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

101529

Common Name

SELMODRAFT_101529

Organism

Selaginella moellendorffii

Taxonomic ID

88036

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Lycopodiidae; Selaginellales; Selaginellaceae; Selaginella

Family

C3H

Protein Properties

Length: 70aa MW: 7990.34 Da PI: 10.8501

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
101529	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	32	2e-10	2	26	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C+f++++G C++ drC++aH 101529 2 DRVNCPFYLKMGACRRRDRCSRAHL 26 689*********************6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	11.92	1	28	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.4E-7	2	26	IPR000571	Zinc finger, CCCH-type
PRINTS	PR01848	5.2E-12	6	25	IPR009145	U2 auxiliary factor small subunit
PRINTS	PR01848	5.2E-12	25	45	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: 70 aa Download sequence Send to blast
QDRVNCPFYL KMGACRRRDR CSRAHLKPKQ SCTLLLNNMY QSHPRSGMQK HCHPQGRAPE 60 GLGCVLPRR*

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}.

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_002989645.2	4e-20	splicing factor U2af small subunit B
Swissprot	Q9FMY5	6e-13	U2AFB_ARATH; Splicing factor U2af small subunit B
TrEMBL	D8RTF9	2e-43	D8RTF9_SELML; Uncharacterized protein (Fragment)
STRING	EFJ24670	4e-44	(Selaginella moellendorffii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Representative plant	OGRP5926	6	6

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G44785.1	1e-15	C3H family protein

Link Out ? help Back to Top
Phytozome	101529
Entrez Gene	9658390

Publications ? help Back to Top
Banks JA, et al. The Selaginella genome identifies genetic changes associated with the evolution of vascular plants. Science, 2011. 332(6032): p. 960-3 [PMID:21551031] 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]