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

Pavir.7NG426500.2.p

Organism

Panicum virgatum

Taxonomic ID

38727

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum

Family

C3H

Protein Properties

Length: 415aa MW: 45064.4 Da PI: 6.3907

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.7NG426500.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	18.8	2.9e-06	366	389	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 t++C +f C+ G++C+F H+ Pavir.7NG426500.2.p 366 TKPCAYFNSARGCRNGANCTFLHD 389 899********************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	13.657	363	391	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.58E-5	365	392	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	9.6E-5	366	389	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.8E-6	366	391	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: 415 aa Download sequence Send to blast
MGHRGQSLQA GPSSDDSLPP GFESLQPTNN HKIDISQIPL VRWRCPPQIL YNPDWLLVAG 60 EESVEVGLQN ERMFGALEAI YPRPSNIPPN PFVSPDVKDS YFDDSRTQSV PLIPVEEDDA 120 SDQLEEQSVG PPNSYHQSHK YDSATVRVPQ ASDAPFTTAQ QQPNGSINTA SAAGISSEPD 180 AVAAASAAYT AIMQSNQMGN MIDQDLLIKI LSDPAQLERL MKEYGTLKHE QPINSSAPAQ 240 MLPGPPPQMT ASAPVSFPDH VTTFHNINPA LPPPPPVMNR LPPAVPSVAM NPPASSQSVN 300 FPNVPGRGID YYKTLIHQHG GERQEPLQQH GMQFGMHHHS VPSQTSTIDV VSNGTMPGRE 360 TKQRPTKPCA YFNSARGCRN GANCTFLHDV SAARKEQPKG SKRIKLDSRI TGRY*

Sequence ? help Back to Top

Protein Sequence Length: 415 aa Download sequence Send to blast

MGHRGQSLQA GPSSDDSLPP GFESLQPTNN HKIDISQIPL VRWRCPPQIL YNPDWLLVAG  60
EESVEVGLQN ERMFGALEAI YPRPSNIPPN PFVSPDVKDS YFDDSRTQSV PLIPVEEDDA  120
SDQLEEQSVG PPNSYHQSHK YDSATVRVPQ ASDAPFTTAQ QQPNGSINTA SAAGISSEPD  180
AVAAASAAYT AIMQSNQMGN MIDQDLLIKI LSDPAQLERL MKEYGTLKHE QPINSSAPAQ  240
MLPGPPPQMT ASAPVSFPDH VTTFHNINPA LPPPPPVMNR LPPAVPSVAM NPPASSQSVN  300
FPNVPGRGID YYKTLIHQHG GERQEPLQQH GMQFGMHHHS VPSQTSTIDV VSNGTMPGRE  360
TKQRPTKPCA YFNSARGCRN GANCTFLHDV SAARKEQPKG SKRIKLDSRI TGRY*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pvr.5536	0.0	callus\| leaf

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.7NG426500.2.p

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_025823312.1	0.0	zinc finger CCCH domain-containing protein 30
Swissprot	Q7XM16	1e-144	C3H30_ORYSJ; Zinc finger CCCH domain-containing protein 30
TrEMBL	A0A2S3IB97	0.0	A0A2S3IB97_9POAL; Uncharacterized protein
TrEMBL	A0A3L6PXN5	0.0	A0A3L6PXN5_PANMI; Uncharacterized protein
STRING	Pavir.Gb00285.1.p	0.0	(Panicum virgatum)

Link Out ? help Back to Top
Phytozome	Pavir.7NG426500.2.p

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]