PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Solyc01g110140.2.1
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 SRS
Protein Properties Length: 207aa    MW: 23206.8 Da    PI: 8.018
Description SRS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc01g110140.2.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF702175.23.2e-54171515154
              DUF702   5 tasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstklssae 95 
                         +++CqdCGnqakkdC++ RCRtCCksrgf+C+thvkstWvp++ rr r++ l+ ++ ++++ ++  ++kr r++           +     
  Solyc01g110140.2.1  17 SSRCQDCGNQAKKDCTYIRCRTCCKSRGFHCETHVKSTWVPVSTRRPRHHLLHHTTIQQQQLQNGPNPKRYRSN-----------E----V 92 
                         579*********************************************99988877666555455555555443...........1....1 PP

              DUF702  96 skkeletsslPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154
                              e  ++P evss+avfrc+rvss+d+  +++aYqt+v+i+Ghvf GiLydqG+++
  Solyc01g110140.2.1  93 IGDDHEGGNFPGEVSSPAVFRCIRVSSIDNVVDQYAYQTSVKIAGHVFIGILYDQGPDN 151
                         223346788************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF051422.6E-5817150IPR007818Protein of unknown function DUF702
TIGRFAMsTIGR016238.9E-272061IPR006510Zinc finger, lateral root primordium type 1
TIGRFAMsTIGR016241.1E-25102149IPR006511Lateral Root Primordium type 1, C-terminal
Sequence ? help Back to Top
Protein Sequence    Length: 207 aa     Download sequence    Send to blast
MRREEEEEGR VSSSLSSSRC QDCGNQAKKD CTYIRCRTCC KSRGFHCETH VKSTWVPVST  60
RRPRHHLLHH TTIQQQQLQN GPNPKRYRSN EVIGDDHEGG NFPGEVSSPA VFRCIRVSSI  120
DNVVDQYAYQ TSVKIAGHVF IGILYDQGPD NESPRYNNYM AGESSSSGFQ LHQPLILPPT  180
TTTTSPPPST STYPNLFSAF NMPVQW*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In germinating seeds, first detected at about 48 h after imbibition. In young seedlings grown in continuous light, present in the root/shoot transition zone, in the apex, and in the apical region of the cotyledons. Later observed in lateral root primordia and in emerging lateral roots, particularly in the root tips, as well as in the shoot apex and in the new leaves, especially in the apical and lateral hydathodes. In adult plants, accumulates in lateral root tips, lateral root primordia, and axillary shoot primordia. In flowers, expressed in the style and stigmatic surface of the pistil and in the receptacle (base) of the flower throughout the development of the pistil until anthesis and later in the silique. Fades out after fertilization. {ECO:0000269|PubMed:11706176, ECO:0000269|PubMed:16740146}.
UniprotTISSUE SPECIFICITY: Expressed in young organs such as shoot apices and root tips. Present in roots, stems, flowers, leaves, hydathodes and siliques. {ECO:0000269|PubMed:10368174, ECO:0000269|PubMed:11706176}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds DNA on 5'-ACTCTAC-3' and promotes auxin homeostasis-regulating gene expression (e.g. YUC genes), as well as genes affecting stamen development, cell expansion and timing of flowering. Synergistically with other SHI-related proteins, regulates gynoecium, stamen and leaf development in a dose-dependent manner, controlling apical-basal patterning. Promotes style and stigma formation, and influences vascular development during gynoecium development. May also have a role in the formation and/or maintenance of the shoot apical meristem (SAM). Suppressor of the gibberellin (GA) signal transduction. {ECO:0000269|PubMed:10368174, ECO:0000269|PubMed:11706176, ECO:0000269|PubMed:16740146}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc01g110140.2.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004231430.11e-152protein SHI RELATED SEQUENCE 1 isoform X1
SwissprotQ9XGX06e-47SHI_ARATH; Protein SHORT INTERNODES
TrEMBLM1D2031e-97M1D203_SOLTU; Uncharacterized protein
STRINGSolyc01g110140.2.11e-154(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA41562445
Representative plantOGRP13131549
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G75520.14e-44SHI-related sequence 5
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]
  2. Islam MA, et al.
    Overexpression of the AtSHI gene in poinsettia, Euphorbia pulcherrima, results in compact plants.
    PLoS ONE, 2013. 8(1): p. e53377
    [PMID:23308204]
  3. Pfannebecker KC,Lange M,Rupp O,Becker A
    An Evolutionary Framework for Carpel Developmental Control Genes.
    Mol. Biol. Evol., 2017. 34(2): p. 330-348
    [PMID:28049761]
  4. Estornell LH,Landberg K,Cierlik I,Sundberg E
    SHI/STY Genes Affect Pre- and Post-meiotic Anther Processes in Auxin Sensing Domains in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 150
    [PMID:29491878]