PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Sobic.009G122600.1.p

Common Name

Sb09g019040, SORBIDRAFT_09g019040

Organism

Sorghum bicolor

Taxonomic ID

4558

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

SRS

Protein Properties

Length: 306aa MW: 31089.6 Da PI: 9.2146

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.009G122600.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	198.8	1.7e-61	94	257	3	154
DUF702 3 sgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstkl 91 sg+a+CqdCGnqakk+Cah RCRtCC+srgf+C thv+stWvpaa+rrer + + a + + aa+k++r + +++ s++++ Sobic.009G122600.1.p 94 SGGATCQDCGNQAKKGCAHIRCRTCCNSRGFECDTHVRSTWVPAARRRERLHPAGGAGGGSPPPPTPAATKKPRLACPTPTTTNSRAST 182 7889********************************************9999999888888889******************* PP DUF702 92 ssaeskkeletss..........lPeevsseavfrcvrvssvdd..geeelaYqtavsigGhvfkGiLydqGlee 154 s+a+++++++tss lP++v+ +avfrcvrv+svdd ++ e+aYq+av+i+Gh+f+G+Lyd+G+e+ Sobic.009G122600.1.p 183 SNATTPRSFDTSSshqdasfkdsLPRQVRGPAVFRCVRVTSVDDggSNGEVAYQAAVTINGHLFRGLLYDHGAEA 257 *******999**************************756789********************985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	2.3E-54	96	256	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	3.7E-25	98	140	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	1.5E-21	206	254	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 306 aa Download sequence Send to blast
MLVVAPPGSF HHHHQQRAAA NDPVLPLITA AQRALVDADA AAASGNGNGK PPVSSASAIQ 60 FWHQEPAAAD GSPGNGSKKA LAMMDHGRGG SAGSGGATCQ DCGNQAKKGC AHIRCRTCCN 120 SRGFECDTHV RSTWVPAARR RERLHPAGGA GGGSPPPPTP AATKKPRLAC PTPTTTNSRA 180 STSNATTPRS FDTSSSHQDA SFKDSLPRQV RGPAVFRCVR VTSVDDGGSN GEVAYQAAVT 240 INGHLFRGLL YDHGAEADGR ARAASAAVMM PTASDLNLSS AAAPNLYSGA SAPLILGGLG 300 YGNTP*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed during the early stages of root primordium development and disappears prior to the emergence of lateral roots from the parent root. {ECO:0000269\|PubMed:7647564}.
Uniprot	TISSUE SPECIFICITY: Restricted to lateral root primordia. {ECO:0000269\|PubMed:7647564}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription 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 influence vascular development during gynoecium development. May also have a role in the formation and/or maintenance of the shoot apical meristem (SAM). Modulates root growth. {ECO:0000269\|PubMed:16740146, ECO:0000269\|PubMed:18835563}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.009G122600.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Expression repressed by LDL1 via histone H3 and H4 deacetylation. {ECO:0000269\|PubMed:18835563}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT039092	0.0	BT039092.1 Zea mays full-length cDNA clone ZM_BFb0370H22 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004962238.1	1e-132	protein LATERAL ROOT PRIMORDIUM 1
Refseq	XP_022680709.1	1e-132	protein LATERAL ROOT PRIMORDIUM 1
Swissprot	Q94CK9	2e-48	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	C5YXE4	0.0	C5YXE4_SORBI; Uncharacterized protein
STRING	Sb09g019040.1	0.0	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP3579	36	79
Representative plant	OGRP1313	15	49

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G12330.2	4e-39	Lateral root primordium (LRP) protein-related

Link Out ? help Back to Top
Phytozome	Sobic.009G122600.1.p
Entrez Gene	8076831

Publications ? help Back to Top
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]