PlantPromoterDB promoter information of AT3G63460.2

Summary of Gene (AT3G63460.2)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G63460 TAIR NCBI
Gene model	AT3G63460.2
Description	WD-40 repeat family protein; FUNCTIONS IN: molecular_function unknown; LOCATED IN: CUL4 RING ubiquitin ligase complex, membrane; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 14 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: transducin family protein / WD-40 repeat family protein (TAIR:AT1G18830.1); Has 29990 Blast hits to 20402 proteins in 935 species: Archae - 42; Bacteria - 3651; Metazoa - 11973; Fungi - 5426; Plants - 3318; Viruses - 524; Other Eukaryotes - 5056 (source: NCBI BLink).

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Overview

Focused view (chromosome 3: 23436291-23435092)

`Genome position from initiation codon` `AT3G63460.1 TSS from cDNA TSS information AT3G63460.2 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 AT3G63460.2

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 8 - 23437332 -91

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	8	-	23437332	-91

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone - 23437342 -101

TSS clone T clone - 23437314 -73

TSS clone A clone - 23437308 -67

TSS clone G clone - 23437307 -66

TSS clone A clone - 23437296 -55

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	-	23437342	-101
TSS clone	`T`	clone	-	23437314	-73
TSS clone	`A`	clone	-	23437308	-67
TSS clone	`G`	clone	-	23437307	-66
TSS clone	`A`	clone	-	23437296	-55

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 TCCTCTCCTCCT - 23437318 23437329 -77 -88

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	`TCCTCTCCTCCT`	-	23437318	23437329	-77	-88
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 TACCCTTA - 23437416 23437423 -175 -182

AtREG570 TACCCTTA PPDB Motif ACCCT PLACE Motif

REG TGACGTGTCAT - 23437465 23437475 -224 -234

AtREG517 TGACGTGT    ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG481 GACGTGTC   ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACGTGKC, ACGTGTC

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

AtREG438    CGTGTCAT ABA PPDB Motif PLACE Motif

REG ATAGGCCT - 23437487 23437494 -246 -253

AtREG649 ATAGGCCT PPDB Motif PLACE Motif

REG CAAGGCCCAAAT - 23437505 23437516 -264 -275

AtREG398 CAAGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG353 AAGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356   AGGCCCAA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG373    GGCCCAAA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG421     GCCCAAAT PPDB Motif GCCCA PLACE Motif

REG TTATTGGGCCCAATTG - 23437562 23437577 -321 -336

AtREG417 TTATTGGG         PPDB Motif GCCCA PLACE Motif

AtREG355 TATTGGGC        PPDB Motif GCCCA PLACE Motif

AtREG352   ATTGGGCCCAAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG422     TGGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG392    TTGGGCCCAA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG418        GCCCAATT PPDB Motif GCCCA PLACE Motif

AtREG647         CCCAATTG PPDB Motif PLACE Motif

REG TCACGTGTT - 23437590 23437598 -349 -357

AtREG628 TCACGTGT DREB1Aox PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACACNNG

AtREG590 CACGTGTT ABA, JA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACACNNG

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TACCCTTA`		-	23437416	23437423	-175	-182
	AtREG570	`TACCCTTA`		PPDB Motif	`ACCCT`	PLACE Motif
REG	`TGACGTGTCAT`		-	23437465	23437475	-224	-234
	AtREG517	`TGACGTGT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG481	`GACGTGTC`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, ACGTGKC, ACGTGTC`
	AtREG389	`ACGTGTCA`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, ACGTGKC, ACGTGTC`
	AtREG438	`CGTGTCAT`	ABA	PPDB Motif		PLACE Motif
REG	`ATAGGCCT`		-	23437487	23437494	-246	-253
	AtREG649	`ATAGGCCT`		PPDB Motif		PLACE Motif
REG	`CAAGGCCCAAAT`		-	23437505	23437516	-264	-275
	AtREG398	`CAAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG353	`AAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG356	`AGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG373	`GGCCCAAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG421	`GCCCAAAT`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`TTATTGGGCCCAATTG`		-	23437562	23437577	-321	-336
	AtREG417	`TTATTGGG`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG355	`TATTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG352	`ATTGGGCCCAAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG422	`TGGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG392	`TTGGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG418	`GCCCAATT`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG647	`CCCAATTG`		PPDB Motif		PLACE Motif
REG	`TCACGTGTT`		-	23437590	23437598	-349	-357
	AtREG628	`TCACGTGT`	DREB1Aox	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, CACGTG, ACACNNG`
	AtREG590	`CACGTGTT`	ABA, JA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, CACGTG, ACACNNG`

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