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

Potri.001G027700.1

Common Name

POPTR_0001s06500g

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: 278aa MW: 30127.6 Da PI: 8.9623

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.001G027700.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	184.3	4.9e-57	81	231	6	154
DUF702 6 asCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstklssa.e 95 +C+dCGn+akk+C+++RCRtCCksr++dC+th+kstWv+aa+rrer s+a++ kr+re+ ++++++ s+++ + a + Potri.001G027700.1 81 RACRDCGNRAKKECQYRRCRTCCKSREYDCTTHMKSTWVSAARRRERLGCGGGGDSSASSGGGCVGGKRPRENVTATSNSFSTSNNNAAgS 171 58********************************************9999999999998899999999998544444443333322202 PP DUF702 96 skk.eletsslPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 s + + + slP +v+ +avfrcvrv++++ ge+e+aYq+ v+i+GhvfkGiLydqG++e Potri.001G027700.1 172 SYQdASFKLSLPGQVREPAVFRCVRVTAINSGEAEVAYQAKVNISGHVFKGILYDQGIDE 231 2220222345*********************************************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	2.3E-54	81	230	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	4.3E-24	83	124	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	1.2E-25	182	229	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 278 aa Download sequence Send to blast
MLGLHNILFI APPPSPFHHH QPPHIPSTHQ IANTNDQCNI ANNQESWTTL NKYQQKSSFL 60 KRGDLNVVGD NDTGRNIGPA RACRDCGNRA KKECQYRRCR TCCKSREYDC TTHMKSTWVS 120 AARRRERLGC GGGGDSSASS GGGCVGGKRP RENVTATSNS FSTSNNNAAG SSYQDASFKL 180 SLPGQVREPA VFRCVRVTAI NSGEAEVAYQ AKVNISGHVF KGILYDQGID EKNLFPCVSK 240 MQSGERTRDS TSPIVEPSVA YAATGNHRLL EGTNCTT*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pth.8761	1e-155	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.001G027700.1

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_024461796.1	0.0	protein LATERAL ROOT PRIMORDIUM 1 isoform X1
Swissprot	Q94CK9	2e-47	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A2K2BRG1	0.0	A0A2K2BRG1_POPTR; Uncharacterized protein
STRING	POPTR_0001s06500.1	1e-176	(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	5e-46	Lateral root primordium (LRP) protein-related

Link Out ? help Back to Top
Phytozome	Potri.001G027700.1
Entrez Gene	18094338

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]