Dbp D-box binding PAR bZIP transcription factor [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Dbpprovided by RGD
Official Full Name: D-box binding PAR bZIP transcription factorprovided by RGD
Primary source: RGD:2491
See related: EnsemblRapid:ENSRNOG00000021027 AllianceGenome:RGD:2491
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: The protein encoded by this gene is a member of the Par bZIP transcription factor family and binds to specific sequences in the promoters of several genes, such as albumin, Cyp2a4, and Cyp2a5. The encoded protein can bind DNA as a homo- or heterodimer and is involved in the regulation of some circadian rhythym genes. Three transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Feb 2014]
Expression: Biased expression in Adrenal (RPKM 456.4), Heart (RPKM 246.8) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q22

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (105312256..105317205)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (96175796..96180745)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (101687896..101692845)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

DBP effectively inhibits the proliferation of mesangial cells through G1 phase arrest.
Title: D-site binding protein regulates cell proliferation through mediating cell cycle progression in rat mesangial cells.
Data show that the expression of clock genes Per2, Bmal1 and Dbp follow a diurnal rhythm in the central nucleus of the amygdala, dentate gyrus, and suprachiasmatic nucleu but the phase and amplitude of the rhythms of each gene vary across the 3 regions.
Title: Phase differences in expression of circadian clock genes in the central nucleus of the amygdala, dentate gyrus, and suprachiasmatic nucleus in the rat.
The localization and diurnal variation of BMAL1, DBP and PER2 are changed in remnant kidney of 5/6 nephrectomy rats and are involved in diurnal rhythm of renal function.
Title: Altered diurnal variation and localization of clock proteins in the remnant kidney of 5/6 nephrectomy rats.
Data show that knockdown of DBP, D-box positive regulator, led to a short-period phenotype, and overexpression of DBP produced a long-period rhythm, while knockdown and overexpression of E4BP4, D-box negative regulator, had the opposite effect of DBP.
Title: Cellular DBP and E4BP4 proteins are critical for determining the period length of the circadian oscillator.
Dbp and estrogen regulate the expression of Kiss1 in the anteroventral periventricular nucleus
Title: Circadian transcriptional factor DBP regulates expression of Kiss1 in the anteroventral periventricular nucleus.
The rhythmic mRNA expression of clock genes (Clock, Bmal1, Cry1, and Dbp) is not attenuated in the liver and visceral adipose tissues of Goto-Kakizaki rats, a model of nonobese, type 2 diabetes, as compared to control Wistar rats.
Title: Clock gene expression in the liver and adipose tissues of non-obese type 2 diabetic Goto-Kakizaki rats.
DBP has the ability to bind the DBP binding site located in the distal promoter region of the PEPT1 gene & induce the transcriptional activity. These findings indicate that DBP plays pivotal roles in the circadiran oscillation of PEPT1.
Title: Regulatory mechanism governing the diurnal rhythm of intestinal H+/peptide cotransporter 1 (PEPT1).
Data suggest that DBP may represent an important transcriptional link between glucagon-like peptide-1 receptor activation and neuroplasticity in the hippocampus.
Title: A novel role of circadian transcription factor DBP in hippocampal plasticity.
natural body temperature rhythms can affect circadian gene expression
Title: Rhythms of mammalian body temperature can sustain peripheral circadian clocks.
per2 and dbp expression in the heart and liver is increased in streptozotocin-induced diabetes
Title: Effect of streptozotocin-induced diabetes on daily expression of per2 and dbp in the heart and liver and melatonin rhythm in the pineal gland of Wistar rat.

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General gene information

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Markers

RH141779 (e-PCR)
- UniSTS:223772

RH94402 (e-PCR)
- UniSTS:119650

D1Bda18 (e-PCR)
- UniSTS:239765

Dbp (e-PCR), detects polymorphism
- UniSTS:527305

RH129117 (e-PCR)
- UniSTS:212425

RH131462 (e-PCR)
- UniSTS:214745

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in liver development	IEP Inferred from Expression Pattern more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in rhythmic process	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of RNA polymerase II transcription regulator complex	IEA Inferred from Electronic Annotation more info
part_of RNA polymerase II transcription regulator complex	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: D site-binding protein

Names: D site albumin promoter binding protein; D site of albumin promoter (albumin D-box) binding protein; albumin D box-binding protein; albumin D-element-binding protein; d site albumin promoter-binding protein 1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001289982.1 → NP_001276911.1 D site-binding protein isoform 2

See identical proteins and their annotated locations for NP_001276911.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice junction at the 3' end of an exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.

Source sequence(s)

JAXUCZ010000001

UniProtKB/TrEMBL

Q6R2I3

Conserved Domains (1) summary

cd14695
Location:154 → 213

bZIP_HLF; Basic leucine zipper (bZIP) domain of Hepatic leukemia factor (HLF) and similar proteins: a DNA-binding and dimerization domain
NM_001289983.1 → NP_001276912.1 D site-binding protein isoform 3

See identical proteins and their annotated locations for NP_001276912.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (3) has the same N- and C-termini but is shorter compared to isoform 1.

Source sequence(s)

JAXUCZ010000001

UniProtKB/TrEMBL

Q6R2I2

Related

ENSRNOP00000068721.3, ENSRNOT00000091597.3

Conserved Domains (1) summary

cd14695
Location:117 → 176

bZIP_HLF; Basic leucine zipper (bZIP) domain of Hepatic leukemia factor (HLF) and similar proteins: a DNA-binding and dimerization domain
NM_012543.3 → NP_036675.1 D site-binding protein isoform 1

See identical proteins and their annotated locations for NP_036675.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).

Source sequence(s)

JAXUCZ010000001

UniProtKB/Swiss-Prot

P16443

UniProtKB/TrEMBL

A6JB71

Related

ENSRNOP00000028547.2, ENSRNOT00000028546.7

Conserved Domains (1) summary

cd14695
Location:254 → 313

bZIP_HLF; Basic leucine zipper (bZIP) domain of Hepatic leukemia factor (HLF) and similar proteins: a DNA-binding and dimerization domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086019.1 Reference GRCr8

Range

105312256..105317205

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063280571.1 → XP_063136641.1 D site-binding protein isoform X1

UniProtKB/TrEMBL

A6JB72
XM_063280574.1 → XP_063136644.1 D site-binding protein isoform X1

UniProtKB/TrEMBL

A6JB72
XM_063280595.1 → XP_063136665.1 D site-binding protein isoform X1

UniProtKB/TrEMBL

A6JB72