LOCUS DF974033 176397 bp DNA linear CON 02-DEC-2021
DEFINITION Trifolium subterraneum DNA, scaffold: Tsud_sc00765.00.
ACCESSION DF974033 BCLP01000000
VERSION DF974033.1
DBLINK BioProject:PRJDB2012
Sequence Read Archive:DRR018263, DRR018264, DRR032035, DRR032036,
DRR032037, DRR032038, DRR032039, DRR032040, DRR032041, DRR032042,
DRR032043
BioSample:SAMD00004201
KEYWORDS WGS; IMPROVED_HIGH_QUALITY_DRAFT.
SOURCE Trifolium subterraneum
ORGANISM Trifolium subterraneum
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae;
Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae;
50 kb inversion clade; NPAAA clade; Hologalegina; IRL clade;
Trifolieae; Trifolium.
REFERENCE 1 (bases 1 to 176397)
AUTHORS Isobe,S.
TITLE Direct Submission
JOURNAL Submitted (09-NOV-2015)
Contact:Sachiko Isobe
Kazusa DNA Research Institute, Dept. of Plant Genome and Genetics;
2-6-7 Kazusa-kamatari, Kisarazu, Chiba 292-0818, Japan
REFERENCE 2
AUTHORS Hirakawa,H., Kaur,P., Shirasawa,K., Nichols,P., Nagano,S.,
Appels,R., Erskine,W. and Isobe,S.N.
TITLE Draft genome sequence of subterranean clover, a reference for
genus Trifolium
JOURNAL Sci Rep 6, 30358 (2016)
REMARK Publication Status: Online-Only
DOI:10.1038/srep30358
COMMENT URL:http://clovergarden.jp/
##Genome-Assembly-Data-START##
Assembly Method :: SOAPdenovo v. 2; Newbler v. 2.7; GAM-NGS;
SSPACE
Assembly Name :: TSUd_r1.1
Genome Coverage :: 552.8x
Sequencing Technology :: HiSeq1000; Hiseq2000; Miseq; Roche454
##Genome-Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..176397
/cultivar="Daliak"
/db_xref="taxon:3900"
/mol_type="genomic DNA"
/note="scaffold: Tsud_sc00765.00"
/organism="Trifolium subterraneum"
assembly_gap 2529..2704
/estimated_length=176
/gap_type="within scaffold"
/linkage_evidence="paired-ends"
CDS complement(join(5502..5522,5607..5656,5709..5741,
5819..5902,6530..6764,7892..8008,8088..8238,8352..8449))
/codon_start=1
/locus_tag="TSUD_304900"
/note="Tsud_chr7.g04990.1.sm.mkhc"
/product="hypothetical protein"
/protein_id="GAU44309.1"
/transl_table=1
/translation="MNKTVRTRLNPRKGSMSHENIIKFAIKSELIKGSSSPYNSQAMA
SVSTNKDIRIPQNLQKGIGNAVKGGKISSKERKLALQQDVDRLKNKLRHEENIHKALD
RALNRPLGALPRLPPYLPPYHQELRYHRLQEIPQVDESPNTISENIVKCLTSILLRMS
TSPLRPLKSKNCIEGTEFLDPYGILEFGKRDIGPYKQLSASNNKCRWTIVKCYNHRTL
HFKASISLEIFKFQTDHIIKGKPLVTFALSSGTWSSPSNCNKYD"
