PlantPromoterDB promoter information of AT5G58330

Summary of Gene (AT5G58330)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G58330 TAIR NCBI
Gene model	AT5G58330
Description	malate dehydrogenase (NADP), chloroplast, putative; FUNCTIONS IN: oxidoreductase activity, binding, malate dehydrogenase activity, catalytic activity, malate dehydrogenase (NADP+) activity; INVOLVED IN: malate metabolic process, carbohydrate metabolic process, metabolic process; LOCATED IN: in 6 components; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Malate dehydrogenase, NAD or NADP (InterPro:IPR010945), Malate dehydrogenase, NADP-dependent, plants (InterPro:IPR011273), NAD(P)-binding (InterPro:IPR016040), Lactate/malate dehydrogenase (InterPro:IPR001236), Malate dehydrogenase, active site (InterPro:IPR001252), Lactate dehydrogenase/glycoside hydrolase, family 4, C-terminal (InterPro:IPR015955); BEST Arabidopsis thaliana protein match is: malate dehydrogenase, cytosolic, putative (TAIR:AT5G56720.1); Has 6543 Blast hits to 6543 proteins in 1476 species: Archae - 77; Bacteria - 3514; Metazoa - 459; Fungi - 108; Plants - 380; Viruses - 0; Other Eukaryotes - 2005 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 23582751-23581552)

`Genome position from initiation codon` `AT5G58330.1 AT5G58330.2 AT5G58330.3 TSS from cDNA TSS information AT5G58330 5'->3' (-) Promoter sequence AT5G58340.1 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 AT5G58330

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 60 - 23582334 -583

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	60	-	23582334	-583

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone - 23582586 -835

TSS clone A clone - 23582364 -613

TSS clone T clone - 23582358 -607

TSS clone T clone - 23582343 -592

TSS clone A clone - 23582336 -585

TSS clone T clone - 23582335 -584

TSS clone G clone - 23582333 -582

TSS clone A clone - 23582321 -570

TSS clone C clone - 23582313 -562

TSS clone C clone - 23582307 -556

TSS clone G clone - 23582305 -554

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	-	23582586	-835
TSS clone	`A`	clone	-	23582364	-613
TSS clone	`T`	clone	-	23582358	-607
TSS clone	`T`	clone	-	23582343	-592
TSS clone	`A`	clone	-	23582336	-585
TSS clone	`T`	clone	-	23582335	-584
TSS clone	`G`	clone	-	23582333	-582
TSS clone	`A`	clone	-	23582321	-570
TSS clone	`C`	clone	-	23582313	-562
TSS clone	`C`	clone	-	23582307	-556
TSS clone	`G`	clone	-	23582305	-554

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 CTCTCTCTCC - 23582337 23582346 -586 -595

Y Patch CCTCTTTCT - 23582369 23582377 -618 -626

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	`CTCTCTCTCC`	-	23582337	23582346	-586	-595
Y Patch	`CCTCTTTCT`	-	23582369	23582377	-618	-626
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 TTATTGGGCCTTAACTGGGCCTAAAAGTCAA - 23582452 23582482 -701 -731

AtREG417 TTATTGGG                        PPDB Motif GCCCA PLACE Motif

AtREG355 TATTGGGC                       PPDB Motif GCCCA PLACE Motif

AtREG352   ATTGGGCC                      PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356    TTGGGCCT                     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG353     TGGGCCTT                    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG351      GGGCCTTA                   PPDB Motif GCCCA PLACE Motif GGGCC

AtREG416       GGCCTTAA                  PPDB Motif PLACE Motif

AtREG384              ACTGGGCC           PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG410               CTGGGCCT          PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG358                TGGGCCTA         PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG360                 GGGCCTAA        PPDB Motif GCCCA PLACE Motif GGGCC

AtREG430                  GGCCTAAA       PPDB Motif PLACE Motif

AtREG632                        AAAGTCAA PPDB Motif PLACE Motif TTGAC

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TTATTGGGCCTTAACTGGGCCTAAAAGTCAA`		-	23582452	23582482	-701	-731
	AtREG417	`TTATTGGG`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG355	`TATTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG352	`ATTGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG356	`TTGGGCCT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG353	`TGGGCCTT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG351	`GGGCCTTA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG416	`GGCCTTAA`		PPDB Motif		PLACE Motif
	AtREG384	`ACTGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG410	`CTGGGCCT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG358	`TGGGCCTA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG360	`GGGCCTAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG430	`GGCCTAAA`		PPDB Motif		PLACE Motif
	AtREG632	`AAAGTCAA`		PPDB Motif		PLACE Motif	`TTGAC`

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 4 + 23582518 AT5G58340.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	4	+	23582518	AT5G58340.1

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 GACGTCGTTTT + 23582250 23582260 AT5G58340.1

AtREG431 GACGTCGT    PPDB Motif ACGT PLACE Motif ACGT

AtREG493 ACGTCGTT   PPDB Motif ACGT PLACE Motif ACGT

AtREG415   CGTCGTTT PPDB Motif PLACE Motif

AtREG520    GTCGTTTT PPDB Motif PLACE Motif

REG TTGACTTTTAGGCCCAGTTAAGGCCC + 23582452 23582477 AT5G58340.1

AtREG632 TTGACTTT                   PPDB Motif PLACE Motif TTGAC

AtREG430       TTTAGGCC             PPDB Motif PLACE Motif

AtREG360        TTAGGCCC            PPDB Motif GCCCA PLACE Motif GGGCC

AtREG358         TAGGCCCA           PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG410          AGGCCCAG          PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG384           GGCCCAGT         PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG416                  TTAAGGCC PPDB Motif PLACE Motif

AtREG351                   TAAGGCCC PPDB Motif GCCCA PLACE Motif GGGCC