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.7KG434000.1.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: 457aa MW: 49742.9 Da PI: 6.9539

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.7KG434000.1.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	18.6	3.2e-06	408	431	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 t++C +f C+ G++C+F H+ Pavir.7KG434000.1.p 408 TKPCAYFNSARGCRNGANCTFLHD 431 899********************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	13.657	405	433	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	5.23E-5	407	434	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.1E-6	408	433	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.1E-4	408	431	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: 457 aa Download sequence Send to blast
MMGSRRSRRV SWANGANLCK VRLFLSEDSP SQAGLRPQDN LQAKGSWLMH AAGPSSDDSL 60 PPGFESLQPT NNHKIDISQI PLIRWRCPPQ ILYNPDWLVV AGEESVEVGL QNERMFGALE 120 AIYPRPSNIP PNPFVSPDVK DSYFDDSRTQ LVPLIPVEED DASDQLEEQS VGPPNSYHQS 180 DKYDSATVRV PQAADAPFTT AQKQPNGSIN TGSAAGISSE PDAVAAASAA YTAIMQSNQM 240 GNMIDQDLLI KILSDPAQLE RLMKEYGTLK HEQPINSSAP APMLLGPLPQ MTTSAPVSFP 300 DRMTTFHNIN PALPPPPVMN RLPPAVPSVG MNPPASSSQA VNFSNVPGRG IDYYKTLIHQ 360 HGGERQEPLQ QHGMQFGMHH HSVPSQTSTI DVVSNGTMPG RETKQRPTKP CAYFNSARGC 420 RNGANCTFLH DVSAARKEQP KGSKRIKLDS RIAGRY*

Sequence ? help Back to Top

Protein Sequence Length: 457 aa Download sequence Send to blast

MMGSRRSRRV SWANGANLCK VRLFLSEDSP SQAGLRPQDN LQAKGSWLMH AAGPSSDDSL  60
PPGFESLQPT NNHKIDISQI PLIRWRCPPQ ILYNPDWLVV AGEESVEVGL QNERMFGALE  120
AIYPRPSNIP PNPFVSPDVK DSYFDDSRTQ LVPLIPVEED DASDQLEEQS VGPPNSYHQS  180
DKYDSATVRV PQAADAPFTT AQKQPNGSIN TGSAAGISSE PDAVAAASAA YTAIMQSNQM  240
GNMIDQDLLI KILSDPAQLE RLMKEYGTLK HEQPINSSAP APMLLGPLPQ MTTSAPVSFP  300
DRMTTFHNIN PALPPPPVMN RLPPAVPSVG MNPPASSSQA VNFSNVPGRG IDYYKTLIHQ  360
HGGERQEPLQ QHGMQFGMHH HSVPSQTSTI DVVSNGTMPG RETKQRPTKP CAYFNSARGC  420
RNGANCTFLH DVSAARKEQP KGSKRIKLDS RIAGRY*

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.7KG434000.1.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-180	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)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP8680	10	13

Link Out ? help Back to Top
Phytozome	Pavir.7KG434000.1.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]