PlantPromoterDB promoter information of AT3G62240.1

Summary of Gene (AT3G62240.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G62240 TAIR NCBI
Gene model	AT3G62240.1
Description	zinc finger (C2H2 type) family protein; FUNCTIONS IN: protein binding, zinc ion binding; LOCATED IN: intracellular; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Zinc finger, C2H2-like (InterPro:IPR015880), Zinc finger, RING-type (InterPro:IPR001841), Zinc finger, C2H2-type (InterPro:IPR007087); BEST Arabidopsis thaliana protein match is: nucleic acid binding / protein binding / zinc ion binding (TAIR:AT2G47090.1); Has 3224 Blast hits to 1336 proteins in 208 species: Archae - 0; Bacteria - 156; Metazoa - 809; Fungi - 335; Plants - 89; Viruses - 4; Other Eukaryotes - 1831 (source: NCBI BLink).

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Overview

Focused view (chromosome 3: 23037653-23036454)

`Genome position from initiation codon` `AT3G62245.1 TSS from cDNA TSS information AT3G62240.1 5'->3' (-) Promoter sequence AT3G62245 AT3G62245.1 AT3G62250.1 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 AT3G62240.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 2 - 23036798 -145

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	2	-	23036798	-145

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone - 23036765 -112

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	-	23036765	-112

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 TTCTTCTTC - 23036775 23036783 -122 -130

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	`TTCTTCTTC`	-	23036775	23036783	-122	-130
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 CTATTGGGCCATTAAG - 23036987 23037002 -334 -349

AtREG624 CTATTGGG         PPDB Motif GCCCA PLACE Motif

AtREG355 TATTGGGC        PPDB Motif GCCCA PLACE Motif

AtREG352   ATTGGGCC       PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG420    TTGGGCCA      PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG437     TGGGCCAT     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG604         CCATTAAG PPDB Motif PLACE Motif TTAATGG

REG ATTTGGGCTTAGTTTTGGGCTTT - 23037014 23037036 -361 -383

AtREG421 ATTTGGGC                PPDB Motif GCCCA PLACE Motif

AtREG469 TTTGGGCT    TTTGGGCT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407   TTGGGCTT    TTGGGCTT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG426    TGGGCTTA             PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG634     GGGCTTAG            PPDB Motif GCCCA PLACE Motif

AtREG529             TTTTGGGC    PPDB Motif GCCCA PLACE Motif

AtREG376                TGGGCTTT PPDB Motif GCCCA PLACE Motif TGGGCY

REG TACCCTTA - 23037041 23037048 -388 -395

AtREG570 TACCCTTA PPDB Motif ACCCT PLACE Motif

REG TCTAGGGT - 23037070 23037077 -417 -424

AtREG658 TCTAGGGT PPDB Motif ACCCT PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CTATTGGGCCATTAAG`		-	23036987	23037002	-334	-349
	AtREG624	`CTATTGGG`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG355	`TATTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG352	`ATTGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG420	`TTGGGCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG437	`TGGGCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG604	`CCATTAAG`		PPDB Motif		PLACE Motif	`TTAATGG`
REG	`ATTTGGGCTTAGTTTTGGGCTTT`		-	23037014	23037036	-361	-383
	AtREG421	`ATTTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG469	`TTTGGGCT TTTGGGCT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG407	`TTGGGCTT TTGGGCTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG426	`TGGGCTTA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG634	`GGGCTTAG`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG529	`TTTTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG376	`TGGGCTTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
REG	`TACCCTTA`		-	23037041	23037048	-388	-395
	AtREG570	`TACCCTTA`		PPDB Motif	`ACCCT`	PLACE Motif
REG	`TCTAGGGT`		-	23037070	23037077	-417	-424
	AtREG658	`TCTAGGGT`		PPDB Motif	`ACCCT`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 81 + 23037125 AT3G62250.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	81	+	23037125	AT3G62250.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone G clone + 23037119 AT3G62250.1

TSS clone G clone + 23037122 AT3G62250.1

TSS clone C clone + 23037123 AT3G62250.1

TSS clone G clone + 23037125 AT3G62250.1

TSS clone T clone + 23037126 AT3G62250.1

TSS clone C clone + 23037129 AT3G62250.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`G`	clone	+	23037119	AT3G62250.1
TSS clone	`G`	clone	+	23037122	AT3G62250.1
TSS clone	`C`	clone	+	23037123	AT3G62250.1
TSS clone	`G`	clone	+	23037125	AT3G62250.1
TSS clone	`T`	clone	+	23037126	AT3G62250.1
TSS clone	`C`	clone	+	23037129	AT3G62250.1

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 TCTCCTTC + 23037080 23037087 AT3G62250.1

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	`TCTCCTTC`	+	23037080	23037087	AT3G62250.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG CTTAATGGCCCAATAG + 23036987 23037002 AT3G62250.1

AtREG604 CTTAATGG         PPDB Motif PLACE Motif TTAATGG

AtREG437     ATGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG420      TGGCCCAA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG352       GGCCCAAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG355        GCCCAATA PPDB Motif GCCCA PLACE Motif

AtREG624         CCCAATAG PPDB Motif GCCCA PLACE Motif

REG AAAGCCCAAAACTAAGCCCAAAT + 23037014 23037036 AT3G62250.1

AtREG376 AAAGCCCA                PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407 AAGCCCAA    AAGCCCAA   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG469   AGCCCAAA    AGCCCAAA PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG529    GCCCAAAA             PPDB Motif GCCCA PLACE Motif

AtREG634            CTAAGCCC     PPDB Motif GCCCA PLACE Motif

AtREG426             TAAGCCCA    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG421                GCCCAAAT PPDB Motif GCCCA PLACE Motif

REG TAAGGGTA + 23037041 23037048 AT3G62250.1

AtREG570 TAAGGGTA PPDB Motif ACCCT PLACE Motif

REG ACCCTAGA + 23037070 23037077 AT3G62250.1

AtREG658 ACCCTAGA PPDB Motif ACCCT PLACE Motif