LAKDTTEAFEKMVSLLSVLLSMQGAVDINKLCEEMLDNRATLQAIASEFSSLPSYAAFA
TAQEAYEQAVANGDSEVVLKKLKKSLNVAKSEFDRDAAMQRKLEKMADQAMTQMYKQAR
SEDKRAKVTSAMQTMLFTMLRKLDNDALXNIINNARDGCVPLNIIPLTTASKLMVVIPD
YNTYKNTCDGTTFTYASALWEIQQVVDADSKIVQLSEISMDNSPNLAWPLIVTALRANS
AVKLQNNELSPVALRQMSCAAGTTQTACTDDNALAYYNTTKGGRFVLALLSDLQDLKWA
RFPKSDGTGTXYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQ
AGNATEVPANSTVLSFCAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXYRAFDIY
NDKVAGFAKFLKTNCCRFQEKDEDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVA
KHDFFKFRIDGDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDY
FNKKDWYDFVENPDILRVYANLGERVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGN
WYDFGDFIQTTPGSGVPVVDSYYSLLMPILTLTRALTAESHVDTDLTKPYIKWDLLKYD
FTEERLKLFDRYFKYWDQTYHPNCVNCLDDRCILHCANFNVLFSTVFPLTSFGPLVRKI
FVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKR
TTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAIS
DYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWG
KARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNR
QFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPN
MLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGSSLYVKPGGTSSGDATT
AYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDTDFVNEFY
AYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEAKCWTETDL
TKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAI
DAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSVMLTNDNTSRYWEPEFYEA
MYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDHVIPTSHKLVLSVNPYVC
NAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLYKNTCVGSDNVTDFNAI
ATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIATVREVLSDRELHLSWE
VGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYRGTTTYKLNVGDYFVL
TSHTVMPLSAPTLVPQEHYVRITGLYPTLNISDEFSSNVANYQKVGMQKYSTLQGPPGT
GKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCSRIIPARARVECFDK
FKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARLCAKHYVYIGDPAQ
LPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDTVSALVYDNKLKA
HKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAWRKAVFISPYNSQNAVA
SKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRAKVGILCIMSDRDL
YDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKVITGLHPTQAPTHLSVDTKFKTEGLC
VDXPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGFDVEGCHATR
EAVGTNLPLQLGFSTGVNLVAVPTGYVDTPNNTDFSRVSAKPPPGDQFKHLIPLMYKGL
PWNVVRIKIVQMLSDTLKNLSDRVVFVLWAHGFELTSMKYFVKIGPERTCCLCDRRATC
FSTASDTYACWHHSIGFDYVYNPFMIDVQQWGFTGNLQSNHDLYCQVHGNAHVASCDAI
MTRCLAVHECFVKRVDWTIEYPIIGDELKINAACRKVQHMVVKAALLADKFPVLHDIGN
PKAIKCVPQADVEWKFYDAQPCSDKAYKIEELFYSYATHSDKFTDGVCLFWNCNVDRYP
ANSIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFVNLKQLPFFYYSDSPC
ESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRLYLDAYNMMISAGFSLWVY
KQFDTYNLWNTFTRLQSLENVAFNVVNKGHFDGQQGEVPVSIINNTVYTKVDGVDVELF
ENKTTLPVNVAFELWAKRNIKPVPEVKILNNLGVDIAANTVIWDYKRDAPAHISTIGVC
SMTDIAKKPIETICAPLTVFFDGRVDGQVDLFRNARNGVLITEGSVKGLQPSVGPKQAS
LNGVTLIGEAVKTQFNYYKKVDGVVQQLPETYFTQSRNLQEFKPRSQMEIDFLELAMDE
FIERYKLEGYAFEHIVYGDFSHSQLGGLHLLIGLAKRFKESPFELEDFIPMDSTVKNYF
