PlantPromoterDB promoter information of AT1G67090

Summary of Gene (AT1G67090)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G67090 TAIR NCBI
Gene model	AT1G67090
Description	RIBULOSE BISPHOSPHATE CARBOXYLASE SMALL CHAIN 1A (RBCS1A); FUNCTIONS IN: ribulose-bisphosphate carboxylase activity, copper ion binding; INVOLVED IN: response to blue light, response to cold, carbon utilization by fixation of carbon dioxide, response to red light, response to far red light; LOCATED IN: in 10 components; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: L mature pollen stage, M germinated pollen stage, seedling growth; CONTAINS InterPro DOMAIN/s: Ribulose bisphosphate carboxylase, small chain (InterPro:IPR000894); BEST Arabidopsis thaliana protein match is: ribulose bisphosphate carboxylase small chain 1B / RuBisCO small subunit 1B (RBCS-1B) (ATS1B) (TAIR:AT5G38430.1); Has 1759 Blast hits to 1738 proteins in 405 species: Archae - 0; Bacteria - 340; Metazoa - 0; Fungi - 0; Plants - 872; Viruses - 0; Other Eukaryotes - 547 (source: NCBI BLink).

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Overview

Focused view (chromosome 1: 25050249-25049050)

`Genome position from initiation codon` `AT1G67090.1 AT1G67090.2 TSS from cDNA TSS information AT1G67090 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 AT1G67090

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 18460 - 25049275 -26

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	18460	-	25049275	-26

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone - 25049323 -74

TSS clone T clone - 25049277 -28

TSS clone C clone - 25049276 -27

TSS clone A clone - 25049275 -26

TSS clone G clone - 25049274 -25

TSS clone T clone - 25049273 -24

TSS clone A clone - 25049271 -22

TSS clone C clone - 25049270 -21

TSS clone C clone - 25049268 -19

TSS clone A clone - 25049267 -18

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	-	25049323	-74
TSS clone	`T`	clone	-	25049277	-28
TSS clone	`C`	clone	-	25049276	-27
TSS clone	`A`	clone	-	25049275	-26
TSS clone	`G`	clone	-	25049274	-25
TSS clone	`T`	clone	-	25049273	-24
TSS clone	`A`	clone	-	25049271	-22
TSS clone	`C`	clone	-	25049270	-21
TSS clone	`C`	clone	-	25049268	-19
TSS clone	`A`	clone	-	25049267	-18

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 ATTATATATAGA - 25049301 25049312 -52 -63

Y Patch CTCTCTTCC - 25049226 25049234 23 15

Y Patch CTTCCTCT - 25049238 25049245 11 4

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	`ATTATATATAGA`	-	25049301	25049312	-52	-63
Y Patch	`CTCTCTTCC`	-	25049226	25049234	23	15
Y Patch	`CTTCCTCT`	-	25049238	25049245	11	4
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 ATCCAACGG - 25049391 25049399 -142 -150

AtREG586 ATCCAACG PPDB Motif CCAACGG PLACE Motif

AtREG554 TCCAACGG PPDB Motif CCAACGG PLACE Motif YAACKG, CNGTTR

REG CTTAGGCCTTTG - 25049446 25049457 -197 -208

AtREG563 CTTAGGCC     PPDB Motif PLACE Motif

AtREG656     GGCCTTTG PPDB Motif PLACE Motif

REG CGGTTCAA - 25049483 25049490 -234 -241

AtREG640 CGGTTCAA PPDB Motif AACCG(G/A) PLACE Motif

REG TTCCACGTGGCAT - 25049499 25049511 -250 -262

AtREG627 TTCCACGT      PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG408 TCCACGTG     ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG

AtREG367    CACGTGGC   ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, CACGTG, ACGTGKC, CACGTGGC

AtREG379     ACGTGGCA ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG448      CGTGGCAT ABA, DREB1Aox PPDB Motif PLACE Motif GCCAC

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`ATCCAACGG`		-	25049391	25049399	-142	-150
	AtREG586	`ATCCAACG`		PPDB Motif	`CCAACGG`	PLACE Motif
	AtREG554	`TCCAACGG`		PPDB Motif	`CCAACGG`	PLACE Motif	`YAACKG, CNGTTR`
REG	`CTTAGGCCTTTG`		-	25049446	25049457	-197	-208
	AtREG563	`CTTAGGCC`		PPDB Motif		PLACE Motif
	AtREG656	`GGCCTTTG`		PPDB Motif		PLACE Motif
REG	`CGGTTCAA`		-	25049483	25049490	-234	-241
	AtREG640	`CGGTTCAA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`TTCCACGTGGCAT`		-	25049499	25049511	-250	-262
	AtREG627	`TTCCACGT`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG408	`TCCACGTG`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, CACGTG`
	AtREG367	`CACGTGGC`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, CACGTG, ACGTGKC, CACGTGGC`
	AtREG379	`ACGTGGCA`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG448	`CGTGGCAT`	ABA, DREB1Aox	PPDB Motif		PLACE Motif	`GCCAC`

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