PlantPromoterDB promoter information of AT1G65930

Summary of Gene (AT1G65930)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G65930 TAIR NCBI
Gene model	AT1G65930
Description	isocitrate dehydrogenase, putative / NADP+ isocitrate dehydrogenase, putative; FUNCTIONS IN: isocitrate dehydrogenase (NADP+) activity, copper ion binding; INVOLVED IN: response to cadmium ion, response to salt stress, metabolic process; LOCATED IN: apoplast, plasma membrane; EXPRESSED IN: 27 plant structures; EXPRESSED DURING: 16 growth stages; CONTAINS InterPro DOMAIN/s: Isocitrate/isopropylmalate dehydrogenase (InterPro:IPR001804), Isocitrate dehydrogenase NADP-dependent, eukaryotic (InterPro:IPR004790); BEST Arabidopsis thaliana protein match is: ICDH (ISOCITRATE DEHYDROGENASE); isocitrate dehydrogenase (NADP+)/ oxidoreductase, acting on the CH-OH group of donors, NAD or NADP as acceptor (TAIR:AT1G54340.1); Has 4101 Blast hits to 4085 proteins in 611 species: Archae - 17; Bacteria - 632; Metazoa - 448; Fungi - 160; Plants - 247; Viruses - 0; Other Eukaryotes - 2597 (source: NCBI BLink).

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Overview

Focused view (chromosome 1: 24538088-24539287)

`Genome position from initiation codon` `AT1G65930.1 TSS from cDNA TSS information AT1G65930 5'->3' (+) Promoter sequence 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 AT1G65930

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 115 + 24538935 -153

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	115	+	24538935	-153

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone G clone + 24538904 -184

TSS clone T clone + 24538930 -158

TSS clone T clone + 24538932 -156

TSS clone A clone + 24538933 -155

TSS clone A clone + 24538935 -153

TSS clone A clone + 24538936 -152

TSS clone G clone + 24538937 -151

TSS clone C clone + 24538938 -150

TSS clone T clone + 24538939 -149

TSS clone T clone + 24538941 -147

TSS clone C clone + 24538946 -142

TSS clone C clone + 24538965 -123

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`G`	clone	+	24538904	-184
TSS clone	`T`	clone	+	24538930	-158
TSS clone	`T`	clone	+	24538932	-156
TSS clone	`A`	clone	+	24538933	-155
TSS clone	`A`	clone	+	24538935	-153
TSS clone	`A`	clone	+	24538936	-152
TSS clone	`G`	clone	+	24538937	-151
TSS clone	`C`	clone	+	24538938	-150
TSS clone	`T`	clone	+	24538939	-149
TSS clone	`T`	clone	+	24538941	-147
TSS clone	`C`	clone	+	24538946	-142
TSS clone	`C`	clone	+	24538965	-123

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 TCTTCTTC + 24538976 24538983 -112 -105

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	`TCTTCTTC`	+	24538976	24538983	-112	-105
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 GTGGGACCC + 24538791 24538799 -297 -289

AtREG406 GTGGGACC PPDB Motif GGGACCC PLACE Motif

AtREG596 TGGGACCC PPDB Motif GGGACCC PLACE Motif

REG GGGTCAAA + 24538871 24538878 -217 -210

AtREG592 GGGTCAAA PPDB Motif PLACE Motif TTGAC, TTGACC

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`GTGGGACCC`		+	24538791	24538799	-297	-289
	AtREG406	`GTGGGACC`		PPDB Motif	`GGGACCC`	PLACE Motif
	AtREG596	`TGGGACCC`		PPDB Motif	`GGGACCC`	PLACE Motif
REG	`GGGTCAAA`		+	24538871	24538878	-217	-210
	AtREG592	`GGGTCAAA`		PPDB Motif		PLACE Motif	`TTGAC, TTGACC`

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

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
Not Available	Not Available	Not Available	Not Available	Not Available

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 None None None

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	None	None	None
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG None None None