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

Spipo27G0011400

Organism

Spirodela polyrhiza

Taxonomic ID

29656

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Araceae; Lemnoideae; Spirodela

Family

C3H

Protein Properties

Length: 160aa MW: 17246.5 Da PI: 8.4845

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Spipo27G0011400	genome	MIPS/IBIS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	21.7	3.5e-07	66	87	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 C++f rtG+C++Gd C++ H+ Spipo27G0011400 66 VCNNFVRTGFCQFGDGCRYFHP 87 5******************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00451	3.2E-4	3	38	IPR003604	Zinc finger, U1-type
SuperFamily	SSF57667	7.94E-14	4	45	No hit	No description
Pfam	PF06220	1.6E-10	5	38	IPR013085	Zinc finger, U1-C type
PROSITE profile	PS50103	13.319	61	89	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	6.28E-7	65	91	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.8E-6	66	89	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.3E-5	66	87	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 160 aa Download sequence Send to blast
MPLGKYYCDY CEKQFQDTPL ARKRHLEGAQ HQRAKALWYA SVRSAEVDGS GPGAGAFGRG 60 LPPPGVCNNF VRTGFCQFGD GCRYFHPTRN LQNDNQVILG PDAAASVHSA SPGRSPLMRS 120 SALGNMTGDQ VTVSWGILPL SLRPPLEGGY PHLPFVDWG*

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_024022720.1	2e-54	zinc finger CCCH domain-containing protein 3 isoform X1
Swissprot	Q0JP11	1e-46	C3H3_ORYSJ; Zinc finger CCCH domain-containing protein 3
TrEMBL	A0A1D1YW76	2e-69	A0A1D1YW76_9ARAE; Zinc finger CCCH domain-containing protein 3 (Fragment)
STRING	VIT_14s0060g00610.t01	1e-51	(Vitis vinifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP12617	23	26

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G26749.1	6e-40	C3H family protein

Link Out ? help Back to Top
Phytozome	Spipo27G0011400

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]