CDS complement(join(<17966..18014,19368..19499,19921..20006,
20546..20601,20698..20790,21234..21352,22170..22236,
22761..22821,24243..24476))
/codon_start=1
/locus_tag="TSUD_304910"
/note="Tsud_chr7.g05000.1.am.mkhc"
/product="hypothetical protein"
/protein_id="GAU44310.1"
/transl_table=1
/translation="MAQFSVSSLCSSPSLRLRLHRQHQQLFFPSQQIASPPPPPASAT
DSNSTSTFASPSNHTPKVVVTRERGKNSKLITALLPLIEHQRGADFDRLPSALSDNAF
DWVVITSPEAGSVFLDAWRAAGMPHVRIGVVGSGTASIFKEALQSSNQSLDVAFTPSK
ATGKVLATELPKIGNKTTILYPASAKASNEIEEGLSSRGFEVTRMNTYTTVPVQHVDQ
MVLKQALAAPVLTVASPSSIRAWKNLLSDSDWSNSIACIGETTAAMARRLGFRNVYHP
TQPGLEGWVESILEALGSYDELL"
CDS complement(join(28031..28195,28576..28647,28969..29024,
29550..30018,30762..31109))
/codon_start=1
/locus_tag="TSUD_304920"
/note="Tsud_chr7.g05010.1.am.mkhc"
/product="hypothetical protein"
/protein_id="GAU44311.1"
/transl_table=1
/translation="MQSSNGGGGGNSDSKPNEHRSNKTPPHSLTLPPHQQWIPMQYPA
AAMVMPHHMLPPQHYAPPPHHYLPYHYHHQQHHVPHVHHHGSSADNKTIWVGDLHHWM
DENYLHRCFASTGEIFSIKVIRNKQTGQTEGYGFVEFHSHGTAEKVLQNYAGMLMPNT
EQYFRLNWATFSTGDHKRSDNVPDLSIFVGDLAADVTDSMLLETFSNRYPSVKAAKVV
FDANTGRSKGYGFVRFGDDNERTKAMNEMNGVYCSSRPMRIGAATPRKSSGYQQGGQS
NGTPSQSEADSTNTTKLNGTTIGKQTVRLSWGRNPANKQFRTDFGSPWNSPAYYGGAV
YDGYGYALPHPHDPSMYAAAYGAYPIYGGHQQQVS"
CDS complement(join(36418..36582,37016..37171,37249..37383,
37644..37733))
/codon_start=1
/locus_tag="TSUD_304930"
/note="Tsud_chr7.g05020.1.am.mkhc"
/product="hypothetical protein"
/protein_id="GAU44312.1"
/transl_table=1
/translation="MDEVYNLDWFTSASKNECSAAVGFKWMLNQRQVSAIFLFRRNLL
RRMVSVLANTYDKDFKLLNGTHKSHVHSTMEATILAKYKPEINVTLLIPELKRTEETV
AKAVAYFKNIRHVVLYYEDLVNNRTKLKDVQEFLRVPYRELESRQVKIHTAPLSMQIE
NWDEVQKVLTGTPYERFLYKD"
CDS join(43028..43350,43641..43914,44411..44441,44510..44586)
/codon_start=1
/locus_tag="TSUD_304940"
/note="Tsud_chr7.g05030.1.am.mkhc"
/product="hypothetical protein"
/protein_id="GAU44313.1"
/transl_table=1
/translation="MLRTQSSILQIPPPTYGNLVTILSIDGGGIRGIIPATILEFLES
QLQELDGESARLAYYFDVITGTSTGGLVTAMLTAPNDKQCPLFAAKDIKPFYLEHCPK
IFPQYNVVREILGEIRVHETLTNIVIPTFDIKTLRPVIFSSYQIKRTPCLDARLSDIC
ISTSAAPTYLPSYNFKNQDTKGNIYAFNLIDGGVCANNPWNSSSADADSGPFCGRVFL
ISLIVVGFAVGLELPS"
CDS join(52261..52484,52763..53111,53240..53542,53633..53808,
53919..53982)
/codon_start=1
/locus_tag="TSUD_304950"
/note="Tsud_chr7.g05040.1.am.mkhc"
/product="hypothetical protein"
/protein_id="GAU44314.1"
/transl_table=1
