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.7KG434000.3.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: 409aa MW: 44384.8 Da PI: 6.233

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.7KG434000.3.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	2.8e-06	360	383	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 t++C +f C+ G++C+F H+ Pavir.7KG434000.3.p 360 TKPCAYFNSARGCRNGANCTFLHD 383 899********************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	13.657	357	385	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.45E-5	359	386	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	9.4E-5	360	383	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.8E-6	360	385	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: 409 aa Download sequence Send to blast
MHAAGPSSDD SLPPGFESLQ PTNNHKIDIS QIPLIRWRCP PQILYNPDWL VVAGEESVEV 60 GLQNERMFGA LEAIYPRPSN IPPNPFVSPD VKDSYFDDSR TQLVPLIPVE EDDASDQLEE 120 QSVGPPNSYH QSDKYDSATV RVPQAADAPF TTAQKQPNGS INTGSAAGIS SEPDAVAAAS 180 AAYTAIMQSN QMGNMIDQDL LIKILSDPAQ LERLMKEYGT LKHEQPINSS APAPMLLGPL 240 PQMTTSAPVS FPDRMTTFHN INPALPPPPV MNRLPPAVPS VGMNPPASSS QAVNFSNVPG 300 RGIDYYKTLI HQHGGERQEP LQQHGMQFGM HHHSVPSQTS TIDVVSNGTM PGRETKQRPT 360 KPCAYFNSAR GCRNGANCTF LHDVSAARKE QPKGSKRIKL DSRIAGRY*

Sequence ? help Back to Top

Protein Sequence Length: 409 aa Download sequence Send to blast

MHAAGPSSDD SLPPGFESLQ PTNNHKIDIS QIPLIRWRCP PQILYNPDWL VVAGEESVEV  60
GLQNERMFGA LEAIYPRPSN IPPNPFVSPD VKDSYFDDSR TQLVPLIPVE EDDASDQLEE  120
QSVGPPNSYH QSDKYDSATV RVPQAADAPF TTAQKQPNGS INTGSAAGIS SEPDAVAAAS  180
AAYTAIMQSN QMGNMIDQDL LIKILSDPAQ LERLMKEYGT LKHEQPINSS APAPMLLGPL  240
PQMTTSAPVS FPDRMTTFHN INPALPPPPV MNRLPPAVPS VGMNPPASSS QAVNFSNVPG  300
RGIDYYKTLI HQHGGERQEP LQQHGMQFGM HHHSVPSQTS TIDVVSNGTM PGRETKQRPT  360
KPCAYFNSAR GCRNGANCTF LHDVSAARKE QPKGSKRIKL DSRIAGRY*

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.7KG434000.3.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-143	C3H30_ORYSJ; Zinc finger CCCH domain-containing protein 30
TrEMBL	A0A3L6PXN5	0.0	A0A3L6PXN5_PANMI; Uncharacterized protein
STRING	Pavir.Ga00146.1.p	0.0	(Panicum virgatum)

Link Out ? help Back to Top
Phytozome	Pavir.7KG434000.3.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]