PlantPromoterDB promoter information of AT1G75560.1

Summary of Gene (AT1G75560.1)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G75560 TAIR NCBI
Gene model	AT1G75560.1
Description	zinc knuckle (CCHC-type) family protein; FUNCTIONS IN: zinc ion binding, nucleic acid binding; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Zinc finger, CCHC-type (InterPro:IPR001878), Zinc finger, CCHC retroviral-type (InterPro:IPR013084); BEST Arabidopsis thaliana protein match is: CSDP1 (cold shock domain protein 1); RNA binding / double-stranded DNA binding / nucleic acid binding / single-stranded DNA binding (TAIR:AT4G36020.1); Has 10551 Blast hits to 6586 proteins in 284 species: Archae - 0; Bacteria - 4; Metazoa - 1615; Fungi - 963; Plants - 500; Viruses - 6839; Other Eukaryotes - 630 (source: NCBI BLink).

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Overview

Focused view (chromosome 1: 28373717-28372518)

`Genome position from initiation codon` `AT1G75560.2 AT1G75570 AT1G75570.1 TSS from cDNA TSS information AT1G75560.1 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 AT1G75560.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 18 - 28373241 -524

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	18	-	28373241	-524

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone G clone - 28373241 -524

TSS clone G clone - 28373240 -523

TSS clone T clone - 28373237 -520

TSS clone A clone - 28373232 -515

TSS clone G clone - 28373231 -514

TSS clone A clone - 28373230 -513

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`G`	clone	-	28373241	-524
TSS clone	`G`	clone	-	28373240	-523
TSS clone	`T`	clone	-	28373237	-520
TSS clone	`A`	clone	-	28373232	-515
TSS clone	`G`	clone	-	28373231	-514
TSS clone	`A`	clone	-	28373230	-513

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 AAAAAGCCCAGCCCAAA - 28373285 28373301 -568 -584

AtREG589 AAAAAGCC          PPDB Motif PLACE Motif

AtREG409 AAAAGCCC         PPDB Motif GCCCA PLACE Motif

AtREG376   AAAGCCCA        PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG454      GCCCAGCC     PPDB Motif GCCCA PLACE Motif

AtREG469          AGCCCAAA PPDB Motif GCCCA PLACE Motif TGGGCY

REG TAAAAGCCCAT - 28373322 28373332 -605 -615

AtREG549 TAAAAGCC    PPDB Motif PLACE Motif

AtREG409 AAAAGCCC   PPDB Motif GCCCA PLACE Motif

AtREG376   AAAGCCCA PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG378    AAGCCCAT PPDB Motif GCCCA PLACE Motif TGGGCY

REG TCAGCCCA - 28373336 28373343 -619 -626

AtREG609 TCAGCCCA PPDB Motif GCCCA PLACE Motif TGGGCY

REG TTCCACGTG - 28373412 28373420 -695 -703

AtREG627 TTCCACGT PPDB Motif ACGT PLACE Motif ACGT, ACGTG

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

REG TAAATGGGCTATTGGGCTTTA - 28373435 28373455 -718 -738

AtREG443 TAAATGGG              PPDB Motif GCCCA PLACE Motif

AtREG386 AAATGGGC             PPDB Motif GCCCA PLACE Motif

AtREG372   AATGGGCT            PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG581    ATGGGCTA           PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG584      GGGCTATT         PPDB Motif GCCCA PLACE Motif

AtREG624         CTATTGGG      PPDB Motif GCCCA PLACE Motif

AtREG355          TATTGGGC     PPDB Motif GCCCA PLACE Motif

AtREG402           ATTGGGCT    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407            TTGGGCTT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG376             TGGGCTTT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG365              GGGCTTTA PPDB Motif GCCCA PLACE Motif

REG GACCCGGG - 28373509 28373516 -792 -799

AtREG593 GACCCGGG PPDB Motif GGGACCC PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`AAAAAGCCCAGCCCAAA`		-	28373285	28373301	-568	-584
	AtREG589	`AAAAAGCC`		PPDB Motif		PLACE Motif
	AtREG409	`AAAAGCCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG376	`AAAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG454	`GCCCAGCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG469	`AGCCCAAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
REG	`TAAAAGCCCAT`		-	28373322	28373332	-605	-615
	AtREG549	`TAAAAGCC`		PPDB Motif		PLACE Motif
	AtREG409	`AAAAGCCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG376	`AAAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG378	`AAGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
REG	`TCAGCCCA`		-	28373336	28373343	-619	-626
	AtREG609	`TCAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
REG	`TTCCACGTG`		-	28373412	28373420	-695	-703
	AtREG627	`TTCCACGT`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG408	`TCCACGTG`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, CACGTG`
REG	`TAAATGGGCTATTGGGCTTTA`		-	28373435	28373455	-718	-738
	AtREG443	`TAAATGGG`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG386	`AAATGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG372	`AATGGGCT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG581	`ATGGGCTA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG584	`GGGCTATT`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG624	`CTATTGGG`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG355	`TATTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG402	`ATTGGGCT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG407	`TTGGGCTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG376	`TGGGCTTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG365	`GGGCTTTA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`GACCCGGG`		-	28373509	28373516	-792	-799
	AtREG593	`GACCCGGG`		PPDB Motif	`GGGACCC`	PLACE Motif

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