PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Previous version: v3.0 v4.0

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Potri.003G196100.1

Common Name

POPTR_0003s19550g

Organism

Populus trichocarpa

Taxonomic ID

3694

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

SRS

Protein Properties

Length: 287aa MW: 31066.4 Da PI: 8.2552

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.003G196100.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	185.5	2.1e-57	81	240	6	154
DUF702 6 asCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa..aeaaskrkrel........kskkqsal 86 +C+dCGn+akk+C+++RCRtCCksrg++C+th+kstWvpaa+rrer + ++a+s+ kr+re+ ++++++a+ Potri.003G196100.1 81 RACRDCGNRAKKECQYRRCRTCCKSRGYECTTHLKSTWVPAARRRERLGYSSGGGGSSASSSggGCVGGKRPRENvpatsnsfSTSNNNAA 171 57*******************************************98888777776666656455566666662222222233333334 PP DUF702 87 sstklssaeskkeletss..........lPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 +s l ++ s lP +v+++avfrcvrvs+++ +e+e+aY++ v+i+GhvfkG+LydqG++e Potri.003G196100.1 172 ASFVLDTG---------SsfqdasfkqsLPVQVHAPAVFRCVRVSAINSDEAEVAYEAKVNISGHVFKGFLYDQGMDE 240 44444444.........24445555557*********************************************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	9.2E-56	81	239	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	9.9E-26	83	124	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	2.6E-23	191	238	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 287 aa Download sequence Send to blast
MLGLHNILFI APPPSSCHHQ QPPHVPSTHQ ITNTNDQYGI ADNQESWNTL KKYPQESSFL 60 ERGTLNALQD CDTAINIGPA RACRDCGNRA KKECQYRRCR TCCKSRGYEC TTHLKSTWVP 120 AARRRERLGY SSGGGGSSAS SSGGGCVGGK RPRENVPATS NSFSTSNNNA AASFVLDTGS 180 SFQDASFKQS LPVQVHAPAV FRCVRVSAIN SDEAEVAYEA KVNISGHVFK GFLYDQGMDE 240 KNLFPCISKM HSSERNRDSS SPIVDPPDAY AASGNHRLLE GTNCTT*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pth.8761	0.0	bud\| catkin\| leaf

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	Potri.003G196100.1

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002303931.3	0.0	protein SHI RELATED SEQUENCE 6
Swissprot	Q94CK9	3e-49	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	B9GWY7	0.0	B9GWY7_POPTR; Uncharacterized protein
STRING	POPTR_0003s19550.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF5704	31	54
Representative plant	OGRP1313	15	49

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G12330.2	4e-48	Lateral root primordium (LRP) protein-related

Link Out ? help Back to Top
Phytozome	Potri.003G196100.1
Entrez Gene	7460242

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]