PlantPromoterDB promoter information of AT2G24060.1

Summary of Gene (AT2G24060.1)

Organism	Arabidopsis thaliana
Chromosome	2
Locus	AT2G24060 TAIR NCBI
Gene model	AT2G24060.1
Description	translation initiation factor 3 (IF-3) family protein; FUNCTIONS IN: translation initiation factor activity; INVOLVED IN: translational initiation; LOCATED IN: chloroplast; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Initiation factor 3 (InterPro:IPR001288); BEST Arabidopsis thaliana protein match is: translation initiation factor 3 (IF-3) family protein (TAIR:AT4G30690.1); Has 17514 Blast hits to 8661 proteins in 1545 species: Archae - 56; Bacteria - 6187; Metazoa - 2053; Fungi - 689; Plants - 758; Viruses - 336; Other Eukaryotes - 7435 (source: NCBI BLink).

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Overview

Focused view (chromosome 2: 10228453-10229652)

`Genome position from initiation codon` `TSS from cDNA TSS information AT2G24060.1 5'->3' (+) Promoter sequence AT2G24050.1 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 AT2G24060.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 8 + 10229426 -27

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	8	+	10229426	-27

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone G clone + 10229435 -18

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`G`	clone	+	10229435	-18

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 TAATTGGGCCCT + 10229291 10229302 -162 -151

AtREG600 TAATTGGG     PPDB Motif GCCCA PLACE Motif

AtREG418 AATTGGGC    PPDB Motif GCCCA PLACE Motif

AtREG352   ATTGGGCC   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG392    TTGGGCCC PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG400     TGGGCCCT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG TTAAAGCCCATAAGCCCATTAA + 10229308 10229329 -145 -124

AtREG545 TTAAAGCC               PPDB Motif PLACE Motif

AtREG365 TAAAGCCC              PPDB Motif GCCCA PLACE Motif

AtREG376   AAAGCCCA             PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG378    AAGCCCATAAGCCCAT    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG477     AGCCCATA           PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG394      GCCCATAA          PPDB Motif GCCCA PLACE Motif

AtREG462          ATAAGCCC      PPDB Motif GCCCA PLACE Motif

AtREG426           TAAGCCCA     PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG372             AGCCCATT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG357              GCCCATTA PPDB Motif GCCCA PLACE Motif

AtREG396               CCCATTAA PPDB Motif GCCCA PLACE Motif TTAATGG

REG GAAACGACGT + 10229362 10229371 -91 -82

AtREG576 GAAACGAC   PPDB Motif PLACE Motif

AtREG415 AAACGACG PPDB Motif PLACE Motif

AtREG493   AACGACGT PPDB Motif ACGT PLACE Motif ACGT

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TAATTGGGCCCT`		+	10229291	10229302	-162	-151
	AtREG600	`TAATTGGG`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG418	`AATTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG352	`ATTGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG392	`TTGGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG400	`TGGGCCCT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
REG	`TTAAAGCCCATAAGCCCATTAA`		+	10229308	10229329	-145	-124
	AtREG545	`TTAAAGCC`		PPDB Motif		PLACE Motif
	AtREG365	`TAAAGCCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG376	`AAAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG378	`AAGCCCATAAGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG477	`AGCCCATA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG394	`GCCCATAA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG462	`ATAAGCCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG426	`TAAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG372	`AGCCCATT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG357	`GCCCATTA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG396	`CCCATTAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TTAATGG`
REG	`GAAACGACGT`		+	10229362	10229371	-91	-82
	AtREG576	`GAAACGAC`		PPDB Motif		PLACE Motif
	AtREG415	`AAACGACG`		PPDB Motif		PLACE Motif
	AtREG493	`AACGACGT`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT`

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 4 - 10228627 AT2G24050.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	4	-	10228627	AT2G24050.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone T clone - 10228542 AT2G24050.1

TSS clone A clone - 10228510 AT2G24050.1

TSS clone A clone - 10228509 AT2G24050.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`T`	clone	-	10228542	AT2G24050.1
TSS clone	`A`	clone	-	10228510	AT2G24050.1
TSS clone	`A`	clone	-	10228509	AT2G24050.1

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 None None None