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

LOC_Os01g66030.2

Organism

Oryza sativa subsp. japonica

Taxonomic ID

39947

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; Oryza sativa

Family

MIKC_MADS

Protein Properties

Length: 165aa MW: 19012 Da PI: 9.5226

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
LOC_Os01g66030.2	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	92.8	1.6e-29	9	59	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 krien++nrqvtfskRr gilKKA E+SvLCdaev v+ifss gkly+y+s LOC_Os01g66030.2 9 KRIENSTNRQVTFSKRRSGILKKAREISVLCDAEVGVVIFSSAGKLYDYCS 59 79***********************************************96 PP
2	K-box	70.5	5e-24	71	142	1	72
K-box 1 yqkssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnel 72 yq++sgk l+++k++sl+ e++++kke++n+q e+Rhl+GedL+sL+ keL +e++L++++ ++ +k +++ LOC_Os01g66030.2 71 YQTNSGKILWDEKHKSLSAEIDRIKKENDNMQIELRHLKGEDLNSLQPKELIMIEEALDNGIVNVNDKLMDH 142 89999999*********************************************************9997766 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	4.3E-42	1	60	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	33.039	1	61	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	1.44E-34	2	96	IPR002100	Transcription factor, MADS-box
CDD	cd00265	2.31E-42	2	80	No hit	No description
PROSITE pattern	PS00350	0	3	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.8E-30	3	23	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	3.3E-25	10	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.8E-30	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.8E-30	38	59	IPR002100	Transcription factor, MADS-box
Pfam	PF01486	1.1E-13	82	143	IPR002487	Transcription factor, K-box
PROSITE profile	PS51297	9.79	84	164	IPR002487	Transcription factor, K-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010097	Biological Process	specification of stamen identity
GO:0030154	Biological Process	cell differentiation
GO:0005634	Cellular Component	nucleus
GO:0005737	Cellular Component	cytoplasm
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 165 aa Download sequence Send to blast
MGRGKIEIKR IENSTNRQVT FSKRRSGILK KAREISVLCD AEVGVVIFSS AGKLYDYCSP 60 KTSLSRILEK YQTNSGKILW DEKHKSLSAE IDRIKKENDN MQIELRHLKG EDLNSLQPKE 120 LIMIEEALDN GIVNVNDKLM DHWERIRCWK TRTSCWLLNC TSKI*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1tqe_P	7e-21	1	86	1	78	Myocyte-specific enhancer factor 2B
1tqe_Q	7e-21	1	86	1	78	Myocyte-specific enhancer factor 2B
1tqe_R	7e-21	1	86	1	78	Myocyte-specific enhancer factor 2B
1tqe_S	7e-21	1	86	1	78	Myocyte-specific enhancer factor 2B
6c9l_A	7e-21	1	86	1	78	Myocyte-specific enhancer factor 2B
6c9l_B	7e-21	1	86	1	78	Myocyte-specific enhancer factor 2B
6c9l_C	7e-21	1	86	1	78	Myocyte-specific enhancer factor 2B
6c9l_D	7e-21	1	86	1	78	Myocyte-specific enhancer factor 2B
6c9l_E	7e-21	1	86	1	78	Myocyte-specific enhancer factor 2B
6c9l_F	7e-21	1	86	1	78	Myocyte-specific enhancer factor 2B
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Os.429	0.0	callus\| flower\| panicle\| seed

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	45385969	0.0

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in lodicules and stamens from early to late stage of flower development. {ECO:0000269\|PubMed:10945340, ECO:0000269\|Ref.1}.
Uniprot	TISSUE SPECIFICITY: Highly expressed in anthers and carpels. Expressed in pollen, tapetum and stigma. {ECO:0000269\|Ref.1}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in the development of floral organs. B-class protein required for normal development of lodicules (whorl 2). {ECO:0000269\|PubMed:14704206}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00080	ChIP-seq	Transfer from AT5G20240	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	LOC_Os01g66030.2

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

Phenotype -- Mutation ? help Back to Top
Source	ID
RiceGE	Os01g66030

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF095645	0.0	AF095645.1 Oryza sativa MADS box protein nmads1 mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015623988.1	1e-102	MADS-box transcription factor 2 isoform X1
Swissprot	Q40702	1e-103	MADS2_ORYSJ; MADS-box transcription factor 2
TrEMBL	A0A0D3EX30	1e-100	A0A0D3EX30_9ORYZ; Uncharacterized protein
TrEMBL	A0A0D9YIA5	1e-100	A0A0D9YIA5_9ORYZ; Uncharacterized protein
TrEMBL	A0A0E0CB62	1e-100	A0A0E0CB62_9ORYZ; Uncharacterized protein
TrEMBL	A0A0E0FWN0	1e-100	A0A0E0FWN0_ORYNI; Uncharacterized protein
TrEMBL	A0A0E0JRV4	1e-100	A0A0E0JRV4_ORYPU; Uncharacterized protein
TrEMBL	A2WXN3	1e-100	A2WXN3_ORYSI; Uncharacterized protein
TrEMBL	I1NU03	1e-100	I1NU03_ORYGL; Uncharacterized protein
STRING	OGLUM01G43760.1	1e-101	(Oryza glumipatula)
STRING	OMERI01G35840.1	1e-101	(Oryza meridionalis)
STRING	OS01T0883100-01	1e-101	(Oryza sativa)
STRING	ONIVA01G44390.1	1e-101	(Oryza nivara)
STRING	OPUNC01G38250.1	1e-101	(Oryza punctata)
STRING	ORGLA01G0334300.1	1e-101	(Oryza glaberrima)
STRING	OBART01G39540.1	1e-101	(Oryza barthii)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G20240.1	9e-62	MIKC_MADS family protein

Link Out ? help Back to Top
Phytozome	LOC_Os01g66030.2

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]