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

GSBRNA2T00084053001

Common Name

GSBRNA2T00084053001

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

C2H2

Protein Properties

Length: 489aa MW: 54499.2 Da PI: 6.1998

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00084053001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	21.1	8.1e-07	235	256	2	23
EETTTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCpdCgksFsrksnLkrHirtH 23 C++Cgk F+r nL+ H+r H GSBRNA2T00084053001 235 FCTICGKGFKRDANLRMHMRGH 256 6*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.11E-5	232	259	No hit	No description
SMART	SM00355	0.0026	234	256	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	12.03	234	261	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	6.8E-6	235	287	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	236	256	IPR007087	Zinc finger, C2H2
SMART	SM00355	50	285	318	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	45	323	345	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 489 aa Download sequence Send to blast
MEPEDDLCQN NWGGSSSSSS SKRREQVCFT SQHKWEDASI LDYEMGMEEE PAFQENSNNN 60 NGGQVNVDFL QGVRAQAWDP RTMLSNLSFM EEKIHELQDL VHLMVARNGQ LQGRQEQLVA 120 QQQQLITTDL TSIIIQLIST AGSLLPSVKH HNMSTAPGPF TGSALFPYPR EANNLASQTL 180 NNNTCEFDLP KPIVVEEEHE MKDEDDVEEG ENLLPGSYEI LQLEKEEILA PHTHFCTICG 240 KGFKRDANLR MHMRGHGDEY KTPAALAKPN KEAVPGSEPM LIKRYSCPFP GCKRNKDHKK 300 FQPLKTILCV KNHYKRTHCD KSFTCSRCHT KKFSVIADLK THEKHCGKNK WLCSCGTTFS 360 RKDKLFGHIA LFQGHTPAIP LEETKPSAQK GSSACENSNN NNTGMVGFNL GSATNAIEEV 420 AQPGFMDGKI RFEDSFSPLS FDTCNFGGFH EFPRPMFDDS ESSFQMLISS ACGFSPRNGG 480 ESVSNTSL*

Sequence ? help Back to Top

Protein Sequence Length: 489 aa Download sequence Send to blast

MEPEDDLCQN NWGGSSSSSS SKRREQVCFT SQHKWEDASI LDYEMGMEEE PAFQENSNNN  60
NGGQVNVDFL QGVRAQAWDP RTMLSNLSFM EEKIHELQDL VHLMVARNGQ LQGRQEQLVA  120
QQQQLITTDL TSIIIQLIST AGSLLPSVKH HNMSTAPGPF TGSALFPYPR EANNLASQTL  180
NNNTCEFDLP KPIVVEEEHE MKDEDDVEEG ENLLPGSYEI LQLEKEEILA PHTHFCTICG  240
KGFKRDANLR MHMRGHGDEY KTPAALAKPN KEAVPGSEPM LIKRYSCPFP GCKRNKDHKK  300
FQPLKTILCV KNHYKRTHCD KSFTCSRCHT KKFSVIADLK THEKHCGKNK WLCSCGTTFS  360
RKDKLFGHIA LFQGHTPAIP LEETKPSAQK GSSACENSNN NNTGMVGFNL GSATNAIEEV  420
AQPGFMDGKI RFEDSFSPLS FDTCNFGGFH EFPRPMFDDS ESSFQMLISS ACGFSPRNGG  480
ESVSNTSL*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.4240	1e-115	leaf\| microspore-derived embryo\| root\| seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in roots (e.g. root tips and lateral roots), leaves, flowers (e.g. stigma, sepal, anther, and filament), stems, siliques and cotyledons. {ECO:0000269\|PubMed:23935008}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. Together with STOP2, plays a critical role in tolerance to major stress factors in acid soils such as proton H(+) and aluminum ion Al(3+). Required for the expression of genes in response to acidic stress (e.g. ALMT1 and MATE), and Al-activated citrate exudation. {ECO:0000269\|PubMed:17535918, ECO:0000269\|PubMed:18826429, ECO:0000269\|PubMed:19321711, ECO:0000269\|PubMed:23935008}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00084053001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By shock H(+) and Al(3+) treatments. {ECO:0000269\|PubMed:17535918}.

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	AC232513	0.0	AC232513.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB065E07, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013715129.1	0.0	protein SENSITIVE TO PROTON RHIZOTOXICITY 1-like isoform X1
Refseq	XP_013715130.1	0.0	protein SENSITIVE TO PROTON RHIZOTOXICITY 1-like isoform X1
Refseq	XP_022545566.1	0.0	protein SENSITIVE TO PROTON RHIZOTOXICITY 1-like isoform X1
Swissprot	Q9C8N5	0.0	STOP1_ARATH; Protein SENSITIVE TO PROTON RHIZOTOXICITY 1
TrEMBL	A0A078I8Q3	0.0	A0A078I8Q3_BRANA; BnaA08g06410D protein
TrEMBL	A0A397YFM4	0.0	A0A397YFM4_BRACM; Uncharacterized protein
STRING	Bo8g027000.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6977	26	44

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G34370.2	0.0	C2H2 family protein

Publications ? help Back to Top
Kobayashi Y, et al. Molecular and physiological analysis of Al³⁺ and H⁺ rhizotoxicities at moderately acidic conditions. Plant Physiol., 2013. 163(1): p. 180-92 [PMID:23839867] 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] Yokosho K,Yamaji N,Ma JF Global transcriptome analysis of Al-induced genes in an Al-accumulating species, common buckwheat (Fagopyrum esculentum Moench). Plant Cell Physiol., 2014. 55(12): p. 2077-91 [PMID:25273892] Geng X, et al. LEUNIG_HOMOLOG transcriptional co-repressor mediates aluminium sensitivity through PECTIN METHYLESTERASE46-modulated root cell wall pectin methylesterification in Arabidopsis. Plant J., 2017. 90(3): p. 491-504 [PMID:28181322] Balzergue C, et al. Low phosphate activates STOP1-ALMT1 to rapidly inhibit root cell elongation. Nat Commun, 2017. 8: p. 15300 [PMID:28504266] Pelagio-Flores R,Esparza-Reynoso S,Garnica-Vergara A,López-Bucio J,Herrera-Estrella A Trichoderma-Induced Acidification Is an Early Trigger for Changes in Arabidopsis Root Growth and Determines Fungal Phytostimulation. Front Plant Sci, 2017. 8: p. 822 [PMID:28567051] Jiang F, et al. Identification and characterization of suppressor mutants of stop1. BMC Plant Biol., 2017. 17(1): p. 128 [PMID:28738784] Daspute AA, et al. Transcriptional Regulation of Aluminum-Tolerance Genes in Higher Plants: Clarifying the Underlying Molecular Mechanisms. Front Plant Sci, 2017. 8: p. 1358 [PMID:28848571] Sharma A,Wai CM,Ming R,Yu Q Diurnal Cycling Transcription Factors of Pineapple Revealed by Genome-Wide Annotation and Global Transcriptomic Analysis. Genome Biol Evol, 2017. 9(9): p. 2170-2190 [PMID:28922793] Zhang Y, et al. The Cell Cycle Checkpoint Regulator ATR Is Required for Internal Aluminum Toxicity-Mediated Root Growth Inhibition in Arabidopsis. Front Plant Sci, 2018. 9: p. 118 [PMID:29491872]