PlantPromoterDB promoter information of AT5G56720.1

Summary of Gene (AT5G56720.1)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G56720 TAIR NCBI
Gene model	AT5G56720.1
Description	malate dehydrogenase, cytosolic, putative; FUNCTIONS IN: in 6 functions; INVOLVED IN: cellular carbohydrate metabolic process, glycolysis, malate metabolic process, carbohydrate metabolic process, metabolic process; LOCATED IN: membrane; EXPRESSED IN: 8 plant structures; EXPRESSED DURING: 4 anthesis, LP.10 ten leaves visible, petal differentiation and expansion stage; CONTAINS InterPro DOMAIN/s: Malate dehydrogenase, NAD-dependent, cytosolic (InterPro:IPR011274), Lactate/malate dehydrogenase (InterPro:IPR001236), Malate dehydrogenase, NAD or NADP (InterPro:IPR010945), NAD(P)-binding (InterPro:IPR016040), L-lactate/malate dehydrogenase (InterPro:IPR001557), 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:AT1G04410.1); Has 6253 Blast hits to 6252 proteins in 1592 species: Archae - 104; Bacteria - 2984; Metazoa - 823; Fungi - 105; Plants - 342; Viruses - 0; Other Eukaryotes - 1895 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 22944537-22945736)

`Genome position from initiation codon` `TSS from cDNA TSS information AT5G56720.1 5'->3' (+) Promoter sequence AT5G56710.1 AT5G56710.2 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 AT5G56720.1

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 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 G 17 - 22944962 AT5G56710.1, AT5G56710.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	17	-	22944962	AT5G56710.1, AT5G56710.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone T clone - 22944967 AT5G56710.1, AT5G56710.2

TSS clone T clone - 22944963 AT5G56710.1, AT5G56710.2

TSS clone G clone - 22944962 AT5G56710.1, AT5G56710.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`T`	clone	-	22944967	AT5G56710.1, AT5G56710.2
TSS clone	`T`	clone	-	22944963	AT5G56710.1, AT5G56710.2
TSS clone	`G`	clone	-	22944962	AT5G56710.1, AT5G56710.2

Core promoter information

Type Sequence Genome position Gene model

Strand Start End

initiator Not Available Not Available Not Available

TATA Box CATATATATG - 22944991 22945000 AT5G56710.1, AT5G56710.2

Y Patch CTCTCTCTCTCTCTTTCT - 22944913 22944930 AT5G56710.1, AT5G56710.2

Y Patch TTCTCTTCCTTC - 22944974 22944985 AT5G56710.1, AT5G56710.2

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	`CATATATATG`	-	22944991	22945000	AT5G56710.1, AT5G56710.2
Y Patch	`CTCTCTCTCTCTCTTTCT`	-	22944913	22944930	AT5G56710.1, AT5G56710.2
Y Patch	`TTCTCTTCCTTC`	-	22944974	22944985	AT5G56710.1, AT5G56710.2
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG AATAGGCCCATTAAAGCCCAAT - 22945035 22945056 AT5G56710.1, AT5G56710.2

AtREG424 AATAGGCC               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

AtREG545           TTAAAGCC     PPDB Motif PLACE Motif

AtREG365            TAAAGCCC    PPDB Motif GCCCA PLACE Motif

AtREG376             AAAGCCCA   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407              AAGCCCAA PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG402               AGCCCAAT PPDB Motif GCCCA PLACE Motif TGGGCY

REG ATTTGGGCCGTAAATGGGCTA - 22945106 22945126 AT5G56710.1, AT5G56710.2

AtREG421 ATTTGGGC              PPDB Motif GCCCA PLACE Motif

AtREG373 TTTGGGCC             PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG414   TTGGGCCG            PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG368    TGGGCCGT           PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG499     GGGCCGTA          PPDB Motif GCCCA PLACE Motif GGGCC

AtREG443           TAAATGGG    PPDB Motif GCCCA PLACE Motif

AtREG386            AAATGGGC   PPDB Motif GCCCA PLACE Motif

AtREG372             AATGGGCT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG581              ATGGGCTA PPDB Motif GCCCA PLACE Motif TGGGCY