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

LOC_Os10g25220.1

Common Name

Os10g0391300, OsJ_030157, OsJ_31392, OSJNBb0061I18.1

Organism

Oryza sativa subsp. japonica

Taxonomic ID

39947

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; Oryza sativa

Family

C3H

Protein Properties

Length: 703aa MW: 81200.6 Da PI: 8.8673

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
LOC_Os10g25220.1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	26.5	1.1e-08	683	700	9	26
GGGTS--TTTTT-SS-SS CS zf-CCCH 9 fartGtCkyGdrCkFaHg 26 +++ G+C+yG++CkF+H+ LOC_Os10g25220.1 683 YQQQGWCPYGENCKFMHD 700 8999*************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.720.30	7.2E-5	124	163	IPR003034	SAP domain
PROSITE profile	PS50103	14.352	674	702	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0015	676	701	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.07E-6	676	701	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.4E-6	678	700	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.2E-6	683	700	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding
GO:0046872	Molecular Function	metal ion binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0009049	anatomy	inflorescence
PO:0001083	developmental stage	inflorescence development stage
PO:0007006	developmental stage	IL.00 inflorescence just visible stage

Sequence ? help Back to Top
Protein Sequence Length: 703 aa Download sequence Send to blast
MAAPAADDDD HRAALPREED DGEEEEGSEE EVESDDEEEE EGEGYDWSEE DDPEAASLAG 60 ICDPDAGSYD DPTFDPAADG DLEVDAVLRS RMARMSLSSA RKDRKGSRMP KMGKEEMDLL 120 AMVDKLMHDG QLEKLKVYEC KAYLRMHKLR LSGNKEVLLT RIRGQIEVKT MGEVKYPVSS 180 FVLNCQGDSC KGDVVVFEQN IYKRKKGAPR GVKGHLCGQR TNAGRIIKES YGTKKQQHTF 240 TIEILWSRGY KPWPPLHPLL IKGRNLYKDK TMRQPWLDEE ERNRALQEKH ARGYVARKTR 300 EVRIKDKENE RMRRLNRNKE NKSKGQDNMN KKSSQAVFPQ HTVTTNTVQK RAEKIIPSLQ 360 HGESGNSSQQ HLSSKQTPTE QLLHYLPQFP HPQQHNEVLL QKGTSRTSTT QLINHQAPSL 420 QHAVKVETTQ QQQQQQPPKS IKPAPIQQSS AYPQQYPKHQ HHNQALPRVP PSQEQRAAVS 480 QTSAARQDFT NHQAPPSRQH GGSENMRRQE ISSRPTPTPT PQQAVSYTQQ QPPNHQYRNE 540 AFWQQGGTST SRTGFMDRQS NNWGSTDHDK PAFQPFTQKA KTYQHGSNGS GHHQARVDRE 600 THQPLRSRNQ DYHWEDQSYH HQQNHHQNYY GHRQMSQDQY HHQQNHHQNY HGRQGMNGNQ 660 YHDRQNHNQN PQRFRPWKPC FIYQQQGWCP YGENCKFMHD LR*

Sequence ? help Back to Top

Protein Sequence Length: 703 aa Download sequence Send to blast

MAAPAADDDD HRAALPREED DGEEEEGSEE EVESDDEEEE EGEGYDWSEE DDPEAASLAG  60
ICDPDAGSYD DPTFDPAADG DLEVDAVLRS RMARMSLSSA RKDRKGSRMP KMGKEEMDLL  120
AMVDKLMHDG QLEKLKVYEC KAYLRMHKLR LSGNKEVLLT RIRGQIEVKT MGEVKYPVSS  180
FVLNCQGDSC KGDVVVFEQN IYKRKKGAPR GVKGHLCGQR TNAGRIIKES YGTKKQQHTF  240
TIEILWSRGY KPWPPLHPLL IKGRNLYKDK TMRQPWLDEE ERNRALQEKH ARGYVARKTR  300
EVRIKDKENE RMRRLNRNKE NKSKGQDNMN KKSSQAVFPQ HTVTTNTVQK RAEKIIPSLQ  360
HGESGNSSQQ HLSSKQTPTE QLLHYLPQFP HPQQHNEVLL QKGTSRTSTT QLINHQAPSL  420
QHAVKVETTQ QQQQQQPPKS IKPAPIQQSS AYPQQYPKHQ HHNQALPRVP PSQEQRAAVS  480
QTSAARQDFT NHQAPPSRQH GGSENMRRQE ISSRPTPTPT PQQAVSYTQQ QPPNHQYRNE  540
AFWQQGGTST SRTGFMDRQS NNWGSTDHDK PAFQPFTQKA KTYQHGSNGS GHHQARVDRE  600
THQPLRSRNQ DYHWEDQSYH HQQNHHQNYY GHRQMSQDQY HHQQNHHQNY HGRQGMNGNQ  660
YHDRQNHNQN PQRFRPWKPC FIYQQQGWCP YGENCKFMHD LR*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Os.46688	0.0	callus\| panicle

Expression -- Microarray ? help Back to Top
Source	ID
Expression Atlas	Q338N2

Cis-element ? help Back to Top
Source	Link
PlantRegMap	LOC_Os10g25220.1

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

Phenotype -- Mutation ? help Back to Top
Source	ID
RiceGE	Os10g25220

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC079936	0.0	AC079936.7 Oryza sativa Japonica Group chromosome X clone OSJNBb0061I18, complete sequence.
GenBank	AC091734	0.0	AC091734.3 Genomic Sequence for Oryza sativa, Nipponbare strain, clone OSJNBa0068A07, from Chromosome 10, complete sequence.
GenBank	AP014966	0.0	AP014966.1 Oryza sativa Japonica Group DNA, chromosome 10, cultivar: Nipponbare, complete sequence.
GenBank	CP012618	0.0	CP012618.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 10 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025876398.1	0.0	zinc finger CCCH domain-containing protein 62
Swissprot	Q338N2	0.0	C3H62_ORYSJ; Zinc finger CCCH domain-containing protein 62
TrEMBL	B8BGM9	0.0	B8BGM9_ORYSI; Uncharacterized protein
STRING	ORGLA10G0072900.1	0.0	(Oryza glaberrima)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP13107	20	22
Representative plant	OGRP4512	6	6

Link Out ? help Back to Top
Phytozome	LOC_Os10g25220.1

Publications ? help Back to Top
Rice Chromosome 10 Sequencing Consortium In-depth view of structure, activity, and evolution of rice chromosome 10. Science, 2003. 300(5625): p. 1566-9 [PMID:12791992] Wang D, et al. Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice. BMC Genomics, 2008. 9: p. 44 [PMID:18221561]