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

RrC3865_p1

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

TALE

Protein Properties

Length: 164aa MW: 18698.6 Da PI: 10.3882

Description

TALE family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC3865_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	31.3	3.5e-10	109	141	22	54
SSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHH CS Homeobox 22 nrypsaeereeLAkklgLterqVkvWFqNrRak 54 n+yps +++ LA+++gL+ +qV++WF N R + RrC3865_p1 109 NPYPSDADKHLLARQTGLSRNQVSNWFINARVR 141 9******************************98 PP
2	BELL	70.1	3.9e-23	1	43	30	72
BELL 30 lqtvissFeavaglgsakpYtslAlkaiSrhFrcLkdaiaeqi 72 +q+v++sF++v+g+g+a pYt+lA+ka+SrhFrcLkdaia q+ RrC3865_p1 1 MQMVVNSFDQVMGYGAAVPYTTLAQKAMSRHFRCLKDAIAVQL 43 9***************************************996 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF07526	6.5E-18	1	40	IPR006563	POX domain
SMART	SM00389	3.7E-6	96	149	IPR001356	Homeobox domain
Pfam	PF05920	9.4E-17	105	141	IPR008422	Homeobox KN domain
Gene3D	G3DSA:1.10.10.60	1.6E-20	105	149	IPR009057	Homeodomain-like
SuperFamily	SSF46689	7.7E-15	105	156	IPR009057	Homeodomain-like
PROSITE profile	PS50071	11.531	109	145	IPR001356	Homeobox domain
CDD	cd00086	2.73E-11	109	146	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 164 aa Download sequence Send to blast
MQMVVNSFDQ VMGYGAAVPY TTLAQKAMSR HFRCLKDAIA VQLKHSCELL GDKESAGGAS 60 SGLTKGETPR LRLLEQSLRQ QRAFHHMGMM EQEAWRPQRG LPERSHFLNP YPSDADKHLL 120 ARQTGLSRNQ VSNWFINARV RLWKPMVEEI LPSSFLHLSI NLLR

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that establishes leaf shape by repressing growth in specific subdomains of the leaf. Negatively regulates knox homeobox gene KNAT1/BP expression. {ECO:0000269\|PubMed:17873098}.

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	AC004482	1e-104	AC004482.3 Arabidopsis thaliana chromosome 2 clone F27L4 map CIC06C07, complete sequence.
GenBank	AF353092	1e-104	AF353092.1 Arabidopsis thaliana BEL1-like homeobox 4 (BLH4) mRNA, complete cds.
GenBank	AY058179	1e-104	AY058179.1 Arabidopsis thaliana At2g23760/F27L4.6 mRNA, complete cds.
GenBank	AY142019	1e-104	AY142019.1 Arabidopsis thaliana At2g23760/F27L4.6 mRNA, complete cds.
GenBank	CP002685	1e-104	CP002685.1 Arabidopsis thaliana chromosome 2, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018459020.1	1e-101	PREDICTED: BEL1-like homeodomain protein 4
Swissprot	Q94KL5	1e-100	BLH4_ARATH; BEL1-like homeodomain protein 4
TrEMBL	A0A078JCR1	1e-97	A0A078JCR1_BRANA; BnaC04g56300D protein
TrEMBL	A0A0D3C1J6	1e-97	A0A0D3C1J6_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6CR34	1e-97	A0A3P6CR34_BRAOL; Uncharacterized protein
TrEMBL	M4ETL5	1e-101	M4ETL5_BRARP; Uncharacterized protein
STRING	AT2G23760.2	2e-98	(Arabidopsis thaliana)
STRING	Bra032147.1-P	1e-102	(Brassica rapa)
STRING	Bo4g151860.1	2e-98	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2166	24	66

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G23760.3	4e-91	BEL1-like homeodomain 4

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546]