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

OMERI04G24270.1

Organism

Oryza meridionalis

Taxonomic ID

40149

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: 478aa MW: 50789.3 Da PI: 8.4081

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OMERI04G24270.1	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	274	299	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 kt+ C + Ck+Gd+C+FaHg+ OMERI04G24270.1 274 KTRMCTKYNTAEGCKFGDKCHFAHGE 299 9***********************96 PP
2	zf-CCCH	37.3	4.6e-12	445	470	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 ykt+lC +f + GtC +GdrC+FaHg+ OMERI04G24270.1 445 YKTKLCENFVK-GTCTFGDRCHFAHGE 470 9********.***********96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05553	6.7E-14	181	215	IPR008480	Protein of unknown function DUF761, plant
PROSITE profile	PS50103	6.981	200	234	IPR000571	Zinc finger, CCCH-type
Pfam	PF14608	1.2	220	231	No hit	No description
SMART	SM00356	0.046	272	299	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.892	272	300	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.4E-13	273	304	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.09E-7	273	303	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.6E-4	274	299	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF54791	1.03E-13	339	414	IPR004088	K Homology domain, type 1
SMART	SM00322	8.9E-11	343	413	IPR004087	K Homology domain
Gene3D	G3DSA:3.30.1370.10	1.6E-14	343	413	IPR004088	K Homology domain, type 1
PROSITE profile	PS50084	14.257	344	408	IPR004088	K Homology domain, type 1
Pfam	PF00013	3.0E-10	346	408	IPR004088	K Homology domain, type 1
CDD	cd00105	1.88E-13	346	408	No hit	No description
Gene3D	G3DSA:4.10.1000.10	1.0E-14	443	474	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.27E-9	443	474	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.4E-8	444	470	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	17.488	444	471	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.5E-9	445	470	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: 478 aa Download sequence Send to blast
MAPLFHMEAL LPSSISPKLN SILHSHIYPQ VGQVFRALAK FKSLLLDVVL KKRAPTRGGG 60 GGKKYAIGYH SRPEKSKKRI ASFMKLLRFN WAAAAAVTPA RAKDLELHYH PYYYDYDDST 120 WNVVVPADGA AEEPRGGGDD GEDCGYLCWL EEETSADALP AAEEGVDDGG NGDGDGNGAV 180 NEIDRLAERF IARCHAKFLL EKQESYRRYQ EMMARSITIG CPFGEGCHFS HFVPGGYQAV 240 AKTLNLGNPA VPAPARAPMD HAAGGNSHPA SSGKTRMCTK YNTAEGCKFG DKCHFAHGER 300 ELGKPAYMSH ESAMAPPMGG RYGGRPEPPP PAAMGPPAGN FGASATAKIS VDASLAGGII 360 GKGGVNTKQI CRVTGVKLSI RDHESDPNLK NIELEGNFDQ IKQASNMVGE LIATISASTP 420 AKKPAGSAAG AAPAGRGGPG GRSNYKTKLC ENFVKGTCTF GDRCHFAHGE NEQRKGAA

Sequence ? help Back to Top

Protein Sequence Length: 478 aa Download sequence Send to blast

MAPLFHMEAL LPSSISPKLN SILHSHIYPQ VGQVFRALAK FKSLLLDVVL KKRAPTRGGG  60
GGKKYAIGYH SRPEKSKKRI ASFMKLLRFN WAAAAAVTPA RAKDLELHYH PYYYDYDDST  120
WNVVVPADGA AEEPRGGGDD GEDCGYLCWL EEETSADALP AAEEGVDDGG NGDGDGNGAV  180
NEIDRLAERF IARCHAKFLL EKQESYRRYQ EMMARSITIG CPFGEGCHFS HFVPGGYQAV  240
AKTLNLGNPA VPAPARAPMD HAAGGNSHPA SSGKTRMCTK YNTAEGCKFG DKCHFAHGER  300
ELGKPAYMSH ESAMAPPMGG RYGGRPEPPP PAAMGPPAGN FGASATAKIS VDASLAGGII  360
GKGGVNTKQI CRVTGVKLSI RDHESDPNLK NIELEGNFDQ IKQASNMVGE LIATISASTP  420
AKKPAGSAAG AAPAGRGGPG GRSNYKTKLC ENFVKGTCTF GDRCHFAHGE NEQRKGAA

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	A0A0E0DJR2	0.0	A0A0E0DJR2_9ORYZ; 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]