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 Solyc03g116420.1.1
Organism
Solanum lycopersicum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family C3H
Protein Properties Length: 199aa    MW: 22465.2 Da    PI: 7.3822
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc03g116420.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH20.49e-075275326
                        S---SGGGGTS--TTTTT-SS-SS CS
             zf-CCCH  3 telCrffartGtCkyGdrCkFaHg 26
                        + +Cr f + GtC+yG++C+  H+
  Solyc03g116420.1.1 52 QNICRQFKKWGTCPYGEKCCHLHS 75
                        568****************98887 PP
2zf-CCCH216.1e-07109134227
                         -S---SGGGGTS--TTTTT-SS-SSS CS
             zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                         kt+lC+ +     C yG++C FaHg+
  Solyc03g116420.1.1 109 KTKLCHQWEMKKRCFYGEKCIFAHGE 134
                         9***********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF902294.97E-74979IPR000571Zinc finger, CCCH-type
SMARTSM003560.0244976IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.3855077IPR000571Zinc finger, CCCH-type
PfamPF006421.9E-45275IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.106.3E-85478IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.3E-12103139IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.15E-8107138IPR000571Zinc finger, CCCH-type
SMARTSM003561.6E-4107134IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.361107135IPR000571Zinc finger, CCCH-type
PfamPF006422.7E-4109134IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0061158Biological Process3'-UTR-mediated mRNA destabilization
GO:0005829Cellular Componentcytosol
GO:0003730Molecular FunctionmRNA 3'-UTR binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 199 aa     Download sequence    Send to blast
MSTPDNNLEI SGKRNEYSGN AECESLKKPI EENSRMAQEG NIPIVPTIHD RQNICRQFKK  60
WGTCPYGEKC CHLHSTDEGE PRESSAIILV NDSQDIGQPK APVNCTKLKT KLCHQWEMKK  120
RCFYGEKCIF AHGEAEMRSL DSSNPPESRS SADISSLSRN VLATNLESNE KQTIAQAKHR  180
PKLDDLKRNS RIYGDWIE*
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc03g116420.1.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU1247420.0Solanum lycopersicum chromosome 3 clone C03HBa0323D22, complete sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019068281.11e-147zinc finger CCCH domain-containing protein 39-like
RefseqXP_025885922.11e-147zinc finger CCCH domain-containing protein 39-like
TrEMBLK4BLE41e-146K4BLE4_SOLLC; Uncharacterized protein
STRINGSolyc03g116420.1.11e-147(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA130261320
Representative plantOGRP10392510
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G19360.12e-13C3H family protein
Publications ? help Back to Top
  1. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]