PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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

Family

C3H

Protein Properties

Length: 75aa MW: 8742.11 Da PI: 10.0505

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT3G44785.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	26.7	9.6e-09	14	35	2	23
-S---SGGGGTS--TTTTT-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkF 23 ++++C+f+++ G C+ GdrC++ AT3G44785.1 14 DRVNCPFYFKIGVCRNGDRCSR 35 689*****************85 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	9.958	12	40	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.4E-6	14	35	IPR000571	Zinc finger, CCCH-type
PRINTS	PR01848	6.2E-14	18	37	IPR009145	U2 auxiliary factor small subunit
PRINTS	PR01848	6.2E-14	37	57	IPR009145	U2 auxiliary factor small subunit

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0000398	Biological Process	mRNA splicing, via spliceosome
GO:0089701	Cellular Component	U2AF
GO:0003723	Molecular Function	RNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 75 aa Download sequence Send to blast
MVEHLASIYG TEKDRVNCPF YFKIGVCRNG DRCSRLYTKP SISPTLLLSN TYQQGRLKQF 60 LDPVQSREKD PKKKF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4yh8_A	4e-19	1	53	1	53	Splicing factor U2AF 23 kDa subunit
Search in ModeBase

Expression -- Microarray ? help Back to Top
Source	ID
Expression Atlas	AT3G44785
AtGenExpress	AT3G44785

Functional Description ? help Back to Top
Source	Description
UniProt	Necessary for the splicing of pre-mRNA (By similarity). Probably active at the 3' splice sites. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT3G44785.1

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

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT3G44785

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC002534	1e-124	AC002534.1 Arabidopsis thaliana BAC T32N15 from chromosome III near 54 cM, complete sequence.
GenBank	CP002686	1e-124	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_974385.1	2e-50	Zinc finger C-x8-C-x5-C-x3-H type family protein
Swissprot	Q9S709	2e-27	U2AFA_ARATH; Splicing factor U2af small subunit A
TrEMBL	Q3EAP8	4e-49	Q3EAP8_ARATH; Zinc finger C-x8-C-x5-C-x3-H type family protein
STRING	AT3G44785.1	7e-50	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM21123	4	4
Representative plant	OGRP1576	3	3

Link Out ? help Back to Top
Phytozome	AT3G44785.1
Entrez Gene	2745945
iHOP	AT3G44785
wikigenes	AT3G44785

Publications ? help Back to Top
Delaney KJ, et al. Calmodulin interacts with and regulates the RNA-binding activity of an Arabidopsis polyadenylation factor subunit. Plant Physiol., 2006. 140(4): p. 1507-21 [PMID:16500995] Day IS, et al. Interactions of SR45, an SR-like protein, with spliceosomal proteins and an intronic sequence: insights into regulated splicing. Plant J., 2012. 71(6): p. 936-47 [PMID:22563826] Kim DW,Jeon SJ,Hwang SM,Hong JC,Bahk JD The C3H-type zinc finger protein GDS1/C3H42 is a nuclear-speckle-localized protein that is essential for normal growth and development in Arabidopsis. Plant Sci., 2016. 250: p. 141-153 [PMID:27457991] Park HY, et al. The Arabidopsis splicing factors, AtU2AF65, AtU2AF35, and AtSF1 shuttle between nuclei and cytoplasms. Plant Cell Rep., 2017. 36(7): p. 1113-1123 [PMID:28432478]