/translation="MERTQSSLLQIQAPTYGNLVTILSIDGGGIRGIIPATILEFLES
QLQELDGEAARLADYFDVITGTSTGGLVTAIHSFGSVGKLFKSLTGPKYDGKYLHNVV
REKLGEIRVHETLTNIVIPAFDIKTLQPIIFSSYKIKKNPCFDARLSDICISTSAAPT
YLPGYNFKNQDTEGNIHEFNLIDGGVSANNPTLVAVNEVTTQIINENNDFYAIKPMEY
SRFLIISLGTGTPKNEQKFDSKMAAKWGLLDWLTHGGSTPLIDIFSQSSGDMVDIHLA
TVTEALNCQENYLRIQDDTLTGTDSSVDISTKENLDKLCQIGEKLLKKPVAKVNLENG
MCEPVQNGETNQEALKRFAKILSQERKLRELTSPHVH"
CDS join(58142..58464,58555..58900,58992..59294,59401..59576,
59707..59782)
/codon_start=1
/locus_tag="TSUD_304960"
/note="Tsud_chr7.g05050.1.am.mkhc"
/product="hypothetical protein"
/protein_id="GAU44315.1"
/transl_table=1
/translation="MERTQSSLLQIQPPTYGNLVTILSIDGGGIRGIIPATILEFLES
QLQELDGESARLADYFDVITGTSTGGLVTAMISAPNDKQRPLFAAKDIKPFYLEHCPK
IFPQHKHLGAIGKLFKSLAGPKYDGKYLHSVVREKLGEIRVHETLTNIVIPTFDIKTM
QPIIFSSYKIKKTPCMDAQLSDICISTSAAPTYLPGYNFKNQDTEGNTHEFNLVDGGV
CANNPTLVAVNEVTKQIINQNNDFYAIKPMEYSRFLIISLGTGTPKNEQKFTAKMASK
WGLLDWLTHGGSTPLIDVFSQSSGDMVDLHLATITQALNSQHNYLRIQDDTLIGTNSS
VDIATEDNLEKLCQIGDKLLKKPVSKVNLETGVVEPIDKGETNEDALKRFAKILSQER
RLRELKSPHTNKALL"
CDS complement(65412..66374)
/codon_start=1
/locus_tag="TSUD_304970"
/note="Tsud_chr7.g05060.1.am.mk"
/product="hypothetical protein"
/protein_id="GAU44316.1"
/transl_table=1
/translation="MDPTYPQISIDVPPYLRVHKNGAVERLAGIHVVPPGIDPQTKVI
SKDITINPKTALTVRLYSPNNSTSRKLPLIIYFHGGAYIISSPSDPLYHNSLNKLVLE
ANIIAISVNYRLAPEHPLPTAYDDSWEALQWIASHAGENHEENHENLIKEKVDFNKVF
LAGDSAGANIGHYMTLKLNVLNHLNFKVVGLIMVNPYFWGKEPIGVEISDYERRKMVD
KWWEFVCPSDKGNDDPLINPFVEEAPDLEEVGVEKVLITVCEKDILRERGKLYHKKLV
NSGWKGTAEFYETQEEDHVFHIFNPDCDKAKSLIKRIADFINEE"
assembly_gap 71752..71948
/estimated_length=197
/gap_type="within scaffold"
/linkage_evidence="paired-ends"
CDS join(74893..75036,76163..76483,76569..76730,76823..76897,
76996..77105,77194..77266,77484..77675)
/codon_start=1
/locus_tag="TSUD_304980"
/note="Tsud_chr7.g05070.1.am.mkhc"
/product="hypothetical protein"
/protein_id="GAU44317.1"
/transl_table=1
/translation="MASQILRRTLGSRYLSNPRAFSSASTPIRATLFPGDGIGPEIAE
SVKQVFQAAEVPIEWEEHYVGTEIDPRTQSFLTWESLESVRRNRVGLKGPMATPIGKG
HRSLNLTLRKELNLYANVRPCYSLPGYKTRYDNVDLITIRENTEGEYSGLEHQVVRGV
VESLKIITRQASLRVAEYAFHYAKAHGRERVSAIHKANIMQKTDGLFLKCCREVAEKY
PEIQYEEVVIDNCCMMLVKNPALFDVLVMPNLYGDIISDLCAGLIGGLGLTPSCNIGE
GGIALAEAVHGSAPDIAGKNLANPTALLLSSVTMLRHLDLHDKAESIQNAILNTIAEG
KYRTADLGGSSKTTEFTKAIIDHL"
CDS complement(join(78341..78451,78529..78791,78998..79120,
