PlantPromoterDB promoter information of AT4G17410.1

Summary of Gene (AT4G17410.1)

Organism	Arabidopsis thaliana
Chromosome	4
Locus	AT4G17410 TAIR NCBI
Gene model	AT4G17410.1
Description	zinc ion binding; FUNCTIONS IN: zinc ion binding; INVOLVED IN: biological_process unknown; LOCATED IN: nucleus; EXPRESSED IN: sperm cell, cultured cell; CONTAINS InterPro DOMAIN/s: DWNN domain (InterPro:IPR014891), Zinc finger, RING/FYVE/PHD-type (InterPro:IPR013083); BEST Arabidopsis thaliana protein match is: zinc ion binding (TAIR:AT5G47430.1); Has 8731 Blast hits to 6294 proteins in 276 species: Archae - 2; Bacteria - 71; Metazoa - 5540; Fungi - 1215; Plants - 632; Viruses - 56; Other Eukaryotes - 1215 (source: NCBI BLink).

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Overview

Focused view (chromosome 4: 9715360-9716559)

`Genome position from initiation codon` `TSS from cDNA TSS information AT4G17410.1 5'->3' (+) Promoter sequence AT4G17390.1 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 AT4G17410.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 4 + 9715774 -586

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	4	+	9715774	-586

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone G clone + 9715774 -586

TSS clone A clone + 9715796 -564

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`G`	clone	+	9715774	-586
TSS clone	`A`	clone	+	9715796	-564

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 TTATAAATT + 9715730 9715738 -630 -622

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	`TTATAAATT`	+	9715730	9715738	-630	-622
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 GAAACGACA + 9715502 9715510 -858 -850

AtREG576 GAAACGAC PPDB Motif PLACE Motif

AtREG569 AAACGACA PPDB Motif PLACE Motif

REG GCCCTTATTGGGCCTTTT + 9715645 9715662 -715 -698

AtREG616 GCCCTTAT           PPDB Motif PLACE Motif

AtREG611    CTTATTGG        PPDB Motif PLACE Motif

AtREG417     TTATTGGG       PPDB Motif GCCCA PLACE Motif

AtREG355      TATTGGGC      PPDB Motif GCCCA PLACE Motif

AtREG352       ATTGGGCC     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356        TTGGGCCT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG353         TGGGCCTT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG359          GGGCCTTT PPDB Motif GCCCA PLACE Motif GGGCC

AtREG459           GGCCTTTT PPDB Motif PLACE Motif

REG TATTGGGCCTT + 9715678 9715688 -682 -672

AtREG355 TATTGGGC    PPDB Motif GCCCA PLACE Motif

AtREG352 ATTGGGCC   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356   TTGGGCCT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG353    TGGGCCTT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG TATGGCCCATTAT + 9715721 9715733 -639 -627

AtREG479 TATGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG437 ATGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG490   TGGCCCAT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG361    GGCCCATT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG357     GCCCATTA PPDB Motif GCCCA PLACE Motif

AtREG546      CCCATTAT PPDB Motif PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`GAAACGACA`		+	9715502	9715510	-858	-850
	AtREG576	`GAAACGAC`		PPDB Motif		PLACE Motif
	AtREG569	`AAACGACA`		PPDB Motif		PLACE Motif
REG	`GCCCTTATTGGGCCTTTT`		+	9715645	9715662	-715	-698
	AtREG616	`GCCCTTAT`		PPDB Motif		PLACE Motif
	AtREG611	`CTTATTGG`		PPDB Motif		PLACE Motif
	AtREG417	`TTATTGGG`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG355	`TATTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG352	`ATTGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG356	`TTGGGCCT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG353	`TGGGCCTT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG359	`GGGCCTTT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG459	`GGCCTTTT`		PPDB Motif		PLACE Motif
REG	`TATTGGGCCTT`		+	9715678	9715688	-682	-672
	AtREG355	`TATTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG352	`ATTGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG356	`TTGGGCCT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG353	`TGGGCCTT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
REG	`TATGGCCCATTAT`		+	9715721	9715733	-639	-627
	AtREG479	`TATGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG437	`ATGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG490	`TGGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG361	`GGCCCATT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG357	`GCCCATTA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG546	`CCCATTAT`		PPDB Motif		PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 73 - 9715568 AT4G17390.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	73	-	9715568	AT4G17390.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone G clone - 9715612 AT4G17390.1

TSS clone A clone - 9715571 AT4G17390.1

TSS clone G clone - 9715570 AT4G17390.1

TSS clone T clone - 9715569 AT4G17390.1

TSS clone G clone - 9715568 AT4G17390.1

TSS clone A clone - 9715567 AT4G17390.1

TSS clone C clone - 9715566 AT4G17390.1

TSS clone C clone - 9715563 AT4G17390.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`G`	clone	-	9715612	AT4G17390.1
TSS clone	`A`	clone	-	9715571	AT4G17390.1
TSS clone	`G`	clone	-	9715570	AT4G17390.1
TSS clone	`T`	clone	-	9715569	AT4G17390.1
TSS clone	`G`	clone	-	9715568	AT4G17390.1
TSS clone	`A`	clone	-	9715567	AT4G17390.1
TSS clone	`C`	clone	-	9715566	AT4G17390.1
TSS clone	`C`	clone	-	9715563	AT4G17390.1

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 AAAAGGCCCAATAAGGGC - 9715645 9715662 AT4G17390.1

AtREG459 AAAAGGCC           PPDB Motif PLACE Motif

AtREG359 AAAGGCCC          PPDB Motif GCCCA PLACE Motif GGGCC

AtREG353   AAGGCCCA         PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356    AGGCCCAA        PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG352     GGCCCAAT       PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG355      GCCCAATA      PPDB Motif GCCCA PLACE Motif

AtREG417       CCCAATAA     PPDB Motif GCCCA PLACE Motif

AtREG611        CCAATAAG    PPDB Motif PLACE Motif

AtREG616           ATAAGGGC PPDB Motif PLACE Motif

REG AAGGCCCAATA - 9715678 9715688 AT4G17390.1

AtREG353 AAGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356 AGGCCCAA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG352   GGCCCAAT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG355    GCCCAATA PPDB Motif GCCCA PLACE Motif

REG ATAATGGGCCATA - 9715721 9715733 AT4G17390.1

AtREG546 ATAATGGG      PPDB Motif PLACE Motif

AtREG357 TAATGGGC     PPDB Motif GCCCA PLACE Motif

AtREG361   AATGGGCC    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG490    ATGGGCCA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG437     TGGGCCAT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG479      GGGCCATA PPDB Motif GCCCA PLACE Motif GGGCC

REG GCGTTTTG - 9715753 9715760 AT4G17390.1

AtREG585 GCGTTTTG PPDB Motif AAACG(C/G) PLACE Motif CAAAACGC

REG TCTAGGGT - 9715821 9715828 AT4G17390.1

AtREG658 TCTAGGGT PPDB Motif ACCCT PLACE Motif