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

BGIOSGA007336-PA

Common Name

OsI_05482

Organism

Oryza sativa subsp. indica

Taxonomic ID

39946

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

M-type_MADS

Protein Properties

Length: 103aa MW: 11086.7 Da PI: 11.4243

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
BGIOSGA007336-PA	genome	RIS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	90	1.2e-28	50	99	2	51
---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 rie+ + rqvtfskRr g+lKKA+ELSvLCdaeva+i+fs++g+ly ++s BGIOSGA007336-PA 50 RIEDATSRQVTFSKRRSGLLKKAFELSVLCDAEVALIVFSPRGRLYQFAS 99 8***********************************************86 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	29.716	41	101	IPR002100	Transcription factor, MADS-box
SMART	SM00432	1.8E-35	41	100	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	8.24E-27	43	101	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	4.5E-29	43	63	IPR002100	Transcription factor, MADS-box
PROSITE pattern	PS00350	0	43	97	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	6.5E-27	50	97	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	4.5E-29	63	78	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	4.5E-29	78	99	IPR002100	Transcription factor, MADS-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 103 aa Download sequence Send to blast
MAAAAAGMGG GGGVQHQETT TTVVQVAAEA SRKKVEVRSA GRRGRREMRR IEDATSRQVT 60 FSKRRSGLLK KAFELSVLCD AEVALIVFSP RGRLYQFASA SSE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1egw_A	6e-19	43	103	2	62	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_B	6e-19	43	103	2	62	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_C	6e-19	43	103	2	62	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_D	6e-19	43	103	2	62	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
3mu6_A	4e-19	43	103	2	62	Myocyte-specific enhancer factor 2A
3mu6_B	4e-19	43	103	2	62	Myocyte-specific enhancer factor 2A
3mu6_C	4e-19	43	103	2	62	Myocyte-specific enhancer factor 2A
3mu6_D	4e-19	43	103	2	62	Myocyte-specific enhancer factor 2A
5f28_A	7e-19	43	103	3	63	MEF2C
5f28_B	7e-19	43	103	3	63	MEF2C
5f28_C	7e-19	43	103	3	63	MEF2C
5f28_D	7e-19	43	103	3	63	MEF2C
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor.

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	AP004049	1e-174	AP004049.2 Oryza sativa Japonica Group genomic DNA, chromosome 2, BAC clone:OJ1212_C06.
GenBank	AP006720	1e-174	AP006720.1 Oryza sativa Japonica Group genomic DNA, chromosome 2, clone:OJA1212_C06.
GenBank	AP014958	1e-174	AP014958.1 Oryza sativa Japonica Group DNA, chromosome 2, cultivar: Nipponbare, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015625202.1	2e-65	MADS-box protein SOC1 isoform X1
Refseq	XP_015625203.1	2e-65	MADS-box protein SOC1 isoform X2
Swissprot	P0C5B2	2e-31	MAD56_ORYSJ; MADS-box transcription factor 56
TrEMBL	A0A0P0VDS5	2e-64	A0A0P0VDS5_ORYSJ; Os02g0104100 protein
TrEMBL	A2WZT9	6e-66	A2WZT9_ORYSI; Uncharacterized protein
TrEMBL	Q6YPH1	6e-66	Q6YPH1_ORYSJ; MADS-box protein PTM5-like
STRING	ORUFI02G00390.2	1e-62	(Oryza rufipogon)
STRING	OS02T0104100-00	4e-65	(Oryza sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP129	38	398

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G11880.1	4e-28	AGAMOUS-like 14

Publications ? help Back to Top
Rice Chromosome 10 Sequencing Consortium In-depth view of structure, activity, and evolution of rice chromosome 10. Science, 2003. 300(5625): p. 1566-9 [PMID:12791992] 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] Bai Z, et al. The impact and origin of copy number variations in the Oryza species. BMC Genomics, 2016. 17: p. 261 [PMID:27025496] Shibaya T, et al. Hd18, Encoding Histone Acetylase Related to Arabidopsis FLOWERING LOCUS D, is Involved in the Control of Flowering Time in Rice. Plant Cell Physiol., 2016. 57(9): p. 1828-38 [PMID:27318280] Han Z,Zhang B,Zhao H,Ayaad M,Xing Y Genome-Wide Association Studies Reveal that Diverse Heading Date Genes Respond to Short and Long Day Lengths between Indica and Japonica Rice. Front Plant Sci, 2016. 7: p. 1270 [PMID:27621738]