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

ORGLA06G0284500.1

Organism

Oryza glaberrima

Taxonomic ID

4538

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: 279aa MW: 30822.4 Da PI: 7.3572

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ORGLA06G0284500.1	genome	AGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	17.5	7.3e-06	84	106	4	26
---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHg 26 + C+++ ++G Ck+G C ++H+ ORGLA06G0284500.1 84 PDCSYYVEFGSCKFGMGCLYNHP 106 58********************8 PP
2	zf-CCCH	25.6	2.1e-08	126	148	5	27
--SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHgp 27 C +++r+G CkyG +C+F+H+p ORGLA06G0284500.1 126 DCLHYLRFGRCKYGMNCRFNHPP 148 699******************97 PP
3	zf-CCCH	36.5	8.3e-12	188	213	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 ++t lC++++ G+Ck+G++CkF+H+ ORGLA06G0284500.1 188 PGTGLCSYYMNRGICKFGSNCKFHHP 213 5799*********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	11.451	80	108	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.76	80	107	IPR000571	Zinc finger, CCCH-type
Pfam	PF14608	0.36	85	106	No hit	No description
SMART	SM00356	0.0079	121	148	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.882	121	149	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	7.85E-6	123	150	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.4E-5	126	148	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	6.6E-4	127	147	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.8E-5	187	214	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.939	187	215	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	5.49E-7	188	214	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.8E-9	189	213	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.3E-5	190	212	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: 279 aa Download sequence Send to blast
MMQILCECCN SDHRSSSTPM ATTSSSAADP AAAAISPTPS QQHASSTVTT LDDRRPAGTS 60 SSAGETEPKA AVEPQEYPRR PGWPDCSYYV EFGSCKFGMG CLYNHPAKHA GGCDKLEHPQ 120 RPGEHDCLHY LRFGRCKYGM NCRFNHPPDR VPQQQVYFPW KACHCHHSEG KSEAEQVKLN 180 FIGLPLRPGT GLCSYYMNRG ICKFGSNCKF HHPNPGSGHE KWDGSLQTNQ ISSGVNIYSV 240 LDHGELNEQP VPSKDGFQVS FVQNIVGFNF YGVMPNTHH

Cis-element ? help Back to Top
Source	Link
PlantRegMap	ORGLA06G0284500.1

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_015641847.1	0.0	zinc finger CCCH domain-containing protein 42 isoform X3
Refseq	XP_025882267.1	0.0	zinc finger CCCH domain-containing protein 42 isoform X2
Refseq	XP_025882268.1	0.0	zinc finger CCCH domain-containing protein 42 isoform X4
Swissprot	Q0DBW8	0.0	C3H42_ORYSJ; Zinc finger CCCH domain-containing protein 42
TrEMBL	I1Q6T2	0.0	I1Q6T2_ORYGL; Uncharacterized protein
STRING	ORGLA06G0284500.1	0.0	(Oryza glaberrima)

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	1e-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]