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

BGIOSGA017471-PA

Common Name

OsI_21175

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

bHLH

Protein Properties

Length: 448aa MW: 47489 Da PI: 4.695

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
BGIOSGA017471-PA	genome	RIS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	40.6	4.5e-13	212	263	1	55
CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +r++h ++Er+RR+++N+ + Lr+l+P + + ++ + a+i A+e+I++L+ BGIOSGA017471-PA 212 QRMTHIAVERNRRRQMNEYLRVLRSLMPGS---YVQRGDQASIIGGAIEFIRELE 263 79**************************...9****************996 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.280.10	1.3E-13	210	266	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	3.18E-14	210	267	No hit	No description
PROSITE profile	PS50888	15.897	211	262	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	7.46E-17	211	280	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.9E-10	212	263	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.0E-9	217	268	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd04873	0.00139	374	432	No hit	No description
PROSITE profile	PS51671	10.103	374	448	IPR002912	ACT domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010377	Biological Process	guard cell fate commitment
GO:0045597	Biological Process	positive regulation of cell differentiation
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0051782	Biological Process	negative regulation of cell division
GO:0005634	Cellular Component	nucleus
GO:0016597	Molecular Function	amino acid binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 448 aa Download sequence Send to blast
MASFTCPTSK SSEEKASDDA TTEQNANNNI AVQQRSHLER FAALDEAPPP APEATVVTGG 60 EMVDYMLGQP PPTTPGPQSQ VSFDKLTFSD VLQFADFGPK LALNQPAASD NGGGGGDDGD 120 DDDDSYFLRF QSLPSLPAVP PPRGGAGAAH QVVDEQEGSK QTVDAGGVSE STTLVQQADG 180 GGGRAEKAGE QGKSGRRKRP RTVKTSEEVE SQRMTHIAVE RNRRRQMNEY LRVLRSLMPG 240 SYVQRGDQAS IIGGAIEFIR ELEQLIQCLE SQKRRRLYGG DAPAPPARPV ADGAVLPAPM 300 QQPPPATPPF FPPSIPFPAS SGAGDGTGAG VAKVALDLDA SGGGEVGGGV REEMAENKSC 360 VADIEVRVVG VDAMIKILSR RRPGQLIKTV AALEEMHMSI LHTNITTIDQ TVLYSFNVKI 420 AGDARFSAED IAGAVHQILS FIDVNYTL

Sequence ? help Back to Top

Protein Sequence Length: 448 aa Download sequence Send to blast

MASFTCPTSK SSEEKASDDA TTEQNANNNI AVQQRSHLER FAALDEAPPP APEATVVTGG  60
EMVDYMLGQP PPTTPGPQSQ VSFDKLTFSD VLQFADFGPK LALNQPAASD NGGGGGDDGD  120
DDDDSYFLRF QSLPSLPAVP PPRGGAGAAH QVVDEQEGSK QTVDAGGVSE STTLVQQADG  180
GGGRAEKAGE QGKSGRRKRP RTVKTSEEVE SQRMTHIAVE RNRRRQMNEY LRVLRSLMPG  240
SYVQRGDQAS IIGGAIEFIR ELEQLIQCLE SQKRRRLYGG DAPAPPARPV ADGAVLPAPM  300
QQPPPATPPF FPPSIPFPAS SGAGDGTGAG VAKVALDLDA SGGGEVGGGV REEMAENKSC  360
VADIEVRVVG VDAMIKILSR RRPGQLIKTV AALEEMHMSI LHTNITTIDQ TVLYSFNVKI  420
AGDARFSAED IAGAVHQILS FIDVNYTL

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	212	223	RMTHIAVERNRR
2	272	276	KRRRL

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Os.46600	1e-31	panicle\| root\| stem

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	32968827	1e-31

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Not expressed in meristemoids, but strongly expressed in guard mother cells (GMCs) and in young guard cells (at protein level) (PubMed:17088607). Expressed at the transition to terminal stomatal differentiation, just before and after the symmetric division of stomatal differentiation, being confined to late-stage GMC and to young, still differentiating guard cells (PubMed:24571519). {ECO:0000269\|PubMed:17088607, ECO:0000269\|PubMed:24571519}.
Uniprot	TISSUE SPECIFICITY: Resctricted to stomatal cell lineages (at protein level). Expressed in roots, leaves, stems, and flowers. {ECO:0000269\|PubMed:12679534, ECO:0000269\|PubMed:17088607}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator (PubMed:17088607, PubMed:17183265, PubMed:17183267). Together with MYB88 and MYB124, ensures that stomata contain just two guard cells (GCs) by enforcing a single symmetric precursor cell division before stomatal maturity (PubMed:24571519). Together with SPCH and MUTE, regulates the stomata formation. Required to promote differentiation and morphogenesis of stomatal guard cells and to halt proliferative divisions in their immediate precursors. Mediates the formation of stomata (PubMed:17088607, PubMed:17183265, PubMed:17183267). Prevents histone H3K27me3 marks and derepresses stem cell gene expression (PubMed:24654956). {ECO:0000269\|PubMed:17088607, ECO:0000269\|PubMed:17183265, ECO:0000269\|PubMed:17183267, ECO:0000269\|PubMed:24571519, ECO:0000269\|PubMed:24654956}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Inhibited by low relative humidity (LRH) via epigenetic CG methylation, thus leading to a reduced stomatal index. {ECO:0000269\|PubMed:22442411}.

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	CP012613	0.0	CP012613.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015638786.1	0.0	transcription factor FAMA
Swissprot	Q56YJ8	1e-109	FAMA_ARATH; Transcription factor FAMA
TrEMBL	A2Y807	0.0	A2Y807_ORYSI; Uncharacterized protein
STRING	OGLUM05G29000.1	0.0	(Oryza glumipatula)
STRING	ONIVA05G29540.1	0.0	(Oryza nivara)
STRING	ORGLA05G0238800.1	0.0	(Oryza glaberrima)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP9502	33	40

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G24140.1	1e-55	bHLH family protein

Publications ? help Back to Top
Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature. Differentiation, 2010. 80(1): p. 1-8 [PMID:20219281] Matos JL, et al. Irreversible fate commitment in the Arabidopsis stomatal lineage requires a FAMA and RETINOBLASTOMA-RELATED module. Elife, 2015. [PMID:25303364] Chen L, et al. NRPB3, the third largest subunit of RNA polymerase II, is essential for stomatal patterning and differentiation in Arabidopsis. Development, 2016. 143(9): p. 1600-11 [PMID:26989174] Lee JH,Jung JH,Park CM Light Inhibits COP1-Mediated Degradation of ICE Transcription Factors to Induce Stomatal Development in Arabidopsis. Plant Cell, 2017. 29(11): p. 2817-2830 [PMID:29070509] Han X, et al. Jasmonate Negatively Regulates Stomatal Development in Arabidopsis Cotyledons. Plant Physiol., 2018. 176(4): p. 2871-2885 [PMID:29496884] Li X,Yang R,Chen H The Arabidopsis thaliana Mediator subunit MED8 regulates plant immunity to Botrytis Cinerea through interacting with the basic helix-loop-helix (bHLH) transcription factor FAMA. PLoS ONE, 2018. 13(3): p. e0193458 [PMID:29513733]