PlantPromoterDB promoter information of AT3G16990.1

Summary of Gene (AT3G16990.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G16990 TAIR NCBI
Gene model	AT3G16990.1
Description	TENA/THI-4 family protein; FUNCTIONS IN: molecular_function unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 12 plant structures; EXPRESSED DURING: 6 growth stages; CONTAINS InterPro DOMAIN/s: Haem oxygenase-like, multi-helical (InterPro:IPR016084), TENA/THI-4 protein/Coenzyme PQQ biosynthesis protein C (InterPro:IPR004305); Has 201 Blast hits to 201 proteins in 61 species: Archae - 21; Bacteria - 69; Metazoa - 0; Fungi - 17; Plants - 26; Viruses - 0; Other Eukaryotes - 68 (source: NCBI BLink).

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Overview

Focused view (chromosome 3: 5797783-5796584)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G16990.1 5'->3' (-) Promoter sequence AT3G17000.1 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 AT3G16990.1

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 peak A clone - 5796790 -7

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone peak	`A`	clone	-	5796790	-7

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 CACGTCAC - 5796878 5796885 -95 -102

AtREG466 CACGTCAC ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

REG TTAAAGCCCAATG - 5796893 5796905 -110 -122

AtREG545 TTAAAGCC      PPDB Motif PLACE Motif

AtREG365 TAAAGCCC     PPDB Motif GCCCA PLACE Motif

AtREG376   AAAGCCCA    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407    AAGCCCAA   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG402     AGCCCAAT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG461      GCCCAATG PPDB Motif GCCCA PLACE Motif

REG AATAGGCCTTGGCCCATTAA - 5796907 5796926 -124 -143

AtREG424 AATAGGCC             PPDB Motif PLACE Motif

AtREG649 ATAGGCCT            PPDB Motif PLACE Motif

AtREG484         TTGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG490          TGGCCCAT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG361           GGCCCATT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG357            GCCCATTA PPDB Motif GCCCA PLACE Motif

AtREG396             CCCATTAA PPDB Motif GCCCA PLACE Motif TTAATGG

REG CGTGGCGA - 5796933 5796940 -150 -157

AtREG471 CGTGGCGA ABA PPDB Motif PLACE Motif GCCAC

REG TGTCACGT - 5797000 5797007 -217 -224

AtREG606 TGTCACGT ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

REG GTGCCACGTAATTA - 5797048 5797061 -265 -278

AtREG444 GTGCCACG       PPDB Motif PLACE Motif GCCAC

AtREG379 TGCCACGT      ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

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

AtREG646       CGTAATTA ABA PPDB Motif PLACE Motif

REG CGTGACGTG - 5797079 5797087 -296 -304

AtREG489 CGTGACGT ABA, DREB1Aox PPDB Motif ACGT PLACE Motif ACGT

AtREG466 GTGACGTG ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CACGTCAC`		-	5796878	5796885	-95	-102
	AtREG466	`CACGTCAC`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
REG	`TTAAAGCCCAATG`		-	5796893	5796905	-110	-122
	AtREG545	`TTAAAGCC`		PPDB Motif		PLACE Motif
	AtREG365	`TAAAGCCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG376	`AAAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG407	`AAGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG402	`AGCCCAAT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG461	`GCCCAATG`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`AATAGGCCTTGGCCCATTAA`		-	5796907	5796926	-124	-143
	AtREG424	`AATAGGCC`		PPDB Motif		PLACE Motif
	AtREG649	`ATAGGCCT`		PPDB Motif		PLACE Motif
	AtREG484	`TTGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG490	`TGGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG361	`GGCCCATT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG357	`GCCCATTA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG396	`CCCATTAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TTAATGG`
REG	`CGTGGCGA`		-	5796933	5796940	-150	-157
	AtREG471	`CGTGGCGA`	ABA	PPDB Motif		PLACE Motif	`GCCAC`
REG	`TGTCACGT`		-	5797000	5797007	-217	-224
	AtREG606	`TGTCACGT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
REG	`GTGCCACGTAATTA`		-	5797048	5797061	-265	-278
	AtREG444	`GTGCCACG`		PPDB Motif		PLACE Motif	`GCCAC`
	AtREG379	`TGCCACGT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG413	`GCCACGTA`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG646	`CGTAATTA`	ABA	PPDB Motif		PLACE Motif
REG	`CGTGACGTG`		-	5797079	5797087	-296	-304
	AtREG489	`CGTGACGT`	ABA, DREB1Aox	PPDB Motif	`ACGT`	PLACE Motif	`ACGT`
	AtREG466	`GTGACGTG`	ABA	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

TSS clone G clone + 5797179 AT3G17000.1

TSS clone T clone + 5797186 AT3G17000.1

TSS clone T clone + 5797188 AT3G17000.1

TSS clone peak A clone + 5797199 AT3G17000.1

TSS clone A clone + 5797239 AT3G17000.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`G`	clone	+	5797179	AT3G17000.1
TSS clone	`T`	clone	+	5797186	AT3G17000.1
TSS clone	`T`	clone	+	5797188	AT3G17000.1
TSS clone peak	`A`	clone	+	5797199	AT3G17000.1
TSS clone	`A`	clone	+	5797239	AT3G17000.1

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 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 TTAATGGGCCAAGGCCTATT + 5796907 5796926 AT3G17000.1

AtREG396 TTAATGGG             PPDB Motif GCCCA PLACE Motif TTAATGG

AtREG357 TAATGGGC            PPDB Motif GCCCA PLACE Motif

AtREG361   AATGGGCC           PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG490    ATGGGCCA          PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG484     TGGGCCAA         PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG649            AGGCCTAT PPDB Motif PLACE Motif

AtREG424             GGCCTATT PPDB Motif PLACE Motif

REG TCGCCACG + 5796933 5796940 AT3G17000.1

AtREG471 TCGCCACG ABA PPDB Motif PLACE Motif GCCAC

REG ACGTGACA + 5797000 5797007 AT3G17000.1

AtREG606 ACGTGACA ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

REG TAATTACGTGGCAC + 5797048 5797061 AT3G17000.1

AtREG646 TAATTACG       ABA PPDB Motif PLACE Motif

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

AtREG379      ACGTGGCA ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG444       CGTGGCAC PPDB Motif PLACE Motif GCCAC

REG CACGTCACG + 5797079 5797087 AT3G17000.1

AtREG466 CACGTCAC ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG489 ACGTCACG ABA, DREB1Aox PPDB Motif ACGT PLACE Motif ACGT

REG GTGACGTGGAA + 5797106 5797116 AT3G17000.1

AtREG466 GTGACGTG    ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG419 TGACGTGG   PPDB Motif ACGT PLACE Motif ACGT, ACGTG, TGACGTGG, CCACGTCA

AtREG627    ACGTGGAA PPDB Motif ACGT PLACE Motif ACGT, ACGTG