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 ORGLA04G0104900.1
Organism
Oryza glaberrima
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
Family C3H
Protein Properties Length: 349aa    MW: 39073.4 Da    PI: 9.9805
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA04G0104900.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH20.11.1e-06286309126
                        --S---SGGGGTS--TTTTT-SS-SS CS
            zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                        y+ e Cr++++   C++ ++C+FaH+
  ORGLA04G0104900.1 286 YGVEVCRDYLK-NMCNR-ESCRFAHP 309
                        899********.*****.*******9 PP
2zf-CCCH19.12.4e-06320342327
                        S---SGGGGTS--TTTTT-SS-SSS CS
            zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                         e Cr+f r G+C++ + C+F H+p
  ORGLA04G0104900.1 320 VEVCRDFKR-GECNR-PACRFYHPP 342
                        589******.*****.*******96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003560.037106133IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.183106134IPR000571Zinc finger, CCCH-type
PfamPF146080.1112132No hitNo description
PROSITE profilePS5010311.836141168IPR000571Zinc finger, CCCH-type
SMARTSM003560.21141167IPR000571Zinc finger, CCCH-type
PfamPF146083.6153166No hitNo description
Gene3DG3DSA:4.10.1000.104.1E-6182210IPR000571Zinc finger, CCCH-type
SMARTSM003565.3E-4184211IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.807184212IPR000571Zinc finger, CCCH-type
SMARTSM003560.73215239IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.291219240IPR000571Zinc finger, CCCH-type
PfamPF146082.1220237No hitNo description
Gene3DG3DSA:4.10.1000.105.9E-4284308IPR000571Zinc finger, CCCH-type
SMARTSM003564.7E-4285310IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.338285311IPR000571Zinc finger, CCCH-type
PfamPF146080.012291309No hitNo description
PROSITE profilePS5010312.596317343IPR000571Zinc finger, CCCH-type
SMARTSM003565.4E-4317342IPR000571Zinc finger, CCCH-type
PfamPF146080.13323341No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 349 aa     Download sequence    Send to blast
MASAETPNPD AEIPNTGAAA AAAAEPAAAA ATTDPAAAGS PSPPLPPRKR RLSPTPSPTR  60
RSSRSRSRSR SRSPRRGRSR SRSRSRSRGR SASPRYPDGK RRRHNDLNVE VCRDFLRDRC  120
ARADIECKYA HPHPTVAVDR DSKVTACADS LRNNCFRGRT CRYYHPPPHI QESLLRSIGV  180
EDPKVKMQVC RDFTRGRCSR SANECRFLHH SPLEDCAIVC QDFLRGRCDR KSCRYSHVMA  240
HPMPPPMRDI PMQYPDMVYM PPPAPLGVPM MMPPPSAPAA FSGNNYGVEV CRDYLKNMCN  300
RESCRFAHPD LNNEVMNTQV EVCRDFKRGE CNRPACRFYH PPASSNSIG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5u6h_A2e-141071741479Muscleblind-like protein 1
5u9b_A2e-141071741479Muscleblind-like protein 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
17989RSRSRSRSRGR
28189RSRSRSRGR
Cis-element ? help Back to Top
SourceLink
PlantRegMapORGLA04G0104900.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0606340.0AK060634.1 Oryza sativa Japonica Group cDNA clone:001-027-B10, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015636416.10.0zinc finger CCCH domain-containing protein 28 isoform X1
RefseqXP_015636417.10.0zinc finger CCCH domain-containing protein 28 isoform X1
RefseqXP_025880587.10.0zinc finger CCCH domain-containing protein 28 isoform X1
SwissprotQ0JD070.0C3H28_ORYSJ; Zinc finger CCCH domain-containing protein 28
TrEMBLI1PLI00.0I1PLI0_ORYGL; Uncharacterized protein
STRINGORGLA04G0104900.10.0(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP109041922
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]