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.7KG380300.2.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: 443aa MW: 48115.1 Da PI: 6.3752

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.7KG380300.2.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	18.7	3.1e-06	394	417	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 t++C +f C+ G++C+F H+ Pavir.7KG380300.2.p 394 TKPCAYFNSARGCRNGANCTFLHD 417 899********************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	13.657	391	419	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.97E-5	393	420	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.0E-4	394	417	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.0E-6	394	419	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: 443 aa Download sequence Send to blast
MSIFLLVRLF LSEDSPSQAG LRPQDNLQAK GSWLMHAAGP SSDDSLPPGF ESLQPTNNHK 60 IDISQIPLIR WRCPPQILYN PDWLVVAGEE SVEVGLQNER MFGALEAIYP RPSNIPPNPF 120 VSPDVKDSYF DDSRTQLVPL IPVEEDDASD QLEEQSVGPP NSYHQSDKYD SATVRVPQAA 180 DAPFTTAQKQ PNGSINTGSA AGISSEPDAV AAASAAYTAI MQSNQMGNMI DQDLLIKILS 240 DPAQLERLMK EYGTLKHEQP INSSAPAPML PGSLPQMTTS APVSFPDRMT TFHNINPALP 300 PPPVMNRLPP AVPSVGMNPP ASSSQAVNFS NVPGRGIDYY KTLIHQHGGE RQEPLQQHGM 360 QFGMHHHSVP SQTSTIAVVS NGTMPGRETK QRPTKPCAYF NSARGCRNGA NCTFLHDVSA 420 ARKEQPKGSK RIKLDSRIAG RY*

Sequence ? help Back to Top

Protein Sequence Length: 443 aa Download sequence Send to blast

MSIFLLVRLF LSEDSPSQAG LRPQDNLQAK GSWLMHAAGP SSDDSLPPGF ESLQPTNNHK  60
IDISQIPLIR WRCPPQILYN PDWLVVAGEE SVEVGLQNER MFGALEAIYP RPSNIPPNPF  120
VSPDVKDSYF DDSRTQLVPL IPVEEDDASD QLEEQSVGPP NSYHQSDKYD SATVRVPQAA  180
DAPFTTAQKQ PNGSINTGSA AGISSEPDAV AAASAAYTAI MQSNQMGNMI DQDLLIKILS  240
DPAQLERLMK EYGTLKHEQP INSSAPAPML PGSLPQMTTS APVSFPDRMT TFHNINPALP  300
PPPVMNRLPP AVPSVGMNPP ASSSQAVNFS NVPGRGIDYY KTLIHQHGGE RQEPLQQHGM  360
QFGMHHHSVP SQTSTIAVVS NGTMPGRETK QRPTKPCAYF NSARGCRNGA NCTFLHDVSA  420
ARKEQPKGSK RIKLDSRIAG RY*

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.7KG380300.2.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-162	C3H30_ORYSJ; Zinc finger CCCH domain-containing protein 30
TrEMBL	A0A2S3IB97	0.0	A0A2S3IB97_9POAL; Uncharacterized protein
STRING	Pavir.Ga00146.1.p	0.0	(Panicum virgatum)

Link Out ? help Back to Top
Phytozome	Pavir.7KG380300.2.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]