PlantPromoterDB promoter information of AT5G23090.2

Summary of Gene (AT5G23090.2)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G23090 TAIR NCBI
Gene model	AT5G23090.2
Description	NUCLEAR FACTOR Y, SUBUNIT B13 (NF-YB13); FUNCTIONS IN: transcription factor activity; INVOLVED IN: regulation of transcription; LOCATED IN: nucleus; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Transcription factor CBF/NF-Y/archaeal histone (InterPro:IPR003958), Histone-fold (InterPro:IPR009072); BEST Arabidopsis thaliana protein match is: NF-YB12 (NUCLEAR FACTOR Y, SUBUNIT B12); DNA binding / transcription factor (TAIR:AT5G08190.1); Has 987 Blast hits to 987 proteins in 177 species: Archae - 0; Bacteria - 0; Metazoa - 384; Fungi - 235; Plants - 292; Viruses - 0; Other Eukaryotes - 76 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 7748391-7749590)

`Genome position from initiation codon` `AT5G23090.1 AT5G23090.3 AT5G23090.4 TSS from cDNA TSS information AT5G23090.2 5'->3' (+) Promoter sequence AT5G23080.1 AT5G23080.2 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 AT5G23090.2

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
Not Available	Not Available	Not Available	Not Available	Not Available

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone peak T clone + 7749070 -321

TSS clone peak C clone + 7749119 -272

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone peak	`T`	clone	+	7749070	-321
TSS clone peak	`C`	clone	+	7749119	-272

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 TTGCTATA + 7749047 7749054 -344 -337

Y Patch CTTCTTCC + 7749124 7749131 -267 -260

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	`TTGCTATA`	+	7749047	7749054	-344	-337
Y Patch	`CTTCTTCC`	+	7749124	7749131	-267	-260
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 TCTGGGCCTGGTTCGGGTC + 7748993 7749011 -398 -380

AtREG397 TCTGGGCC            PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG410 CTGGGCCT           PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG370   TGGGCCTG          PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG619    GGGCCTGG         PPDB Motif GCCCA PLACE Motif GGGCC

AtREG655         TGGTTCGG    PPDB Motif PLACE Motif

AtREG597            TTCGGGTC PPDB Motif GGGACCC PLACE Motif

REG TTCGGCCCATTAG + 7749016 7749028 -375 -363

AtREG427 TTCGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG393 TCGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG380   CGGCCCAT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG361    GGCCCATT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG357     GCCCATTA PPDB Motif GCCCA PLACE Motif

AtREG558      CCCATTAG PPDB Motif GCCCA PLACE Motif

REG TTCACGCGCC + 7749072 7749081 -319 -310

AtREG631 TTCACGCG   Drought PPDB Motif PLACE Motif

AtREG395 TCACGCGC PPDB Motif ACGCGC PLACE Motif

AtREG486   CACGCGCC PPDB Motif ACGCGC PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TCTGGGCCTGGTTCGGGTC`		+	7748993	7749011	-398	-380
	AtREG397	`TCTGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG410	`CTGGGCCT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG370	`TGGGCCTG`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG619	`GGGCCTGG`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG655	`TGGTTCGG`		PPDB Motif		PLACE Motif
	AtREG597	`TTCGGGTC`		PPDB Motif	`GGGACCC`	PLACE Motif
REG	`TTCGGCCCATTAG`		+	7749016	7749028	-375	-363
	AtREG427	`TTCGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG393	`TCGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG380	`CGGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG361	`GGCCCATT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG357	`GCCCATTA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG558	`CCCATTAG`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`TTCACGCGCC`		+	7749072	7749081	-319	-310
	AtREG631	`TTCACGCG`	Drought	PPDB Motif		PLACE Motif
	AtREG395	`TCACGCGC`		PPDB Motif	`ACGCGC`	PLACE Motif
	AtREG486	`CACGCGCC`		PPDB Motif	`ACGCGC`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 8 - 7748947 AT5G23080.1, AT5G23080.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	8	-	7748947	AT5G23080.1, AT5G23080.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone G clone - 7748928 AT5G23080.1, AT5G23080.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`G`	clone	-	7748928	AT5G23080.1, AT5G23080.2

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 CTTCTTCTTCTTCTCTCT - 7748948 7748965 AT5G23080.1, AT5G23080.2

Y Patch TCTCCTCC - 7748983 7748990 AT5G23080.1, AT5G23080.2

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	None	None	None
Y Patch	`CTTCTTCTTCTTCTCTCT`	-	7748948	7748965	AT5G23080.1, AT5G23080.2
Y Patch	`TCTCCTCC`	-	7748983	7748990	AT5G23080.1, AT5G23080.2
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG GACCCGAACCAGGCCCAGA - 7748993 7749011 AT5G23080.1, AT5G23080.2

AtREG597 GACCCGAA            PPDB Motif GGGACCC PLACE Motif

AtREG655    CCGAACCA         PPDB Motif PLACE Motif

AtREG619         CCAGGCCC    PPDB Motif GCCCA PLACE Motif GGGCC

AtREG370          CAGGCCCA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG410           AGGCCCAG PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG397            GGCCCAGA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG CTAATGGGCCGAA - 7749016 7749028 AT5G23080.1, AT5G23080.2

AtREG558 CTAATGGG      PPDB Motif GCCCA PLACE Motif

AtREG357 TAATGGGC     PPDB Motif GCCCA PLACE Motif

AtREG361   AATGGGCC    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

AtREG427      GGGCCGAA PPDB Motif GCCCA PLACE Motif GGGCC

REG CGGCGCGTGAA - 7749072 7749082 AT5G23080.1, AT5G23080.2

AtREG538 CGGCGCGT    PPDB Motif ACGCGC PLACE Motif

AtREG486 GGCGCGTG   PPDB Motif ACGCGC PLACE Motif

AtREG395   GCGCGTGA PPDB Motif ACGCGC PLACE Motif

AtREG631    CGCGTGAA Drought PPDB Motif PLACE Motif

REG AAGCGCGTGAA - 7749111 7749121 AT5G23080.1, AT5G23080.2

AtREG492 AAGCGCGT    PPDB Motif ACGCGC PLACE Motif

AtREG381 AGCGCGTG   PPDB Motif ACGCGC PLACE Motif

AtREG395   GCGCGTGA PPDB Motif ACGCGC PLACE Motif

AtREG631    CGCGTGAA Drought PPDB Motif PLACE Motif

REG GTCGTTTA - 7749140 7749147 AT5G23080.1, AT5G23080.2

AtREG565 GTCGTTTA PPDB Motif PLACE Motif