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

RrC809_p2

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: 437aa MW: 48916.9 Da PI: 6.1956

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC809_p2	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	496.9	8.8e-152	52	434	1	374
GRAS 1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshltaNq 100 l++lLl+cA++v+sg+l++a+a+L++ls l+spdgd+mqR+aayfteALa+r+++s+++lykal++++t+ n+see+++++lf++++Pilk+s+l++N+ RrC809_p2 52 LIHLLLTCANHVASGSLQNANAALEQLSLLSSPDGDTMQRVAAYFTEALANRILKSWPGLYKALNATQTN--NVSEEVHVRRLFFDMFPILKVSYLLTNR 149 689*************************************************************9998..8*********************** PP GRAS 101 aIleavegeervHiiDfdi.sqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledleleeLrvkpg 199 aIlea+ege++vH+iD+d+ s+++QW+aL+qa++sRpegpp+lRiT v++ +ke l ++++ L + Ae+l++pf+fn+ v++ le+l++e+Lrvk+g RrC809_p2 150 AILEAMEGEKMVHVIDLDAsSEPAQWLALIQAFNSRPEGPPHLRITCVHH----HKEVLDQMAHTLIEEAEKLDIPFQFNP-VVSGLECLNVEQLRVKTG 244 **************8358************************....9**********************.79************ PP GRAS 200 EalaVnlvlqlhrll.............desvsles..erdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerik 284 EalaV++vlqlh++l ++s++l++ ++d++L+++++lsPk++vv+eq++dhn+++ +er+le+l++y+alfd+le+k+pr+s++r+ RrC809_p2 245 EALAVSSVLQLHNFLatdnsghspsgdsASSLPLSNsgKIDRFLNAIWGLSPKIMVVTEQDSDHNGSTVMERLLESLYTYAALFDCLETKVPRTSQDRMR 344 **********************99666666666699******************************************************** PP GRAS 285 vErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374 vE++l+g+ei+n++aceg errerhe+lekW++r++ aGF++vpls++ + q ++ll+ +++dgyr++eesg++v +W+drpL+svSaWr RrC809_p2 345 VEKMLFGEEIKNIIACEGCERRERHEKLEKWSQRIDLAGFGNVPLSYYGMLQGRRLLQGYGFDGYRIKEESGCAVVCWQDRPLYSVSAWR 434 ***************************************************************************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50985	57.982	26	414	IPR005202	Transcription factor GRAS
Pfam	PF03514	3.0E-149	52	434	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 437 aa Download sequence Send to blast
MVTMFQEDNG TSSVASSPLQ VFSTISLTRP TLIPSPSSPF KDLKPEERGL YLIHLLLTCA 60 NHVASGSLQN ANAALEQLSL LSSPDGDTMQ RVAAYFTEAL ANRILKSWPG LYKALNATQT 120 NNVSEEVHVR RLFFDMFPIL KVSYLLTNRA ILEAMEGEKM VHVIDLDASS EPAQWLALIQ 180 AFNSRPEGPP HLRITCVHHH KEVLDQMAHT LIEEAEKLDI PFQFNPVVSG LECLNVEQLR 240 VKTGEALAVS SVLQLHNFLA TDNSGHSPSG DSASSLPLSN SGKIDRFLNA IWGLSPKIMV 300 VTEQDSDHNG STVMERLLES LYTYAALFDC LETKVPRTSQ DRMRVEKMLF GEEIKNIIAC 360 EGCERRERHE KLEKWSQRID LAGFGNVPLS YYGMLQGRRL LQGYGFDGYR IKEESGCAVV 420 CWQDRPLYSV SAWRCKK

Sequence ? help Back to Top

Protein Sequence Length: 437 aa Download sequence Send to blast

MVTMFQEDNG TSSVASSPLQ VFSTISLTRP TLIPSPSSPF KDLKPEERGL YLIHLLLTCA  60
NHVASGSLQN ANAALEQLSL LSSPDGDTMQ RVAAYFTEAL ANRILKSWPG LYKALNATQT  120
NNVSEEVHVR RLFFDMFPIL KVSYLLTNRA ILEAMEGEKM VHVIDLDASS EPAQWLALIQ  180
AFNSRPEGPP HLRITCVHHH KEVLDQMAHT LIEEAEKLDI PFQFNPVVSG LECLNVEQLR  240
VKTGEALAVS SVLQLHNFLA TDNSGHSPSG DSASSLPLSN SGKIDRFLNA IWGLSPKIMV  300
VTEQDSDHNG STVMERLLES LYTYAALFDC LETKVPRTSQ DRMRVEKMLF GEEIKNIIAC  360
EGCERRERHE KLEKWSQRID LAGFGNVPLS YYGMLQGRRL LQGYGFDGYR IKEESGCAVV  420
CWQDRPLYSV SAWRCKK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_A	2e-63	36	433	2	377	Protein SCARECROW
5b3h_D	2e-63	36	433	2	377	Protein SCARECROW
Search in ModeBase

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	AC189301	0.0	AC189301.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB030D08, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018477484.1	0.0	PREDICTED: scarecrow-like protein 3
Refseq	XP_018477485.1	0.0	PREDICTED: scarecrow-like protein 3
Swissprot	Q9LPR8	0.0	SCL3_ARATH; Scarecrow-like protein 3
TrEMBL	A0A397YC94	0.0	A0A397YC94_BRACM; Uncharacterized protein
TrEMBL	M4DCN5	0.0	M4DCN5_BRARP; Uncharacterized protein
STRING	Bra014251.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4098	27	59

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G50420.1	1e-167	scarecrow-like 3

Publications ? help Back to Top
Gong X, et al. SEUSS Integrates Gibberellin Signaling with Transcriptional Inputs from the SHR-SCR-SCL3 Module to Regulate Middle Cortex Formation in the Arabidopsis Root. Plant Physiol., 2016. 170(3): p. 1675-83 [PMID:26818732] Lee SA, et al. Interplay between ABA and GA Modulates the Timing of Asymmetric Cell Divisions in the Arabidopsis Root Ground Tissue. Mol Plant, 2016. 9(6): p. 870-84 [PMID:26970019] Choi JW,Lim J Control of Asymmetric Cell Divisions during Root Ground Tissue Maturation. Mol. Cells, 2016. 39(7): p. 524-9 [PMID:27306644]