ITDAQTGSSKCVCSVIDLLLDDFVEIIKSQDLSVVSKVVKVTIDYTEISFMLWCKDGHV
ETFYPKLQSSQAWQPGVAMPNLYKMQRMLLEKCDLQNYGDSATLPKGIMMNVAKYTQLC
QYLNTLTLAVPYNMRVIHFGAGSDKGVAPGTAVLRQWLPTGTLLVDSDLNDFVSDADST
LIGDCATVHTANKWDLIISDMYDPKTKNVTKENDSKEGFFTYICGFIQQKLALGGSVAI
KITEHSWNADLYKLMGHFAWWTAFVTNVNASSSEAFLIGCNYLGKPREQIDGYVMHANY
IFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSLKEGQINDMILSLLSKGRLIIRENNR
VVISSDVLVNN"
mat_peptide <1..492
/gene="ORF1ab"
/product="leader protein"
mat_peptide 493..2406
/gene="ORF1ab"
/product="nsp2"
mat_peptide 2407..8241
/gene="ORF1ab"
/product="nsp3"
mat_peptide 8242..9741
/gene="ORF1ab"
/product="nsp4"
mat_peptide 9742..10659
/gene="ORF1ab"
/product="3C-like proteinase"
mat_peptide 10660..11520
/gene="ORF1ab"
/product="nsp6"
mat_peptide 11521..11769
/gene="ORF1ab"
/product="nsp7"
mat_peptide 11770..12363
/gene="ORF1ab"
/product="nsp8"
mat_peptide 12364..12702
/gene="ORF1ab"
/product="nsp9"
mat_peptide 12703..13119
/gene="ORF1ab"
/product="nsp10"
mat_peptide join(13120..13146,13146..15914)
/gene="ORF1ab"
/product="RNA-dependent RNA polymerase"
mat_peptide 15915..17717
/gene="ORF1ab"
/product="helicase"
mat_peptide 17718..19298
/gene="ORF1ab"
/product="3'-to-5' exonuclease"
mat_peptide 19299..20336
/gene="ORF1ab"
/product="endoRNAse"
mat_peptide 20337..21230
/gene="ORF1ab"
/product="2'-O-ribose methyltransferase"
CDS <1..>12755
/gene="ORF1ab"
/codon_start=1
/product="ORF1a polyprotein"
/protein_id="C_AAG31588.1"
/translation="SLPVLQVRDVLVRGFGDSVEEVLSEARQHLRDGTCGLVEVEKGVL
PQLEQPYVFIKRSDARTAPHGHVMVELVAELEGIQYGRSGETLGVLVPHVGEIPVAYRK
VLLRKNGNKGAGGHRYGADLKSFDLGDELGTDPYEDFQENWNTKHSSGVTRELMRELNG
GAYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEI
AWYTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFM
GRIRSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATT
CGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVG
CHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIA
IILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPL
YAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITIXDGISQYSLRLIDAMMFTSDLAT
NNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKF
ISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFV
THSKGLYRKCVKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQP
TSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGGAPTKVTFGDD
TVIEVQGYKSVNIIFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADAVIKTLQPVS
ELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEEEEFEPSTQ
YEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQTTTIQTI
VEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVY
LKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVN
KGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNL
YDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTT
TLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVLTAVV
IPTKKASGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYILPSI
ISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDY
GARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSV
SSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVY
YTSNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFG
PTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTK
KWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCAL
ILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMG
TLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNY
QCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCT
EIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKK
PASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTW
CIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVK
TTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHG
LAAVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRS
TNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLI
YSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPS
LETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNS
WLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRV
ECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRP
INPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPIN
VIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTF
SSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKL
SHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVK
DFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKGGKIVNNWLKQLIK
VTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADF
DTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVG
NICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDT
RYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYY
RSLPGVFCGVDAVNLFTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRA
FGEYSHVVAFNTLLFLMSFIVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWM
VMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKE
MYLKLRSDVLLPFTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSGSD
VLYQPPQISITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDVVYCPRHVI
CTSEDMLNPNYEDLLIRKSNHNFLVQAGNVQLRVIGHSMQNCVLKLKVDTANPKTPKYK
FVRIQPGQTFSVLACYNGSPSGVYQCAMRHNFTIKGSFLNGSCGSVGFNIDYDCVSFCY
MHHMELPTGVHAGTDLEGNFYGPFVDRQTAQAAGTDTTITVNVLAWLYAAVINGDRWFL
NRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCASLKELLQNGMNGR
TILGSALLEDEFTPFDVVRQCSGVTFQSAVKRTIKGTHHWLLLTILTSLLVLVQSTQWS
LFFFLYENAFLPFAMGIIAMSAFAMMFVKHKHAFLCLFLLPSLATVAYFNMVYMPASWV
MRIMTWLDMVDTSLKLKDCVMYASAVVLLILMTARTVYDDGARRVWTLMNVLTLVYKVY
YGNALDQAISMWALIISVTSNYSGVVTTVMFLARGIVFMCVEYCPIFFITGNTLQCIML
VYCFLGYFCTCYFGLFCLLNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKNSIDAFKL
NIKLLGVGGKPCIKVATVQSKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDIL
LAKDTTEAFEKMVSLLSVLLSMQGAVDINKLCEEMLDNRATLQAIASEFSSLPSYAAFA
TAQEAYEQAVANGDSEVVLKKLKKSLNVAKSEFDRDAAMQRKLEKMADQAMTQMYKQAR
SEDKRAKVTSAMQTMLFTMLRKLDNDALXNIINNARDGCVPLNIIPLTTASKLMVVIPD
YNTYKNTCDGTTFTYASALWEIQQVVDADSKIVQLSEISMDNSPNLAWPLIVTALRANS
AVKLQNNELSPVALRQMSCAAGTTQTACTDDNALAYYNTTKGGRFVLALLSDLQDLKWA
RFPKSDGTGTXYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQ
AGNATEVPANSTVLSFCA"
mat_peptide <1..492
/gene="ORF1ab"
/product="leader protein"
mat_peptide 493..2406
