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 462911089
Organism
Eragrostis tef
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Eragrostideae; Eragrostidinae; Eragrostis
Family C3H
Protein Properties Length: 298aa    MW: 33934.1 Da    PI: 4.9973
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
462911089genomeTefView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH308.7e-101438226
               -S---SGGGGTS--TTTTT-SS-SS CS
    zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHg 26
               ++++C+f+++ G C++GdrC++ H 
  462911089 14 DRVNCPFYFKIGACRHGDRCSRLHN 38
               6899********************7 PP
2zf-CCCH308.7e-10159183226
                -S---SGGGGTS--TTTTT-SS-SS CS
    zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                ++++C+f+++ G C++GdrC++ H 
  462911089 159 DRVNCPFYFKIGACRHGDRCSRLHN 183
                6899********************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.0471240IPR000571Zinc finger, CCCH-type
SMARTSM003560.00551339IPR000571Zinc finger, CCCH-type
PfamPF006422.2E-71438IPR000571Zinc finger, CCCH-type
PRINTSPR018482.2E-411837IPR009145U2 auxiliary factor small subunit
PRINTSPR018482.2E-413757IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3309.5E-1944129IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018482.2E-417590IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549289.09E-1077129IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018482.2E-41103125IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010313.047157185IPR000571Zinc finger, CCCH-type
SMARTSM003560.0055158184IPR000571Zinc finger, CCCH-type
PfamPF006422.2E-7159183IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.30.70.3302.1E-18189272IPR012677Nucleotide-binding alpha-beta plait domain
SuperFamilySSF549281.92E-9222274IPR012677Nucleotide-binding alpha-beta plait domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000398Biological ProcessmRNA splicing, via spliceosome
GO:0089701Cellular ComponentU2AF
GO:0000166Molecular Functionnucleotide binding
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 298 aa     Download sequence    Send to blast
MAEHLASIFG TEKDRVNCPF YFKIGACRHG DRCSRLHNKP SISPTLLLCN MYQRPDMITP  60
GVDAQGNPID PERIQEDFED FYEDIFTELS KHGEIESLHV CDNLADHMIG NVYVQFREED  120
QAARALQTYE YQSRHVRLLQ AITIIMAEHL ASIFGTEKDR VNCPFYFKIG ACRHGDRCSR  180
LHNKPSISPT LLLCNMYQRP DMITPGVDAQ GNPIDPERIQ EDFEDFYEDI FTELSKHGEI  240
ESLHVCDNLA DHMIGNVYVQ FREEDQAARA LQIADLRRTA ATAADTATSC TSRRLAGS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A1e-4312711176Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtNecessary for the splicing of pre-mRNA. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMap462911089
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0392601e-156BT039260.1 Zea mays full-length cDNA clone ZM_BFc0002K22 mRNA, complete cds.
GenBankBT0393401e-156BT039340.1 Zea mays full-length cDNA clone ZM_BFc0006D14 mRNA, complete cds.
GenBankBT0662821e-156BT066282.1 Zea mays full-length cDNA clone ZM_BFc0164N06 mRNA, complete cds.
GenBankBT0694071e-156BT069407.1 Zea mays full-length cDNA clone ZM_BFb0118A09 mRNA, complete cds.
GenBankEU9608981e-156EU960898.1 Zea mays clone 229462 splicing factor U2af 38 kDa subunit mRNA, complete cds.
GenBankEU9671721e-156EU967172.1 Zea mays clone 300006 splicing factor U2af 38 kDa subunit mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021307907.11e-87splicing factor U2af small subunit A-like
RefseqXP_021307908.11e-87splicing factor U2af small subunit A-like
RefseqXP_021307909.11e-87splicing factor U2af small subunit A-like
RefseqXP_021307910.11e-87splicing factor U2af small subunit A-like
SwissprotQ9ZQW82e-83U2AFA_ORYSJ; Splicing factor U2af small subunit A
TrEMBLA0A1B6QDD43e-86A0A1B6QDD4_SORBI; Uncharacterized protein
STRINGPavir.J34580.1.p7e-88(Panicum virgatum)
STRINGSb02g028540.26e-87(Sorghum bicolor)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G44785.12e-29C3H 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. Domon C,Lorković ZJ,Valcárcel J,Filipowicz W
    Multiple forms of the U2 small nuclear ribonucleoprotein auxiliary factor U2AF subunits expressed in higher plants.
    J. Biol. Chem., 1998. 273(51): p. 34603-10
    [PMID:9852132]