PlantPromoterDB promoter information of AT1G64520.1

Summary of Gene (AT1G64520.1)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G64520 TAIR NCBI
Gene model	AT1G64520.1
Description	Regulatory Particle non-ATPase 12a (RPN12a); FUNCTIONS IN: peptidase activity; INVOLVED IN: in 14 processes; LOCATED IN: proteasome complex, nucleus, proteasome regulatory particle, lid subcomplex, chloroplast envelope; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: 26S proteasome non-ATPase regulatory subunit Rpn12 (InterPro:IPR006746), SAC3/GANP/Nin1/mts3/eIF-3 p25 (InterPro:IPR005062); BEST Arabidopsis thaliana protein match is: RPN12b (Regulatory Particle Non-ATPase 12b); peptidase (TAIR:AT5G42040.1); Has 353 Blast hits to 353 proteins in 144 species: Archae - 0; Bacteria - 0; Metazoa - 167; Fungi - 84; Plants - 39; Viruses - 0; Other Eukaryotes - 63 (source: NCBI BLink).

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Overview

Focused view (chromosome 1: 23955459-23956658)

`Genome position from initiation codon` `TSS from cDNA TSS information AT1G64520.1 5'->3' (+) Promoter sequence AT1G64510.1 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 AT1G64520.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 13 + 23956391 -68

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	13	+	23956391	-68

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone G clone + 23956398 -61

TSS clone G clone + 23956401 -58

TSS clone A clone + 23956404 -55

TSS clone A clone + 23956413 -46

TSS clone A clone + 23956450 -9

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`G`	clone	+	23956398	-61
TSS clone	`G`	clone	+	23956401	-58
TSS clone	`A`	clone	+	23956404	-55
TSS clone	`A`	clone	+	23956413	-46
TSS clone	`A`	clone	+	23956450	-9

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 CCATGGGCCTTTT + 23956299 23956311 -160 -148

AtREG507 CCATGGGC      PPDB Motif GCCCA, CCATGG PLACE Motif

AtREG504 CATGGGCC     PPDB Motif GCCCA, CCATGG PLACE Motif GGGCC, TGGGCY

AtREG354   ATGGGCCT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG353    TGGGCCTT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG359     GGGCCTTT PPDB Motif GCCCA PLACE Motif GGGCC

AtREG459      GGCCTTTT PPDB Motif PLACE Motif

REG TTATTGGGCCTGTTAAAGGCCCGTT + 23956316 23956340 -143 -119

AtREG417 TTATTGGG                  PPDB Motif GCCCA PLACE Motif

AtREG355 TATTGGGC                 PPDB Motif GCCCA PLACE Motif

AtREG352   ATTGGGCC                PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356    TTGGGCCT               PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG370     TGGGCCTG              PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG433      GGGCCTGT             PPDB Motif GCCCA PLACE Motif GGGCC

AtREG639             TTAAAGGC      PPDB Motif AAACG(C/G) PLACE Motif

AtREG467              TAAAGGCC     PPDB Motif PLACE Motif

AtREG359               AAAGGCCC    PPDB Motif GCCCA PLACE Motif GGGCC

AtREG429                 AGGCCCGT PPDB Motif ACGGGC PLACE Motif GGGCC

AtREG401                  GGCCCGTT PPDB Motif AAACG(C/G), ACGGGC, CCAACGG PLACE Motif GGGCC

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CCATGGGCCTTTT`		+	23956299	23956311	-160	-148
	AtREG507	`CCATGGGC`		PPDB Motif	`GCCCA, CCATGG`	PLACE Motif
	AtREG504	`CATGGGCC`		PPDB Motif	`GCCCA, CCATGG`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG354	`ATGGGCCT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG353	`TGGGCCTT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG359	`GGGCCTTT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG459	`GGCCTTTT`		PPDB Motif		PLACE Motif
REG	`TTATTGGGCCTGTTAAAGGCCCGTT`		+	23956316	23956340	-143	-119
	AtREG417	`TTATTGGG`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG355	`TATTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG352	`ATTGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG356	`TTGGGCCT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG370	`TGGGCCTG`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG433	`GGGCCTGT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG639	`TTAAAGGC`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
	AtREG467	`TAAAGGCC`		PPDB Motif		PLACE Motif
	AtREG359	`AAAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG429	`AGGCCCGT`		PPDB Motif	`ACGGGC`	PLACE Motif	`GGGCC`
	AtREG401	`GGCCCGTT`		PPDB Motif	`AAACG(C/G), ACGGGC, CCAACGG`	PLACE Motif	`GGGCC`

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 77 - 23956219 AT1G64510.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	77	-	23956219	AT1G64510.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone A clone - 23956250 AT1G64510.1

TSS clone A clone - 23956244 AT1G64510.1

TSS clone A clone - 23956236 AT1G64510.1

TSS clone T clone - 23956235 AT1G64510.1

TSS clone C clone - 23956218 AT1G64510.1

TSS clone A clone - 23956216 AT1G64510.1

TSS clone A clone - 23956211 AT1G64510.1

TSS clone A clone - 23956208 AT1G64510.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`A`	clone	-	23956250	AT1G64510.1
TSS clone	`A`	clone	-	23956244	AT1G64510.1
TSS clone	`A`	clone	-	23956236	AT1G64510.1
TSS clone	`T`	clone	-	23956235	AT1G64510.1
TSS clone	`C`	clone	-	23956218	AT1G64510.1
TSS clone	`A`	clone	-	23956216	AT1G64510.1
TSS clone	`A`	clone	-	23956211	AT1G64510.1
TSS clone	`A`	clone	-	23956208	AT1G64510.1

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 TCTCTCATCTCCTCTT - 23956227 23956242 AT1G64510.1

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	`TCTCTCATCTCCTCTT`	-	23956227	23956242	AT1G64510.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG AAAAGGCCCATGG - 23956299 23956311 AT1G64510.1

AtREG459 AAAAGGCC      PPDB Motif PLACE Motif

AtREG359 AAAGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG353   AAGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354    AGGCCCAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG504     GGCCCATG PPDB Motif GCCCA, CCATGG PLACE Motif GGGCC, TGGGCY

AtREG507      GCCCATGG PPDB Motif GCCCA, CCATGG PLACE Motif

REG AACGGGCCTTTAACAGGCCCAATAA - 23956316 23956340 AT1G64510.1

AtREG401 AACGGGCC                  PPDB Motif AAACG(C/G), ACGGGC, CCAACGG PLACE Motif GGGCC

AtREG429 ACGGGCCT                 PPDB Motif ACGGGC PLACE Motif GGGCC

AtREG359    GGGCCTTT               PPDB Motif GCCCA PLACE Motif GGGCC

AtREG467     GGCCTTTA              PPDB Motif PLACE Motif

AtREG639      GCCTTTAA             PPDB Motif AAACG(C/G) PLACE Motif

AtREG433             ACAGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG370              CAGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356               AGGCCCAA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG352                GGCCCAAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG355                 GCCCAATA PPDB Motif GCCCA PLACE Motif

AtREG417                  CCCAATAA PPDB Motif GCCCA PLACE Motif