79517..79612,79816..79957,80046..80137,80214..80355))
/codon_start=1
/locus_tag="TSUD_304990"
/note="Tsud_chr7.g05080.1.am.mkhc"
/product="hypothetical protein"
/protein_id="GAU44318.1"
/transl_table=1
/translation="MARRNCLCTCSYNNTTLFLCFLNIAIVSLFVFRSLYASLSIHST
NVKVGVSYSPDQIRKMEESVQIRIGYKPVELIKSLKDLEGEFSRENLAVELPQDLKQK
IVDEILHRLRSLNSSDIDIAKEREIVESWRKEKLKEVKLAHVNRTSNSTIPIEEAGML
LRALESDWDVICEDIGLWIPAQVVNEEHDDKPEGTEDFEKEILPGRPLPPECNAELHT
DYDGTAVRWGLTHHKNSAADCCQACLDHAKHAKEGENKCNIWVYCPSESGCHSPDIYQ
HKHQECWLKYAEKPQLNFKDKYSESYRKSFPSAPEVVPWVSGVVSS"
CDS join(86138..86224,86345..86377,86674..86913,87023..87202)
/codon_start=1
/locus_tag="TSUD_305000"
/note="Tsud_chr7.g05090.1.sm.mkhc"
/product="hypothetical protein"
/protein_id="GAU44319.1"
/transl_table=1
/translation="MQVLKITPCPIVFASFSGGAKSCMLKVLQIISGKSETHNMDDYQ
LVKDCISGYIYDSSPVDFTSDMGVRFILHPSVLKVSHPPRFASWIANGIASGLDSLFL
SRFESQRAEYWRTLYSTTNMQVPYLIFCSENDDLAPFEVISNFFHRLKDLGGDVKLVK
WSSSPHVGQYLDCLCITHG"
CDS join(87608..87973,88032..88076)
/codon_start=1
/locus_tag="TSUD_305010"
/note="Tsud_chr7.g05100.1.sm.mk"
/product="hypothetical protein"
/protein_id="GAU44320.1"
/transl_table=1
/translation="MSGHFRHYPDEYEAAITEILGKAVAVYRHKNRIIVEEEKLGIEG
TRDEITNRFSELRKAATTSTSFQGFAVAPSENLSPSSMEYYDGKDVGSVTDERKGSFI
HLPSRPSINANGVLGQILFDDYYLVQGGMLLSIL"
CDS join(88971..89243,91223..91456,91783..91881,92162..92950,
93049..93060)
/codon_start=1
/locus_tag="TSUD_305020"
/note="Tsud_chr7.g05110.1.am.mk"
/product="hypothetical protein"
/protein_id="GAU44321.1"
/transl_table=1
/translation="MCEGMKKVVVTGASGYLGGRLCDALLRQGYYVKALVRSTSDLSA
LPSSSEIVYGDITDYTSLLSAFSDCSVVFHLAALVATWHPNPSKFFSLVERFSGRLPG
YIGHNKFSFCHIDDVVEGHIGAMIKGQIGESYLLTGENVSFNQIFDMAAVNTNTRKPM
FTIPFWVLQTVAVLRHQWEYSCEKAKTELDYNPRSMSEGLAEIAFRVKSNRFRNSKIE
AHSSSSMASPSSIHEDQNDATFTAANLPTTTKDSTKSGLTHSLTIKLDEKNFLLWSQQ
INGVITTHNLHRFVVNPEIPLQFASVNDRLNGKISEEYQKWLFIDQTLFTWLLSTISD
SILPRVLHCKHAHEVWDKIHKHFNSVLKSRIRQLRFELKNTKKLARPISEYLLRIKSI
INSLIALGEAVSEQEQVNVILDGLPEEFNPFVMMVYSRYDTPTVEDVEGLLMLQEAQF
EKFRQELTNPSVSANRTW"
assembly_gap 93110..97553
/estimated_length=4444
/gap_type="within scaffold"
/linkage_evidence="paired-ends"
CDS join(100101..100361,100438..100566,100656..100820,
101297..101602,101891..101989,102269..102331)
/codon_start=1
/locus_tag="TSUD_305030"
/note="Tsud_chr7.g05120.1.am.mk"
/product="hypothetical protein"
/protein_id="GAU44322.1"
