PlantPromoterDB promoter information of AT5G17900.1

Summary of Gene (AT5G17900.1)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G17900 TAIR NCBI
Gene model	AT5G17900.1
Description	FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: extracellular region; CONTAINS InterPro DOMAIN/s: Micro-fibrillar-associated 1, C-terminal (InterPro:IPR009730); BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT4G08580.1); Has 36643 Blast hits to 21191 proteins in 1090 species: Archae - 183; Bacteria - 2726; Metazoa - 17629; Fungi - 3036; Plants - 994; Viruses - 215; Other Eukaryotes - 11860 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 5924144-5925343)

`Genome position from initiation codon` `TSS from cDNA TSS information AT5G17900.1 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 AT5G17900.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
Not Available	Not Available	Not Available	Not Available	Not Available

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone + 5924707 -437

TSS clone peak T clone + 5924713 -431

TSS clone A clone + 5924714 -430

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	+	5924707	-437
TSS clone peak	`T`	clone	+	5924713	-431
TSS clone	`A`	clone	+	5924714	-430

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 CGTCTTCT + 5924741 5924748 -403 -396

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	`CGTCTTCT`	+	5924741	5924748	-403	-396
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 AAACCGAA + 5924430 5924437 -714 -707

AtREG568 AAACCGAA PPDB Motif AACCG(G/A) PLACE Motif

REG GTTCGGTT + 5924443 5924450 -701 -694

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

REG CCGAACCGAACCGACCCGTAAACCGAA + 5924459 5924485 -685 -659

AtREG456 CCGAACCGAACCG               PPDB Motif AACCG(G/A) PLACE Motif

AtREG575 CGAACCGAACCGA              PPDB Motif AACCG(G/A) PLACE Motif

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

AtREG451     ACCGAACC                PPDB Motif PLACE Motif

AtREG375           CCGACCCG          PPDB Motif CCGAC PLACE Motif CCGAC

AtREG519                  GTAAACCG   PPDB Motif AACCG(G/A) PLACE Motif

AtREG514                   TAAACCGA PPDB Motif AACCG(G/A) PLACE Motif

AtREG568                    AAACCGAA PPDB Motif AACCG(G/A) PLACE Motif

REG AAACCGAA + 5924540 5924547 -604 -597

AtREG568 AAACCGAA PPDB Motif AACCG(G/A) PLACE Motif

REG AGTCGGTT + 5924550 5924557 -594 -587

AtREG641 AGTCGGTT PPDB Motif AACCG(G/A), CCGAC PLACE Motif CCGAC, RCCGAC

REG TCGGTTCGGTTT + 5924561 5924572 -583 -572

AtREG575 TCGGTTCG     PPDB Motif AACCG(G/A) PLACE Motif

AtREG456 CGGTTCGG    PPDB Motif AACCG(G/A) PLACE Motif

AtREG451   GGTTCGGT   PPDB Motif PLACE Motif

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

AtREG568     TTCGGTTT PPDB Motif AACCG(G/A) PLACE Motif

REG TCGGTTTAT + 5924575 5924583 -569 -561

AtREG514 TCGGTTTA PPDB Motif AACCG(G/A) PLACE Motif

AtREG598 CGGTTTAT PPDB Motif AACCG(G/A) PLACE Motif

REG ATAGGCCCATGAAAGCCCAATAG + 5924641 5924663 -503 -481

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

AtREG504    GGCCCATG             PPDB Motif GCCCA, CCATGG PLACE Motif GGGCC, TGGGCY

AtREG376            AAAGCCCA     PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407             AAGCCCAA    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG402              AGCCCAAT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG355               GCCCAATA PPDB Motif GCCCA PLACE Motif

AtREG624                CCCAATAG PPDB Motif GCCCA PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`AAACCGAA`		+	5924430	5924437	-714	-707
	AtREG568	`AAACCGAA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`GTTCGGTT`		+	5924443	5924450	-701	-694
	AtREG556	`GTTCGGTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`CCGAACCGAACCGACCCGTAAACCGAA`		+	5924459	5924485	-685	-659
	AtREG456	`CCGAACCGAACCG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG575	`CGAACCGAACCGA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG556	`AACCGAAC`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG451	`ACCGAACC`		PPDB Motif		PLACE Motif
	AtREG375	`CCGACCCG`		PPDB Motif	`CCGAC`	PLACE Motif	`CCGAC`
	AtREG519	`GTAAACCG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG514	`TAAACCGA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG568	`AAACCGAA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`AAACCGAA`		+	5924540	5924547	-604	-597
	AtREG568	`AAACCGAA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`AGTCGGTT`		+	5924550	5924557	-594	-587
	AtREG641	`AGTCGGTT`		PPDB Motif	`AACCG(G/A), CCGAC`	PLACE Motif	`CCGAC, RCCGAC`
REG	`TCGGTTCGGTTT`		+	5924561	5924572	-583	-572
	AtREG575	`TCGGTTCG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG456	`CGGTTCGG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG451	`GGTTCGGT`		PPDB Motif		PLACE Motif
	AtREG556	`GTTCGGTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG568	`TTCGGTTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`TCGGTTTAT`		+	5924575	5924583	-569	-561
	AtREG514	`TCGGTTTA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG598	`CGGTTTAT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`ATAGGCCCATGAAAGCCCAATAG`		+	5924641	5924663	-503	-481
	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`
	AtREG504	`GGCCCATG`		PPDB Motif	`GCCCA, CCATGG`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG376	`AAAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG407	`AAGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG402	`AGCCCAAT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG355	`GCCCAATA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG624	`CCCAATAG`		PPDB Motif	`GCCCA`	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