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

OMERI06G17560.1

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: 283aa MW: 31601.3 Da PI: 7.6501

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OMERI06G17560.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	17.5	7.4e-06	83	105	4	26
---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHg 26 + C+++ ++G Ck+G C ++H+ OMERI06G17560.1 83 PDCSYYVEFGSCKFGMGCLYNHP 105 58********************8 PP
2	zf-CCCH	23.3	1.1e-07	125	147	5	27
--SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHgp 27 C +++r+G CkyG +C+F+H+p OMERI06G17560.1 125 DCLHHLRFGRCKYGMNCRFNHPP 147 699******************97 PP
3	zf-CCCH	36.4	8.5e-12	187	212	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 ++t lC++++ G+Ck+G++CkF+H+ OMERI06G17560.1 187 PGTGLCSYYMNRGICKFGSNCKFHHP 212 5799*********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	11.451	79	107	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.76	79	106	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.065	120	148	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.11	120	147	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.19E-5	122	148	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	6.3E-5	125	147	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.8E-5	186	213	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.939	186	214	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	5.63E-7	187	213	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.8E-9	188	212	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.3E-5	189	211	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: 283 aa Download sequence Send to blast
MMQILCECCS SDHRSSSTPM ATTTSSSASD PAAISPTPSQ QHASSTVTTL DDRRPAGTSS 60 SAGETEPKAA VEPQEYPRRP GWPDCSYYVE FGSCKFGMGC LYNHPAKHAG GCDKLEHPQR 120 PGEHDCLHHL RFGRCKYGMN CRFNHPPDRQ PQQQVYFPWK ACHCHHSEGK SEAEHVKLNF 180 LGLPLRPGTG LCSYYMNRGI CKFGSNCKFH HPNPGSGHEK WDGSLQTNQI STGVNIYSVL 240 DHGVLNEQPV PSKDDFQRGN SCFQPAEQIR YTRDQLLKLR EVY

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	AK119453	0.0	AK119453.1 Oryza sativa Japonica Group cDNA clone:001-133-D12, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015641846.1	0.0	zinc finger CCCH domain-containing protein 42 isoform X1
Refseq	XP_025882267.1	0.0	zinc finger CCCH domain-containing protein 42 isoform X2
Swissprot	Q0DBW8	0.0	C3H42_ORYSJ; Zinc finger CCCH domain-containing protein 42
TrEMBL	A0A0E0E2E0	0.0	A0A0E0E2E0_9ORYZ; Uncharacterized protein
STRING	ORUFI06G17650.1	0.0	(Oryza rufipogon)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP14330	13	22

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G04990.2	7e-30	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]