PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Medtr1g035130.6
Common NameMTR_1g035130
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Medicago
Family C3H
Protein Properties Length: 280aa    MW: 33066.7 Da    PI: 10.0825
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Medtr1g035130.6genomeMtView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH29.89.9e-101438226
                     -S---SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHg 26
                     ++++C+f+++ G C++GdrC++ H 
  Medtr1g035130.6 14 DRVNCPFYFKIGACRHGDRCSRLHN 38
                     6899********************7 PP

2zf-CCCH20.86.6e-07150173226
                      -S---SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                      +++ Cr + +   C++G+ C+F+H+
  Medtr1g035130.6 150 REATCRQYEE-NSCNRGGYCNFMHV 173
                      6789**9999.*************8 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.0651240IPR000571Zinc finger, CCCH-type
SMARTSM003560.00681339IPR000571Zinc finger, CCCH-type
PfamPF006422.6E-71438IPR000571Zinc finger, CCCH-type
PRINTSPR018483.4E-631837IPR009145U2 auxiliary factor small subunit
PRINTSPR018483.4E-633757IPR009145U2 auxiliary factor small subunit
CDDcd125398.65E-6244145No hitNo description
PROSITE profilePS5010210.01944146IPR000504RNA recognition motif domain
Gene3DG3DSA:3.30.70.3301.2E-2244144IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018483.4E-637590IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549281.05E-1477149IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018483.4E-63103125IPR009145U2 auxiliary factor small subunit
PRINTSPR018483.4E-63130154IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010311.629148175IPR000571Zinc finger, CCCH-type
SMARTSM003560.021148174IPR000571Zinc finger, CCCH-type
PfamPF006427.9E-5150174IPR000571Zinc finger, CCCH-type
PRINTSPR018483.4E-63165177IPR009145U2 auxiliary factor small subunit
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000398Biological ProcessmRNA splicing, via spliceosome
GO:0048573Biological Processphotoperiodism, flowering
GO:0089701Cellular ComponentU2AF
GO:0000166Molecular Functionnucleotide binding
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 280 aa     Download sequence    Send to blast
MAEHLASIFG TEKDRVNCPF YFKIGACRHG DRCSRLHNRP TISPTLLLSN MYQRPDIITP  60
GVDPNGQPID PRQIQQHFED FYEDIFTELS KFGYVETLNV CDNLADHMIG NVYVLFKEED  120
HAAAALASLR GRFYEGRPIL ADFSPVTDFR EATCRQYEEN SCNRGGYCNF MHVKKIGREL  180
RRKLFSSQRS RSRSRSNSPR RRRRSRSRER ERPRDRDYDS RGRRSSDRDR VRDGDRDRER  240
KRDSRDRDGG RRNGREAREG SEERRARIEQ WNREKEEKP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A7e-7411891184Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1180202RRKLFSSQRSRSRSRSNSPRRRR
2201209RRRSRSRER
3205215RSRERERPRDR
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Mtr.83880.0flower| leaf| root| stem
Functional Description ? help Back to Top
Source Description
UniProtNecessary for the splicing of pre-mRNA (By similarity). Probably active at the 3' splice sites. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapMedtr1g035130.6
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1407740.0AC140774.7 Medicago truncatula clone mth2-5e11, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024634157.10.0splicing factor U2af small subunit B isoform X2
SwissprotQ9FMY51e-137U2AFB_ARATH; Splicing factor U2af small subunit B
TrEMBLG7IA300.0G7IA30_MEDTR; Putative transcription factor C3H family
STRINGAES599411e-142(Medicago truncatula)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.14e-35C3H family protein
Publications ? help Back to Top
  1. Young ND, et al.
    The Medicago genome provides insight into the evolution of rhizobial symbioses.
    Nature, 2011. 480(7378): p. 520-4
    [PMID:22089132]
  2. Day IS, et al.
    Interactions of SR45, an SR-like protein, with spliceosomal proteins and an intronic sequence: insights into regulated splicing.
    Plant J., 2012. 71(6): p. 936-47
    [PMID:22563826]
  3. Kim DW,Jeon SJ,Hwang SM,Hong JC,Bahk JD
    The C3H-type zinc finger protein GDS1/C3H42 is a nuclear-speckle-localized protein that is essential for normal growth and development in Arabidopsis.
    Plant Sci., 2016. 250: p. 141-153
    [PMID:27457991]
  4. Park HY, et al.
    The Arabidopsis splicing factors, AtU2AF65, AtU2AF35, and AtSF1 shuttle between nuclei and cytoplasms.
    Plant Cell Rep., 2017. 36(7): p. 1113-1123
    [PMID:28432478]