PlantPromoterDB promoter information of AT3G46020.1

Summary of Gene (AT3G46020.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G46020 TAIR NCBI
Gene model	AT3G46020.1
Description	RNA-binding protein, putative; FUNCTIONS IN: RNA binding, nucleotide binding, nucleic acid binding; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 17 plant structures; EXPRESSED DURING: 12 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677); BEST Arabidopsis thaliana protein match is: RNA recognition motif (RRM)-containing protein (TAIR:AT5G59860.1); Has 20832 Blast hits to 15264 proteins in 631 species: Archae - 8; Bacteria - 979; Metazoa - 12428; Fungi - 2358; Plants - 2944; Viruses - 0; Other Eukaryotes - 2115 (source: NCBI BLink).

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Overview

Focused view (chromosome 3: 16914250-16913051)

`Genome position from initiation codon` `AT3G46030.1 TSS from cDNA TSS information AT3G46020.1 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 AT3G46020.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 33 - 16914131 -881

TSS peak G 4 - 16913265 -15

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	33	-	16914131	-881
TSS peak	`G`	4	-	16913265	-15

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone C clone - 16914132 -882

TSS clone A clone - 16914130 -880

TSS clone T clone - 16913795 -545

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`C`	clone	-	16914132	-882
TSS clone	`A`	clone	-	16914130	-880
TSS clone	`T`	clone	-	16913795	-545

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 TCATATATATACA - 16914154 16914166 -904 -916

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	`TCATATATATACA`	-	16914154	16914166	-904	-916
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 AAAACGGCGTCGT - 16913324 16913336 -74 -86

AtREG531 AAAACGGC      PPDB Motif AAACG(C/G) PLACE Motif

AtREG524 AAACGGCG     PPDB Motif AAACG(C/G) PLACE Motif

AtREG497   AACGGCGT    PPDB Motif AAACG(C/G), CCAACGG PLACE Motif

AtREG540    ACGGCGTC   PPDB Motif PLACE Motif

AtREG537      GGCGTCGT PPDB Motif PLACE Motif

REG ACGTCGTCGTTTC - 16913360 16913372 -110 -122

AtREG526 ACGTCGTC      PPDB Motif ACGT PLACE Motif ACGT

AtREG648    TCGTCGTT   PPDB Motif PLACE Motif

AtREG415     CGTCGTTT PPDB Motif PLACE Motif

AtREG576      GTCGTTTC PPDB Motif PLACE Motif

REG TTCCACGTCATC - 16914212 16914223 -962 -973

AtREG627 TTCCACGT     PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG419   CCACGTCA   PPDB Motif ACGT PLACE Motif ACGT, ACGTG, TGACGTGG, CCACGTCA

AtREG483    CACGTCAT PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG578     ACGTCATC ABA PPDB Motif ACGT PLACE Motif ACGT

REG CTAACGGT - 16914234 16914241 -984 -991

AtREG603 CTAACGGT PPDB Motif PLACE Motif YAACKG, CNGTTR

REG CTTAATGGCCCATTTA - 16914294 16914309 -1044 -1059

AtREG604 CTTAATGG         PPDB Motif PLACE Motif TTAATGG

AtREG437     ATGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG490      TGGCCCAT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG361       GGCCCATT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG386        GCCCATTT PPDB Motif GCCCA PLACE Motif

AtREG443         CCCATTTA PPDB Motif GCCCA PLACE Motif

REG GCCCGTTAAA - 16914342 16914351 -1092 -1101

AtREG399 GCCCGTTA   PPDB Motif ACGGGC PLACE Motif YAACKG, CNGTTR

AtREG610   CCGTTAAA PPDB Motif PLACE Motif YAACKG, CNGTTR

REG TAAGCCCATTT - 16914354 16914364 -1104 -1114

AtREG426 TAAGCCCA    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG378 AAGCCCAT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG372   AGCCCATT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG386    GCCCATTT PPDB Motif GCCCA PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`AAAACGGCGTCGT`		-	16913324	16913336	-74	-86
	AtREG531	`AAAACGGC`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
	AtREG524	`AAACGGCG`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
	AtREG497	`AACGGCGT`		PPDB Motif	`AAACG(C/G), CCAACGG`	PLACE Motif
	AtREG540	`ACGGCGTC`		PPDB Motif		PLACE Motif
	AtREG537	`GGCGTCGT`		PPDB Motif		PLACE Motif
REG	`ACGTCGTCGTTTC`		-	16913360	16913372	-110	-122
	AtREG526	`ACGTCGTC`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT`
	AtREG648	`TCGTCGTT`		PPDB Motif		PLACE Motif
	AtREG415	`CGTCGTTT`		PPDB Motif		PLACE Motif
	AtREG576	`GTCGTTTC`		PPDB Motif		PLACE Motif
REG	`TTCCACGTCATC`		-	16914212	16914223	-962	-973
	AtREG627	`TTCCACGT`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG419	`CCACGTCA`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, TGACGTGG, CCACGTCA`
	AtREG483	`CACGTCAT`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG578	`ACGTCATC`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT`
REG	`CTAACGGT`		-	16914234	16914241	-984	-991
	AtREG603	`CTAACGGT`		PPDB Motif		PLACE Motif	`YAACKG, CNGTTR`
REG	`CTTAATGGCCCATTTA`		-	16914294	16914309	-1044	-1059
	AtREG604	`CTTAATGG`		PPDB Motif		PLACE Motif	`TTAATGG`
	AtREG437	`ATGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG490	`TGGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG361	`GGCCCATT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG386	`GCCCATTT`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG443	`CCCATTTA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`GCCCGTTAAA`		-	16914342	16914351	-1092	-1101
	AtREG399	`GCCCGTTA`		PPDB Motif	`ACGGGC`	PLACE Motif	`YAACKG, CNGTTR`
	AtREG610	`CCGTTAAA`		PPDB Motif		PLACE Motif	`YAACKG, CNGTTR`
REG	`TAAGCCCATTT`		-	16914354	16914364	-1104	-1114
	AtREG426	`TAAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG378	`AAGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG372	`AGCCCATT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG386	`GCCCATTT`		PPDB Motif	`GCCCA`	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