/gene="ORF1ab"
/product="nsp2"
mat_peptide 2407..8241
/gene="ORF1ab"
/product="nsp3"
mat_peptide 8242..9741
/gene="ORF1ab"
/product="nsp4"
mat_peptide 9742..10659
/gene="ORF1ab"
/product="3C-like proteinase"
mat_peptide 10660..11520
/gene="ORF1ab"
/product="nsp6"
mat_peptide 11521..11769
/gene="ORF1ab"
/product="nsp7"
mat_peptide 11770..12363
/gene="ORF1ab"
/product="nsp8"
mat_peptide 12364..12702
/gene="ORF1ab"
/product="nsp9"
mat_peptide 12703..>12755
/gene="ORF1ab"
/product="nsp10"
stem_loop <13211..13220
/gene="ORF1ab"
/note="Coronavirus frameshifting stimulation element
stem-loop 2"
gene 21241..25053
/gene="S"
CDS 21241..25053
/gene="S"
/codon_start=1
/product="surface glycoprotein"
/protein_id="C_AAG31589.1"
/translation="MFVFLVLLPLVSSQCVNLITRTQSYTNSFTRGVYYPDKVFRSSVL
HSTQDLFLPFFSNVTWFHAIHVSGTNGTKRFDNPALPFNDGVYFASTEKSNIIRGWIFG
TTLDSKTQSLLIVNNATNVVIKVCEFQFCNDPFLDVYYXKNNKSWMESEFRVYSSANNC
TFEYVSQPFLMDLEGKEGNFKNLREFVFKNIDGYFKIYSKHTPINLERDLPQGFSALEP
LVDLPIGINITRFQTLLALHRSYLTPVDSSSGWTAGAAAYYVGYLQPRTFLLKYNENGT
ITDAVDCALDPLSETKCTLKSFTVEKGIYQTSNFRVQPTESIVRFPNITNLCPFHEVFN
ATTFASVYAWXRKRISNCVADYSVIYNFAPFFAFKCYGVSPTKLNDLCFTNVYADSFVI
RGNEVSQIAPGQTGNIADYNYKLPDDFTGCVIAWNSNKLDSKPSGNYNYLYRFLRKSKL
KPFERDISTEIYQVGNKPCNGVAGPNCYSPLQSYGFRPTYGVGHQPYRVVVLSFELLHA
PATVCGPKKSTNLVKNKCVNFNFNGLTGTGVLTESNKKFLPFQQFGRDIADTIDAVRDP
QTLEILDITPCSFGGVSVITPGTNTSNQVAVLYQGVNCTEVPVAIHADQLTPTWRVYST
GSNVFQTRAGCLIGAEYVNNSYECDIPIGAGICASYQTQTKSHXRARSVASQSIIAYTM
SLGAENLVAYSNNSIAIPTNFTISVTTEILPVSMTKTSVDCTMYICGDSTECSNLLLQY
GSFCTQLKRALTGIAVEQDKNTQEVFAQVKQIYKTPPIKYFGGFNFSQILPDPSKPSKR
SFIEDLLFNKVTLADAGFIKQYGDCLGDIAARDLICAQKFNGLTVLPPLLTDEMIAQYT
SALLAGTITSGWTFGAGAALQIPFAMQMAYRFNGIGVTQNVLYENQKLIANQFNSAIGK
IQDSLSSTASALGKLQDVVNHNAQALNTLVKQLSSKFGAISSVLNDILSRLDKVEAEVQ
IDRLITGRLQSLQTYVTQQLIRAAEIRASANLAATKMSECVLGQSKRVDFCGKGYHLMS
FPQSAPHGVVFLHVTYVPAQEKNFTTAPAICHDGKAHFPREGVFVSNGTHWFVTQRNFY
EPQIITTDNTFVSGNCDVVIGIVNNTVYDPLQPELDSFKEELDKYFKNHTSPDVDLGDI
SGINASVVNIQKEIDRLNEVAKNLNESLIDLQELGKYEQYIKWPWYIWLGFIAGLIAIV
MVTIMLCCMTSCCSCLKGCCSCGSCCKFDEDDSEPVLKGVKLHYT"
gene 25062..25889
/gene="ORF3a"
CDS 25062..25889
/gene="ORF3a"
/codon_start=1
/product="ORF3a protein"
/protein_id="C_AAG31590.1"
/translation="MDLFMRIFTIGTVTLKQGEIKDATPSDFVRATATIPIQASLPFGW
LIVGVALLAVFQSASKIITLKKRWQLALSKGVHFVCNLLLLFVIVYSHLLLVAAGLEAP
FLYLYALVYFLQSINFVRIIMRLWLCWKCRSKNPLLYDANYFLCWHTNCYDYCIPYNSV
TSSIVITSGDGTTSPISEHDYQIGGYTEKWESGVKDCVVLHSYFTSDYYQLYSTQLSTD
IGVEHVTFFIYNKIVDEPEEHVQIHTIDGSSGVVNPVMEPIYDEPTTTTSVPL"
gene 25914..26141
/gene="E"
CDS 25914..26141
/gene="E"
/codon_start=1
/product="envelope protein"
/protein_id="C_AAG31591.1"
/translation="MYSFVSEEIGALIVNSVLLFLAFVVFLLVTLAILTALRLCAYCCN
IVNVSLVKPSFYVYSRVKNLNSSRVPDLLV"
gene 26192..26860
/gene="M"
CDS 26192..26860
/gene="M"
/codon_start=1
/product="membrane glycoprotein"
/protein_id="C_AAG31592.1"
/translation="MADSNGTITVEELKKLLEEWNLVIGFLFLTWICLLQFAYANRNRF
LYIIKLIFLWLLWPVTLTCFVLAAVYRINWITGGIAIAMACLVGLMWLSYFIASFRLFA
RTRSMWSFNPETNILLNVPLHGTILTRPLLESELVIGAVILRGHLRIAGHHLGRCDIKD
LPKEITVATSRTLSYYKLGASQRVAGDSGFAAYSRYRIGNYKLNTDHSSSSDNIALLVQ
