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

Tp57577_TGAC_v2_mRNA20032

Organism

Trifolium pratense

Taxonomic ID

57577

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Trifolium

Family

SRS

Protein Properties

Length: 411aa MW: 42507.4 Da PI: 8.0599

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp57577_TGAC_v2_mRNA20032	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	208.5	1.7e-64	186	347	3	154
DUF702 3 sgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsal 86 gt++CqdCGnqakkdC+ +RCRtCCksrgfdC thvkstWvpaa+rrer + + +++ a ++ ++ ++ + +++++ Tp57577_TGAC_v2_mRNA20032 186 GGTTTCQDCGNQAKKDCSNRRCRTCCKSRGFDCPTHVKSTWVPAARRRERLASAGTTTVVAGGGCSSGSTSGAKKPRLIASQTT 269 5789********************************************9999998888877776655555555556688888 PP DUF702 87 sstklssaeskkeletss..........lPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 s+t++s+++++++++t+s +P +v+++a+f+cvrv+svddg++e+aYq++v+igGhvfkG+Lyd+G+e+ Tp57577_TGAC_v2_mRNA20032 270 SHTSTSNTTPPRSFDTTSshqdagfkesMPGQVRAPAIFKCVRVTSVDDGKDEYAYQAVVKIGGHVFKGFLYDHGVEN 347 999999**999999999****************************************************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	3.2E-60	188	346	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	1.2E-26	190	232	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	3.2E-28	298	345	IPR006511	Lateral Root Primordium type 1, C-terminal

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: 411 aa Download sequence Send to blast
LASDSGAFAD WAATSSSTVR AAAPEDLSLG FNAGPTAAGN AGPSTGPTTG IWSGGGGSRS 60 VNYGPEMGMF VVAPSPYHPH HHHHSHHGNH HEAIISDPHS LNPATALGVG VIPLLTASPL 120 DNERQQQGIQ FWHEQQQQHQ HHSNYLKKHQ GFLDHHINTS PTNLVHHGGG GGGGGGLTGS 180 GTSSGGGTTT CQDCGNQAKK DCSNRRCRTC CKSRGFDCPT HVKSTWVPAA RRRERLASAG 240 TTTVVAGGGC SSGSTSGAKK PRLIASQTTS HTSTSNTTPP RSFDTTSSHQ DAGFKESMPG 300 QVRAPAIFKC VRVTSVDDGK DEYAYQAVVK IGGHVFKGFL YDHGVENREV YPNLSELHLG 360 GGGNNNNGGA NRNVVSSSSP MLDPSHDVYA AASSGVGGLL GGSAYGNQIN *

Sequence ? help Back to Top

Protein Sequence Length: 411 aa Download sequence Send to blast

LASDSGAFAD WAATSSSTVR AAAPEDLSLG FNAGPTAAGN AGPSTGPTTG IWSGGGGSRS  60
VNYGPEMGMF VVAPSPYHPH HHHHSHHGNH HEAIISDPHS LNPATALGVG VIPLLTASPL  120
DNERQQQGIQ FWHEQQQQHQ HHSNYLKKHQ GFLDHHINTS PTNLVHHGGG GGGGGGLTGS  180
GTSSGGGTTT CQDCGNQAKK DCSNRRCRTC CKSRGFDCPT HVKSTWVPAA RRRERLASAG  240
TTTVVAGGGC SSGSTSGAKK PRLIASQTTS HTSTSNTTPP RSFDTTSSHQ DAGFKESMPG  300
QVRAPAIFKC VRVTSVDDGK DEYAYQAVVK IGGHVFKGFL YDHGVENREV YPNLSELHLG  360
GGGNNNNGGA NRNVVSSSSP MLDPSHDVYA AASSGVGGLL GGSAYGNQIN *

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	Tp57577_TGAC_v2_mRNA20032

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	CR962126	1e-140	CR962126.2 Medicago truncatula chromosome 5 clone mth2-143k7, COMPLETE SEQUENCE.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024640860.1	1e-139	protein LATERAL ROOT PRIMORDIUM 1
Swissprot	Q94CK9	3e-82	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A2K3LQM6	0.0	A0A2K3LQM6_TRIPR; Short internode related sequence (Fragment)
STRING	AET00229	1e-173	(Medicago truncatula)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF6504	33	51

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G12330.4	1e-69	Lateral root primordium (LRP) protein-related

Link Out ? help Back to Top
Phytozome	Tp57577_TGAC_v2_mRNA20032

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]