PlantPromoterDB promoter information of AT3G07590.1

Summary of Gene (AT3G07590.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G07590 TAIR NCBI
Gene model	AT3G07590.1
Description	small nuclear ribonucleoprotein D1, putative / snRNP core protein D1, putative / Sm protein D1, putative; FUNCTIONS IN: molecular_function unknown; LOCATED IN: small nucleolar ribonucleoprotein complex, nucleus, plasma membrane; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Like-Sm ribonucleoprotein, core (InterPro:IPR001163), Like-Sm ribonucleoprotein, eukaryotic and archaea-type, core (InterPro:IPR006649), Like-Sm ribonucleoprotein-related, core (InterPro:IPR010920); BEST Arabidopsis thaliana protein match is: small nuclear ribonucleoprotein D1, putative / snRNP core protein D1, putative / Sm protein D1, putative (TAIR:AT4G02840.1); Has 828 Blast hits to 827 proteins in 166 species: Archae - 0; Bacteria - 2; Metazoa - 337; Fungi - 221; Plants - 121; Viruses - 0; Other Eukaryotes - 147 (source: NCBI BLink).

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Overview

Focused view (chromosome 3: 2422146-2423345)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G07590.1 5'->3' (+) Promoter sequence AT3G07580.1 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 AT3G07590.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 5 + 2423105 -41

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	5	+	2423105	-41

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone + 2423087 -59

TSS clone T clone + 2423096 -50

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	+	2423087	-59
TSS clone	`T`	clone	+	2423096	-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 CTTTCTTC + 2423128 2423135 -18 -11

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	`CTTTCTTC`	+	2423128	2423135	-18	-11
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 TCACGCGC + 2422806 2422813 -340 -333

AtREG395 TCACGCGC PPDB Motif ACGCGC PLACE Motif

REG ACGCGTGT + 2422824 2422831 -322 -315

AtREG536 ACGCGTGT ABA, Drought PPDB Motif PLACE Motif ACACNNG

REG CTCGCGCG + 2422842 2422849 -304 -297

AtREG512 CTCGCGCG PPDB Motif ACGCGC PLACE Motif

REG TTTCCGGTTTG + 2422890 2422900 -256 -246

AtREG644 TTTCCGGT    PPDB Motif AACCG(G/A) PLACE Motif

AtREG534 TTCCGGTT   PPDB Motif AACCG(G/A) PLACE Motif

AtREG521   TCCGGTTT PPDB Motif AACCG(G/A) PLACE Motif

AtREG496    CCGGTTTG PPDB Motif AACCG(G/A) PLACE Motif

REG TTATGGGCCTTAC + 2422958 2422970 -188 -176

AtREG394 TTATGGGC      PPDB Motif GCCCA PLACE Motif

AtREG364 TATGGGCC     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354   ATGGGCCT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG353    TGGGCCTT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG351     GGGCCTTA PPDB Motif GCCCA PLACE Motif GGGCC

AtREG530      GGCCTTAC PPDB Motif PLACE Motif

REG TTTTGGGCCCAATAT + 2422976 2422990 -170 -156

AtREG529 TTTTGGGC        PPDB Motif GCCCA PLACE Motif

AtREG373 TTTGGGCC       PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG422    TGGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG392   TTGGGCCCAA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG352      GGCCCAAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG355       GCCCAATA PPDB Motif GCCCA PLACE Motif

AtREG509        CCCAATAT PPDB Motif PLACE Motif

REG AAAACCGGAA + 2423012 2423021 -134 -125

AtREG542 AAAACCGG   PPDB Motif AACCG(G/A) PLACE Motif

AtREG521 AAACCGGA PPDB Motif AACCG(G/A) PLACE Motif

AtREG534   AACCGGAA PPDB Motif AACCG(G/A) PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TCACGCGC`		+	2422806	2422813	-340	-333
	AtREG395	`TCACGCGC`		PPDB Motif	`ACGCGC`	PLACE Motif
REG	`ACGCGTGT`		+	2422824	2422831	-322	-315
	AtREG536	`ACGCGTGT`	ABA, Drought	PPDB Motif		PLACE Motif	`ACACNNG`
REG	`CTCGCGCG`		+	2422842	2422849	-304	-297
	AtREG512	`CTCGCGCG`		PPDB Motif	`ACGCGC`	PLACE Motif
REG	`TTTCCGGTTTG`		+	2422890	2422900	-256	-246
	AtREG644	`TTTCCGGT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG534	`TTCCGGTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG521	`TCCGGTTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG496	`CCGGTTTG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`TTATGGGCCTTAC`		+	2422958	2422970	-188	-176
	AtREG394	`TTATGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG364	`TATGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG354	`ATGGGCCT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG353	`TGGGCCTT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG351	`GGGCCTTA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG530	`GGCCTTAC`		PPDB Motif		PLACE Motif
REG	`TTTTGGGCCCAATAT`		+	2422976	2422990	-170	-156
	AtREG529	`TTTTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG373	`TTTGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG422	`TGGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG392	`TTGGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG352	`GGCCCAAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG355	`GCCCAATA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG509	`CCCAATAT`		PPDB Motif		PLACE Motif
REG	`AAAACCGGAA`		+	2423012	2423021	-134	-125
	AtREG542	`AAAACCGG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG521	`AAACCGGA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG534	`AACCGGAA`		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

TSS clone peak T clone - 2422741 AT3G07580.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone peak	`T`	clone	-	2422741	AT3G07580.1

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 None None None