/transl_table=1
/translation="MKKVVVTGASGYLGGRLCHALLRQGYSVKALVRRTSDLSELPPL
SEIVYGDVTDFSSLLSAFSDCSVVFHLAALVEPWLPDPSKFITVNVEGLKNVLEAVKQ
TKTVEKLIYTSSFFAIGPTDGAIADENQFHHEKFFCTEYEKSKVATDKIALQAASEGV
PIVLLYPGVIYGPGKFTGGNVVAKMLVERFSGRLPGYISNGNDKCSFSHVDDVVEGHI
AAMEKGKIGERYLLTGENASFNQVFDMAAVITNTRKPLVSIPLWVIEVYGWLSVVFSR
ITGKLPLISPPMVDVLRHQWEYSCEKAKRELDYKPRSLREGLAESSSNIIEWNGVSQT
LFDLQD"
CDS join(104194..104421,104501..104544,104655..104823,
106656..106862,107447..107497)
/codon_start=1
/locus_tag="TSUD_305040"
/note="Tsud_chr7.g05130.1.am.mk"
/product="hypothetical protein"
/protein_id="GAU44323.1"
/transl_table=1
/translation="MVAAAASYEESRRKRMEENKKRMEALNLHQLSQSLNKSSSPNSK
PSPSKPRTIRKELVVVRRSGRVANLPAPIYKEVLIDRVIIPRNGISRGGYNMYRDYSK
RVYASDEAREEALEKADKLQSDLDSDHPTFIKTMLQSHVTGGFWLGLPVYFCKQHLPK
RDEAMTLIDEDGEDYPTTYLAHKTGLSAGWRGFAIAHNLVDGDALIFELISSTAFKVY
IIRVNGPSEGKQLE"
CDS join(112284..112481,113361..113532,113831..113984,
114078..114141,114636..114743,115198..115323,
115427..115662,115752..116394)
/codon_start=1
/locus_tag="TSUD_305050"
/note="Tsud_chr7.g05140.1.am.mkhc"
/product="hypothetical protein"
/protein_id="GAU44324.1"
/transl_table=1
/translation="MSGRNEHVPLSVLLKRELANEKIEKSDMVVVYSQASENKKGEDF
TLLKNECQRVVADGVSTYSVFGLFDGHNGSAAAIYAKENLLNNVLSAIPTDLNRDEWV
KALPRALVAGFVKTDKDFQQRAKTSGTTVTLVIIEGWVITVASVGDSRCILEPSEGGL
HYLSADHRLDTNEEERARITSCGGEVGRLNTGGGAEVGPLRCWPGGLCLSRSIGDMDV
GEFIVPVPHVKQVKLSTSGGRLIISSDGVWDALSAEMVVDCCRGMSAEAAAPHIVKES
LHAKGLRDDTTCIVVDILPQEKPPTSVPSQKRPVKGMLKAIFRKKSSEPSSYIVREYV
EPDMVREIYEEGSAMLSERFETKYPLCNMFKMFVCAVCQVEIKPGEGISVHEGAPNQG
KLRPWDGPFLCSSCQEKKQAMEGGQQETKQAMEGRRTAGVGCQETKQAMEGRQQETKQ
AMEGRQQDTKQAMEGRQTSGVGCQETKQPMEGRQTLKQAMEGRQTSGVDHQETKQAME
GRETSGVGRQETKQAMEGRQTSGVGLQETKQAMEGRRTSGVGCQEKKQAMEVRRTSGV
"
CDS join(129364..130008,130495..131122,131638..131942,
132069..132142,133424..133508,133798..133884,
133992..134064,134343..134386,135034..135162,
135253..135354,135644..135700)
/codon_start=1
/locus_tag="TSUD_305060"
/note="Tsud_chr7.g05150.1.am.mkhc"
/product="hypothetical protein"
/protein_id="GAU44325.1"
/transl_table=1
/translation="MQAVGRLGSYISQGVYTVSGPFHPFGGAVDIVVVQQKDGSFKSS
PWYVRFGKFQGVLKSKEKIVQINVNDIDVDFQMHLDNKGEAFFLKEIDDVETVLNIDP
SESGDDADDQSFRSKNSNLGSEDGGMVGRCNSRRSRILGLMFGRRSLSGEFEDAIGNK
ERAEIAANLLDIKWSTNGDHAVVVENEDGSFGVVAKHEKKSNGEEVSGRNENSKEAQQ
RDSSDSEVSMYDVEDVENNYLDRGHCSSENVGSYSVTNASSYYSQDEQGSWEHNTKDK
