PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID LOC_Os06g21390.3
Common NameLOC4340884, MKRN, Os06g0318700, OsJ_21146, P0468A12.33, P0592B08.7
Organism
Oryza sativa subsp. japonica
Taxonomic ID
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: 358aa    MW: 40331.5 Da    PI: 7.3971
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os06g21390.3genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH28.42.8e-092444526
                      --SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH  5 lCrffartGtCkyGdrCkFaHg 26
                       C f+++ G C+yG+rC++ H+
  LOC_Os06g21390.3 24 VCTFYQK-GSCSYGSRCRYDHV 44
                      5******.*************7 PP
2zf-CCCH24.83.9e-08140161426
                       ---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH   4 elCrffartGtCkyGdrCkFaHg 26 
                       ++C+ fa++G C+yG+ C+ +Hg
  LOC_Os06g21390.3 140 PICS-FAAGGNCPYGEECPQMHG 161
                       6788.*****************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS501038.775118IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.7651946IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.97E-52043IPR000571Zinc finger, CCCH-type
SMARTSM003562.3E-42045IPR000571Zinc finger, CCCH-type
PfamPF006421.0E-62444IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.2E-42443IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.713136163IPR000571Zinc finger, CCCH-type
SMARTSM003560.0012137162IPR000571Zinc finger, CCCH-type
PfamPF006422.0E-5140161IPR000571Zinc finger, CCCH-type
SuperFamilySSF578502.18E-12193269No hitNo description
Gene3DG3DSA:3.30.40.104.6E-10198264IPR013083Zinc finger, RING/FYVE/PHD-type
CDDcd001627.55E-4204264No hitNo description
SMARTSM001842.7E-7205262IPR001841Zinc finger, RING-type
PROSITE profilePS5008912.297205263IPR001841Zinc finger, RING-type
PfamPF000972.0E-7205262IPR018957Zinc finger, C3HC4 RING-type
PROSITE patternPS005180229238IPR017907Zinc finger, RING-type, conserved site
PROSITE profilePS5010314.089292321IPR000571Zinc finger, CCCH-type
SMARTSM003560.0047292320IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.100.001293322IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0016567Biological Processprotein ubiquitination
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
GO:0016874Molecular Functionligase activity
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0025281anatomypollen
PO:0001015developmental stageK second mitotic division stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 358 aa     Download sequence    Send to blast
MHGACLKGEY CEFSHDWNDQ PNNVCTFYQK GSCSYGSRCR YDHVKVSRNP TVAPPPSSST  60
TTRASSSLQP LSFGRPHHVG YQADSSNPRQ QISMDVLAHS GSKPVWRNDF QHESVLEDGI  120
DWSISPTVQN QTTLSPADLP ICSFAAGGNC PYGEECPQMH GDLCTTCGKM CLHPYRPDER  180
EEHTKLCEKN HKRLESLKRS QEIECSVCLD RVLSKPTAAE RKFGLLSECD HPFCISCIRN  240
WRNNSPTSGM DVNSALRACP ICRKLSYYVI PSVLWYFSKE EKLEIIDNYK AKLKSIDCKY  300
FDFGTGTCPF GSSCFYKHAY RDGRLEEVIL RHLDADDGST VIAKNIRLSD FLSRLHL*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1194199ESLKRS
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.263430.0callus| flower| leaf| panicle| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO379898730.0
Expression AtlasQ5ZA07-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in dry seeds. Increased expression throughout imbibition and germination and when radicle and shoots are emerging. Up-regulated during cell differentiation. {ECO:0000269|PubMed:17870591}.
UniprotTISSUE SPECIFICITY: Expressed in primary roots and leaves. Detected in vascular bundle tissues. {ECO:0000269|PubMed:17870591}.
Functional Description ? help Back to Top
Source Description
UniProtE3 ubiquitin ligase catalyzing the covalent attachment of ubiquitin moieties onto substrate proteins. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os06g21390.3
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs06g21390
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1202500.0AK120250.1 Oryza sativa Japonica Group cDNA clone:J013045F22, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015643585.10.0E3 ubiquitin-protein ligase makorin
SwissprotQ5ZA070.0C3H41_ORYSJ; E3 ubiquitin-protein ligase makorin
TrEMBLA0A0D3GFY10.0A0A0D3GFY1_9ORYZ; Uncharacterized protein
STRINGOS06T0318700-010.0(Oryza sativa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08505.21e-146C3H family protein
Publications ? help Back to Top
  1. 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]
  2. Arumugam TU,Davies E,Morita EH,Abe S
    Sequence, expression and tissue localization of a gene encoding a makorin RING zinc-finger protein in germinating rice (Oryza sativa L. ssp. Japonica) seeds.
    Plant Physiol. Biochem., 2007 Oct-Nov. 45(10-11): p. 767-80
    [PMID:17870591]
  3. Wang D, et al.
    Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice.
    BMC Genomics, 2008. 9: p. 44
    [PMID:18221561]
  4. Sahi VP, et al.
    A molecular insight into Darwin's "plant brain hypothesis" through expression pattern study of the MKRN gene in plant embryo compared with mouse embryo.
    Plant Signal Behav, 2012. 7(3): p. 375-81
    [PMID:22499205]
  5. Wadekar HB,Sahi VP,Morita EH,Abe S
    MKRN expression pattern during embryonic and post-embryonic organogenesis in rice (Oryza sativa L. var. Nipponbare).
    Planta, 2013. 237(4): p. 1083-95
    [PMID:23262670]