PlantPromoterDB promoter information of AT3G53030.1

Summary of Gene (AT3G53030.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G53030 TAIR NCBI
Gene model	AT3G53030.1
Description	Encodes a protein kinase SRPK4 that specifically targets Arabidopsis Ser/Arg-rich (SR) slicing factors involved in RNA metabolism. In vitro kinase assay showed that SRPK4 phosphorylates the SR protein RSp31.

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Overview

Focused view (chromosome 3: 19661412-19662611)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G53030.1 5'->3' (+) Promoter sequence AT3G53020.1 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 AT3G53030.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 4 + 19662273 -139

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	4	+	19662273	-139

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone + 19662281 -131

TSS clone T clone + 19662285 -127

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	+	19662281	-131
TSS clone	`T`	clone	+	19662285	-127

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 CTCTCTCTCT + 19662276 19662285 -136 -127

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	`CTCTCTCTCT`	+	19662276	19662285	-136	-127
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 GGCCCACA + 19662065 19662072 -347 -340

AtREG612 GGCCCACA DREB1Aox PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG TAAGCCCACTAAATAGGCCCATCA + 19662076 19662099 -336 -313

AtREG426 TAAGCCCA                 PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG518 AAGCCCAC                PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG510   AGCCCACT               PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG532    GCCCACTA              PPDB Motif GCCCA PLACE Motif

AtREG424            AATAGGCC      PPDB Motif PLACE Motif

AtREG362             ATAGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG358              TAGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354               AGGCCCAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG403                GGCCCATC PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG635                 GCCCATCA PPDB Motif GCCCA PLACE Motif

REG AATAGGCCCATAA + 19662102 19662114 -310 -298

AtREG424 AATAGGCC      PPDB Motif PLACE Motif

AtREG362 ATAGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG358   TAGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354    AGGCCCAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG364     GGCCCATA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG394      GCCCATAA PPDB Motif GCCCA PLACE Motif

REG TTAGCCCATATA + 19662120 19662131 -292 -281

AtREG571 TTAGCCCA     PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG581 TAGCCCAT    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG477   AGCCCATA   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG432    GCCCATAT PPDB Motif GCCCA PLACE Motif

AtREG620     CCCATATA PPDB Motif GCCCA PLACE Motif

REG GATGACGTCAGC + 19662142 19662153 -270 -259

AtREG578 GATGACGT     ABA PPDB Motif ACGT PLACE Motif ACGT

AtREG515     ACGTCAGC SA PPDB Motif ACGT PLACE Motif ACGT

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`GGCCCACA`		+	19662065	19662072	-347	-340
	AtREG612	`GGCCCACA`	DREB1Aox	PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
REG	`TAAGCCCACTAAATAGGCCCATCA`		+	19662076	19662099	-336	-313
	AtREG426	`TAAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG518	`AAGCCCAC`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG510	`AGCCCACT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG532	`GCCCACTA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG424	`AATAGGCC`		PPDB Motif		PLACE Motif
	AtREG362	`ATAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG358	`TAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG354	`AGGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG403	`GGCCCATC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG635	`GCCCATCA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`AATAGGCCCATAA`		+	19662102	19662114	-310	-298
	AtREG424	`AATAGGCC`		PPDB Motif		PLACE Motif
	AtREG362	`ATAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG358	`TAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG354	`AGGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG364	`GGCCCATA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG394	`GCCCATAA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`TTAGCCCATATA`		+	19662120	19662131	-292	-281
	AtREG571	`TTAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG581	`TAGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG477	`AGCCCATA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG432	`GCCCATAT`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG620	`CCCATATA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`GATGACGTCAGC`		+	19662142	19662153	-270	-259
	AtREG578	`GATGACGT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT`
	AtREG515	`ACGTCAGC`	SA	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 46 - 19661981 AT3G53020.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	46	-	19661981	AT3G53020.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone G clone - 19662025 AT3G53020.1

TSS clone T clone - 19662024 AT3G53020.1

TSS clone A clone - 19662022 AT3G53020.1

TSS clone T clone - 19662019 AT3G53020.1

TSS clone C clone - 19662018 AT3G53020.1

TSS clone T clone - 19662017 AT3G53020.1

TSS clone G clone - 19661980 AT3G53020.1

TSS clone C clone - 19661978 AT3G53020.1

TSS clone T clone - 19661977 AT3G53020.1

TSS clone G clone - 19661975 AT3G53020.1

TSS clone T clone - 19661974 AT3G53020.1

TSS clone T clone - 19661972 AT3G53020.1

TSS clone T clone - 19661971 AT3G53020.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`G`	clone	-	19662025	AT3G53020.1
TSS clone	`T`	clone	-	19662024	AT3G53020.1
TSS clone	`A`	clone	-	19662022	AT3G53020.1
TSS clone	`T`	clone	-	19662019	AT3G53020.1
TSS clone	`C`	clone	-	19662018	AT3G53020.1
TSS clone	`T`	clone	-	19662017	AT3G53020.1
TSS clone	`G`	clone	-	19661980	AT3G53020.1
TSS clone	`C`	clone	-	19661978	AT3G53020.1
TSS clone	`T`	clone	-	19661977	AT3G53020.1
TSS clone	`G`	clone	-	19661975	AT3G53020.1
TSS clone	`T`	clone	-	19661974	AT3G53020.1
TSS clone	`T`	clone	-	19661972	AT3G53020.1
TSS clone	`T`	clone	-	19661971	AT3G53020.1

Core promoter information

Type Sequence Genome position Gene model

Strand Start End

initiator Not Available Not Available Not Available

TATA Box CTCTTATATATAAG - 19662005 19662018 AT3G53020.1

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	`CTCTTATATATAAG`	-	19662005	19662018	AT3G53020.1
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 TGTGGGCC - 19662065 19662072 AT3G53020.1

AtREG612 TGTGGGCC DREB1Aox PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG TGATGGGCCTATTTAGTGGGCTTA - 19662076 19662099 AT3G53020.1

AtREG635 TGATGGGC                 PPDB Motif GCCCA PLACE Motif

AtREG403 GATGGGCC                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

AtREG362     GGGCCTAT             PPDB Motif GCCCA PLACE Motif GGGCC

AtREG424      GGCCTATT            PPDB Motif PLACE Motif

AtREG532              TAGTGGGC    PPDB Motif GCCCA PLACE Motif

AtREG510               AGTGGGCT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG518                GTGGGCTT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG426                 TGGGCTTA PPDB Motif GCCCA PLACE Motif TGGGCY

REG TTATGGGCCTATT - 19662102 19662114 AT3G53020.1

AtREG394 TTATGGGC      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

AtREG362     GGGCCTAT PPDB Motif GCCCA PLACE Motif GGGCC

AtREG424      GGCCTATT PPDB Motif PLACE Motif

REG TATATGGGCTAA - 19662120 19662131 AT3G53020.1

AtREG620 TATATGGG     PPDB Motif GCCCA PLACE Motif

AtREG432 ATATGGGC    PPDB Motif GCCCA PLACE Motif

AtREG477   TATGGGCT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG581    ATGGGCTA PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG571     TGGGCTAA PPDB Motif GCCCA PLACE Motif TGGGCY

REG GCTGACGTCATC - 19662142 19662153 AT3G53020.1

AtREG515 GCTGACGT     SA PPDB Motif ACGT PLACE Motif ACGT

AtREG578     ACGTCATC ABA PPDB Motif ACGT PLACE Motif ACGT