PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Solyc08g079100.2.1
Common NameLOC101247051
Organism
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 YABBY
Protein Properties Length: 217aa    MW: 24172.2 Da    PI: 7.6678
Description YABBY family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc08g079100.2.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1YABBY220.93.8e-68171796170
               YABBY   6 sseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakas.qllaaeshldeslkeelleelkveeenlksnvekeesasts 95 
                          seq+Cyv+Cn C+t+lavsvP tslfk+vtvrCGhCt+ll   l  ++ +      h   s  ++ll+e  +++ n+ +n++++ ++  +
  Solyc08g079100.2.1  17 PSEQLCYVHCNVCDTVLAVSVPCTSLFKTVTVRCGHCTNLLPGWLLPSTnHHHHHFGHTYFSPSHNLLDEISNATPNFLMNQSNSAHEFVQ 107
                         68***************************************95544433133333333333333347777777777777776666666666 PP

               YABBY  96 vsseklsenedeevprvpp.virPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfPkihfgl 170
                          ++    +   +++pr+pp v+rPPekrqrvPsaynrfikeeiqrika+nPdishreafsaaaknWahfP+i fgl
  Solyc08g079100.2.1 108 LPA----RPGFDDLPRPPPvVNRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPHIQFGL 179
                         655....55788999999989*****************************************************97 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046901.1E-6517179IPR006780YABBY protein
SuperFamilySSF470952.23E-8120173IPR009071High mobility group box domain
Gene3DG3DSA:1.10.30.106.6E-5127173IPR009071High mobility group box domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0007275Biological Processmulticellular organism development
Sequence ? help Back to Top
Protein Sequence    Length: 217 aa     Download sequence    Send to blast
MSSSNSLSLD HLPPPPPSEQ LCYVHCNVCD TVLAVSVPCT SLFKTVTVRC GHCTNLLPGW  60
LLPSTNHHHH HFGHTYFSPS HNLLDEISNA TPNFLMNQSN SAHEFVQLPA RPGFDDLPRP  120
PPVVNRPPEK RQRVPSAYNR FIKEEIQRIK AGNPDISHRE AFSAAAKNWA HFPHIQFGLM  180
PDQTVKRTNV RQQDGEDVLT KDGLFNTSAN VSVSPY*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.3160.0flower| fruit| leaf
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Preferentially expressed in immature organs containing meristems and organ primordia. Expressed in phloem of developing vascular tissues of young seedling shoots. Expressed in the phloem of midvein vasculature of young leaves. Does not show polar expression pattern in leaf primordia. {ECO:0000269|PubMed:17216490, ECO:0000269|PubMed:17676337}.
Functional Description ? help Back to Top
Source Description
UniProtSeems to be associated with phloem cell differentiation. {ECO:0000269|PubMed:17676337}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc08g079100.2.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001353824.11e-161axial regulator YABBY1b
SwissprotA2X7Q32e-78YAB4_ORYSI; Protein YABBY 4
SwissprotQ6H6682e-78YAB4_ORYSJ; Protein YABBY 4
TrEMBLA0A2I7ZG641e-159A0A2I7ZG64_9SOLN; YABBY3
TrEMBLA0A2I7ZG661e-159A0A2I7ZG66_SOLCE; YABBY3
TrEMBLA0A2I7ZG721e-159A0A2I7ZG72_SOLPI; YABBY3
TrEMBLK4CNR91e-159K4CNR9_SOLLC; YABBY3
STRINGSolyc08g079100.2.11e-160(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA38124163
Representative plantOGRP46851123
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G00180.17e-70YABBY 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. 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]
  3. Yang C,Ma Y,Li J
    The rice YABBY4 gene regulates plant growth and development through modulating the gibberellin pathway.
    J. Exp. Bot., 2016. 67(18): p. 5545-5556
    [PMID:27578842]