PlantPromoterDB promoter information of AT3G46030.1

Summary of Gene (AT3G46030.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G46030 TAIR NCBI
Gene model	AT3G46030.1
Description	HTB11; FUNCTIONS IN: DNA binding; INVOLVED IN: nucleosome assembly; LOCATED IN: nucleus, nucleosome; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Histone H2B (InterPro:IPR000558), Histone-fold (InterPro:IPR009072), Histone core (InterPro:IPR007125); BEST Arabidopsis thaliana protein match is: HTB9; DNA binding (TAIR:AT3G45980.1); Has 2721 Blast hits to 2706 proteins in 276 species: Archae - 0; Bacteria - 1; Metazoa - 1863; Fungi - 166; Plants - 361; Viruses - 0; Other Eukaryotes - 330 (source: NCBI BLink).

#

Overview

Focused view (chromosome 3: 16915051-16913852)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G46030.1 5'->3' (-) Promoter sequence AT3G46040.1 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 AT3G46030.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 33 - 16914131 -80

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	33	-	16914131	-80

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone C clone - 16914132 -81

TSS clone A clone - 16914130 -79

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`C`	clone	-	16914132	-81
TSS clone	`A`	clone	-	16914130	-79

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 TCATATATATACA - 16914154 16914166 -103 -115

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	`TCATATATATACA`	-	16914154	16914166	-103	-115
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 TTCCACGTCATC - 16914212 16914223 -161 -172

AtREG627 TTCCACGT     PPDB Motif ACGT PLACE Motif ACGT, ACGTG

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

AtREG483    CACGTCAT PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG578     ACGTCATC ABA PPDB Motif ACGT PLACE Motif ACGT

REG CTAACGGT - 16914234 16914241 -183 -190

AtREG603 CTAACGGT PPDB Motif PLACE Motif YAACKG, CNGTTR

REG CTTAATGGCCCATTTA - 16914294 16914309 -243 -258

AtREG604 CTTAATGG         PPDB Motif PLACE Motif TTAATGG

AtREG437     ATGGCCCA     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

AtREG386        GCCCATTT PPDB Motif GCCCA PLACE Motif

AtREG443         CCCATTTA PPDB Motif GCCCA PLACE Motif

REG GCCCGTTAAA - 16914342 16914351 -291 -300

AtREG399 GCCCGTTA   PPDB Motif ACGGGC PLACE Motif YAACKG, CNGTTR

AtREG610   CCGTTAAA PPDB Motif PLACE Motif YAACKG, CNGTTR

REG TAAGCCCATTT - 16914354 16914364 -303 -313

AtREG426 TAAGCCCA    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG378 AAGCCCAT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG372   AGCCCATT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG386    GCCCATTT PPDB Motif GCCCA PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TTCCACGTCATC`		-	16914212	16914223	-161	-172
	AtREG627	`TTCCACGT`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG419	`CCACGTCA`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, TGACGTGG, CCACGTCA`
	AtREG483	`CACGTCAT`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG578	`ACGTCATC`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT`
REG	`CTAACGGT`		-	16914234	16914241	-183	-190
	AtREG603	`CTAACGGT`		PPDB Motif		PLACE Motif	`YAACKG, CNGTTR`
REG	`CTTAATGGCCCATTTA`		-	16914294	16914309	-243	-258
	AtREG604	`CTTAATGG`		PPDB Motif		PLACE Motif	`TTAATGG`
	AtREG437	`ATGGCCCA`		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`
	AtREG386	`GCCCATTT`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG443	`CCCATTTA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`GCCCGTTAAA`		-	16914342	16914351	-291	-300
	AtREG399	`GCCCGTTA`		PPDB Motif	`ACGGGC`	PLACE Motif	`YAACKG, CNGTTR`
	AtREG610	`CCGTTAAA`		PPDB Motif		PLACE Motif	`YAACKG, CNGTTR`
REG	`TAAGCCCATTT`		-	16914354	16914364	-303	-313
	AtREG426	`TAAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG378	`AAGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG372	`AGCCCATT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG386	`GCCCATTT`		PPDB Motif	`GCCCA`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 13 + 16914573 AT3G46040.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	13	+	16914573	AT3G46040.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone G clone + 16914566 AT3G46040.1

TSS clone T clone + 16914567 AT3G46040.1

TSS clone T clone + 16914569 AT3G46040.1

TSS clone T clone + 16914572 AT3G46040.1

TSS clone T clone + 16914574 AT3G46040.1

TSS clone A clone + 16914578 AT3G46040.1

TSS clone T clone + 16914579 AT3G46040.1

TSS clone C clone + 16914582 AT3G46040.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`G`	clone	+	16914566	AT3G46040.1
TSS clone	`T`	clone	+	16914567	AT3G46040.1
TSS clone	`T`	clone	+	16914569	AT3G46040.1
TSS clone	`T`	clone	+	16914572	AT3G46040.1
TSS clone	`T`	clone	+	16914574	AT3G46040.1
TSS clone	`A`	clone	+	16914578	AT3G46040.1
TSS clone	`T`	clone	+	16914579	AT3G46040.1
TSS clone	`C`	clone	+	16914582	AT3G46040.1

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 CGTCTTCT + 16914565 16914572 AT3G46040.1

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	`CGTCTTCT`	+	16914565	16914572	AT3G46040.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG TAAATGGGCCATTAAG + 16914294 16914309 AT3G46040.1

AtREG443 TAAATGGG         PPDB Motif GCCCA PLACE Motif

AtREG386 AAATGGGC        PPDB Motif GCCCA PLACE Motif

AtREG361   AATGGGCC       PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG490    ATGGGCCA      PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG437     TGGGCCAT     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG604         CCATTAAG PPDB Motif PLACE Motif TTAATGG

REG TTTAACGGGC + 16914342 16914351 AT3G46040.1

AtREG610 TTTAACGG   PPDB Motif PLACE Motif YAACKG, CNGTTR

AtREG399   TAACGGGC PPDB Motif ACGGGC PLACE Motif YAACKG, CNGTTR

REG AAATGGGCTTA + 16914354 16914364 AT3G46040.1

AtREG386 AAATGGGC    PPDB Motif GCCCA PLACE Motif

AtREG372 AATGGGCT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG378   ATGGGCTT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG426    TGGGCTTA PPDB Motif GCCCA PLACE Motif TGGGCY

REG AAATGGGCCTAAT + 16914451 16914463 AT3G46040.1

AtREG386 AAATGGGC      PPDB Motif GCCCA PLACE Motif

AtREG361 AATGGGCC     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

AtREG360     GGGCCTAA PPDB Motif GCCCA PLACE Motif GGGCC

AtREG506      GGCCTAAT PPDB Motif PLACE Motif

REG ATAATGGGCCTAG + 16914473 16914485 AT3G46040.1

AtREG546 ATAATGGG      PPDB Motif PLACE Motif

AtREG357 TAATGGGC     PPDB Motif GCCCA PLACE Motif

AtREG361   AATGGGCC    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

AtREG475      GGGCCTAG PPDB Motif GCCCA PLACE Motif GGGCC

REG ATAATGGGCTTAG + 16914496 16914508 AT3G46040.1

AtREG546 ATAATGGG      PPDB Motif PLACE Motif

AtREG357 TAATGGGC     PPDB Motif GCCCA PLACE Motif

AtREG372   AATGGGCT    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG378    ATGGGCTT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG426     TGGGCTTA PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG634      GGGCTTAG PPDB Motif GCCCA PLACE Motif