PlantPromoterDB promoter information of AT1G30890.2

Summary of Gene (AT1G30890.2)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G30890 TAIR NCBI
Gene model	AT1G30890.2
Description	integral membrane HRF1 family protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: integral to membrane; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Hrf1 (InterPro:IPR005578); BEST Arabidopsis thaliana protein match is: integral membrane HRF1 family protein (TAIR:AT3G59500.1); Has 338 Blast hits to 338 proteins in 126 species: Archae - 0; Bacteria - 0; Metazoa - 169; Fungi - 89; Plants - 40; Viruses - 0; Other Eukaryotes - 40 (source: NCBI BLink).

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Overview

Focused view (chromosome 1: 10993890-10995089)

`Genome position from initiation codon` `AT1G30890.1 TSS from cDNA TSS information AT1G30890.2 5'->3' (+) Promoter sequence AT1G30880.1 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 AT1G30890.2

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak C 4 + 10994345 -545

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`C`	4	+	10994345	-545

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone C clone + 10994322 -568

TSS clone A clone + 10994346 -544

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`C`	clone	+	10994322	-568
TSS clone	`A`	clone	+	10994346	-544

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 CCTTCTTC + 10994296 10994303 -594 -587

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	`CCTTCTTC`	+	10994296	10994303	-594	-587
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 TCCGGTTC + 10994168 10994175 -722 -715

AtREG579 TCCGGTTC PPDB Motif AACCG(G/A) PLACE Motif

REG ATTGGCCCAATTTAGGCCCAAAT + 10994233 10994255 -657 -635

AtREG446 ATTGGCCC                CK PPDB Motif GCCCA PLACE Motif GGGCC

AtREG484 TTGGCCCA               PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG420   TGGCCCAA              PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG352    GGCCCAAT             PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG418     GCCCAATT            PPDB Motif GCCCA PLACE Motif

AtREG430           TTTAGGCC      PPDB Motif PLACE Motif

AtREG360            TTAGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG358             TAGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356              AGGCCCAA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG373               GGCCCAAA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG421                GCCCAAAT PPDB Motif GCCCA PLACE Motif

REG AATACCCTT + 10994291 10994299 -599 -591

AtREG567 AATACCCT PPDB Motif ACCCT PLACE Motif

AtREG623 ATACCCTT PPDB Motif ACCCT PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TCCGGTTC`		+	10994168	10994175	-722	-715
	AtREG579	`TCCGGTTC`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`ATTGGCCCAATTTAGGCCCAAAT`		+	10994233	10994255	-657	-635
	AtREG446	`ATTGGCCC`	CK	PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG484	`TTGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG420	`TGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG352	`GGCCCAAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG418	`GCCCAATT`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG430	`TTTAGGCC`		PPDB Motif		PLACE Motif
	AtREG360	`TTAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG358	`TAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG356	`AGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG373	`GGCCCAAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG421	`GCCCAAAT`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`AATACCCTT`		+	10994291	10994299	-599	-591
	AtREG567	`AATACCCT`		PPDB Motif	`ACCCT`	PLACE Motif
	AtREG623	`ATACCCTT`		PPDB Motif	`ACCCT`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 7 - 10994095 AT1G30880.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	7	-	10994095	AT1G30880.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone A clone - 10994125 AT1G30880.1

TSS clone C clone - 10994101 AT1G30880.1

TSS clone C clone - 10994100 AT1G30880.1

TSS clone T clone - 10994099 AT1G30880.1

TSS clone G clone - 10994095 AT1G30880.1

TSS clone C clone - 10994094 AT1G30880.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`A`	clone	-	10994125	AT1G30880.1
TSS clone	`C`	clone	-	10994101	AT1G30880.1
TSS clone	`C`	clone	-	10994100	AT1G30880.1
TSS clone	`T`	clone	-	10994099	AT1G30880.1
TSS clone	`G`	clone	-	10994095	AT1G30880.1
TSS clone	`C`	clone	-	10994094	AT1G30880.1

Core promoter information

Type Sequence Genome position Gene model

Strand Start End

initiator Not Available Not Available Not Available

TATA Box CTTTATAAAAG - 10994126 10994136 AT1G30880.1

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	`CTTTATAAAAG`	-	10994126	10994136	AT1G30880.1
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 GAACCGGA - 10994168 10994175 AT1G30880.1

AtREG579 GAACCGGA PPDB Motif AACCG(G/A) PLACE Motif

REG ATTTGGGCCTAAATTGGGCCAAT - 10994233 10994255 AT1G30880.1

AtREG421 ATTTGGGC                PPDB Motif GCCCA PLACE Motif

AtREG373 TTTGGGCC               PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356   TTGGGCCT              PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG358    TGGGCCTA             PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG360     GGGCCTAA            PPDB Motif GCCCA PLACE Motif GGGCC

AtREG430      GGCCTAAA           PPDB Motif PLACE Motif

AtREG418            AATTGGGC     PPDB Motif GCCCA PLACE Motif

AtREG352             ATTGGGCC    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG420              TTGGGCCA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG484               TGGGCCAA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG446                GGGCCAAT CK PPDB Motif GCCCA PLACE Motif GGGCC

REG AAGGGTATT - 10994291 10994299 AT1G30880.1

AtREG623 AAGGGTAT PPDB Motif ACCCT PLACE Motif

AtREG567 AGGGTATT PPDB Motif ACCCT PLACE Motif