PlantPromoterDB promoter information of AT5G19920.1

Summary of Gene (AT5G19920.1)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G19920 TAIR NCBI
Gene model	AT5G19920.1
Description	transducin family protein / WD-40 repeat family protein; FUNCTIONS IN: nucleotide binding; INVOLVED IN: biological_process unknown; LOCATED IN: CUL4 RING ubiquitin ligase complex; EXPRESSED IN: 10 plant structures; EXPRESSED DURING: 6 growth stages; CONTAINS InterPro DOMAIN/s: WD40 repeat-like (InterPro:IPR011046), WD40 repeat, region (InterPro:IPR017986), WD40/YVTN repeat-like (InterPro:IPR015943), WD40 repeat (InterPro:IPR001680); BEST Arabidopsis thaliana protein match is: WD-40 repeat family protein (TAIR:AT5G50970.1); Has 820 Blast hits to 752 proteins in 164 species: Archae - 4; Bacteria - 193; Metazoa - 265; Fungi - 128; Plants - 83; Viruses - 0; Other Eukaryotes - 147 (source: NCBI BLink).

#

Overview

Focused view (chromosome 5: 6740666-6739467)

`Genome position from initiation codon` `TSS from cDNA TSS information AT5G19920.1 5'->3' (-) Promoter sequence AT5G19940.1 AT5G19940.2 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 AT5G19920.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 13 - 6737382 -116

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	13	-	6737382	-116

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone - 6737373 -107

TSS clone A clone - 6737372 -106

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	-	6737373	-107
TSS clone	`A`	clone	-	6737372	-106

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 17 + 6739689 AT5G19940.1, AT5G19940.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	17	+	6739689	AT5G19940.1, AT5G19940.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone T clone + 6739634 AT5G19940.1, AT5G19940.2

TSS clone T clone + 6739645 AT5G19940.1, AT5G19940.2

TSS clone C clone + 6739649 AT5G19940.1, AT5G19940.2

TSS clone T clone + 6739651 AT5G19940.1, AT5G19940.2

TSS clone C clone + 6739654 AT5G19940.1, AT5G19940.2

TSS clone T clone + 6739655 AT5G19940.1, AT5G19940.2

TSS clone T clone + 6739657 AT5G19940.1, AT5G19940.2

TSS clone A clone + 6739661 AT5G19940.1, AT5G19940.2

TSS clone A clone + 6739684 AT5G19940.1, AT5G19940.2

TSS clone A clone + 6739690 AT5G19940.1, AT5G19940.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`T`	clone	+	6739634	AT5G19940.1, AT5G19940.2
TSS clone	`T`	clone	+	6739645	AT5G19940.1, AT5G19940.2
TSS clone	`C`	clone	+	6739649	AT5G19940.1, AT5G19940.2
TSS clone	`T`	clone	+	6739651	AT5G19940.1, AT5G19940.2
TSS clone	`C`	clone	+	6739654	AT5G19940.1, AT5G19940.2
TSS clone	`T`	clone	+	6739655	AT5G19940.1, AT5G19940.2
TSS clone	`T`	clone	+	6739657	AT5G19940.1, AT5G19940.2
TSS clone	`A`	clone	+	6739661	AT5G19940.1, AT5G19940.2
TSS clone	`A`	clone	+	6739684	AT5G19940.1, AT5G19940.2
TSS clone	`A`	clone	+	6739690	AT5G19940.1, AT5G19940.2

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 CTCTCTCTCCC + 6739640 6739650 AT5G19940.1, AT5G19940.2

Y Patch CTTCTCTCTCTT + 6739663 6739674 AT5G19940.1, AT5G19940.2

Y Patch CTCTCTCC + 6739676 6739683 AT5G19940.1, AT5G19940.2

Y Patch CTTCTTCTCTT + 6739706 6739716 AT5G19940.1, AT5G19940.2

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	`CTCTCTCTCCC`	+	6739640	6739650	AT5G19940.1, AT5G19940.2
Y Patch	`CTTCTCTCTCTT`	+	6739663	6739674	AT5G19940.1, AT5G19940.2
Y Patch	`CTCTCTCC`	+	6739676	6739683	AT5G19940.1, AT5G19940.2
Y Patch	`CTTCTTCTCTT`	+	6739706	6739716	AT5G19940.1, AT5G19940.2
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG ATGGCCCA - 6739502 6739509 AT5G19930.1

AtREG437 ATGGCCCA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG CCGCGTTA - 6739541 6739548 AT5G19930.1

AtREG488 CCGCGTTA SA PPDB Motif PLACE Motif

REG GGGCCCATA - 6739574 6739582 AT5G19930.1

AtREG391 GGGCCCAT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG364 GGCCCATA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG GTGCCACGTCAT - 6739600 6739611 AT5G19930.1

AtREG444 GTGCCACG     PPDB Motif PLACE Motif GCCAC

AtREG379 TGCCACGT    ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG388   GCCACGTC   PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG419    CCACGTCA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, TGACGTGG, CCACGTCA

AtREG483     CACGTCAT PPDB Motif ACGT PLACE Motif ACGT, ACGTG

REG TGGGCCAT + 6739502 6739509 AT5G19940.1, AT5G19940.2

AtREG437 TGGGCCAT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG TAACGCGG + 6739541 6739548 AT5G19940.1, AT5G19940.2

AtREG488 TAACGCGG SA PPDB Motif PLACE Motif

REG TATGGGCCC + 6739574 6739582 AT5G19940.1, AT5G19940.2

AtREG364 TATGGGCC PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG391 ATGGGCCC PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG ATGACGTGGCAC + 6739600 6739611 AT5G19940.1, AT5G19940.2

AtREG483 ATGACGTG     PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG419 TGACGTGG    PPDB Motif ACGT PLACE Motif ACGT, ACGTG, TGACGTGG, CCACGTCA

AtREG388   GACGTGGC   PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG379    ACGTGGCA ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG444     CGTGGCAC PPDB Motif PLACE Motif GCCAC