PlantPromoterDB promoter information of AT4G19130.1

Summary of Gene (AT4G19130.1)

Organism	Arabidopsis thaliana
Chromosome	4
Locus	AT4G19130 TAIR NCBI
Gene model	AT4G19130.1
Description	DNA binding / nucleic acid binding / zinc ion binding; FUNCTIONS IN: DNA binding, zinc ion binding, nucleic acid binding; INVOLVED IN: DNA replication; LOCATED IN: nucleus; EXPRESSED IN: sperm cell, flower; EXPRESSED DURING: petal differentiation and expansion stage; CONTAINS InterPro DOMAIN/s: Nucleic acid-binding, OB-fold (InterPro:IPR012340), Nucleic acid binding, OB-fold, tRNA/helicase-type (InterPro:IPR004365), Replication factor-A, C-terminal (InterPro:IPR013955), Replication factor-a protein 1 Rpa1 (InterPro:IPR004591), Nucleic acid-binding, OB-fold-like (InterPro:IPR016027), Zinc finger, CCHC-type (InterPro:IPR001878), Replication factor-A protein 1, N-terminal (InterPro:IPR007199); BEST Arabidopsis thaliana protein match is: replication protein, putative (TAIR:AT5G45400.1); Has 609 Blast hits to 584 proteins in 169 species: Archae - 16; Bacteria - 0; Metazoa - 189; Fungi - 98; Plants - 176; Viruses - 0; Other Eukaryotes - 130 (source: NCBI BLink).

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Overview

Focused view (chromosome 4: 10470092-10468893)

`Genome position from initiation codon` `TSS from cDNA TSS information AT4G19130.1 5'->3' (-) Promoter sequence AT4G19140.1 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 AT4G19130.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 8 - 10469317 -225

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	8	-	10469317	-225

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
Not Available	Not Available	Not Available	Not Available	Not Available

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 TCTTCTTC - 10469268 10469275 -176 -183

Y Patch TTCCCTCTC - 10469331 10469339 -239 -247

Y Patch CCTCCTTCT - 10469345 10469353 -253 -261

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	`TCTTCTTC`	-	10469268	10469275	-176	-183
Y Patch	`TTCCCTCTC`	-	10469331	10469339	-239	-247
Y Patch	`CCTCCTTCT`	-	10469345	10469353	-253	-261
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 AAATGGGCCTATA - 10469474 10469486 -382 -394

AtREG386 AAATGGGC      PPDB Motif GCCCA PLACE Motif

AtREG361 AATGGGCC     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354   ATGGGCCT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG358    TGGGCCTA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG362     GGGCCTAT PPDB Motif GCCCA PLACE Motif GGGCC

AtREG487      GGCCTATA PPDB Motif PLACE Motif

REG TTTTGGGCCTT - 10469488 10469498 -396 -406

AtREG529 TTTTGGGC    PPDB Motif GCCCA PLACE Motif

AtREG373 TTTGGGCC   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356   TTGGGCCT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG353    TGGGCCTT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG TTGCCACGTCTTCCACGT - 10469520 10469537 -428 -445

AtREG452 TTGCCACG           PPDB Motif PLACE Motif GCCAC

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

AtREG388   GCCACGTC         PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG627           TTCCACGT PPDB Motif ACGT PLACE Motif ACGT, ACGTG

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`AAATGGGCCTATA`		-	10469474	10469486	-382	-394
	AtREG386	`AAATGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG361	`AATGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG354	`ATGGGCCT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG358	`TGGGCCTA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG362	`GGGCCTAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG487	`GGCCTATA`		PPDB Motif		PLACE Motif
REG	`TTTTGGGCCTT`		-	10469488	10469498	-396	-406
	AtREG529	`TTTTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG373	`TTTGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG356	`TTGGGCCT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG353	`TGGGCCTT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
REG	`TTGCCACGTCTTCCACGT`		-	10469520	10469537	-428	-445
	AtREG452	`TTGCCACG`		PPDB Motif		PLACE Motif	`GCCAC`
	AtREG379	`TGCCACGT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG388	`GCCACGTC`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG627	`TTCCACGT`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`

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

TSS clone C clone + 10469632 AT4G19140.1

TSS clone T clone + 10469634 AT4G19140.1

TSS clone peak A clone + 10469678 AT4G19140.1

TSS clone A clone + 10469688 AT4G19140.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`C`	clone	+	10469632	AT4G19140.1
TSS clone	`T`	clone	+	10469634	AT4G19140.1
TSS clone peak	`A`	clone	+	10469678	AT4G19140.1
TSS clone	`A`	clone	+	10469688	AT4G19140.1

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 TATAGGCCCATTT + 10469474 10469486 AT4G19140.1

AtREG487 TATAGGCC      PPDB Motif PLACE Motif

AtREG362 ATAGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG358   TAGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354    AGGCCCAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG361     GGCCCATT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG386      GCCCATTT PPDB Motif GCCCA PLACE Motif

REG AAGGCCCAAAA + 10469488 10469498 AT4G19140.1

AtREG353 AAGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356 AGGCCCAA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG373   GGCCCAAA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG529    GCCCAAAA PPDB Motif GCCCA PLACE Motif

REG ACGTGGAAGACGTGGCAA + 10469520 10469537 AT4G19140.1

AtREG627 ACGTGGAA           PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG388         GACGTGGC   PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

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

AtREG452           CGTGGCAA PPDB Motif PLACE Motif GCCAC