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 Gorai.006G117800.1
Common NameB456_006G117800, LOC105799282
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family YABBY
Protein Properties Length: 186aa    MW: 20844.6 Da    PI: 8.6793
Description YABBY family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.006G117800.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1YABBY236.46.4e-7321592170
               YABBY   2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkeelleelkveeenlksnvekeesa 92 
                         +++ +se+vCyv+CnfCntilavsvP++slfk+vtvrCGhC++llsvn+ +++q+++ ++  +++   ++   +  +++++ s   +++++
  Gorai.006G117800.1   2 SLDLASERVCYVHCNFCNTILAVSVPYNSLFKIVTVRCGHCANLLSVNMGTSQQIVPIQDA-QKQQIINID--EDPSNKECGS---SSKCN 86 
                         567799***************************************************9996.222222222..2222222222...12222 PP

               YABBY  93 stsvsseklsenedeevprvppvirPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfPkihfgl 170
                         ++  s     ++ ++e+pr+pp irPPekrqrvPsaynrfikeeiqrikasnPdishreafs+aaknWahfP+ihfgl
  Gorai.006G117800.1  87 KQF-S---AFDSAQNEAPRMPP-IRPPEKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGL 159
                         221.2...23567899***999.9****************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046903.8E-746159IPR006780YABBY protein
SuperFamilySSF470952.23E-8104152IPR009071High mobility group box domain
Gene3DG3DSA:1.10.30.103.6E-5107153IPR009071High mobility group box domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0007275Biological Processmulticellular organism development
GO:0010158Biological Processabaxial cell fate specification
Sequence ? help Back to Top
Protein Sequence    Length: 186 aa     Download sequence    Send to blast
MSLDLASERV CYVHCNFCNT ILAVSVPYNS LFKIVTVRCG HCANLLSVNM GTSQQIVPIQ  60
DAQKQQIINI DEDPSNKECG SSSKCNKQFS AFDSAQNEAP RMPPIRPPEK RQRVPSAYNR  120
FIKEEIQRIK ASNPDISHRE AFSTAAKNWA HFPHIHFGLK LEGNKQAKLD QSFADQGAQK  180
SNNYY*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in subepidermal cells of anlagen regions, then in abaxial part of primordia and finally in differentiating organs. Levels decrease in differentiated organs. In embryo, expressed from the heart stage in the abaxial domain of the cotyledon primordia and decrease as the embryo matures. In stamen, expression restricted to the abaxial region differentiating into the connective. In gynoecium, expressed in the abaxial cell layers differentiating into the valves. {ECO:0000269|PubMed:10457020}.
UniprotTISSUE SPECIFICITY: Expressed at low levels in abaxial regions of lateral aerial organ primordia leading to cotyledons, leaves, flower meristems, sepals, petals, stamen and carpels, but not in roots. {ECO:0000269|PubMed:10457020}.
Functional Description ? help Back to Top
Source Description
UniProtInvolved in the abaxial cell fate determination during embryogenesis and organogenesis. {ECO:0000250}.
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_012485199.11e-138PREDICTED: putative axial regulator YABBY 2
SwissprotQ9XFB09e-84YAB2_ARATH; Putative axial regulator YABBY 2
TrEMBLA0A0D2Q8681e-136A0A0D2Q868_GOSRA; Uncharacterized protein
STRINGGorai.006G117800.11e-137(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM55812749
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G08465.14e-86YABBY family protein
Publications ? help Back to Top
  1. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]
  2. Sacharowski SP, et al.
    SWP73 Subunits of Arabidopsis SWI/SNF Chromatin Remodeling Complexes Play Distinct Roles in Leaf and Flower Development.
    Plant Cell, 2015. 27(7): p. 1889-906
    [PMID:26106148]