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 GRMZM2G460544_P01
Common NameLOC103654498, ZEAMMB73_644654, Zm.11846
Organism
Zea mays
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Tripsacinae; Zea
Family SBP
Protein Properties Length: 408aa    MW: 41901.3 Da    PI: 8.4959
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GRMZM2G460544_P01genomeMaizeSequenceView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP1283.5e-4087162176
                        --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S- CS
                SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkk 76 
                        +C v+gC+adl++ak+y+ rhkvCe+hsk p v+v+gle rfCqqCsrfh+l efD++k+sCr+rLa+hnerrr++
  GRMZM2G460544_P01  87 RCLVDGCNADLTDAKTYYCRHKVCEMHSKEPRVVVNGLELRFCQQCSRFHNLAEFDQQKKSCRKRLAGHNERRRRP 162
                        6*************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.101.3E-3384149IPR004333Transcription factor, SBP-box
PROSITE profilePS5114131.11185162IPR004333Transcription factor, SBP-box
SuperFamilySSF1036122.88E-3886165IPR004333Transcription factor, SBP-box
PfamPF031107.8E-3288161IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000037anatomyshoot apex
PO:0006310anatomytassel floret
PO:0006339anatomyjuvenile vascular leaf
PO:0006340anatomyadult vascular leaf
PO:0006354anatomyear floret
PO:0006505anatomycentral spike of ear inflorescence
PO:0008018anatomytransition vascular leaf
PO:0009001anatomyfruit
PO:0009009anatomyplant embryo
PO:0009025anatomyvascular leaf
PO:0009054anatomyinflorescence bract
PO:0009066anatomyanther
PO:0009074anatomystyle
PO:0009089anatomyendosperm
PO:0020040anatomyleaf base
PO:0020104anatomyleaf sheath
PO:0020126anatomytassel inflorescence
PO:0020127anatomyprimary root
PO:0020136anatomyear inflorescence
PO:0020142anatomystem internode
PO:0020148anatomyshoot apical meristem
PO:0025142anatomyleaf tip
PO:0025287anatomyseedling coleoptile
PO:0001007developmental stagepollen development stage
PO:0001009developmental stageD pollen mother cell meiosis stage
PO:0001052developmental stagevascular leaf expansion stage
PO:0001053developmental stagevascular leaf post-expansion stage
PO:0001094developmental stageplant embryo coleoptilar stage
PO:0001095developmental stageplant embryo true leaf formation stage
PO:0001180developmental stageplant proembryo stage
PO:0007001developmental stageearly whole plant fruit ripening stage
PO:0007006developmental stageIL.00 inflorescence just visible stage
PO:0007016developmental stagewhole plant flowering stage
PO:0007022developmental stageseed imbibition stage
PO:0007026developmental stageFL.00 first flower(s) open stage
PO:0007031developmental stagemid whole plant fruit ripening stage
PO:0007032developmental stagewhole plant fruit formation stage up to 10%
PO:0007045developmental stagecoleoptile emergence stage
PO:0007063developmental stageLP.07 seven leaves visible stage
PO:0007065developmental stageLP.05 five leaves visible stage
PO:0007072developmental stageLP.18 eighteen leaves visible stage
PO:0007101developmental stageLP.09 nine leaves visible stage
PO:0007104developmental stageLP.15 fifteen leaves visible stage
PO:0007106developmental stageLP.03 three leaves visible stage
PO:0007112developmental stage1 main shoot growth stage
PO:0007116developmental stageLP.11 eleven leaves visible stage
PO:0007123developmental stageLP.06 six leaves visible stage
PO:0007633developmental stageendosperm development stage
PO:0021004developmental stageinflorescence initiation stage
Sequence ? help Back to Top
Protein Sequence    Length: 408 aa     Download sequence    Send to blast
MEAGGASGGD DGDGQLHGLK FGKKIYFEDA GGSSSSGGSG SASATAPPAT QQPSPPAASP  60
RAAPGGGRRG RAAAGGAGPS LPPAPPRCLV DGCNADLTDA KTYYCRHKVC EMHSKEPRVV  120
VNGLELRFCQ QCSRFHNLAE FDQQKKSCRK RLAGHNERRR RPPPGPLASR YGRLAAPLGE  180
EPGGRFRSFM LDFSYPRVPS AMRDGFPAVR PGGERVPGSN IQWQAASLDP PPPHHQSAAA  240
GYGAHSYGSP GSSSSSRPPV FPAGPELPPG GGCLAGVPTD SSCALSLLST QPWDAAGHSA  300
GHGHGHAASL PATAGFDGNP VAMASSYIAP PSPWTDSRAH EGGRRNVPQL PPDVPLGDVH  360
SGPGTHHGQF SGELELALQG NRPAPAPRNG QGSAGAFDQA GSTTEWSL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A7e-29881611184squamosa promoter binding protein-like 4
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Zm.118460.0meristem| ovary| shoot| tassel
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasGRMZM2G460544
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in young panicles. {ECO:0000269|PubMed:16861571}.
