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

ONIVA04G27230.1

Organism

Oryza nivara

Taxonomic ID

4536

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

C3H

Protein Properties

Length: 479aa MW: 50890.4 Da PI: 8.7347

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ONIVA04G27230.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	24.6	4.3e-08	275	300	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 kt+ C + Ck+Gd+C+FaHg+ ONIVA04G27230.1 275 KTRMCTKYNTAEGCKFGDKCHFAHGE 300 9***********************96 PP
2	zf-CCCH	37.3	4.6e-12	446	471	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 ykt+lC +f + GtC +GdrC+FaHg+ ONIVA04G27230.1 446 YKTKLCENFVK-GTCTFGDRCHFAHGE 471 9********.***********96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05553	6.8E-14	182	216	IPR008480	Protein of unknown function DUF761, plant
PROSITE profile	PS50103	6.981	201	235	IPR000571	Zinc finger, CCCH-type
Pfam	PF14608	1.2	221	232	No hit	No description
PROSITE profile	PS50103	13.892	273	301	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.046	273	300	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.4E-13	274	305	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.1E-7	274	304	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.6E-4	275	300	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF54791	1.05E-13	340	415	IPR004088	K Homology domain, type 1
SMART	SM00322	8.9E-11	344	414	IPR004087	K Homology domain
Gene3D	G3DSA:3.30.1370.10	1.6E-14	344	414	IPR004088	K Homology domain, type 1
PROSITE profile	PS50084	14.257	345	409	IPR004088	K Homology domain, type 1
Pfam	PF00013	3.0E-10	347	409	IPR004088	K Homology domain, type 1
CDD	cd00105	1.73E-13	347	409	No hit	No description
Gene3D	G3DSA:4.10.1000.10	1.0E-14	444	475	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.27E-9	444	475	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	17.488	445	472	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.4E-8	445	471	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.5E-9	446	471	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003723	Molecular Function	RNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 479 aa Download sequence Send to blast
MAPLFHMEAL LPSSISPKLN SILHSHIYPQ VGHVFRALAK FKSLLLDVVR KKRAPTRGGG 60 GKKYAIGYRS RPEKSKKRIA SFMKLLRFNW AAAAAVTPAR AKDLELHYHP YYYDYDDSTW 120 NVVVPADGAA EELRGGGGDD GEDCGYLCWL EEETSADALP AAGEGEDGGN GNGDGDGNGA 180 VNEIDRLAER FIARCHAKFL LEKQESYRRY QEMMARSITI GCPFGEGCHF SHFVPGGYQA 240 VAKTLNLGNP AVPAPARAPM DHAAGGNSHP ASSGKTRMCT KYNTAEGCKF GDKCHFAHGE 300 RELGKPAYMS HESAMAPPMG GRYGGRPEPP PPAAMGPPAG NFGASATAKI SVDASLAGGI 360 IGKGGVNTKQ ICRVTGVKLS IRDHESDPNL KNIELEGNFD QIKQASNMVG ELIATISAST 420 PAKKPAGSAA GAAPAGRGGP GGRSNYKTKL CENFVKGTCT FGDRCHFAHG ENEQRKGAA

Sequence ? help Back to Top

Protein Sequence Length: 479 aa Download sequence Send to blast

MAPLFHMEAL LPSSISPKLN SILHSHIYPQ VGHVFRALAK FKSLLLDVVR KKRAPTRGGG  60
GKKYAIGYRS RPEKSKKRIA SFMKLLRFNW AAAAAVTPAR AKDLELHYHP YYYDYDDSTW  120
NVVVPADGAA EELRGGGGDD GEDCGYLCWL EEETSADALP AAGEGEDGGN GNGDGDGNGA  180
VNEIDRLAER FIARCHAKFL LEKQESYRRY QEMMARSITI GCPFGEGCHF SHFVPGGYQA  240
VAKTLNLGNP AVPAPARAPM DHAAGGNSHP ASSGKTRMCT KYNTAEGCKF GDKCHFAHGE  300
RELGKPAYMS HESAMAPPMG GRYGGRPEPP PPAAMGPPAG NFGASATAKI SVDASLAGGI  360
IGKGGVNTKQ ICRVTGVKLS IRDHESDPNL KNIELEGNFD QIKQASNMVG ELIATISAST  420
PAKKPAGSAA GAAPAGRGGP GGRSNYKTKL CENFVKGTCT FGDRCHFAHG ENEQRKGAA

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AL606646	0.0	AL606646.3 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBa0087O24, complete sequence.
GenBank	AP014960	0.0	AP014960.1 Oryza sativa Japonica Group DNA, chromosome 4, cultivar: Nipponbare, complete sequence.
GenBank	CP012612	0.0	CP012612.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 4 sequence.
GenBank	CR855038	0.0	CR855038.1 Oryza sativa genomic DNA, chromosome 4, BAC clone: H1005F08, complete sequence.
GenBank	CT833835	0.0	CT833835.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCSA025P11, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015636567.1	0.0	zinc finger CCCH domain-containing protein 31
Swissprot	Q7XPK1	0.0	C3H31_ORYSJ; Zinc finger CCCH domain-containing protein 31
TrEMBL	A0A0E0H750	0.0	A0A0E0H750_ORYNI; Uncharacterized protein
STRING	ONIVA04G27230.1	0.0	(Oryza nivara)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1254	38	127

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G12130.1	3e-50	C3H family protein

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]