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

488079

Common Name

ARALYDRAFT_488079

Organism

Arabidopsis lyrata

Taxonomic ID

81972

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis

Family

SRS

Protein Properties

Length: 219aa MW: 23340.6 Da PI: 10.0576

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
488079	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	116.5	3.5e-36	106	208	3	103
DUF702 3 sgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa.aeaaskrkrel..kskkqsalsstklssaeskkelet 102 sgta+CqdCGnqakk+C+++RCRtCCksrgfdC+thvkstWv+aa+rrerq + + a+ +a +s +++ +k++r ++++q+a+s+t++s++ +++++et 488079 106 SGTATCQDCGNQAKKECKQRRCRTCCKSRGFDCSTHVKSTWVSAARRRERQVMPTGANPTAGSSLsTSSGTKKPRIVgsQQQQQQATSHTSTSNT-PPQSFET 207 6899*************************************************999998888877577888999988544555555555655554.4556665 PP DUF702 103 s 103 s 488079 208 S 208 5 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	2.6E-30	108	205	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	1.0E-26	110	152	IPR006510	Zinc finger, lateral root primordium type 1

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009733	Biological Process	response to auxin
GO:0048364	Biological Process	root development
GO:0042803	Molecular Function	protein homodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 219 aa Download sequence Send to blast
MGMVGLRDVF VVAPAYHHQN AGVISGSEHM NSNAAAAALG VGVIPLLTAG PPQQNVEDSD 60 INFLGNNRRW QNNNNTHETQ YLHFKSTNQT TVGTSSNNSG SGSGVSGTAT CQDCGNQAKK 120 ECKQRRCRTC CKSRGFDCST HVKSTWVSAA RRRERQVMPT GANPTAGSSL STSSGTKKPR 180 IVGSQQQQQQ ATSHTSTSNT PPQSFETSSS RQGSFTFSL

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	488079

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	AL592312	0.0	AL592312.1 Arabidopsis thaliana DNA chromosome 5, BAC clone T2L20 (ESSA project).
GenBank	CP002688	0.0	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020875810.1	1e-154	protein LATERAL ROOT PRIMORDIUM 1
Swissprot	Q94CK9	1e-107	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	D7M4I5	1e-160	D7M4I5_ARALL; Uncharacterized protein (Fragment)
STRING	fgenesh2_kg.6__1213__AT5G12330.3	1e-161	(Arabidopsis lyrata)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5883	26	46

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G12330.3	7e-99	Lateral root primordium (LRP) protein-related

Link Out ? help Back to Top
Phytozome	488079
Entrez Gene	9307593

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]