"
gene 26871..27056
/gene="ORF6"
CDS 26871..27056
/gene="ORF6"
/codon_start=1
/product="ORF6 protein"
/protein_id="C_AAG31593.1"
/translation="MFHLVDFQVTIAEILLIIMRTFKVSIWNLDYIINLIIKNLSKSLT
ENKYSQLDEEQPMEIL"
gene 27063..27428
/gene="ORF7a"
CDS 27063..27428
/gene="ORF7a"
/codon_start=1
/product="ORF7a protein"
/protein_id="C_AAG31594.1"
/translation="MKIILFLALITLATCELYHYQECVRGTTVLLKEPCSSGTYEGNSP
FHPLADNKFALTCFSTQFAFACPDGVKHVYQLRARSVSPKLFIRQEEVQELYSPIFLIV
AAIVFITLCFTLKRKTE"
gene 27425..27556
/gene="ORF7b"
CDS 27425..27556
/gene="ORF7b"
/codon_start=1
/product="ORF7b"
/protein_id="C_AAG31595.1"
/translation="MIELSLIDFYLCFLAFLLFLVLIMLIIFWFSLELQDHNETCHA"
gene 27563..27928
/gene="ORF8"
misc_feature 27563..27928
/gene="ORF8"
/note="similar to ORF8 protein"
gene 27943..29193
/gene="N"
CDS 27943..29193
/gene="N"
/codon_start=1
/product="nucleocapsid phosphoprotein"
/protein_id="C_AAG31586.1"
/translation="MSDNGPQNQRNALRITFGGPSDSTGSNQNGGARSKQRRPQGLPNN
TASWFTALTQHGKEDLKFPRGQGVPINTNSSPDDQIGYYRRATRRIRGGDGKMKDLSPR
WYXYYLGTGPEAGLPYGANKDGIIWVATEGALNTPKDHIGTRNPANNAAIVLQLPQGTT
LPKGFYAEGSRGGSQASSRSSSRSRNSSRNSTPGSSKRTSPARMAGNGGDAALALLLLD
RLNQLESKMSGKGQQQQGQTVTKKSAAEASKKPRQKRTATKAYNVTQAFGRRGPEQTQG
NFGDQELIRQGTDYKHWPQIAQFAPSASAFFGMSRIGMEVTPSGTWLTYTGAIKLDDKD
PNFKDQVILLNKHIDAYKTFPPTEPKKDKKKKADETQALPQRQKKQQTVTLLPAADLDD
FSKQLQQSMSRADSTQA"
gene 29218..29334
/gene="ORF10"
CDS 29218..29334
/gene="ORF10"
/codon_start=1
/product="ORF10 protein"
/protein_id="C_AAG31587.1"
/translation="MGYINVFAFPFTIYSLLLCRMNSRNYIAQVDVVNFNLT"
stem_loop 29269..29304
/gene="ORF10"
/note="Coronavirus 3' UTR pseudoknot stem-loop 1"
stem_loop 29289..29317
/gene="ORF10"
/note="Coronavirus 3' UTR pseudoknot stem-loop 2"
stem_loop 29388..>29393
/note="Coronavirus 3' stem-loop II-like motif (s2m)"
ORIGIN
1 agtttgcctg ttttacaggt tcgcgacgtg ctcgtacgtg gctttggaga ctccgtggag
61 gaggtcttat cagaggcacg tcaacatctt agagatggca cttgtggctt agtagaagtt
121 gaaaaaggcg ttttgcctca acttgaacag ccctatgtgt tcatcaaacg ttcggatgct
181 cgaactgcac ctcatggtca tgttatggtt gagctggtag cagaactcga aggcattcag
241 tacggtcgta gtggtgagac acttggtgtc cttgtccctc atgtgggcga aataccagtg
301 gcttaccgca aggttcttct tcgtaagaac ggtaataaag gagctggtgg ccataggtac
361 ggcgccgatc tcaagtcatt tgacttaggc gacgagcttg gcactgatcc ttatgaagat
421 tttcaagaaa actggaacac taaacatagc agtggtgtta cccgtgaact catgcgtgag
481 cttaacggag gggcatacac tcgctatgtc gataacaact tctgtggccc tgatggctac
541 cctcttgagt gcattaaaga ccttctagca cgtgctggta aagcttcatg cactttgtcc
601 gaacaactgg actttattga cactaagagg ggtgtatact gctgccgtga acatgagcat
661 gaaattgctt ggtacacgga acgttctgaa aagagctatg aattgcagac accttttgaa
721 attaaattgg caaagaaatt tgacaccttc aatggggaat gtccaaattt tgtatttccc
781 ttaaattcca taatcaagac tattcaacca agggttgaaa agaaaaagct tgatggcttt
841 atgggtagaa ttcgatctgt ctatccagtt gcgtcaccaa atgaatgcaa ccaaatgtgc
901 ctttcaactc tcatgaagtg tgatcattgt ggtgaaactt catggcagac gggcgatttt
961 gttaaagcca cttgcgaatt ttgtggcact gagaatttga ctaaagaagg tgccactact
