PlantPromoterDB promoter information of AT1G50440.2

Summary of Gene (AT1G50440.2)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G50440 TAIR NCBI
Gene model	AT1G50440.2
Description	zinc finger (C3HC4-type RING finger) family protein; FUNCTIONS IN: protein binding, zinc ion binding; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Zinc finger, RING/FYVE/PHD-type (InterPro:IPR013083), Zinc finger, RING-CH-type (InterPro:IPR011016); BEST Arabidopsis thaliana protein match is: protein binding / zinc ion binding (TAIR:AT2G22120.1); Has 722 Blast hits to 707 proteins in 137 species: Archae - 0; Bacteria - 0; Metazoa - 308; Fungi - 79; Plants - 160; Viruses - 16; Other Eukaryotes - 159 (source: NCBI BLink).

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Overview

Focused view (chromosome 1: 18685099-18686298)

`Genome position from initiation codon` `AT1G50440.1 AT1G50440.3 TSS from cDNA TSS information AT1G50440.2 5'->3' (+) Promoter sequence AT1G50430.1 AT1G50430.2 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 AT1G50440.2

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 4 + 18685804 -295

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	4	+	18685804	-295

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone C clone + 18685811 -288

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`C`	clone	+	18685811	-288

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 CTTCTTCTCTCTC + 18685784 18685796 -315 -303

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	`CTTCTTCTCTCTC`	+	18685784	18685796	-315	-303
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 CCCACGTGTCACGTG + 18685686 18685700 -413 -399

AtREG464 CCCACGTG        ABA, Auxin, JA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG

AtREG382 CCACGTGT       ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACACNNG

AtREG366   CACGTGTC      ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACGTGKC, ACACNNG, ACGTGTC

AtREG389    ACGTGTCA     ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACGTGKC, ACGTGTC

AtREG498     CGTGTCAC    ABA PPDB Motif PLACE Motif

AtREG606       TGTCACGT ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG583        GTCACGTG PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CCCACGTGTCACGTG`		+	18685686	18685700	-413	-399
	AtREG464	`CCCACGTG`	ABA, Auxin, JA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, CACGTG`
	AtREG382	`CCACGTGT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, CACGTG, ACACNNG`
	AtREG366	`CACGTGTC`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, CACGTG, ACGTGKC, ACACNNG, ACGTGTC`
	AtREG389	`ACGTGTCA`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, ACGTGKC, ACGTGTC`
	AtREG498	`CGTGTCAC`	ABA	PPDB Motif		PLACE Motif
	AtREG606	`TGTCACGT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG583	`GTCACGTG`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, CACGTG`

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 5 - 18685606 AT1G50430.1, AT1G50430.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	5	-	18685606	AT1G50430.1, AT1G50430.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone T clone - 18685652 AT1G50430.1, AT1G50430.2

TSS clone C clone - 18685651 AT1G50430.1, AT1G50430.2

TSS clone T clone - 18685649 AT1G50430.1, AT1G50430.2

TSS clone G clone - 18685647 AT1G50430.1, AT1G50430.2

TSS clone A clone - 18685606 AT1G50430.1, AT1G50430.2

TSS clone G clone - 18685603 AT1G50430.1, AT1G50430.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`T`	clone	-	18685652	AT1G50430.1, AT1G50430.2
TSS clone	`C`	clone	-	18685651	AT1G50430.1, AT1G50430.2
TSS clone	`T`	clone	-	18685649	AT1G50430.1, AT1G50430.2
TSS clone	`G`	clone	-	18685647	AT1G50430.1, AT1G50430.2
TSS clone	`A`	clone	-	18685606	AT1G50430.1, AT1G50430.2
TSS clone	`G`	clone	-	18685603	AT1G50430.1, AT1G50430.2

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 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 CACGTGACACGTGGG - 18685686 18685700 AT1G50430.1, AT1G50430.2

AtREG583 CACGTGAC        PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG

AtREG606 ACGTGACA       ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG498    GTGACACG     ABA PPDB Motif PLACE Motif

AtREG389     TGACACGT    ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACGTGKC, ACGTGTC

AtREG366      GACACGTG   ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACGTGKC, ACACNNG, ACGTGTC

AtREG382       ACACGTGG ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACACNNG

AtREG464        CACGTGGG ABA, Auxin, JA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG