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

GSBRNA2T00089642001

Common Name

GSBRNA2T00089642001, LOC106397921

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: 400aa MW: 43895.7 Da PI: 7.7907

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00089642001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	31.7	2.5e-10	117	140	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 e C+ f+r G C++Gd C FaHg GSBRNA2T00089642001 117 AEVCPEFRRDGDCSRGDECEFAHG 140 589********************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	4.84E-6	113	144	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	7.4E-6	114	141	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.77	114	142	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.3E-6	115	142	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.5E-8	117	140	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.5	150	173	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: 400 aa Download sequence Send to blast
MDVVMRPTVD IPPRKLLLAE SSPRSSPRKH NWNNKVSNKI ATSEHEEDNE DSNNKETKEY 60 CYDSDTDDPY ASEHFRMFEF KIRRCTRSRS HDWTDCPFAH PGEKARRRDP RRFQYSAEVC 120 PEFRRDGDCS RGDECEFAHG VFECWLHPIR YRTEACKDGK HCKRKVCFFA HSPRQLRVLP 180 PENVSGGGSA SGSPAAAKNP CCMFCSSSPT STLLGNLSHL SRSPSLSPPL SPAHKAAAFS 240 RLRNRAASAV SEAVSAAAAA GSVNYNDVLN ELVNSLDSIN LAEALHVSSS SPVTTPVSAA 300 AAAFASSCGL SNQRLHLQQQ QSSPLQFALS PSTPSYLATS FSPSSPSYLT NSPRANIFSG 360 EITPRQRQKN EFTAVRDKTS FEDGSCGDPD LGWVNDLLT*

Sequence ? help Back to Top

Protein Sequence Length: 400 aa Download sequence Send to blast

MDVVMRPTVD IPPRKLLLAE SSPRSSPRKH NWNNKVSNKI ATSEHEEDNE DSNNKETKEY  60
CYDSDTDDPY ASEHFRMFEF KIRRCTRSRS HDWTDCPFAH PGEKARRRDP RRFQYSAEVC  120
PEFRRDGDCS RGDECEFAHG VFECWLHPIR YRTEACKDGK HCKRKVCFFA HSPRQLRVLP  180
PENVSGGGSA SGSPAAAKNP CCMFCSSSPT STLLGNLSHL SRSPSLSPPL SPAHKAAAFS  240
RLRNRAASAV SEAVSAAAAA GSVNYNDVLN ELVNSLDSIN LAEALHVSSS SPVTTPVSAA  300
AAAFASSCGL SNQRLHLQQQ QSSPLQFALS PSTPSYLATS FSPSSPSYLT NSPRANIFSG  360
EITPRQRQKN EFTAVRDKTS FEDGSCGDPD LGWVNDLLT*

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	GSBRNA2T00089642001

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_022547231.1	0.0	zinc finger CCCH domain-containing protein 2-like
Swissprot	Q9ZWA1	0.0	C3H2_ARATH; Zinc finger CCCH domain-containing protein 2
TrEMBL	A0A078FT47	0.0	A0A078FT47_BRANA; BnaA08g27570D protein
STRING	Bra030542.1-P	0.0	(Brassica rapa)

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-152	C3H family protein

Link Out ? help Back to Top
Entrez Gene	106397921

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]