1021 tgtggttact taccccaaaa tgctgttgtt aaaatttatt gtccagcatg tcacaattca
1081 gaagtaggac ctgagcatag tcttgccgaa taccataatg aatctggctt gaaaaccatt
1141 cttcgtaagg gtggtcgcac tattgccttt ggaggctgtg tgttctctta tgttggttgc
1201 cataacaagt gtgcctattg ggttccacgt gctagcgcta acataggttg taaccataca
1261 ggtgttgttg gagaaggttc cgaaggtctt aatgacaacc ttcttgaaat actccaaaaa
1321 gagaaagtca acatcaatat tgttggtgac tttaaactta atgaagagat cgccattatt
1381 ttggcatctt tttctgcttc cacaagtgct tttgtggaaa ctgtgaaagg tttggattat
1441 aaagcattca aacaaattgt tgaatcctgt ggtaatttta aagttacaaa aggaaaagct
1501 aaaaaaggtg cctggaatat tggtgaacag aaatcaatac tgagtcctct ttatgcattt
1561 gcatcagagg ctgctcgtgt tgtacgatca attttctccc gcactcttga aactgctcaa
1621 aattctgtgc gtgttttaca gaaggccgct ataacaatan tagatggaat ttcacagtat
1681 tcactgagac tcattgatgc tatgatgttc acatctgatt tggctactaa caatctagtt
1741 gtaatggcct acattacagg tggtgttgtt cagttgactt cgcagtggct aactaacatc
1801 tttggcactg tttatgaaaa actcaaaccc gtccttgatt ggcttgaaga gaagtttaag
1861 gaaggtgtag agtttcttag agacggttgg gaaattgtta aatttatctc aacctgtgct
1921 tgtgaaattg tcggtggaca aattgtcacc tgtgcaaagg aaattaagga gagtgttcag
1981 acattcttta agcttgtaaa taaatttttg gctttgtgtg ctgactctat cattattggt
2041 ggagctaaac ttaaagcctt gaatttaggt gaaacatttg tcacgcactc aaagggattg
2101 tacagaaagt gtgttaaatc cagagaagaa actggcctac tcatgcctct aaaagcccca
2161 aaagaaatta tcttcttaga gggagaaaca cttcccacag aagtgttaac agaggaagtt
2221 gtcttgaaaa ctggtgattt acaaccatta gaacaaccta ctagtgaagc tgttgaagct
2281 ccattggttg gtacaccagt ttgtattaac gggcttatgt tgctcgaaat caaagacaca
2341 gaaaagtact gtgcccttgc acctaatatg atggtaacaa acaatacctt cacactcaaa
2401 ggcggtgcac caacaaaggt tacttttggt gatgacactg tgatagaagt gcaaggttac
2461 aagagtgtga atatcatttt tgaacttgat gaaaggattg ataaagtact taatgagaag
2521 tgctctgcct atacagttga actcggtaca gaagtaaatg agttcgcctg tgttgtggca
2581 gatgctgtca taaaaacttt gcaaccagta tctgaattac ttacaccact gggcattgat
2641 ttagatgagt ggagtatggc tacatactac ttatttgatg agtctggtga gtttaaattg
2701 gcttcacata tgtattgttc tttttaccct ccagatgagg atgaagaaga aggtgattgt
2761 gaagaagaag agtttgagcc atcaactcaa tatgagtatg gtactgaaga tgattaccaa
2821 ggtaaacctt tggaatttgg tgccacttct gctgctcttc aacctgaaga agagcaagaa
2881 gaagattggt tagatgatga tagtcaacaa actgttggtc aacaagacgg cagtgaggac
2941 aatcagacaa ctactattca aacaattgtt gaggttcaac ctcaattaga gatggaactt
3001 acaccagttg ttcagactat tgaagtgaat agttttagtg gttatttaaa acttactgac
3061 aatgtataca ttaaaaatgc agacattgtg gaagaagcta aaaaggtaaa accaacagtg
3121 gttgttaatg cagccaatgt ttaccttaaa catggaggag gtgttgcagg agccttaaat
3181 aaggctacta acaatgccat gcaagttgaa tctgatgatt acatagctac taatggacca
3241 cttaaagtgg gtggtagttg tgttttaagc ggacacaatc ttgctaaaca ctgtcttcat
3301 gttgtcggcc caaatgttaa caaaggtgaa gacattcaac ttcttaagag tgcttatgaa
3361 aattttaatc agcacgaagt tctacttgca ccattattat cagctggtat ttttggtgct
3421 gaccctatac attctttaag agtttgtgta gatactgttc gcacaaatgt ctacttagct
3481 gtctttgata aaaatctcta tgacaaactt gtttcaagct ttttggaaat gaagagtgaa
3541 aagcaagttg aacaaaagat cgctgagatt cctaaagagg aagttaagcc atttataact