Functional Description ? help Back to Top
Source Description
UniProtTrans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3' (By similarity). May be involved in panicle development. {ECO:0000250}.
Function -- GeneRIF ? help Back to Top
  1. Regulates the rate of of lateral primordia initiation.
    [PMID: 25512525]
  2. These results suggest that UB3 regulates vegetative and reproductive branching by modulating cytokinin biosynthesis and signaling in maize and rice.
    [PMID: 28040882]
  3. Uniform Mu insertion results in up-regulation of cytokinin synthesis genes and down-regulation of cytokinin degradation genes. The protein binds to Gene:103632693, Gene:100502174, Gene:100283866, Gene:542044, and Gene:100037786.
    [PMID: 28040882]
Cis-element ? help Back to Top
SourceLink
PlantRegMapGRMZM2G460544_P01
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Negatively regulated by microRNAs miR156b and miR156h. {ECO:0000305|PubMed:16861571}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0543340.0BT054334.1 Zea mays full-length cDNA clone ZM_BFb0338P09 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001288452.10.0unbranched3
SwissprotQ7EXZ21e-126SPL14_ORYSJ; Squamosa promoter-binding-like protein 14
TrEMBLB7ZYE20.0B7ZYE2_MAIZE; Squamosa promoter-binding-like protein 15
STRINGGRMZM2G460544_P010.0(Zea mays)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP25273787
Representative plantOGRP9717230
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G42200.12e-39squamosa promoter binding protein-like 9
Publications ? help Back to Top
  1. Cardon G, et al.
    Molecular characterisation of the Arabidopsis SBP-box genes.
    Gene, 1999. 237(1): p. 91-104
    [PMID:10524240]
  2. 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]
  3. Miura K, et al.
    OsSPL14 promotes panicle branching and higher grain productivity in rice.
    Nat. Genet., 2010. 42(6): p. 545-9
    [PMID:20495564]
  4. Jiao Y, et al.
    Regulation of OsSPL14 by OsmiR156 defines ideal plant architecture in rice.
    Nat. Genet., 2010. 42(6): p. 541-4
    [PMID:20495565]
  5. Springer N
    Shaping a better rice plant.
    Nat. Genet., 2010. 42(6): p. 475-6
    [PMID:20502488]
  6. Wang Y,Li J
    Branching in rice.
    Curr. Opin. Plant Biol., 2011. 14(1): p. 94-9
    [PMID:21144796]
  7. Wang J,Kong L,Gao G,Luo J
    A brief introduction to web-based genome browsers.
    Brief. Bioinformatics, 2013. 14(2): p. 131-43
    [PMID:22764121]
  8. Luo L,Li W,Miura K,Ashikari M,Kyozuka J
    Control of tiller growth of rice by OsSPL14 and Strigolactones, which work in two independent pathways.
    Plant Cell Physiol., 2012. 53(10): p. 1793-801
    [PMID:22960246]
  9. Chuck GS,Brown PJ,Meeley R,Hake S
    Maize SBP-box transcription factors unbranched2 and unbranched3 affect yield traits by regulating the rate of lateral primordia initiation.
    Proc. Natl. Acad. Sci. U.S.A., 2014. 111(52): p. 18775-80
    [PMID:25512525]
  10. Liu Q, et al.
    The alteration in the architecture of a T-DNA insertion rice mutant osmtd1 is caused by up-regulation of MicroRNA156f.
    J Integr Plant Biol, 2015. 57(10): p. 819-29
    [PMID:25677853]
  11. Cruz-Garcia GS,Struik PC
    Spatial and Seasonal Diversity of Wild Food Plants in Home Gardens of Northeast Thailand1.
    Econ. Bot., 2015. 69(2): p. 99-113
    [PMID:26160981]
  12. Srikanth B, et al.
    Enhanced expression of OsSPL14 gene and its association with yield components in rice (Oryza sativa) under low nitrogen conditions.
    Gene, 2016. 576(1 Pt 3): p. 441-50
    [PMID:26519999]
  13. Perignon M, et al.
    Impact of Multi-Micronutrient Fortified Rice on Hemoglobin, Iron and Vitamin A Status of Cambodian Schoolchildren: a Double-Blind Cluster-Randomized Controlled Trial.
    Nutrients, 2016.
    [PMID:26751473]
  14. Kim SR, et al.
    Development and validation of allele-specific SNP/indel markers for eight yield-enhancing genes using whole-genome sequencing strategy to increase yield potential of rice, Oryza sativa L.
    Rice (N Y), 2016. 9(1): p. 12
    [PMID:26987543]
  15. Du Y, et al.
    UNBRANCHED3 regulates branching by modulating cytokinin biosynthesis and signaling in maize and rice.
    New Phytol., 2017. 214(2): p. 721-733
    [PMID:28040882]
  16. Cardon GH,Höhmann S,Nettesheim K,Saedler H,Huijser P
    Functional analysis of the Arabidopsis thaliana SBP-box gene SPL3: a novel gene involved in the floral transition.
    Plant J., 1997. 12(2): p. 367-77
    [PMID:9301089]