DLSSSTISTPKYPLGDGLPSETSRRPSSSSSDEDNFLFSDIDEEDKEDNLSYENGTKL
SRMTSCPMAIPRNKDAGGEVGQHTASLPNSPTRSNRRRKHVRYPLSQSLDSTFPGRDG
MECLKFDECKKKKLPHEQAGAKGYQDSNNQPPGGTSTTGSWRLWPFPLSRSVVSRESL
PPIPNDAKNNTNPNSPENKISKDVNKNDTKPPKPNQTKKKVRETTPTSEQIASLNLKE
GRNIVTFTFSTAMLGQQQVDAQIYLWKWDDRIVISDVDGTITKSDVLGQFMPLVGVDW
SQTGVAHLFSAVKENGYQLLFLSARSISQAYITRQFLLNLKQDGKVLPEGPVVISPDG
LFPSLYREVIRRVPHEFKIACLETIKALFPADCNPFYAGFGNRDTDEISYLKVGIPLG
KIFIINPKGEIVVNRSLDTKSYNSMHALVNGMFPPTSSSEHQEDFNSWNFWKLPPSGI
DI"
CDS complement(138983..139279)
/codon_start=1
/locus_tag="TSUD_305070"
/note="Tsud_chr7.g05160.1.am.mk"
/product="hypothetical protein"
/protein_id="GAU44326.1"
/transl_table=1
/translation="MAFMEHKGLSDHYHGKSVMTVEQFKRWLKTAFDTNGDGKISKEE
LRHVMRLTRGIFASWNCGNDFNFADANHNGFIDENEFNNLVLFADKHFNVKIKH"
CDS join(146839..147153,147239..147301,147517..147591,
147853..147900,149033..149110)
/codon_start=1
/locus_tag="TSUD_305080"
/note="Tsud_chr7.g05170.1.sm.mkhc"
/product="hypothetical protein"
/protein_id="GAU44327.1"
/transl_table=1
/translation="MESQGQWNPLLSFSRFIHQNCNNLATHFENTKRLAGTLIQSHTH
TKPAFAATLTTKNVARSLVGTSVYTVSSSNNEFVLISDAEGAKSIGLLCFRQEDAEAF
LAQVRSRKKDIRGNPKVVPITLDQVYMLKVEGIAFRFLPDPVQIKNALELQAVNKEGF
DGVPVFQEDIEQELSKVSRASKGPGVSKNITV"
CDS complement(join(151287..151313,151899..152500,
153324..153452,153849..153855))
/codon_start=1
/locus_tag="TSUD_305090"
/note="Tsud_chr7.g05180.1.am.mkhc"
/product="hypothetical protein"
/protein_id="GAU44328.1"
/transl_table=1
/translation="MDGEWWKSDVNEVLTEFLESGGGPNISDAITINGQPGDLYPCSK
SETFKLRVDRGRTYLLRVVNAAMNLILFMSISKHKLTVVSVDAMYTKPLTRDYICISP
GQTMDVLLHANQEPNHYYMAARAYSTGVGVDFDNTTTTAIVQYRGSSTSLSTPSLPYL
PDYNDTTAAFDFITSIRGVPDNYSHGVPKKIKTHMLTTLSINTFPCPNGQSCEGPNGT
ILAASMNNISFVNTNIDILEAYYYHIHGEYGSCTVI"
CDS complement(join(161170..161300,161951..162113))
/codon_start=1
/locus_tag="TSUD_305100"
/note="Tsud_chr7.g05190.1.am.mk"
/product="hypothetical protein"
/protein_id="GAU44329.1"
/transl_table=1
/translation="MAARAYSTGIGVDFDNTTTTAIVQYKGNFSTPSLPYLPYYNDTK
AAFDFITSIKGVWFLHCHLERHLSWGMETVFIVKNGKRLNETLLPPLPDMPPC"
assembly_gap 169047..173521
/estimated_length=4475
/gap_type="within scaffold"
/linkage_evidence="paired-ends"
CONTIG join(BCLP01024931.1:1..2528,gap(176),BCLP01024932.1:1..69047,gap
(197),BCLP01024933.1:1..21161,gap(4444),BCLP01024934.1:1..71493,
gap(4475),BCLP01024935.1:1..2876)
//