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 Sobic.002G023900.1.p
Common NameSb02g002200, SORBIDRAFT_02g002200
Organism
Sorghum bicolor
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; Sorghinae; Sorghum
Family TALE
Protein Properties Length: 357aa    MW: 38884.7 Da    PI: 6.685
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.002G023900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox309.1e-102823172055
                           HHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
              Homeobox  20 eknrypsaeereeLAkklgLterqVkvWFqNrRake 55 
                           +k +yps++e+  LA+++gL+++q+ +WF N+R ++
  Sobic.002G023900.1.p 282 YKWPYPSETEKIALAESTGLDQKQINNWFINQRKRH 317
                           4679*****************************885 PP
2ELK37.84.1e-13237258122
                   ELK   1 ELKhqLlrKYsgyLgsLkqEFs 22 
                           ELK qLl+KYsgyL+sL+qEFs
  Sobic.002G023900.1.p 237 ELKYQLLKKYSGYLSSLRQEFS 258
                           9********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012552.8E-2292136IPR005540KNOX1
PfamPF037903.6E-2293134IPR005540KNOX1
SMARTSM012567.8E-31139190IPR005541KNOX2
PfamPF037912.6E-24145188IPR005541KNOX2
SMARTSM011881.2E-7237258IPR005539ELK domain
PROSITE profilePS5121311.627237257IPR005539ELK domain
PfamPF037894.3E-10237258IPR005539ELK domain
PROSITE profilePS5007112.892257320IPR001356Homeobox domain
SuperFamilySSF466891.28E-19258331IPR009057Homeodomain-like
SMARTSM003894.4E-13259324IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.607.9E-28262321IPR009057Homeodomain-like
CDDcd000861.78E-12269321No hitNo description
PfamPF059201.0E-16277316IPR008422Homeobox KN domain
PROSITE patternPS000270295318IPR017970Homeobox, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0001708Biological Processcell fate specification
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010051Biological Processxylem and phloem pattern formation
GO:0010089Biological Processxylem development
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 357 aa     Download sequence    Send to blast
MDQSFGNLGA GAGGGSSSGG SNSKAAVSSS SFLQLPLSTA SPAYYGAPLA LLHHHAAAVA  60
AGGPGPSSSQ QQQSPYATKH ASTAEMSSAE AEAIKAKIVA HPQYSALLAA YLDCQKVGAP  120
PDVLERLTAM AAKLDARPPG RHEPRDPELD QFMEAYCNML VKYREELTRP IDEAMEFLKR  180
VEAQLDSISG GGGSSSSARL SLTDGKSEGV GSSEDDMDPS GRENDPPEID PRAEDKELKY  240
QLLKKYSGYL SSLRQEFSKK KKKGKLPKEA RQKLLHWWEL HYKWPYPSET EKIALAESTG  300
LDQKQINNWF INQRKRHWKP SEDMPFVMME GFHPQNAAAL YMDGPFMADG MYRLGS*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.3330.0embryo
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the embryo at 4 days after pollination (DAP) in the ventral and basal part of the embryo including the initial of the shoot apical meristem (SAM). At 5 DAP, expressed at the ventral side of the embryo, but the expression within SAM is down-regulated. At 7 DAP, expression is restricted to the boundaries between the embryonic organs, between the scutellum and the coleoptile, the coleoptile and the second leaf primordium, the shoot apical meristem and the first leaf primordium, the first leaf primordium and the coleoptile, the coleoptile and the epiblast and at the tip of the epiblast, but not in the leaf primordia. {ECO:0000269|PubMed:10080693}.
UniprotDEVELOPMENTAL STAGE: Expressed in the embryo at 4 days after pollination (DAP) in the ventral and basal part of the embryo, including the initial of the shoot apical meristem (SAM). At 5 DAP, expressed at the ventral side of the embryo, but the expression within SAM is down-regulated. At 7 DAP, expression is restricted to the boundaries between the embryonic organs, between the scutellum and the coleoptile, the coleoptile and the second leaf primordium, the shoot apical meristem and the first leaf primordium, the first leaf primordium and the coleoptile, the coleoptile and the epiblast and at the tip of the epiblast, but not in the leaf primordia. {ECO:0000269|PubMed:10080693, ECO:0000269|PubMed:10095070, ECO:0000269|PubMed:9869405}.
UniprotTISSUE SPECIFICITY: Expressed in stems, rachis and inflorescence. {ECO:0000269|PubMed:9869405}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that may be involved in shoot formation during embryogenesis. {ECO:0000269|PubMed:10080693}.
UniProtProbable transcription factor that may be involved in shoot formation during embryogenesis. {ECO:0000269|PubMed:10080693, ECO:0000269|PubMed:9869405}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.002G023900.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0333610.0BT033361.1 Zea mays full-length cDNA clone ZM_BFb0146E21 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002459312.10.0homeobox protein rough sheath 1 isoform X2
SwissprotO650341e-177KNOSC_ORYSI; Homeobox protein knotted-1-like 12
SwissprotO804161e-177KNOSC_ORYSJ; Homeobox protein knotted-1-like 12
TrEMBLC5X8S70.0C5X8S7_SORBI; Uncharacterized protein
STRINGSb02g002200.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP40613873
Representative plantOGRP16717148
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G08150.11e-102KNOTTED-like from Arabidopsis thaliana
Publications ? help Back to Top
  1. Sato Y, et al.
    Loss-of-function mutations in the rice homeobox gene OSH15 affect the architecture of internodes resulting in dwarf plants.
    EMBO J., 1999. 18(4): p. 992-1002
    [PMID:10022841]
  2. Ito Y,Eiguchi M,Kurata N
    KNOX homeobox genes are sufficient in maintaining cultured cells in an undifferentiated state in rice.
    Genesis, 2001. 30(4): p. 231-8
    [PMID:11536429]
  3. Nagasaki H,Sakamoto T,Sato Y,Matsuoka M
    Functional analysis of the conserved domains of a rice KNOX homeodomain protein, OSH15.
    Plant Cell, 2001. 13(9): p. 2085-98
    [PMID:11549765]
  4. Postma-Haarsma AD, et al.
    Developmental regulation and downstream effects of the knox class homeobox genes Oskn2 and Oskn3 from rice.
    Plant Mol. Biol., 2002. 48(4): p. 423-41
    [PMID:11908517]
  5. Kuijt SJ, et al.
    Different subcellular localization and trafficking properties of KNOX class 1 homeodomain proteins from rice.
    Plant Mol. Biol., 2004. 55(6): p. 781-96
    [PMID:15604716]
  6. Yin H, et al.
    SUI-family genes encode phosphatidylserine synthases and regulate stem development in rice.
    Planta, 2013. 237(1): p. 15-27
    [PMID:22956125]