PlantPromoterDB promoter information of AT3G19760.1

Summary of Gene (AT3G19760.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G19760 TAIR NCBI
Gene model	AT3G19760.1
Description	eukaryotic translation initiation factor 4A, putative / eIF-4A, putative / DEAD box RNA helicase, putative; FUNCTIONS IN: helicase activity, ATP binding, ATP-dependent helicase activity, nucleic acid binding; LOCATED IN: nucleolus, nucleus, membrane; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: RNA helicase, DEAD-box type, Q motif (InterPro:IPR014014), DNA/RNA helicase, DEAD/DEAH box type, N-terminal (InterPro:IPR011545), RNA helicase, ATP-dependent, DEAD-box, conserved site (InterPro:IPR000629), DEAD-like helicase, N-terminal (InterPro:IPR014001), DNA/RNA helicase, C-terminal (InterPro:IPR001650), Helicase, superfamily 1 and 2, ATP-binding (InterPro:IPR014021); BEST Arabidopsis thaliana protein match is: eukaryotic translation initiation factor 4A, putative / eIF-4A, putative (TAIR:AT1G51380.1); Has 32402 Blast hits to 31825 proteins in 1817 species: Archae - 512; Bacteria - 14379; Metazoa - 5291; Fungi - 3422; Plants - 1433; Viruses - 38; Other Eukaryotes - 7327 (source: NCBI BLink).

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Overview

Focused view (chromosome 3: 6862790-6863989)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G19760.1 5'->3' (+) Promoter sequence AT3G19740.1 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 AT3G19760.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 21 + 6863724 -66

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	21	+	6863724	-66

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone + 6863713 -77

TSS clone A clone + 6863715 -75

TSS clone G clone + 6863718 -72

TSS clone A clone + 6863725 -65

TSS clone C clone + 6863727 -63

TSS clone G clone + 6863736 -54

TSS clone A clone + 6863742 -48

TSS clone A clone + 6863747 -43

TSS clone G clone + 6863756 -34

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	+	6863713	-77
TSS clone	`A`	clone	+	6863715	-75
TSS clone	`G`	clone	+	6863718	-72
TSS clone	`A`	clone	+	6863725	-65
TSS clone	`C`	clone	+	6863727	-63
TSS clone	`G`	clone	+	6863736	-54
TSS clone	`A`	clone	+	6863742	-48
TSS clone	`A`	clone	+	6863747	-43
TSS clone	`G`	clone	+	6863756	-34

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 TGTCGTTTTGA + 6863540 6863550 -250 -240

AtREG569 TGTCGTTT    PPDB Motif PLACE Motif

AtREG520 GTCGTTTT   PPDB Motif PLACE Motif

AtREG653    CGTTTTGA PPDB Motif AAACG(C/G) PLACE Motif

REG ATATGGGCCTAAC + 6863579 6863591 -211 -199

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

AtREG535      GGCCTAAC PPDB Motif PLACE Motif

REG TAAAGGCCCACTA + 6863594 6863606 -196 -184

AtREG467 TAAAGGCC      PPDB Motif PLACE Motif

AtREG359 AAAGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG353   AAGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG482    AGGCCCAC   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG532      GCCCACTA PPDB Motif GCCCA PLACE Motif

REG AAAAAGCCCTA + 6863636 6863646 -154 -144

AtREG589 AAAAAGCC    PPDB Motif PLACE Motif

AtREG409 AAAAGCCC   PPDB Motif GCCCA PLACE Motif

AtREG651    AAGCCCTA PPDB Motif PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TGTCGTTTTGA`		+	6863540	6863550	-250	-240
	AtREG569	`TGTCGTTT`		PPDB Motif		PLACE Motif
	AtREG520	`GTCGTTTT`		PPDB Motif		PLACE Motif
	AtREG653	`CGTTTTGA`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
REG	`ATATGGGCCTAAC`		+	6863579	6863591	-211	-199
	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`
	AtREG535	`GGCCTAAC`		PPDB Motif		PLACE Motif
REG	`TAAAGGCCCACTA`		+	6863594	6863606	-196	-184
	AtREG467	`TAAAGGCC`		PPDB Motif		PLACE Motif
	AtREG359	`AAAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG353	`AAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG482	`AGGCCCAC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG532	`GCCCACTA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`AAAAAGCCCTA`		+	6863636	6863646	-154	-144
	AtREG589	`AAAAAGCC`		PPDB Motif		PLACE Motif
	AtREG409	`AAAAGCCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG651	`AAGCCCTA`		PPDB Motif		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

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
Not Available	Not Available	Not Available	Not Available	Not Available

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