PlantPromoterDB promoter information of AT1G09150.1

Summary of Gene (AT1G09150.1)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G09150 TAIR NCBI
Gene model	AT1G09150.1
Description	pseudouridine synthase and archaeosine transglycosylase (PUA) domain-containing protein; FUNCTIONS IN: RNA binding; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: PUA-like (InterPro:IPR015947), PUA (InterPro:IPR002478), Translation machinery-associated RNA binding protein, predicted (InterPro:IPR016437), Uncharacterized domain 2 (InterPro:IPR004521); BEST Arabidopsis thaliana protein match is: eukaryotic translation initiation factor SUI1 family protein (TAIR:AT1G71350.1); Has 649 Blast hits to 647 proteins in 208 species: Archae - 99; Bacteria - 0; Metazoa - 263; Fungi - 102; Plants - 42; Viruses - 0; Other Eukaryotes - 143 (source: NCBI BLink).

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Overview

Focused view (chromosome 1: 2945599-2946798)

`Genome position from initiation codon` `TSS from cDNA TSS information AT1G09150.1 5'->3' (+) Promoter sequence AT1G09140.1 AT1G09140.2 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 AT1G09150.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 2 + 2946303 -296

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	2	+	2946303	-296

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone + 2946229 -370

TSS clone G clone + 2946281 -318

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	+	2946229	-370
TSS clone	`G`	clone	+	2946281	-318

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 AATAGCCC + 2946035 2946042 -564 -557

AtREG584 AATAGCCC PPDB Motif GCCCA PLACE Motif

REG ATCGGCCCATAT + 2946054 2946065 -545 -534

AtREG555 ATCGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG393 TCGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG380   CGGCCCAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG364    GGCCCATA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG432     GCCCATAT PPDB Motif GCCCA PLACE Motif

REG TTAATGGGCCTGT + 2946069 2946081 -530 -518

AtREG396 TTAATGGG      PPDB Motif GCCCA PLACE Motif TTAATGG

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

AtREG370     TGGGCCTG PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG433      GGGCCTGT PPDB Motif GCCCA PLACE Motif GGGCC

REG TAACCGGAT + 2946095 2946103 -504 -496

AtREG621 TAACCGGA PPDB Motif AACCG(G/A) PLACE Motif CNGTTR

AtREG561 AACCGGAT PPDB Motif AACCG(G/A) PLACE Motif

REG CAAACCGGAA + 2946127 2946136 -472 -463

AtREG496 CAAACCGG   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

REG TCGGGTCA + 2946190 2946197 -409 -402

AtREG617 TCGGGTCA PPDB Motif PLACE Motif

REG TGTCGTTTT + 2946224 2946232 -375 -367

AtREG569 TGTCGTTT PPDB Motif PLACE Motif

AtREG520 GTCGTTTT PPDB Motif PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`AATAGCCC`		+	2946035	2946042	-564	-557
	AtREG584	`AATAGCCC`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`ATCGGCCCATAT`		+	2946054	2946065	-545	-534
	AtREG555	`ATCGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG393	`TCGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG380	`CGGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG364	`GGCCCATA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG432	`GCCCATAT`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`TTAATGGGCCTGT`		+	2946069	2946081	-530	-518
	AtREG396	`TTAATGGG`		PPDB Motif	`GCCCA`	PLACE Motif	`TTAATGG`
	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`
	AtREG370	`TGGGCCTG`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG433	`GGGCCTGT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
REG	`TAACCGGAT`		+	2946095	2946103	-504	-496
	AtREG621	`TAACCGGA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif	`CNGTTR`
	AtREG561	`AACCGGAT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`CAAACCGGAA`		+	2946127	2946136	-472	-463
	AtREG496	`CAAACCGG`		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
REG	`TCGGGTCA`		+	2946190	2946197	-409	-402
	AtREG617	`TCGGGTCA`		PPDB Motif		PLACE Motif
REG	`TGTCGTTTT`		+	2946224	2946232	-375	-367
	AtREG569	`TGTCGTTT`		PPDB Motif		PLACE Motif
	AtREG520	`GTCGTTTT`		PPDB Motif		PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 8 - 2945951 AT1G09140.1, AT1G09140.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	8	-	2945951	AT1G09140.1, AT1G09140.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone G clone - 2945954 AT1G09140.1, AT1G09140.2

TSS clone T clone - 2945953 AT1G09140.1, AT1G09140.2

TSS clone G clone - 2945879 AT1G09140.1, AT1G09140.2

TSS clone A clone - 2945876 AT1G09140.1, AT1G09140.2

TSS clone A clone - 2945872 AT1G09140.1, AT1G09140.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`G`	clone	-	2945954	AT1G09140.1, AT1G09140.2
TSS clone	`T`	clone	-	2945953	AT1G09140.1, AT1G09140.2
TSS clone	`G`	clone	-	2945879	AT1G09140.1, AT1G09140.2
TSS clone	`A`	clone	-	2945876	AT1G09140.1, AT1G09140.2
TSS clone	`A`	clone	-	2945872	AT1G09140.1, AT1G09140.2

Core promoter information

Type Sequence Genome position Gene model

Strand Start End

initiator Not Available Not Available Not Available

TATA Box TTTATAAAAG - 2945980 2945989 AT1G09140.1, AT1G09140.2

Y Patch TCTTCTTCTTCTT - 2945902 2945914 AT1G09140.1, AT1G09140.2

Y Patch CTCCTTTC - 2945942 2945949 AT1G09140.1, AT1G09140.2

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	`TTTATAAAAG`	-	2945980	2945989	AT1G09140.1, AT1G09140.2
Y Patch	`TCTTCTTCTTCTT`	-	2945902	2945914	AT1G09140.1, AT1G09140.2
Y Patch	`CTCCTTTC`	-	2945942	2945949	AT1G09140.1, AT1G09140.2
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG GGGCTATT - 2946035 2946042 AT1G09140.1, AT1G09140.2

AtREG584 GGGCTATT PPDB Motif GCCCA PLACE Motif

REG ATATGGGCCGAT - 2946054 2946065 AT1G09140.1, AT1G09140.2

AtREG432 ATATGGGC     PPDB Motif GCCCA PLACE Motif

AtREG364 TATGGGCC    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG380   ATGGGCCG   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG393    TGGGCCGA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG555     GGGCCGAT PPDB Motif GCCCA PLACE Motif GGGCC

REG ACAGGCCCATTAA - 2946069 2946081 AT1G09140.1, AT1G09140.2

AtREG433 ACAGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG370 CAGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354   AGGCCCAT    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 ATCCGGTTA - 2946095 2946103 AT1G09140.1, AT1G09140.2

AtREG561 ATCCGGTT PPDB Motif AACCG(G/A) PLACE Motif

AtREG621 TCCGGTTA PPDB Motif AACCG(G/A) PLACE Motif CNGTTR

REG TTCCGGTTTG - 2946127 2946136 AT1G09140.1, AT1G09140.2

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 TGACCCGA - 2946190 2946197 AT1G09140.1, AT1G09140.2

AtREG617 TGACCCGA PPDB Motif PLACE Motif

REG AAAACGACA - 2946224 2946232 AT1G09140.1, AT1G09140.2

AtREG520 AAAACGAC PPDB Motif PLACE Motif

AtREG569 AAACGACA PPDB Motif PLACE Motif