PlantPromoterDB promoter information of AT5G25470.2

Summary of Gene (AT5G25470.2)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G25470 TAIR NCBI
Gene model	AT5G25470.2
Description	DNA binding; FUNCTIONS IN: DNA binding; INVOLVED IN: regulation of transcription, DNA-dependent; EXPRESSED IN: 8 plant structures; EXPRESSED DURING: LP.06 six leaves visible, 4 anthesis, C globular stage, petal differentiation and expansion stage; CONTAINS InterPro DOMAIN/s: Transcriptional factor B3 (InterPro:IPR003340); BEST Arabidopsis thaliana protein match is: DNA binding (TAIR:AT5G25475.3); Has 70 Blast hits to 70 proteins in 2 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 70; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink).

#

Overview

Focused view (chromosome 5: 8869934-8868735)

`Genome position from initiation codon` `AT5G25475.1 AT5G25475.2 AT5G25475.3 AT5G25480.1 TSS from cDNA TSS information AT5G25470.2 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 AT5G25470.2

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 5 - 8869786 AT5G25475.2, AT5G25475.1, AT5G25475.3

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	5	-	8869786	AT5G25475.2, AT5G25475.1, AT5G25475.3

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone G clone - 8869821 AT5G25475.2, AT5G25475.1, AT5G25475.3

TSS clone T clone - 8869820 AT5G25475.2, AT5G25475.1, AT5G25475.3

TSS clone T clone - 8869818 AT5G25475.2, AT5G25475.1, AT5G25475.3

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`G`	clone	-	8869821	AT5G25475.2, AT5G25475.1, AT5G25475.3
TSS clone	`T`	clone	-	8869820	AT5G25475.2, AT5G25475.1, AT5G25475.3
TSS clone	`T`	clone	-	8869818	AT5G25475.2, AT5G25475.1, AT5G25475.3

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 TCTCTCTCTCTCTCTC - 8869805 8869820 AT5G25475.1, AT5G25475.2, AT5G25475.3

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	`TCTCTCTCTCTCTCTC`	-	8869805	8869820	AT5G25475.1, AT5G25475.2, AT5G25475.3
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG TAAATGGGCCTTATTCGGCCCGTTA - 8869893 8869917 AT5G25475.1, AT5G25475.2, AT5G25475.3

AtREG443 TAAATGGG                  PPDB Motif GCCCA PLACE Motif

AtREG386 AAATGGGC                 PPDB Motif GCCCA PLACE Motif

AtREG361   AATGGGCC                PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354    ATGGGCCT               PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG353     TGGGCCTT              PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG351      GGGCCTTA             PPDB Motif GCCCA PLACE Motif GGGCC

AtREG425       GGCCTTAT            PPDB Motif AACCG(G/A) PLACE Motif

AtREG427              TTCGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG401                 GGCCCGTT PPDB Motif AAACG(C/G), ACGGGC, CCAACGG PLACE Motif GGGCC

AtREG399                  GCCCGTTA PPDB Motif ACGGGC PLACE Motif YAACKG, CNGTTR

REG TTATGGGCCA - 8869924 8869933 AT5G25475.1, AT5G25475.2, AT5G25475.3

AtREG394 TTATGGGC   PPDB Motif GCCCA PLACE Motif

AtREG364 TATGGGCC PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG490   ATGGGCCA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY