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

GSBRNA2T00102740001

Common Name

GSBRNA2T00102740001, LOC106357273, LOC106405250

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 91aa MW: 10279.6 Da PI: 9.3975

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00102740001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	30.8	5.3e-10	17	58	14	54
HHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS HLH 14 driNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 d+iN+ + +L++llP+ + + +s K+s + +L+++++YI++L GSBRNA2T00102740001 17 DQINDLIIKLQQLLPElRNSRRSDKVSASRVLQETCNYIRNL 58 79************7779******************99 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	10.779	3	58	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.4E-9	17	72	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	5.01E-5	17	62	No hit	No description
SuperFamily	SSF47459	2.62E-10	17	77	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.7E-7	17	58	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

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

Sequence ? help Back to Top
Protein Sequence Length: 91 aa Download sequence Send to blast
MSGRRSRSRQ SSGISEDQIN DLIIKLQQLL PELRNSRRSD KVSASRVLQE TCNYIRNLHR 60 EVDDLSERLS ELLANTDTAQ AALIRSLLTQ *

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: At the globular stage, expressed in cells adjacent to the hypophysis and at later embryonic stages, restricted to the future root stem cells. {ECO:0000269\|PubMed:20220754}.
Uniprot	TISSUE SPECIFICITY: Expressed in root and shoot meristems, and young siliques. Low levels detected in all aerial tissues. {ECO:0000269\|PubMed:16527868, ECO:0000269\|PubMed:20023194, ECO:0000269\|PubMed:22339648}.

Functional Description ? help Back to Top
Source	Description
UniProt	Atypical and probable non DNA-binding bHLH transcription factor required for MONOPTEROS-dependent root initiation in embryo. Promotes the correct definition of the hypophysis cell division plane. Transcriptionally controlled by MONOPTEROS. Moves from its site of synthesis in pro-embryos cells into the hypophysis. Regulates brassinosteroid (BR) signaling by sequestering negative BR signaling components. May function as positive regulator of gibberellin signaling. May play a role in the regulation of light signaling and possibly auxin signaling. {ECO:0000269\|PubMed:16527868, ECO:0000269\|PubMed:20023194, ECO:0000269\|PubMed:20220754, ECO:0000269\|PubMed:22339648}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00102740001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Not induced by exogenous gibberellin. {ECO:0000269\|PubMed:16527868}.

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	AK227395	1e-88	AK227395.1 Arabidopsis thaliana mRNA for putative DNA-binding protein, complete cds, clone: RAFL14-05-N07.
GenBank	AY088286	1e-88	AY088286.1 Arabidopsis thaliana clone 519 mRNA, complete sequence.
GenBank	BT003046	1e-88	BT003046.1 Arabidopsis thaliana At1g74500 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009106117.1	9e-57	PREDICTED: transcription factor PRE3-like
Refseq	XP_013590973.1	9e-57	PREDICTED: transcription factor PRE3-like
Refseq	XP_013652409.1	9e-57	transcription factor PRE3-like
Refseq	XP_013701280.1	9e-57	transcription factor PRE3-like
Refseq	XP_018444670.1	9e-57	PREDICTED: transcription factor PRE3-like
Swissprot	Q9CA64	1e-45	PRE3_ARATH; Transcription factor PRE3
TrEMBL	A0A0D3D0N5	2e-55	A0A0D3D0N5_BRAOL; Uncharacterized protein
TrEMBL	A0A397YT54	2e-55	A0A397YT54_BRACM; Uncharacterized protein
TrEMBL	A0A3P6GW11	2e-55	A0A3P6GW11_BRAOL; Uncharacterized protein
TrEMBL	M4DHC9	2e-55	M4DHC9_BRARP; Uncharacterized protein
STRING	Bra015906.1-P	4e-56	(Brassica rapa)
STRING	Bo6g118800.1	4e-56	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM259	28	225

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G74500.1	2e-46	activation-tagged BRI1(brassinosteroid-insensitive 1)-suppressor 1

Link Out ? help Back to Top
Entrez Gene	106357273 \| 106405250

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] Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] Ezer D, et al. The G-Box Transcriptional Regulatory Code in Arabidopsis. Plant Physiol., 2017. 175(2): p. 628-640 [PMID:28864470] Lu KJ,De Rybel B,van Mourik H,Weijers D Regulation of intercellular TARGET OF MONOPTEROS 7 protein transport in the Arabidopsis root. Development, 2018. [PMID:29358212] Baesso B, et al. Transcription factors PRE3 and WOX11 are involved in the formation of new lateral roots from secondary growth taproot in A. thaliana. Plant Biol (Stuttg), 2018. 20(3): p. 426-432 [PMID:29450949]