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

Rsa1.0_16113.1_g00002.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

M-type_MADS

Protein Properties

Length: 118aa MW: 13877.2 Da PI: 10.9563

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_16113.1_g00002.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	52.5	6.3e-17	10	52	2	44
---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTS CS SRF-TF 2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstg 44 +i n+s r++tf kR+ g++KKA+E+ +LC+++v ii+s + Rsa1.0_16113.1_g00002.1 10 FIVNNSSRKTTFKKRKRGLIKKAHEIFTLCGINVGAIIYSLYN 52 799************************************9655 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF55455	3.66E-22	1	83	IPR002100	Transcription factor, MADS-box
SMART	SM00432	1.6E-20	1	60	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	17.675	1	49	IPR002100	Transcription factor, MADS-box
CDD	cd00266	1.75E-24	2	83	No hit	No description
PRINTS	PR00404	2.4E-11	3	23	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	1.5E-15	10	49	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	2.4E-11	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	2.4E-11	38	59	IPR002100	Transcription factor, MADS-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 118 aa Download sequence Send to blast
MTRRKVKLAF IVNNSSRKTT FKKRKRGLIK KAHEIFTLCG INVGAIIYSL YNHTPEVRPS 60 VEGMNQVITT FRNLPEIDRH NNMFYQQEFV QQRITKADKL LLKKKKDNME VNYSSWGS

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	2	24	RRKVKLAFIVNNSSRKTTFKKRK

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. Controls central cell differentiation during female gametophyte development. Required for the expression of DEMETER and DD46, but not for the expression of FIS2 (PubMed:16798889). Probable transcription factor that may function in the maintenance of the proper function of the central cell in pollen tube attraction (Probable). {ECO:0000269\|PubMed:16798889, ECO:0000305\|PubMed:26462908}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_16113.1_g00002.1

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	AB608492	3e-62	AB608492.1 Raphanus sativus DNA, microsatellite locus RsSH024, cultivar: rat-tail radish.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018458729.1	8e-57	PREDICTED: agamous-like MADS-box protein AGL80
Swissprot	Q9FJK3	4e-31	AGL80_ARATH; Agamous-like MADS-box protein AGL80
TrEMBL	A0A3P5ZG07	8e-38	A0A3P5ZG07_BRACM; Uncharacterized protein
STRING	Bra041022.1-P	2e-38	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM70	28	415

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G48670.1	6e-27	AGAMOUS-like 80

Publications ? help Back to Top
Zhang S, et al. FERTILIZATION-INDEPENDENT SEED-Polycomb Repressive Complex 2 Plays a Dual Role in Regulating Type I MADS-Box Genes in Early Endosperm Development. Plant Physiol., 2018. 177(1): p. 285-299 [PMID:29523711]