PlantPromoterDB promoter information of AT4G00520.3

Summary of Gene (AT4G00520.3)

Organism	Arabidopsis thaliana
Chromosome	4
Locus	AT4G00520 TAIR NCBI
Gene model	AT4G00520.3
Description	acyl-CoA thioesterase family protein; FUNCTIONS IN: acyl-CoA thioesterase activity; INVOLVED IN: acyl-CoA metabolic process; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Cyclic nucleotide-binding (InterPro:IPR000595), Cyclic nucleotide-binding-like (InterPro:IPR018490), Acyl-CoA thioesterase (InterPro:IPR003703), RmlC-like jelly roll fold (InterPro:IPR014710); BEST Arabidopsis thaliana protein match is: acyl-CoA thioesterase family protein (TAIR:AT1G01710.1); Has 2409 Blast hits to 2399 proteins in 576 species: Archae - 0; Bacteria - 1072; Metazoa - 364; Fungi - 190; Plants - 32; Viruses - 0; Other Eukaryotes - 751 (source: NCBI BLink).

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Overview

Focused view (chromosome 4: 226726-227925)

`Genome position from initiation codon` `AT4G00520.2 TSS from cDNA TSS information AT4G00520.3 5'->3' (+) Promoter sequence AT4G00500.1 AT4G00500.2 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 AT4G00520.3

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
Not Available	Not Available	Not Available	Not Available	Not Available

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
Not Available	Not Available	Not Available	Not Available	Not Available

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 None None None

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	None	None	None
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 GTCGGGTCGGGTCGGGTCGGGTCGGGTCGG + 227441 227470 -285 -256

AtREG390 GTCGGGTCGGGTCGGGTCGGGTCGGGTC   PPDB Motif CCGAC, GGGACCC PLACE Motif CCGAC

AtREG383 TCGGGTCGGGTCGGGTCGGGTCGGGTCG PPDB Motif PLACE Motif

AtREG375   CGGGTCGGGTCGGGTCGGGTCGGGTCGG PPDB Motif CCGAC PLACE Motif CCGAC

AtREG442    GGGTCGGGTCGGGTCGGGTCGGG     PPDB Motif CCGAC PLACE Motif CCGAC

AtREG405     GGTCGGGTCGGGTCGGGTCGGGT    PPDB Motif CCGAC PLACE Motif CCGAC

REG ATTTGGGCTTTTA + 227539 227551 -187 -175

AtREG421 ATTTGGGC      PPDB Motif GCCCA PLACE Motif

AtREG469 TTTGGGCT     PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407   TTGGGCTT    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG376    TGGGCTTT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG409     GGGCTTTT PPDB Motif GCCCA PLACE Motif

AtREG549      GGCTTTTA PPDB Motif PLACE Motif

REG TATAGGCCCATTAA + 227554 227567 -172 -159

AtREG487 TATAGGCC       PPDB Motif PLACE Motif

AtREG362 ATAGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG358   TAGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354    AGGCCCAT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG361     GGCCCATT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG357      GCCCATTA PPDB Motif GCCCA PLACE Motif

AtREG396       CCCATTAA PPDB Motif GCCCA PLACE Motif TTAATGG

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`GTCGGGTCGGGTCGGGTCGGGTCGGGTCGG`		+	227441	227470	-285	-256
	AtREG390	`GTCGGGTCGGGTCGGGTCGGGTCGGGTC`		PPDB Motif	`CCGAC, GGGACCC`	PLACE Motif	`CCGAC`
	AtREG383	`TCGGGTCGGGTCGGGTCGGGTCGGGTCG`		PPDB Motif		PLACE Motif
	AtREG375	`CGGGTCGGGTCGGGTCGGGTCGGGTCGG`		PPDB Motif	`CCGAC`	PLACE Motif	`CCGAC`
	AtREG442	`GGGTCGGGTCGGGTCGGGTCGGG`		PPDB Motif	`CCGAC`	PLACE Motif	`CCGAC`
	AtREG405	`GGTCGGGTCGGGTCGGGTCGGGT`		PPDB Motif	`CCGAC`	PLACE Motif	`CCGAC`
REG	`ATTTGGGCTTTTA`		+	227539	227551	-187	-175
	AtREG421	`ATTTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG469	`TTTGGGCT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG407	`TTGGGCTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG376	`TGGGCTTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG409	`GGGCTTTT`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG549	`GGCTTTTA`		PPDB Motif		PLACE Motif
REG	`TATAGGCCCATTAA`		+	227554	227567	-172	-159
	AtREG487	`TATAGGCC`		PPDB Motif		PLACE Motif
	AtREG362	`ATAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG358	`TAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG354	`AGGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG361	`GGCCCATT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG357	`GCCCATTA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG396	`CCCATTAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TTAATGG`

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
Not Available	Not Available	Not Available	Not Available	Not Available

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone peak A clone - 227396 AT4G00500.1, AT4G00500.2

TSS clone peak G clone - 227390 AT4G00500.1, AT4G00500.2

TSS clone peak T clone - 227112 AT4G00500.1, AT4G00500.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone peak	`A`	clone	-	227396	AT4G00500.1, AT4G00500.2
TSS clone peak	`G`	clone	-	227390	AT4G00500.1, AT4G00500.2
TSS clone peak	`T`	clone	-	227112	AT4G00500.1, AT4G00500.2

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 TCTTTCTCC - 227400 227408 AT4G00500.1, AT4G00500.2

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	`TCTTTCTCC`	-	227400	227408	AT4G00500.1, AT4G00500.2
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG CCGACCCGACCCGACCCGACCCGACCCGAC - 227441 227470 AT4G00500.1, AT4G00500.2

AtREG375 CCGACCCGACCCGACCCGACCCGACCCG   PPDB Motif CCGAC PLACE Motif CCGAC

AtREG383 CGACCCGACCCGACCCGACCCGACCCGA PPDB Motif PLACE Motif

AtREG390   GACCCGACCCGACCCGACCCGACCCGAC PPDB Motif CCGAC, GGGACCC PLACE Motif CCGAC

AtREG405    ACCCGACCCGACCCGACCCGACC     PPDB Motif CCGAC PLACE Motif CCGAC

AtREG442     CCCGACCCGACCCGACCCGACCC    PPDB Motif CCGAC PLACE Motif CCGAC

REG TAAAAGCCCAAAT - 227539 227551 AT4G00500.1, AT4G00500.2

AtREG549 TAAAAGCC      PPDB Motif PLACE Motif

AtREG409 AAAAGCCC     PPDB Motif GCCCA PLACE Motif

AtREG376   AAAGCCCA    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407    AAGCCCAA   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG469     AGCCCAAA PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG421      GCCCAAAT PPDB Motif GCCCA PLACE Motif

REG TTAATGGGCCTATA - 227554 227567 AT4G00500.1, AT4G00500.2

AtREG396 TTAATGGG       PPDB Motif GCCCA PLACE Motif TTAATGG

AtREG357 TAATGGGC      PPDB Motif GCCCA PLACE Motif

AtREG361   AATGGGCC     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354    ATGGGCCT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG358     TGGGCCTA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG362      GGGCCTAT PPDB Motif GCCCA PLACE Motif GGGCC

AtREG487       GGCCTATA PPDB Motif PLACE Motif