PlantPromoterDB promoter information of AT5G13840

Summary of Gene (AT5G13840)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G13840 TAIR NCBI
Gene model	AT5G13840
Description	FIZZY-RELATED 3 (FZR3); FUNCTIONS IN: signal transducer activity; INVOLVED IN: signal transduction; LOCATED IN: chloroplast, heterotrimeric G-protein complex; EXPRESSED IN: 19 plant structures; EXPRESSED DURING: 11 growth stages; CONTAINS InterPro DOMAIN/s: WD40 repeat-like (InterPro:IPR011046), WD40 repeat, region (InterPro:IPR017986), WD40/YVTN repeat-like (InterPro:IPR015943), WD40 repeat (InterPro:IPR001680); BEST Arabidopsis thaliana protein match is: FZR2 (FIZZY-RELATED 2); signal transducer (TAIR:AT4G22910.1); Has 36052 Blast hits to 18440 proteins in 539 species: Archae - 52; Bacteria - 4990; Metazoa - 16346; Fungi - 7057; Plants - 2837; Viruses - 0; Other Eukaryotes - 4770 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 4471706-4470507)

`Genome position from initiation codon` `AT5G13840.1 AT5G13845.1 TSS from cDNA TSS information AT5G13840 5'->3' (-) Promoter sequence AT5G13845 AT5G13845.1 AT5G13850.1 TSS from cDNA TSS information 3'->5' (+) Promoter sequence TSS tag distribution(+) TSS tag distribution(-)`	Your web browser cannot display this window!

ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGC

Promoter Summary of AT5G13840

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 5 - 4470845 -139

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	5	-	4470845	-139

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone - 4470991 -285

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	-	4470991	-285

Core promoter information

Type Sequence Genome position Position from initiation codon

Strand Start End Start End

initiator Not Available Not Available Not Available

TATA Box ATTATATAAT - 4470870 4470879 -164 -173

Y Patch None None None

GA None None None

Inr None None None

Type	Sequence	Genome position	Position from initiation codon
		Strand	Start	End	Start	End
initiator	Not Available	Not Available	Not Available
TATA Box	`ATTATATAAT`	-	4470870	4470879	-164	-173
Y Patch	None	None	None
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Position from initiation codon

Strand Start End Start End

REG GACCGTTGGA - 4470956 4470965 -250 -259

AtREG553 GACCGTTG   Auxin PPDB Motif CCAACGG PLACE Motif YAACKG, CNGTTR

AtREG554   CCGTTGGA PPDB Motif CCAACGG PLACE Motif YAACKG, CNGTTR

REG GCCACGTGGTTAAAAGCCACGCGCT - 4471069 4471093 -363 -387

AtREG367 GCCACGTG                  ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, CACGTG, ACGTGKC, CACGTGGC

AtREG544   CACGTGGT                ABA, DREB1Aox PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG549           TAAAAGCC        PPDB Motif PLACE Motif

AtREG608              AAGCCACG     ABA PPDB Motif PLACE Motif GCCAC

AtREG381                  CACGCGCT PPDB Motif ACGCGC PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`GACCGTTGGA`		-	4470956	4470965	-250	-259
	AtREG553	`GACCGTTG`	Auxin	PPDB Motif	`CCAACGG`	PLACE Motif	`YAACKG, CNGTTR`
	AtREG554	`CCGTTGGA`		PPDB Motif	`CCAACGG`	PLACE Motif	`YAACKG, CNGTTR`
REG	`GCCACGTGGTTAAAAGCCACGCGCT`		-	4471069	4471093	-363	-387
	AtREG367	`GCCACGTG`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, CACGTG, ACGTGKC, CACGTGGC`
	AtREG544	`CACGTGGT`	ABA, DREB1Aox	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG549	`TAAAAGCC`		PPDB Motif		PLACE Motif
	AtREG608	`AAGCCACG`	ABA	PPDB Motif		PLACE Motif	`GCCAC`
	AtREG381	`CACGCGCT`		PPDB Motif	`ACGCGC`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 17 + 4471319 AT5G13850.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	17	+	4471319	AT5G13850.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone A clone + 4471299 AT5G13850.1

TSS clone T clone + 4471300 AT5G13850.1

TSS clone T clone + 4471305 AT5G13850.1

TSS clone C clone + 4471350 AT5G13850.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`A`	clone	+	4471299	AT5G13850.1
TSS clone	`T`	clone	+	4471300	AT5G13850.1
TSS clone	`T`	clone	+	4471305	AT5G13850.1
TSS clone	`C`	clone	+	4471350	AT5G13850.1

Core promoter information

Type Sequence Genome position Gene model

Strand Start End

initiator Not Available Not Available Not Available

TATA Box None None None

Y Patch TCCTCTCTCTCT + 4471342 4471353 AT5G13850.1

GA None None None

Inr None None None

Type	Sequence	Genome position	Gene model
		Strand	Start	End
initiator	Not Available	Not Available	Not Available
TATA Box	None	None	None
Y Patch	`TCCTCTCTCTCT`	+	4471342	4471353	AT5G13850.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG AGCGCGTGGCTTTTAACCACGTGGC + 4471069 4471093 AT5G13850.1

AtREG381 AGCGCGTG                  PPDB Motif ACGCGC PLACE Motif

AtREG608     CGTGGCTT              ABA PPDB Motif PLACE Motif GCCAC

AtREG549        GGCTTTTA           PPDB Motif PLACE Motif

AtREG544                ACCACGTG   ABA, DREB1Aox PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG367                  CACGTGGC ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, CACGTG, ACGTGKC, CACGTGGC

REG ACCGGTTTGG + 4471163 4471172 AT5G13850.1

AtREG436 ACCGGTTT   PPDB Motif AACCG(G/A) PLACE Motif

AtREG496 CCGGTTTG PPDB Motif AACCG(G/A) PLACE Motif

AtREG550   CGGTTTGG PPDB Motif AACCG(G/A) PLACE Motif

REG AACCCGAC + 4471225 4471232 AT5G13850.1

AtREG580 AACCCGAC PPDB Motif CCGAC PLACE Motif CCGAC

REG TCAAAACG + 4471247 4471254 AT5G13850.1

AtREG653 TCAAAACG PPDB Motif AAACG(C/G) PLACE Motif