PlantPromoterDB promoter information of AT4G12620.1

Summary of Gene (AT4G12620.1)

Organism	Arabidopsis thaliana
Chromosome	4
Locus	AT4G12620 TAIR NCBI
Gene model	AT4G12620.1
Description	Origin Recognition Complex subunit 1b. Involved in the initiation of DNA replication. Regulated transcriptionally during cell cycle, peaking at G1/S-phase. Target of E2F/DF family of transcription factors. Interacts with ORC2 and ORC5. Highly expressed in proliferating cells. Expression levels are independent of light regime.

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Overview

Focused view (chromosome 4: 7463253-7462054)

`Genome position from initiation codon` `TSS from cDNA TSS information AT4G12620.1 5'->3' (-) Promoter sequence AT4G12640.1 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 AT4G12620.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak C 4 - 7462357 -104

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`C`	4	-	7462357	-104

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone - 7462300 -47

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	-	7462300	-47

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 CGTCTTCTTCTT - 7462308 7462319 -55 -66

Y Patch CCTCCTTCTTC - 7462331 7462341 -78 -88

Y Patch CTTTCTCTCTCT - 7462343 7462354 -90 -101

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	`CGTCTTCTTCTT`	-	7462308	7462319	-55	-66
Y Patch	`CCTCCTTCTTC`	-	7462331	7462341	-78	-88
Y Patch	`CTTTCTCTCTCT`	-	7462343	7462354	-90	-101
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 ATAAGCCCAATATTCGGCCCAAA - 7462426 7462448 -173 -195

AtREG462 ATAAGCCC                PPDB Motif GCCCA PLACE Motif

AtREG426 TAAGCCCA               PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407   AAGCCCAA              PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG402    AGCCCAAT             PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG355     GCCCAATA            PPDB Motif GCCCA PLACE Motif

AtREG509      CCCAATAT           PPDB Motif PLACE Motif

AtREG427             TTCGGCCC    PPDB Motif GCCCA PLACE Motif GGGCC

AtREG393              TCGGCCCA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG414               CGGCCCAA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG373                GGCCCAAA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG ATCGGCCCAAAA - 7462493 7462504 -240 -251

AtREG555 ATCGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG393 TCGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG414   CGGCCCAA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG373    GGCCCAAA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG529     GCCCAAAA PPDB Motif GCCCA PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`ATAAGCCCAATATTCGGCCCAAA`		-	7462426	7462448	-173	-195
	AtREG462	`ATAAGCCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG426	`TAAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG407	`AAGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG402	`AGCCCAAT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG355	`GCCCAATA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG509	`CCCAATAT`		PPDB Motif		PLACE Motif
	AtREG427	`TTCGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG393	`TCGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG414	`CGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG373	`GGCCCAAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
REG	`ATCGGCCCAAAA`		-	7462493	7462504	-240	-251
	AtREG555	`ATCGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG393	`TCGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG414	`CGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG373	`GGCCCAAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG529	`GCCCAAAA`		PPDB Motif	`GCCCA`	PLACE Motif

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 C clone + 7462599 AT4G12640.1

TSS clone peak A clone + 7462601 AT4G12640.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone peak	`C`	clone	+	7462599	AT4G12640.1
TSS clone peak	`A`	clone	+	7462601	AT4G12640.1

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 TTTGGGCCGAATATTGGGCTTAT + 7462426 7462448 AT4G12640.1

AtREG373 TTTGGGCC                PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG414 TTGGGCCG               PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG393   TGGGCCGA              PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG427    GGGCCGAA             PPDB Motif GCCCA PLACE Motif GGGCC

AtREG509           ATATTGGG      PPDB Motif PLACE Motif

AtREG355            TATTGGGC     PPDB Motif GCCCA PLACE Motif

AtREG402             ATTGGGCT    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407              TTGGGCTT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG426               TGGGCTTA PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG462                GGGCTTAT PPDB Motif GCCCA PLACE Motif

REG TTTTGGGCCGAT + 7462493 7462504 AT4G12640.1

AtREG529 TTTTGGGC     PPDB Motif GCCCA PLACE Motif

AtREG373 TTTGGGCC    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG414   TTGGGCCG   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG393    TGGGCCGA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG555     GGGCCGAT PPDB Motif GCCCA PLACE Motif GGGCC