PlantPromoterDB promoter information of AT3G22440.1

Summary of Gene (AT3G22440.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G22440 TAIR NCBI
Gene model	AT3G22440.1
Description	hydroxyproline-rich glycoprotein family protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Frigida-like (InterPro:IPR012474); BEST Arabidopsis thaliana protein match is: hydroxyproline-rich glycoprotein family protein (TAIR:AT4G14900.1); Has 1107 Blast hits to 1058 proteins in 102 species: Archae - 0; Bacteria - 5; Metazoa - 133; Fungi - 62; Plants - 888; Viruses - 0; Other Eukaryotes - 19 (source: NCBI BLink).

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Overview

Focused view (chromosome 3: 7958854-7960053)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G22440.1 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 AT3G22440.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 47 + 7959770 -84

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	47	+	7959770	-84

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone + 7959754 -100

TSS clone T clone + 7959758 -96

TSS clone G clone + 7959760 -94

TSS clone A clone + 7959770 -84

TSS clone A clone + 7959771 -83

TSS clone C clone + 7959777 -77

TSS clone T clone + 7959784 -70

TSS clone A clone + 7959789 -65

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	+	7959754	-100
TSS clone	`T`	clone	+	7959758	-96
TSS clone	`G`	clone	+	7959760	-94
TSS clone	`A`	clone	+	7959770	-84
TSS clone	`A`	clone	+	7959771	-83
TSS clone	`C`	clone	+	7959777	-77
TSS clone	`T`	clone	+	7959784	-70
TSS clone	`A`	clone	+	7959789	-65

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 TCTTCTTCTTC + 7959723 7959733 -131 -121

Y Patch CTCTCTCTCTT + 7959777 7959787 -77 -67

Y Patch TTCTTCTCT + 7959795 7959803 -59 -51

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	`TCTTCTTCTTC`	+	7959723	7959733	-131	-121
Y Patch	`CTCTCTCTCTT`	+	7959777	7959787	-77	-67
Y Patch	`TTCTTCTCT`	+	7959795	7959803	-59	-51
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 AGTGGGCTTGGCCCA + 7959472 7959486 -382 -368

AtREG510 AGTGGGCT        PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG518 GTGGGCTT       PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG525   TGGGCTTG      PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG484        TTGGCCCA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG CCACGTCATC + 7959563 7959572 -291 -282

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 GCCTTTAA + 7959651 7959658 -203 -196

AtREG639 GCCTTTAA PPDB Motif AAACG(C/G) PLACE Motif

REG GACGTGTCG + 7959673 7959681 -181 -173

AtREG481 GACGTGTC ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACGTGKC, ACGTGTC

AtREG478 ACGTGTCG ABA, DREB1Aox, Drought PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACGTGKC, ACGTGTC

REG GTCCACGTCAC + 7959694 7959704 -160 -150

AtREG513 GTCCACGT    ABA, DREB1Aox PPDB Motif ACGT PLACE Motif ACGT, ACGTG

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

AtREG466    CACGTCAC ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`AGTGGGCTTGGCCCA`		+	7959472	7959486	-382	-368
	AtREG510	`AGTGGGCT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG518	`GTGGGCTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG525	`TGGGCTTG`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG484	`TTGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
REG	`CCACGTCATC`		+	7959563	7959572	-291	-282
	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	`GCCTTTAA`		+	7959651	7959658	-203	-196
	AtREG639	`GCCTTTAA`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
REG	`GACGTGTCG`		+	7959673	7959681	-181	-173
	AtREG481	`GACGTGTC`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, ACGTGKC, ACGTGTC`
	AtREG478	`ACGTGTCG`	ABA, DREB1Aox, Drought	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, ACGTGKC, ACGTGTC`
REG	`GTCCACGTCAC`		+	7959694	7959704	-160	-150
	AtREG513	`GTCCACGT`	ABA, DREB1Aox	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG419	`CCACGTCA`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, TGACGTGG, CCACGTCA`
	AtREG466	`CACGTCAC`	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

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