PlantPromoterDB promoter information of AT1G27470

Summary of Gene (AT1G27470)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G27470 TAIR NCBI
Gene model	AT1G27470
Description	transducin-related / WD-40 repeat protein-related; FUNCTIONS IN: nucleotide binding; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; CONTAINS InterPro DOMAIN/s: WD40 repeat-like (InterPro:IPR011046), Cytochrome cd1-nitrite reductase-like, C-terminal haem d1 (InterPro:IPR011048), WD40 repeat, region (InterPro:IPR017986), WD40 repeat (InterPro:IPR001680), WD40/YVTN repeat-like (InterPro:IPR015943); BEST Arabidopsis thaliana protein match is: transducin family protein / WD-40 repeat family protein (TAIR:AT4G07410.1); Has 6753 Blast hits to 4580 proteins in 346 species: Archae - 8; Bacteria - 2018; Metazoa - 1907; Fungi - 1463; Plants - 459; Viruses - 0; Other Eukaryotes - 898 (source: NCBI BLink).

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Overview

Focused view (chromosome 1: 9545218-9544019)

`Genome position from initiation codon` `AT1G27470.1 TSS from cDNA TSS information AT1G27470 5'->3' (-) Promoter sequence AT1G27480.1 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 AT1G27470

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

TSS clone peak A clone - 9544264 -46

TSS clone peak T clone - 9544251 -33

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone peak	`A`	clone	-	9544264	-46
TSS clone peak	`T`	clone	-	9544251	-33

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 CGTCTCTCATCTCTTTCTCTTTCTCC - 9544228 9544253 -10 -35

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	`CGTCTCTCATCTCTTTCTCTTTCTCC`	-	9544228	9544253	-10	-35
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 AAAGTCAA - 9544291 9544298 -73 -80

AtREG632 AAAGTCAA PPDB Motif PLACE Motif TTGAC

REG TATGGCCCAATGGGTCGGGTCGACCCGACC - 9544327 9544356 -109 -138

AtREG479 TATGGCCC                       PPDB Motif GCCCA PLACE Motif GGGCC

AtREG437 ATGGCCCA                      PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG420   TGGCCCAA                     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG352    GGCCCAAT                    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG461     GCCCAATG                   PPDB Motif GCCCA PLACE Motif

AtREG442            GGGTCGGG            PPDB Motif CCGAC PLACE Motif CCGAC

AtREG539                CGGGTCGACCCG    PPDB Motif PLACE Motif

AtREG383               TCGGGTCGACCCGA   PPDB Motif PLACE Motif

AtREG390              GTCGGGTCGACCCGAC PPDB Motif CCGAC, GGGACCC PLACE Motif CCGAC

AtREG405             GGTCGGGT  ACCCGACC PPDB Motif CCGAC PLACE Motif CCGAC

REG CTACGTGGCAT - 9544387 9544397 -169 -179

AtREG495 CTACGTGG    PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG413 TACGTGGC   PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

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

AtREG448    CGTGGCAT ABA, DREB1Aox PPDB Motif PLACE Motif GCCAC

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`AAAGTCAA`		-	9544291	9544298	-73	-80
	AtREG632	`AAAGTCAA`		PPDB Motif		PLACE Motif	`TTGAC`
REG	`TATGGCCCAATGGGTCGGGTCGACCCGACC`		-	9544327	9544356	-109	-138
	AtREG479	`TATGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG437	`ATGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG420	`TGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG352	`GGCCCAAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG461	`GCCCAATG`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG442	`GGGTCGGG`		PPDB Motif	`CCGAC`	PLACE Motif	`CCGAC`
	AtREG539	`CGGGTCGACCCG`		PPDB Motif		PLACE Motif
	AtREG383	`TCGGGTCGACCCGA`		PPDB Motif		PLACE Motif
	AtREG390	`GTCGGGTCGACCCGAC`		PPDB Motif	`CCGAC, GGGACCC`	PLACE Motif	`CCGAC`
	AtREG405	`GGTCGGGT ACCCGACC`		PPDB Motif	`CCGAC`	PLACE Motif	`CCGAC`
REG	`CTACGTGGCAT`		-	9544387	9544397	-169	-179
	AtREG495	`CTACGTGG`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG413	`TACGTGGC`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG379	`ACGTGGCA`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG448	`CGTGGCAT`	ABA, DREB1Aox	PPDB Motif		PLACE Motif	`GCCAC`

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

TSS clone peak A clone + 9544514 AT1G27480.1

TSS clone peak G clone + 9544536 AT1G27480.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone peak	`A`	clone	+	9544514	AT1G27480.1
TSS clone peak	`G`	clone	+	9544536	AT1G27480.1

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 TTGACTTT + 9544291 9544298 AT1G27480.1

AtREG632 TTGACTTT PPDB Motif PLACE Motif TTGAC

REG GGTCGGGTCGACCCGACCCATTGGGCCATA + 9544327 9544356 AT1G27480.1

AtREG539    CGGGTCGACCCG                PPDB Motif PLACE Motif

AtREG383   TCGGGTCGACCCGA               PPDB Motif PLACE Motif

AtREG390 GTCGGGTCGACCCGAC              PPDB Motif CCGAC, GGGACCC PLACE Motif CCGAC

AtREG405 GGTCGGGT  ACCCGACC             PPDB Motif CCGAC PLACE Motif CCGAC

AtREG442            CCCGACCC            PPDB Motif CCGAC PLACE Motif CCGAC

AtREG461                   CATTGGGC     PPDB Motif GCCCA PLACE Motif

AtREG352                    ATTGGGCC    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG420                     TTGGGCCA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG437                      TGGGCCAT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG479                       GGGCCATA PPDB Motif GCCCA PLACE Motif GGGCC

REG ATGCCACGTAG + 9544387 9544397 AT1G27480.1

AtREG448 ATGCCACG    ABA, DREB1Aox PPDB Motif PLACE Motif GCCAC

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

AtREG413   GCCACGTA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG495    CCACGTAG PPDB Motif ACGT PLACE Motif ACGT, ACGTG