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

KN539271.1_FGP007

Organism

Oryza longistaminata

Taxonomic ID

4528

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

GRAS

Protein Properties

Length: 201aa MW: 22399.8 Da PI: 5.5928

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KN539271.1_FGP007	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	85	1.3e-26	1	87	106	197
GRAS 106 vegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledleleeLrvk 197 +e+e+ vH+iD++ +QW+ Ll+ La+Rpegpp+lR+T v++ +ke l +t+ L+k Ae+l+vpf+fn+ v++rl++l++e+Lr k KN539271.1_FGP007 1 MESEKIVHVIDLGGADATQWLELLHLLAARPEGPPHLRLTSVHE----HKELLTQTAMALTKEAERLDVPFQFNP-VVSRLDALDVESLRPK 87 68899*************************************....9**********************.7**********755 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03514	4.5E-24	1	87	IPR005202	Transcription factor GRAS
PROSITE profile	PS50985	14.974	1	201	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 201 aa Download sequence Send to blast
MESEKIVHVI DLGGADATQW LELLHLLAAR PEGPPHLRLT SVHEHKELLT QTAMALTKEA 60 ERLDVPFQFN PVVSRLDALD VESLRPKAVA VLLAKTGMLG SDAPFLFLTN GKDEWFFPQK 120 FAFGLSFSRT CLLPSGNRIA AACSHCGFYL FFMLFILNQV VKIAYWSLQK EENVEEENKG 180 YKDPGEACNP ASLAGWAFVS F

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3g_A	1e-15	2	108	125	237	Protein SCARECROW
5b3h_A	1e-15	2	108	124	236	Protein SCARECROW
5b3h_D	1e-15	2	108	124	236	Protein SCARECROW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in plant development. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	KN539271.1_FGP007

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	AK287540	1e-138	AK287540.1 Oryza sativa Japonica Group cDNA, clone: J065011K01, full insert sequence.
GenBank	AP003259	1e-138	AP003259.4 Oryza sativa Japonica Group genomic DNA, chromosome 1, PAC clone:P0466H10.
GenBank	AP014957	1e-138	AP014957.1 Oryza sativa Japonica Group DNA, chromosome 1, cultivar: Nipponbare, complete sequence.
GenBank	CP012609	1e-138	CP012609.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 1 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Swissprot	Q9LPR8	2e-31	SCL3_ARATH; Scarecrow-like protein 3
STRING	ONIVA01G49810.1	3e-50	(Oryza nivara)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP604	38	176

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G50420.1	7e-34	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]