PlantPromoterDB promoter information of AT4G38170.1

Summary of Gene (AT4G38170.1)

Organism	Arabidopsis thaliana
Chromosome	4
Locus	AT4G38170 TAIR NCBI
Gene model	AT4G38170.1
Description	FAR1-related sequence 9 (FRS9); FUNCTIONS IN: zinc ion binding; INVOLVED IN: response to red or far red light; LOCATED IN: cellular_component unknown; EXPRESSED IN: 17 plant structures; EXPRESSED DURING: 10 growth stages; CONTAINS InterPro DOMAIN/s: Zinc finger, PMZ-type (InterPro:IPR006564), MULE transposase, conserved domain (InterPro:IPR018289), Zinc finger, SWIM-type (InterPro:IPR007527); BEST Arabidopsis thaliana protein match is: FRS5 (FAR1-related sequence 5); zinc ion binding (TAIR:AT4G38180.1); Has 575 Blast hits to 561 proteins in 17 species: Archae - 0; Bacteria - 0; Metazoa - 2; Fungi - 2; Plants - 571; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink).

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Overview

Focused view (chromosome 4: 17903613-17904812)

`Genome position from initiation codon` `AT4G38160.2 TSS from cDNA TSS information AT4G38170.1 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 AT4G38170.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 8 + 17904520 -93

TSS peak A 8 + 17904562 -51

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	8	+	17904520	-93
TSS peak	`A`	8	+	17904562	-51

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone + 17904521 -92

TSS clone T clone + 17904563 -50

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	+	17904521	-92
TSS clone	`T`	clone	+	17904563	-50

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 TGGGCCTGT + 17904221 17904229 -392 -384

AtREG370 TGGGCCTG PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG433 GGGCCTGT PPDB Motif GCCCA PLACE Motif GGGCC

REG TGTTGGGCCTAC + 17904256 17904267 -357 -346

AtREG543 TGTTGGGC     PPDB Motif GCCCA PLACE Motif CAACA

AtREG449 GTTGGGCC    PPDB Motif GCCCA, CCAACGG PLACE Motif GGGCC, TGGGCY

AtREG356   TTGGGCCT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG358    TGGGCCTA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG435     GGGCCTAC PPDB Motif GCCCA PLACE Motif GGGCC

REG AATAGGCCCGACTTA + 17904342 17904356 -271 -257

AtREG424 AATAGGCC        PPDB Motif PLACE Motif

AtREG362 ATAGGCCC       PPDB Motif GCCCA PLACE Motif GGGCC

AtREG582        CCGACTTA PPDB Motif CCGAC PLACE Motif CCGAC

REG AGGGCCCAAAA + 17904370 17904380 -243 -233

AtREG400 AGGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG392 GGGCCCAA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG373   GGCCCAAA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG529    GCCCAAAA PPDB Motif GCCCA PLACE Motif

REG TGCCGTTTT + 17904443 17904451 -170 -162

AtREG500 TGCCGTTT PPDB Motif AAACG(C/G) PLACE Motif

AtREG531 GCCGTTTT PPDB Motif AAACG(C/G) PLACE Motif

REG AAAACGGCA + 17904460 17904468 -153 -145

AtREG531 AAAACGGC PPDB Motif AAACG(C/G) PLACE Motif

AtREG500 AAACGGCA PPDB Motif AAACG(C/G) PLACE Motif

REG GTTCGGTT + 17904506 17904513 -107 -100

AtREG556 GTTCGGTT PPDB Motif AACCG(G/A) PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TGGGCCTGT`		+	17904221	17904229	-392	-384
	AtREG370	`TGGGCCTG`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG433	`GGGCCTGT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
REG	`TGTTGGGCCTAC`		+	17904256	17904267	-357	-346
	AtREG543	`TGTTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif	`CAACA`
	AtREG449	`GTTGGGCC`		PPDB Motif	`GCCCA, CCAACGG`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG356	`TTGGGCCT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG358	`TGGGCCTA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG435	`GGGCCTAC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
REG	`AATAGGCCCGACTTA`		+	17904342	17904356	-271	-257
	AtREG424	`AATAGGCC`		PPDB Motif		PLACE Motif
	AtREG362	`ATAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG582	`CCGACTTA`		PPDB Motif	`CCGAC`	PLACE Motif	`CCGAC`
REG	`AGGGCCCAAAA`		+	17904370	17904380	-243	-233
	AtREG400	`AGGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG392	`GGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG373	`GGCCCAAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG529	`GCCCAAAA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`TGCCGTTTT`		+	17904443	17904451	-170	-162
	AtREG500	`TGCCGTTT`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
	AtREG531	`GCCGTTTT`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
REG	`AAAACGGCA`		+	17904460	17904468	-153	-145
	AtREG531	`AAAACGGC`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
	AtREG500	`AAACGGCA`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
REG	`GTTCGGTT`		+	17904506	17904513	-107	-100
	AtREG556	`GTTCGGTT`		PPDB Motif	`AACCG(G/A)`	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