PlantPromoterDB promoter information of AT4G14890.1

Summary of Gene (AT4G14890.1)

Organism	Arabidopsis thaliana
Chromosome	4
Locus	AT4G14890 TAIR NCBI
Gene model	AT4G14890.1
Description	ferredoxin family protein; FUNCTIONS IN: electron carrier activity, iron-sulfur cluster binding, 2 iron, 2 sulfur cluster binding; INVOLVED IN: electron transport chain; LOCATED IN: chloroplast; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Ferredoxin (InterPro:IPR001041), Ferredoxin [2Fe-2S], plant (InterPro:IPR010241), Beta-grasp fold, ferredoxin-type (InterPro:IPR012675); BEST Arabidopsis thaliana protein match is: ATFD3 (ferredoxin 3); 2 iron, 2 sulfur cluster binding / electron carrier/ iron-sulfur cluster binding (TAIR:AT2G27510.1); Has 3979 Blast hits to 3977 proteins in 721 species: Archae - 45; Bacteria - 2406; Metazoa - 8; Fungi - 2; Plants - 434; Viruses - 2; Other Eukaryotes - 1082 (source: NCBI BLink).

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Overview

Focused view (chromosome 4: 8519887-8521086)

`Genome position from initiation codon` `TSS from cDNA TSS information AT4G14890.1 5'->3' (+) Promoter sequence AT4G14880.1 AT4G14880.2 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 AT4G14890.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 10 + 8520866 -21

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	10	+	8520866	-21

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone + 8520832 -55

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	+	8520832	-55

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 CGTCTCTC + 8520871 8520878 -16 -9

Y Patch TCTCTCAT + 8520881 8520888 -6 1

Y Patch CTCTTCCTCTCC + 8520894 8520905 7 18

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	`CGTCTCTC`	+	8520871	8520878	-16	-9
Y Patch	`TCTCTCAT`	+	8520881	8520888	-6	1
Y Patch	`CTCTTCCTCTCC`	+	8520894	8520905	7	18
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 TTCGGTTT + 8520572 8520579 -315 -308

AtREG568 TTCGGTTT PPDB Motif AACCG(G/A) PLACE Motif

REG TAATTACG + 8520672 8520679 -215 -208

AtREG646 TAATTACG ABA PPDB Motif PLACE Motif

REG TTCGGTTTAA + 8520725 8520734 -162 -153

AtREG568 TTCGGTTT   PPDB Motif AACCG(G/A) PLACE Motif

AtREG514 TCGGTTTA PPDB Motif AACCG(G/A) PLACE Motif

AtREG473   CGGTTTAA PPDB Motif AACCG(G/A) PLACE Motif

REG TTCGGTTTAAGTCGGTTTTCGGTTT + 8520748 8520772 -139 -115

AtREG568 TTCGGTTT         TTCGGTTT PPDB Motif AACCG(G/A) PLACE Motif

AtREG514 TCGGTTTA                 PPDB Motif AACCG(G/A) PLACE Motif

AtREG473   CGGTTTAA                PPDB Motif AACCG(G/A) PLACE Motif

AtREG582        TAAGTCGG           PPDB Motif CCGAC PLACE Motif CCGAC

AtREG641          AGTCGGTT         PPDB Motif AACCG(G/A), CCGAC PLACE Motif CCGAC, RCCGAC

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TTCGGTTT`		+	8520572	8520579	-315	-308
	AtREG568	`TTCGGTTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`TAATTACG`		+	8520672	8520679	-215	-208
	AtREG646	`TAATTACG`	ABA	PPDB Motif		PLACE Motif
REG	`TTCGGTTTAA`		+	8520725	8520734	-162	-153
	AtREG568	`TTCGGTTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG514	`TCGGTTTA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG473	`CGGTTTAA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`TTCGGTTTAAGTCGGTTTTCGGTTT`		+	8520748	8520772	-139	-115
	AtREG568	`TTCGGTTT TTCGGTTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG514	`TCGGTTTA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG473	`CGGTTTAA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG582	`TAAGTCGG`		PPDB Motif	`CCGAC`	PLACE Motif	`CCGAC`
	AtREG641	`AGTCGGTT`		PPDB Motif	`AACCG(G/A), CCGAC`	PLACE Motif	`CCGAC, RCCGAC`

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 34 - 8520395 AT4G14880.1, AT4G14880.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	34	-	8520395	AT4G14880.1, AT4G14880.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone A clone - 8520468 AT4G14880.1, AT4G14880.2

TSS clone A clone - 8520467 AT4G14880.1, AT4G14880.2

TSS clone C clone - 8520437 AT4G14880.1, AT4G14880.2

TSS clone C clone - 8520398 AT4G14880.1, AT4G14880.2

TSS clone A clone - 8520397 AT4G14880.1, AT4G14880.2

TSS clone T clone - 8520396 AT4G14880.1, AT4G14880.2

TSS clone A clone - 8520395 AT4G14880.1, AT4G14880.2

TSS clone C clone - 8520394 AT4G14880.1, AT4G14880.2

TSS clone A clone - 8520354 AT4G14880.1, AT4G14880.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`A`	clone	-	8520468	AT4G14880.1, AT4G14880.2
TSS clone	`A`	clone	-	8520467	AT4G14880.1, AT4G14880.2
TSS clone	`C`	clone	-	8520437	AT4G14880.1, AT4G14880.2
TSS clone	`C`	clone	-	8520398	AT4G14880.1, AT4G14880.2
TSS clone	`A`	clone	-	8520397	AT4G14880.1, AT4G14880.2
TSS clone	`T`	clone	-	8520396	AT4G14880.1, AT4G14880.2
TSS clone	`A`	clone	-	8520395	AT4G14880.1, AT4G14880.2
TSS clone	`C`	clone	-	8520394	AT4G14880.1, AT4G14880.2
TSS clone	`A`	clone	-	8520354	AT4G14880.1, AT4G14880.2

Core promoter information

Type Sequence Genome position Gene model

Strand Start End

initiator Not Available Not Available Not Available

TATA Box TCATATATCT - 8520420 8520429 AT4G14880.1, AT4G14880.2

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	`TCATATATCT`	-	8520420	8520429	AT4G14880.1, AT4G14880.2
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 CGCGTTTT - 8520472 8520479 AT4G14880.1, AT4G14880.2

AtREG566 CGCGTTTT PPDB Motif AAACG(C/G) PLACE Motif

REG TTAACCGGAC - 8520536 8520545 AT4G14880.1, AT4G14880.2

AtREG501 TTAACCGG PPDB Motif AACCG(G/A) PLACE Motif CNGTTR

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

AtREG573 AACCGGAC PPDB Motif AACCG(G/A) PLACE Motif

REG AAACCGAA - 8520572 8520579 AT4G14880.1, AT4G14880.2

AtREG568 AAACCGAA PPDB Motif AACCG(G/A) PLACE Motif

REG CGTAATTA - 8520672 8520679 AT4G14880.1, AT4G14880.2

AtREG646 CGTAATTA ABA PPDB Motif PLACE Motif