PlantPromoterDB promoter information of AT5G65740.3

Summary of Gene (AT5G65740.3)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G65740 TAIR NCBI
Gene model	AT5G65740.3
Description	protein binding / zinc ion binding; FUNCTIONS IN: protein binding, zinc ion binding; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; CONTAINS InterPro DOMAIN/s: Zinc finger, RING-type (InterPro:IPR001841); Has 130 Blast hits to 129 proteins in 51 species: Archae - 0; Bacteria - 0; Metazoa - 99; Fungi - 0; Plants - 22; Viruses - 0; Other Eukaryotes - 9 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 26297142-26295943)

`Genome position from initiation codon` `TSS from cDNA TSS information AT5G65740.3 5'->3' (-) Promoter sequence AT5G65720.1 AT5G65720.2 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 AT5G65740.3

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

TSS clone G clone - 26303471 -579

TSS clone peak G clone - 26303433 -541

TSS clone T clone - 26303425 -533

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`G`	clone	-	26303471	-579
TSS clone peak	`G`	clone	-	26303433	-541
TSS clone	`T`	clone	-	26303425	-533

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 None None None

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	None	None	None

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 13 + 26296273 AT5G65720.1, AT5G65720.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	13	+	26296273	AT5G65720.1, AT5G65720.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone T clone + 26296239 AT5G65720.1, AT5G65720.2

TSS clone T clone + 26296246 AT5G65720.1, AT5G65720.2

TSS clone C clone + 26296253 AT5G65720.1, AT5G65720.2

TSS clone C clone + 26296257 AT5G65720.1, AT5G65720.2

TSS clone A clone + 26296273 AT5G65720.1, AT5G65720.2

TSS clone C clone + 26296274 AT5G65720.1, AT5G65720.2

TSS clone G clone + 26296290 AT5G65720.1, AT5G65720.2

TSS clone A clone + 26296298 AT5G65720.1, AT5G65720.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`T`	clone	+	26296239	AT5G65720.1, AT5G65720.2
TSS clone	`T`	clone	+	26296246	AT5G65720.1, AT5G65720.2
TSS clone	`C`	clone	+	26296253	AT5G65720.1, AT5G65720.2
TSS clone	`C`	clone	+	26296257	AT5G65720.1, AT5G65720.2
TSS clone	`A`	clone	+	26296273	AT5G65720.1, AT5G65720.2
TSS clone	`C`	clone	+	26296274	AT5G65720.1, AT5G65720.2
TSS clone	`G`	clone	+	26296290	AT5G65720.1, AT5G65720.2
TSS clone	`A`	clone	+	26296298	AT5G65720.1, AT5G65720.2

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 TCTTCTTCTTCTTC + 26296259 26296272 AT5G65720.1, AT5G65720.2

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	`TCTTCTTCTTCTTC`	+	26296259	26296272	AT5G65720.1, AT5G65720.2
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG TATTGGGC + 26296104 26296111 AT5G65720.1, AT5G65720.2

AtREG355 TATTGGGC PPDB Motif GCCCA PLACE Motif

REG TATAGGCCCATTAT + 26296116 26296129 AT5G65720.1, AT5G65720.2

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

AtREG546       CCCATTAT PPDB Motif PLACE Motif