PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

RrC1378_p3

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

GRAS

Protein Properties

Length: 602aa MW: 66151.2 Da PI: 5.1999

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC1378_p3	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	290.4	4.8e-89	240	600	2	373
GRAS 2 velLlecAeavss..gdle..laqalLarlsel.aspdgd.......pmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevs 88 +e+L+++Ae +++ gd++ laq +Larl+++ +++ + p+qR+a+++ eAL + a p +++n + ++aa+++fse+s RrC1378_p3 240 IEQLFNAAELIATtaGDHHtiLAQGILARLNHHlSTSFNNnnnnknpPFQRAASHISEALLSLGAP---------PQPLLTPENLILRIAAYRAFSETS 329 6899***9988554444569******9533333357788889********998887.........555556689*********** PP GRAS 89 PilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefnvlvakr 185 P+l+f ++taNq Il+ g +r+HiiDfd+++G+QW +L+q+La + + slR+T++++p s+ ++ el+ t+e+L++fA el++pfe ++l + RrC1378_p3 330 PFLQFVNFTANQSILDL--GFDRIHIIDFDVGYGGQWSSLMQELAR--NRASSLRVTVFAPPPSTvsDEFELRFTEENLRSFAGELKIPFEMELLSIEL 424 ************7..99********************7..45679****9988899***********************8898 PP GRAS 186 ledleleeLrvkp..gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseer 282 l + ++ L++++ +Ea+aVnl ++ + + +L+++k++sP+vvv+ ++ +d+n+++F + +++al+y+++l++sl+a ++s+e+ RrC1378_p3 425 LLNPAYWPLSLRSteKEAVAVNLPISSVVP--------GYLPLILRFLKQISPNVVVCYDRGCDRNDAPFPNAVIHALQYHATLLESLDAA--SQSQED 513 888899999888877999999999944333........35667*****************************************998..799* PP GRAS 283 ikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaW 373 ++vEr++++++i++++++++++ e+ Wr+ ++++GF+p++ls++a++qa++l+++ +++g++ve+++ slv++W++++Lv+vSaW RrC1378_p3 514 SSVERFWVQPSIEKLLMKRHRW----IERSPPWRSLFTQCGFTPASLSQTAETQAECLMQRNPVRGFHVEKRQSSLVMCWQRKELVTVSAW 600 ********************....89999********************************************************** PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50985	37.674	217	581	IPR005202	Transcription factor GRAS
Pfam	PF03514	1.6E-86	240	600	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 602 aa Download sequence Send to blast
MPLSFERFQG EGVFGVSSYY SDSHKIRFNQ DKTGTEEQEE DLGYVFRGGL QEPTSVLDAL 60 RSPSPLASHS STTTNTTLSS SHGGGAVTAT AIAGDDKCSQ MGLDDLDGVL SASSPTQEQS 120 ILRLIMDPGS GFGVLDPGFG FGSGSAPVTD GSNQLLPCSF PFHDQTHQIP NPEALFSNPP 180 PAKRFNSGSH QPVFPFSDPV QQYQFPVQFH QQQIPSSSSS SSAAAALAPG IAVDDQSVII 240 EQLFNAAELI ATTAGDHHTI LAQGILARLN HHLSTSFNNN NNNKNPPFQR AASHISEALL 300 SLGAPPQPLL TPENLILRIA AYRAFSETSP FLQFVNFTAN QSILDLGFDR IHIIDFDVGY 360 GGQWSSLMQE LARNRASSLR VTVFAPPPST VSDEFELRFT EENLRSFAGE LKIPFEMELL 420 SIELLLNPAY WPLSLRSTEK EAVAVNLPIS SVVPGYLPLI LRFLKQISPN VVVCYDRGCD 480 RNDAPFPNAV IHALQYHATL LESLDAASQS QEDSSVERFW VQPSIEKLLM KRHRWIERSP 540 PWRSLFTQCG FTPASLSQTA ETQAECLMQR NPVRGFHVEK RQSSLVMCWQ RKELVTVSAW 600 NC

Sequence ? help Back to Top

Protein Sequence Length: 602 aa Download sequence Send to blast

MPLSFERFQG EGVFGVSSYY SDSHKIRFNQ DKTGTEEQEE DLGYVFRGGL QEPTSVLDAL  60
RSPSPLASHS STTTNTTLSS SHGGGAVTAT AIAGDDKCSQ MGLDDLDGVL SASSPTQEQS  120
ILRLIMDPGS GFGVLDPGFG FGSGSAPVTD GSNQLLPCSF PFHDQTHQIP NPEALFSNPP  180
PAKRFNSGSH QPVFPFSDPV QQYQFPVQFH QQQIPSSSSS SSAAAALAPG IAVDDQSVII  240
EQLFNAAELI ATTAGDHHTI LAQGILARLN HHLSTSFNNN NNNKNPPFQR AASHISEALL  300
SLGAPPQPLL TPENLILRIA AYRAFSETSP FLQFVNFTAN QSILDLGFDR IHIIDFDVGY  360
GGQWSSLMQE LARNRASSLR VTVFAPPPST VSDEFELRFT EENLRSFAGE LKIPFEMELL  420
SIELLLNPAY WPLSLRSTEK EAVAVNLPIS SVVPGYLPLI LRFLKQISPN VVVCYDRGCD  480
RNDAPFPNAV IHALQYHATL LESLDAASQS QEDSSVERFW VQPSIEKLLM KRHRWIERSP  540
PWRSLFTQCG FTPASLSQTA ETQAECLMQR NPVRGFHVEK RQSSLVMCWQ RKELVTVSAW  600
NC

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5hyz_A	6e-26	282	601	34	375	GRAS family transcription factor containing protein, expressed
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in plant development. {ECO:0000250}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC189399	0.0	AC189399.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB056I08, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018476618.1	0.0	PREDICTED: scarecrow-like protein 27
Swissprot	Q7XJM8	0.0	SCL27_ARATH; Scarecrow-like protein 27
TrEMBL	A0A0D3B6T5	0.0	A0A0D3B6T5_BRAOL; Uncharacterized protein
STRING	Bo3g037600.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13417	18	28

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G45160.1	0.0	GRAS family protein

Publications ? help Back to Top
Xue XY, et al. Interaction between two timing microRNAs controls trichome distribution in Arabidopsis. PLoS Genet., 2014. 10(4): p. e1004266 [PMID:24699192] Huo X,Wang C,Teng Y,Liu X Identification of miRNAs associated with dark-induced senescence in Arabidopsis. BMC Plant Biol., 2015. 15: p. 266 [PMID:26530097] Takanashi H, et al. miRNAs control HAM1 functions at the single-cell-layer level and are essential for normal embryogenesis in Arabidopsis. Plant Mol. Biol., 2018. 96(6): p. 627-640 [PMID:29574557]