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

Pavir.5KG766900.2.p

Organism

Panicum virgatum

Taxonomic ID

38727

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum

Family

SRS

Protein Properties

Length: 350aa MW: 35866.5 Da PI: 7.8353

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.5KG766900.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	223.7	3.7e-69	112	278	2	154
DUF702 2 rsgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa......aeaaskrkrelkskkqsa 85 +sg+++CqdCGnqakkdC h+RCRtCCksrgfdC+thvkstWvpaa+rrerqq +a+ s++++ ++ a++ask++r ++q++ Pavir.5KG766900.2.p 112 GSGATTCQDCGNQAKKDCGHNRCRTCCKSRGFDCSTHVKSTWVPAARRRERQQLAASGSASSSPATasasaaAASASKKPR--LLSSQTT 199 57889********************************************999887655443332345543444455555..5699999 PP DUF702 86 lsstklssaeskkeletss..........lPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 +s+t++s+a+++++++t+s lP++v+++avf+cvrv+s++dge+e+aYq+ v+i+Gh+fkG+LydqG+++ Pavir.5KG766900.2.p 200 TSHTSTSNATTPRSFDTTSshqdalfrdsLPRQVRAPAVFKCVRVTSIEDGEDEYAYQAMVTINGHLFKGFLYDQGPDD 278 9***********9999*******************************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	7.2E-64	115	277	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	7.8E-27	117	159	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	1.5E-27	229	276	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 350 aa Download sequence Send to blast
MRQAAALNYG MPDVGMFVVA PAASFHHTHH HHHHHDAAAD PIFPLLSGGP CVLDPDAAKS 60 ASGAPPASSA IQFWQPQSPS SAAGANPNPS ATPFAYIKKP LPMLDAAAGS SGSGATTCQD 120 CGNQAKKDCG HNRCRTCCKS RGFDCSTHVK STWVPAARRR ERQQLAASGS ASSSPATASA 180 SAAAASASKK PRLLSSQTTT SHTSTSNATT PRSFDTTSSH QDALFRDSLP RQVRAPAVFK 240 CVRVTSIEDG EDEYAYQAMV TINGHLFKGF LYDQGPDDGR HAATSNEDSA AGVPNISELH 300 LGAASASGGA GGSGVREGGS SMVAPTELYG GGAGQHHILG GSSYGNTIN*

Sequence ? help Back to Top

Protein Sequence Length: 350 aa Download sequence Send to blast

MRQAAALNYG MPDVGMFVVA PAASFHHTHH HHHHHDAAAD PIFPLLSGGP CVLDPDAAKS  60
ASGAPPASSA IQFWQPQSPS SAAGANPNPS ATPFAYIKKP LPMLDAAAGS SGSGATTCQD  120
CGNQAKKDCG HNRCRTCCKS RGFDCSTHVK STWVPAARRR ERQQLAASGS ASSSPATASA  180
SAAAASASKK PRLLSSQTTT SHTSTSNATT PRSFDTTSSH QDALFRDSLP RQVRAPAVFK  240
CVRVTSIEDG EDEYAYQAMV TINGHLFKGF LYDQGPDDGR HAATSNEDSA AGVPNISELH  300
LGAASASGGA GGSGVREGGS SMVAPTELYG GGAGQHHILG GSSYGNTIN*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pvr.17712	0.0	root\| stem

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	Pavir.5KG766900.2.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	HQ858781	0.0	HQ858781.1 Zea mays clone UT1767 SRS transcription factor mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025818814.1	1e-173	protein LATERAL ROOT PRIMORDIUM 1
Swissprot	Q94CK9	9e-64	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A2S3HN06	1e-171	A0A2S3HN06_9POAL; Uncharacterized protein
TrEMBL	A0A2T7DBH9	1e-171	A0A2T7DBH9_9POAL; Uncharacterized protein
TrEMBL	A0A3L6SLU1	1e-171	A0A3L6SLU1_PANMI; Protein LATERAL ROOT PRIMORDIUM 1
STRING	Pavir.Ea03961.1.p	0.0	(Panicum virgatum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G12330.2	1e-47	Lateral root primordium (LRP) protein-related

Link Out ? help Back to Top
Phytozome	Pavir.5KG766900.2.p

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]