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

GSBRNA2T00145340001

Common Name

GSBRNA2T00145340001

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

C3H

Protein Properties

Length: 374aa MW: 41409.2 Da PI: 8.4899

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00145340001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	32.1	2e-10	119	142	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 e C+ f+r G C++Gd C FaHg GSBRNA2T00145340001 119 AEVCPEFRRDGDCSRGDDCEFAHG 142 589********************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	3.01E-6	115	146	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	6.6E-6	116	143	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.929	116	144	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.1E-6	117	144	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.5E-8	119	142	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.5	152	175	IPR000571	Zinc finger, CCCH-type

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

Sequence ? help Back to Top
Protein Sequence Length: 374 aa Download sequence Send to blast
MDVAMRPTVD IPPRKLLLAE SSPRYSPRKH NWNSKVSNKI AIPEREEEKE DNNNSKETTK 60 EYCYDSDTDD PYASEHFRMF EFKIRRCTRS RSHDWTDCPF AHPGEKARRR DPRRFQYSAE 120 VCPEFRRDGD CSRGDDCEFA HGVFECWLHP IRYRTEACKD GKHCKRKVCF FAHSPRQLRV 180 LPPENVSGGS ASASPAKNPC CMFCSSSPTS TLLGNLSHLS RSPSLSPPLS PASHKAAAFS 240 RLRNRAASTV SEAVSAAAAA GSVNYNDVLT ELVNSLDSIN LAEALHVSSS SPVTTPVSGA 300 AAAAFASSCG LSNQRLHLQQ QQSSPLQFAL SPSTPSYLTN SPRPNIFSGE FTPPQRQINE 360 FTAVRDKTSF CRN*

Sequence ? help Back to Top

Protein Sequence Length: 374 aa Download sequence Send to blast

MDVAMRPTVD IPPRKLLLAE SSPRYSPRKH NWNSKVSNKI AIPEREEEKE DNNNSKETTK  60
EYCYDSDTDD PYASEHFRMF EFKIRRCTRS RSHDWTDCPF AHPGEKARRR DPRRFQYSAE  120
VCPEFRRDGD CSRGDDCEFA HGVFECWLHP IRYRTEACKD GKHCKRKVCF FAHSPRQLRV  180
LPPENVSGGS ASASPAKNPC CMFCSSSPTS TLLGNLSHLS RSPSLSPPLS PASHKAAAFS  240
RLRNRAASTV SEAVSAAAAA GSVNYNDVLT ELVNSLDSIN LAEALHVSSS SPVTTPVSGA  300
AAAAFASSCG LSNQRLHLQQ QQSSPLQFAL SPSTPSYLTN SPRPNIFSGE FTPPQRQINE  360
FTAVRDKTSF CRN*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.4587	0.0	seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Specifically expressed in seeds. {ECO:0000269\|PubMed:18487351}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription repressor that functions as negative regulator of phytochrome-mediated promotion of seed germination. Inhibits seed germination by regulating the expression of gibberellic acid (GA) and abscisic acid (ABA) metabolic genes. Does not regulate the expression of the DELLA genes RGA and RGA1. Activated by PIL5, a phytochrome-interacting basic helix-loop-helix transcription factor. {ECO:0000269\|PubMed:18487351}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00145340001

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013603326.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 2
Refseq	XP_013694008.2	0.0	zinc finger CCCH domain-containing protein 2
Swissprot	Q9ZWA1	1e-173	C3H2_ARATH; Zinc finger CCCH domain-containing protein 2
TrEMBL	A0A0D3DIQ4	0.0	A0A0D3DIQ4_BRAOL; Uncharacterized protein
STRING	Bo8g002610.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2987	27	66

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03790.1	1e-123	C3H family protein

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] 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] Chang G, et al. AFP2 as the novel regulator breaks high-temperature-induced seeds secondary dormancy through ABI5 and SOM in Arabidopsis thaliana. Biochem. Biophys. Res. Commun., 2018. 501(1): p. 232-238 [PMID:29723526]