PlantPromoterDB promoter information of AT4G01290.1

Summary of Gene (AT4G01290.1)

Organism	Arabidopsis thaliana
Chromosome	4
Locus	AT4G01290 TAIR NCBI
Gene model	AT4G01290.1
Description	unknown protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; Has 1490 Blast hits to 1141 proteins in 165 species: Archae - 0; Bacteria - 129; Metazoa - 747; Fungi - 206; Plants - 73; Viruses - 0; Other Eukaryotes - 335 (source: NCBI BLink).

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Overview

Focused view (chromosome 4: 546632-545433)

`Genome position from initiation codon` `AT4G01310.1 TSS from cDNA TSS information AT4G01290.1 5'->3' (-) Promoter sequence AT4G01320.1 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 AT4G01290.1

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 T clone - 543867 -585

TSS clone peak A clone - 543857 -575

TSS clone A clone - 543841 -559

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	-	543867	-585
TSS clone peak	`A`	clone	-	543857	-575
TSS clone	`A`	clone	-	543841	-559

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 TCTTCTCTT - 543873 543881 -591 -599

Y Patch CTCTTCTT - 543900 543907 -618 -625

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	`TCTTCTCTT`	-	543873	543881	-591	-599
Y Patch	`CTCTTCTT`	-	543900	543907	-618	-625
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 AGCGCGTG - 543945 543952 -663 -670

AtREG381 AGCGCGTG PPDB Motif ACGCGC PLACE Motif

REG AGCGCGTGA - 543969 543977 -687 -695

AtREG381 AGCGCGTG PPDB Motif ACGCGC PLACE Motif

AtREG395 GCGCGTGA PPDB Motif ACGCGC PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`AGCGCGTG`		-	543945	543952	-663	-670
	AtREG381	`AGCGCGTG`		PPDB Motif	`ACGCGC`	PLACE Motif
REG	`AGCGCGTGA`		-	543969	543977	-687	-695
	AtREG381	`AGCGCGTG`		PPDB Motif	`ACGCGC`	PLACE Motif
	AtREG395	`GCGCGTGA`		PPDB Motif	`ACGCGC`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 13 - 545500 AT4G01310.1

TSS peak G 4 + 545802 AT4G01320.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	13	-	545500	AT4G01310.1
TSS peak	`G`	4	+	545802	AT4G01320.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone T clone - 545547 AT4G01310.1

TSS clone A clone - 545534 AT4G01310.1

TSS clone A clone - 545531 AT4G01310.1

TSS clone C clone - 545511 AT4G01310.1

TSS clone C clone - 545506 AT4G01310.1

TSS clone C clone - 545504 AT4G01310.1

TSS clone T clone - 545499 AT4G01310.1

TSS clone C clone - 545495 AT4G01310.1

TSS clone G clone - 545491 AT4G01310.1

TSS clone A clone + 545796 AT4G01320.1

TSS clone A clone + 545804 AT4G01320.1

TSS clone G clone + 545829 AT4G01320.1

TSS clone C clone + 545844 AT4G01320.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`T`	clone	-	545547	AT4G01310.1
TSS clone	`A`	clone	-	545534	AT4G01310.1
TSS clone	`A`	clone	-	545531	AT4G01310.1
TSS clone	`C`	clone	-	545511	AT4G01310.1
TSS clone	`C`	clone	-	545506	AT4G01310.1
TSS clone	`C`	clone	-	545504	AT4G01310.1
TSS clone	`T`	clone	-	545499	AT4G01310.1
TSS clone	`C`	clone	-	545495	AT4G01310.1
TSS clone	`G`	clone	-	545491	AT4G01310.1
TSS clone	`A`	clone	+	545796	AT4G01320.1
TSS clone	`A`	clone	+	545804	AT4G01320.1
TSS clone	`G`	clone	+	545829	AT4G01320.1
TSS clone	`C`	clone	+	545844	AT4G01320.1

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 CCTCTCTTT + 545808 545816 AT4G01320.1

Y Patch CTTTCTTC + 545830 545837 AT4G01320.1

Y Patch TCTCCTTC - 545467 545474 AT4G01310.1

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	`CCTCTCTTT`	+	545808	545816	AT4G01320.1
Y Patch	`CTTTCTTC`	+	545830	545837	AT4G01320.1
Y Patch	`TCTCCTTC`	-	545467	545474	AT4G01310.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG CTAAGGCCCCAATAT + 545624 545638 AT4G01320.1

AtREG577 CTAAGGCC        PPDB Motif PLACE Motif

AtREG351 TAAGGCCC       PPDB Motif GCCCA PLACE Motif GGGCC

AtREG509        CCCAATAT PPDB Motif PLACE Motif

REG ATATGGGCCTAAA + 545693 545705 AT4G01320.1

AtREG432 ATATGGGC      PPDB Motif GCCCA PLACE Motif

AtREG364 TATGGGCC     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354   ATGGGCCT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG358    TGGGCCTA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG360     GGGCCTAA PPDB Motif GCCCA PLACE Motif GGGCC

AtREG430      GGCCTAAA PPDB Motif PLACE Motif

REG ATTTGGGCTTC + 545722 545732 AT4G01320.1

AtREG421 ATTTGGGC    PPDB Motif GCCCA PLACE Motif

AtREG469 TTTGGGCT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407   TTGGGCTT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG476    TGGGCTTC PPDB Motif GCCCA PLACE Motif TGGGCY

REG ATATTGGGGCCTTAG - 545624 545638 AT4G01310.1

AtREG509 ATATTGGG        PPDB Motif PLACE Motif

AtREG351       GGGCCTTA PPDB Motif GCCCA PLACE Motif GGGCC

AtREG577        GGCCTTAG PPDB Motif PLACE Motif

REG TTTAGGCCCATAT - 545693 545705 AT4G01310.1

AtREG430 TTTAGGCC      PPDB Motif PLACE Motif

AtREG360 TTAGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG358   TAGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354    AGGCCCAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG364     GGCCCATA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG432      GCCCATAT PPDB Motif GCCCA PLACE Motif

REG GAAGCCCAAAT - 545722 545732 AT4G01310.1

AtREG476 GAAGCCCA    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407 AAGCCCAA   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG469   AGCCCAAA PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG421    GCCCAAAT PPDB Motif GCCCA PLACE Motif