PlantPromoterDB promoter information of AT4G21100.1

Summary of Gene (AT4G21100.1)

Organism	Arabidopsis thaliana
Chromosome	4
Locus	AT4G21100 TAIR NCBI
Gene model	AT4G21100.1
Description	One of two closely related genes similar to a damaged DNA binding protein originally described in mammals. May form a complex with DET1 to regulate photomorphogenesis. Loss of function mutations are lethal. The DDB1b protein binds with a number of DWD-containing proteins and may form part of a CUL4-based E3 ubiquitin ligase.

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Overview

Focused view (chromosome 4: 11266309-11265110)

`Genome position from initiation codon` `TSS from cDNA TSS information AT4G21100.1 5'->3' (-) Promoter sequence AT4G21105.1 AT4G21105.2 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 AT4G21100.1

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 T clone - 11265462 -153

TSS clone peak T clone - 11265447 -138

TSS clone G clone - 11265420 -111

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	-	11265462	-153
TSS clone peak	`T`	clone	-	11265447	-138
TSS clone	`G`	clone	-	11265420	-111

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 TCTCTTTCTCT - 11265433 11265443 -124 -134

Y Patch CCTCCTCTCTCCC - 11265459 11265471 -150 -162

Y Patch TTCTTCTTC - 11265473 11265481 -164 -172

Y Patch TTCTTCTT - 11265493 11265500 -184 -191

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	`TCTCTTTCTCT`	-	11265433	11265443	-124	-134
Y Patch	`CCTCCTCTCTCCC`	-	11265459	11265471	-150	-162
Y Patch	`TTCTTCTTC`	-	11265473	11265481	-164	-172
Y Patch	`TTCTTCTT`	-	11265493	11265500	-184	-191
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 TGAACCGGC - 11265503 11265511 -194 -202

AtREG480 TGAACCGG PPDB Motif AACCG(G/A) PLACE Motif

AtREG637 GAACCGGC PPDB Motif AACCG(G/A) PLACE Motif

REG CCAAACCGGAA - 11265544 11265554 -235 -245

AtREG550 CCAAACCG    PPDB Motif AACCG(G/A) PLACE Motif

AtREG496 CAAACCGG   PPDB Motif AACCG(G/A) PLACE Motif

AtREG521   AAACCGGA PPDB Motif AACCG(G/A) PLACE Motif

AtREG534    AACCGGAA PPDB Motif AACCG(G/A) PLACE Motif

REG CAATTGGGCCGGGCCGAA - 11265592 11265609 -283 -300

AtREG647 CAATTGGG           PPDB Motif PLACE Motif

AtREG418 AATTGGGC          PPDB Motif GCCCA PLACE Motif

AtREG352   ATTGGGCC         PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG414    TTGGGCCG        PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG457     TGGGCCGG       CK PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG404      GGGCCGGG      CK PPDB Motif GCCCA PLACE Motif GGGCC

AtREG427           GGGCCGAA PPDB Motif GCCCA PLACE Motif GGGCC

REG CGCAGCGT - 11265686 11265693 -377 -384

AtREG369 CGCAGCGT PPDB Motif PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TGAACCGGC`		-	11265503	11265511	-194	-202
	AtREG480	`TGAACCGG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG637	`GAACCGGC`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`CCAAACCGGAA`		-	11265544	11265554	-235	-245
	AtREG550	`CCAAACCG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG496	`CAAACCGG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG521	`AAACCGGA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG534	`AACCGGAA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`CAATTGGGCCGGGCCGAA`		-	11265592	11265609	-283	-300
	AtREG647	`CAATTGGG`		PPDB Motif		PLACE Motif
	AtREG418	`AATTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG352	`ATTGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG414	`TTGGGCCG`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG457	`TGGGCCGG`	CK	PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG404	`GGGCCGGG`	CK	PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG427	`GGGCCGAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
REG	`CGCAGCGT`		-	11265686	11265693	-377	-384
	AtREG369	`CGCAGCGT`		PPDB Motif		PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 13 + 11265665 AT4G21105.1, AT4G21105.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	13	+	11265665	AT4G21105.1, AT4G21105.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone G clone + 11265651 AT4G21105.1, AT4G21105.2

TSS clone C clone + 11265652 AT4G21105.1, AT4G21105.2

TSS clone G clone + 11265658 AT4G21105.1, AT4G21105.2

TSS clone T clone + 11265659 AT4G21105.1, AT4G21105.2

TSS clone T clone + 11265661 AT4G21105.1, AT4G21105.2

TSS clone G clone + 11265668 AT4G21105.1, AT4G21105.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`G`	clone	+	11265651	AT4G21105.1, AT4G21105.2
TSS clone	`C`	clone	+	11265652	AT4G21105.1, AT4G21105.2
TSS clone	`G`	clone	+	11265658	AT4G21105.1, AT4G21105.2
TSS clone	`T`	clone	+	11265659	AT4G21105.1, AT4G21105.2
TSS clone	`T`	clone	+	11265661	AT4G21105.1, AT4G21105.2
TSS clone	`G`	clone	+	11265668	AT4G21105.1, AT4G21105.2

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 TCTCTCCCTCTC + 11265698 11265709 AT4G21105.1, AT4G21105.2

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	`TCTCTCCCTCTC`	+	11265698	11265709	AT4G21105.1, AT4G21105.2
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG GCCGGTTCA + 11265503 11265511 AT4G21105.1, AT4G21105.2

AtREG637 GCCGGTTC PPDB Motif AACCG(G/A) PLACE Motif

AtREG480 CCGGTTCA PPDB Motif AACCG(G/A) PLACE Motif

REG TTCCGGTTTGG + 11265544 11265554 AT4G21105.1, AT4G21105.2

AtREG534 TTCCGGTT    PPDB Motif AACCG(G/A) PLACE Motif

AtREG521 TCCGGTTT   PPDB Motif AACCG(G/A) PLACE Motif

AtREG496   CCGGTTTG PPDB Motif AACCG(G/A) PLACE Motif

AtREG550    CGGTTTGG PPDB Motif AACCG(G/A) PLACE Motif

REG TTCGGCCCGGCCCAATTG + 11265592 11265609 AT4G21105.1, AT4G21105.2

AtREG427 TTCGGCCC           PPDB Motif GCCCA PLACE Motif GGGCC

AtREG404      CCCGGCCC      CK PPDB Motif GCCCA PLACE Motif GGGCC

AtREG457       CCGGCCCA     CK PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG414        CGGCCCAA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG352         GGCCCAAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG418          GCCCAATT PPDB Motif GCCCA PLACE Motif

AtREG647           CCCAATTG PPDB Motif PLACE Motif