Bpi bactericidal/permeability-increasing protein [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Bpiprovided by RGD
Official Full Name: bactericidal/permeability-increasing proteinprovided by RGD
Primary source: RGD:1303179
See related: EnsemblRapid:ENSRNOG00000034195 AllianceGenome:RGD:1303179
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
Also known as: Bpifd1
Summary: Enables lipopolysaccharide binding activity. Involved in defense response to bacterium and immune response. Predicted to be located in cytoplasmic stress granule. Predicted to be active in extracellular space. Human ortholog(s) of this gene implicated in Crohn's disease. Orthologous to human BPI (bactericidal permeability increasing protein). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Restricted expression toward (RPKM 54.3) See more
Orthologs: human mouse all
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Genomic context

Location:: 3q42

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (167329513..167356217)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (146909626..146936487)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (154741627..154768584)

Chromosome 3 - NC_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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
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?

bactericidal/permeability-increasing protein BPI could exist in the inner root sheath cells of human and rat hair follicles, and might play a role as a barrier against anaerobic bacteria.
Title: Presence of bactericidal/permeability-increasing protein in human and rat skin.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables lipid binding	IEA Inferred from Electronic Annotation more info
enables lipid binding	TAS Traceable Author Statement more info	PubMed
enables lipopolysaccharide binding	IBA Inferred from Biological aspect of Ancestor more info
enables lipopolysaccharide binding	IDA Inferred from Direct Assay more info	PubMed
enables lipopolysaccharide binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in defense response to Gram-negative bacterium	IBA Inferred from Biological aspect of Ancestor more info
involved_in defense response to Gram-negative bacterium	IEA Inferred from Electronic Annotation more info
involved_in defense response to bacterium	IDA Inferred from Direct Assay more info	PubMed
involved_in immune response	IDA Inferred from Direct Assay more info	PubMed
involved_in innate immune response	IBA Inferred from Biological aspect of Ancestor more info
involved_in innate immune response	IEA Inferred from Electronic Annotation more info
involved_in lipopolysaccharide-mediated signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of interleukin-6 production	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of interleukin-6 production	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of interleukin-8 production	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of interleukin-8 production	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of macrophage activation	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of macrophage activation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of tumor necrosis factor production	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of tumor necrosis factor production	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic stress granule	ISO Inferred from Sequence Orthology more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular space	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: bactericidal permeability-increasing protein

Names: BPI fold containing family D, member 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_001004079.2 → NP_001004079.1 bactericidal permeability-increasing protein precursor

See identical proteins and their annotated locations for NP_001004079.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/Swiss-Prot

Q6AXU0

UniProtKB/TrEMBL

A0A8L2QQX2

Related

ENSRNOP00000098690.1, ENSRNOT00000140998.1

Conserved Domains (2) summary

smart00328
Location:35 → 259

BPI1; BPI/LBP/CETP N-terminal domain

cl00188
Location:246 → 480

BPI; BPI/LBP/CETP domain; Bactericidal permeability-increasing protein (BPI) / Lipopolysaccharide-binding protein (LBP) / Cholesteryl ester transfer protein (CETP) domain; binds to and neutralizes lipopolysaccharides from the outer membrane of Gram-negative ...

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_086021.1 Reference GRCr8

Range

167329513..167356217

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039104626.2 → XP_038960554.1 bactericidal permeability-increasing protein isoform X1

UniProtKB/TrEMBL

A0A8I6A2Q9

Related

ENSRNOP00000107568.1, ENSRNOT00000170063.1

Conserved Domains (2) summary

smart00328
Location:35 → 259

BPI1; BPI/LBP/CETP N-terminal domain

cl00188
Location:246 → 443

BPI; BPI/LBP/CETP domain; Bactericidal permeability-increasing protein (BPI) / Lipopolysaccharide-binding protein (LBP) / Cholesteryl ester transfer protein (CETP) domain; binds to and neutralizes lipopolysaccharides from the outer membrane of Gram-negative ...