PlantPromoterDB promoter information of AT5G14260.1

Summary of Gene (AT5G14260.1)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G14260 TAIR NCBI
Gene model	AT5G14260.1
Description	SET domain-containing protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: SET (InterPro:IPR001214), Rubisco LSMT substrate-binding (InterPro:IPR015353); BEST Arabidopsis thaliana protein match is: SET domain-containing protein (TAIR:AT3G07670.1); Has 473 Blast hits to 470 proteins in 97 species: Archae - 0; Bacteria - 0; Metazoa - 156; Fungi - 84; Plants - 171; Viruses - 0; Other Eukaryotes - 62 (source: NCBI BLink).

#

Overview

Focused view (chromosome 5: 4600139-4601338)

`Genome position from initiation codon` `AT5G14250.1 AT5G14250.2 AT5G14260.2 AT5G14260.3 TSS from cDNA TSS information AT5G14260.1 5'->3' (+) Promoter sequence 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 AT5G14260.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 4 + 4600996 -143

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	4	+	4600996	-143

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone + 4600981 -158

TSS clone G clone + 4600996 -143

TSS clone A clone + 4601005 -134

TSS clone T clone + 4601019 -120

TSS clone G clone + 4601049 -90

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	+	4600981	-158
TSS clone	`G`	clone	+	4600996	-143
TSS clone	`A`	clone	+	4601005	-134
TSS clone	`T`	clone	+	4601019	-120
TSS clone	`G`	clone	+	4601049	-90

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 TTCCCTCTCTT + 4601007 4601017 -132 -122

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	`TTCCCTCTCTT`	+	4601007	4601017	-132	-122
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 GCGCGTGT + 4600765 4600772 -374 -367

AtREG385 GCGCGTGT PPDB Motif ACGCGC PLACE Motif ACACNNG

REG GCGTTTTA + 4600796 4600803 -343 -336

AtREG564 GCGTTTTA PPDB Motif AAACG(C/G) PLACE Motif

REG AACGGCGTCGT + 4600830 4600840 -309 -299

AtREG497 AACGGCGT    PPDB Motif AAACG(C/G), CCAACGG PLACE Motif

AtREG540 ACGGCGTC   PPDB Motif PLACE Motif

AtREG537    GGCGTCGT PPDB Motif PLACE Motif

REG CGTGTCGTTT + 4600861 4600870 -278 -269

AtREG428 CGTGTCGT   ABA, DREB1Aox, Ethylene, Drought PPDB Motif PLACE Motif

AtREG527 GTGTCGTT DREB1Aox PPDB Motif PLACE Motif

AtREG569   TGTCGTTT PPDB Motif PLACE Motif

REG TCAGGCCCATTC + 4600909 4600920 -230 -219

AtREG374 TCAGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG370 CAGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354   AGGCCCAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG361    GGCCCATT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG643     GCCCATTC PPDB Motif GCCCA PLACE Motif

REG CGCCACGTAG + 4600929 4600938 -210 -201

AtREG371 CGCCACGT   ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG413 GCCACGTA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG495   CCACGTAG PPDB Motif ACGT PLACE Motif ACGT, ACGTG

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`GCGCGTGT`		+	4600765	4600772	-374	-367
	AtREG385	`GCGCGTGT`		PPDB Motif	`ACGCGC`	PLACE Motif	`ACACNNG`
REG	`GCGTTTTA`		+	4600796	4600803	-343	-336
	AtREG564	`GCGTTTTA`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
REG	`AACGGCGTCGT`		+	4600830	4600840	-309	-299
	AtREG497	`AACGGCGT`		PPDB Motif	`AAACG(C/G), CCAACGG`	PLACE Motif
	AtREG540	`ACGGCGTC`		PPDB Motif		PLACE Motif
	AtREG537	`GGCGTCGT`		PPDB Motif		PLACE Motif
REG	`CGTGTCGTTT`		+	4600861	4600870	-278	-269
	AtREG428	`CGTGTCGT`	ABA, DREB1Aox, Ethylene, Drought	PPDB Motif		PLACE Motif
	AtREG527	`GTGTCGTT`	DREB1Aox	PPDB Motif		PLACE Motif
	AtREG569	`TGTCGTTT`		PPDB Motif		PLACE Motif
REG	`TCAGGCCCATTC`		+	4600909	4600920	-230	-219
	AtREG374	`TCAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG370	`CAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG354	`AGGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG361	`GGCCCATT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG643	`GCCCATTC`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`CGCCACGTAG`		+	4600929	4600938	-210	-201
	AtREG371	`CGCCACGT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG413	`GCCACGTA`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG495	`CCACGTAG`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`

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