Lrba LPS responsive beige-like anchor protein [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Lrbaprovided by RGD
Official Full Name: LPS responsive beige-like anchor proteinprovided by RGD
Primary source: RGD:1311428
See related: EnsemblRapid:ENSRNOG00000023453 AllianceGenome:RGD:1311428
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable protein kinase binding activity. Predicted to be involved in mitophagy and protein localization to phagophore assembly site. Predicted to act upstream of or within cellular response to leukemia inhibitory factor. Predicted to be located in several cellular components, including endoplasmic reticulum; lysosome; and trans-Golgi network. Predicted to be active in cytosol and membrane. Human ortholog(s) of this gene implicated in common variable immunodeficiency 8. Orthologous to human LRBA (LPS responsive beige-like anchor protein). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Spleen (RPKM 358.1), Kidney (RPKM 352.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q34

Exon count:: 57

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (173919330..174500536)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (171623668..172202576)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (185590983..186110491)

Chromosome 2 - NC_086020.1 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?

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

BE096093 (e-PCR)
- UniSTS:243985

RH137066 (e-PCR)
- UniSTS:219155

25.MMHAP54FLA4.seq (e-PCR)
- UniSTS:123689

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables protein kinase binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cellular response to leukemia inhibitory factor	ISO Inferred from Sequence Orthology more info
involved_in mitophagy	ISO Inferred from Sequence Orthology more info
involved_in protein localization	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein localization to phagophore assembly site	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasmic vesicle	ISO Inferred from Sequence Orthology more info
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in lysosome	ISO Inferred from Sequence Orthology more info
is_active_in membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in trans-Golgi network	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: lipopolysaccharide-responsive and beige-like anchor protein

Names: LPS-responsive beige-like anchor; LPS-responsive vesicle trafficking, beach and anchor containing

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_001108555.2 → NP_001102025.1 lipopolysaccharide-responsive and beige-like anchor protein

See identical proteins and their annotated locations for NP_001102025.1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000002

UniProtKB/TrEMBL

A0A0G2JYI0, A6J5Z5

Related

ENSRNOP00000070662.2, ENSRNOT00000088188.3

Conserved Domains (9) summary

COG2319
Location:2494 → 2761

WD40; WD40 repeat [General function prediction only]

cd00020
Location:591 → 709

ARM; Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, ...

pfam02138
Location:2147 → 2400

Beach; Beige/BEACH domain

pfam06469
Location:1825 → 1992

DUF1088; Domain of Unknown Function (DUF1088)

pfam14844
Location:2018 → 2115

PH_BEACH; PH domain associated with Beige/BEACH

pfam15787
Location:365 → 636

DUF4704; Domain of unknown function (DUF4704)

sd00039
Location:2504 → 2540

7WD40; WD40 repeat [structural motif]

cl02567
Location:2509 → 2709

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

cl22861
Location:148 → 295

LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

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_086020.1 Reference GRCr8

Range

173919330..174500536

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039102651.2 → XP_038958579.1 lipopolysaccharide-responsive and beige-like anchor protein isoform X1

UniProtKB/TrEMBL

A0A0G2JYR4

Conserved Domains (8) summary

PRK13108
Location:1020 → 1162

PRK13108; prolipoprotein diacylglyceryl transferase; Reviewed

sd00039
Location:2620 → 2656

7WD40; WD40 repeat [structural motif]

pfam02138
Location:2228 → 2504

Beach; Beige/BEACH domain

pfam06469
Location:1906 → 2073

DUF1088; Domain of Unknown Function (DUF1088)

pfam14844
Location:2099 → 2196

PH_BEACH; PH domain associated with Beige/BEACH

pfam15787
Location:451 → 711

DUF4704; Domain of unknown function (DUF4704)

cl22861
Location:229 → 376

LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

cl29593
Location:2625 → 2825

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_039102649.2 → XP_038958577.1 lipopolysaccharide-responsive and beige-like anchor protein isoform X1

UniProtKB/TrEMBL

A0A0G2JYR4

Conserved Domains (8) summary

PRK13108
Location:1020 → 1162

PRK13108; prolipoprotein diacylglyceryl transferase; Reviewed

sd00039
Location:2620 → 2656

7WD40; WD40 repeat [structural motif]

pfam02138
Location:2228 → 2504

Beach; Beige/BEACH domain

pfam06469
Location:1906 → 2073

DUF1088; Domain of Unknown Function (DUF1088)

pfam14844
Location:2099 → 2196

PH_BEACH; PH domain associated with Beige/BEACH

pfam15787
Location:451 → 711

DUF4704; Domain of unknown function (DUF4704)

cl22861
Location:229 → 376

LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

cl29593
Location:2625 → 2825

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_039102652.2 → XP_038958580.1 lipopolysaccharide-responsive and beige-like anchor protein isoform X2

Conserved Domains (8) summary

PRK13108
Location:1020 → 1162

PRK13108; prolipoprotein diacylglyceryl transferase; Reviewed

sd00039
Location:2615 → 2651

7WD40; WD40 repeat [structural motif]

pfam02138
Location:2228 → 2504

Beach; Beige/BEACH domain

pfam06469
Location:1906 → 2073

DUF1088; Domain of Unknown Function (DUF1088)

pfam14844
Location:2099 → 2196

PH_BEACH; PH domain associated with Beige/BEACH

pfam15787
Location:451 → 711

DUF4704; Domain of unknown function (DUF4704)

cl22861
Location:229 → 376

LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

cl29593
Location:2620 → 2820

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_039102650.2 → XP_038958578.1 lipopolysaccharide-responsive and beige-like anchor protein isoform X1

UniProtKB/TrEMBL

A0A0G2JYR4

Related

ENSRNOP00000070760.2, ENSRNOT00000088807.3

Conserved Domains (8) summary

PRK13108
Location:1020 → 1162

PRK13108; prolipoprotein diacylglyceryl transferase; Reviewed

sd00039
Location:2620 → 2656

7WD40; WD40 repeat [structural motif]

pfam02138
Location:2228 → 2504

Beach; Beige/BEACH domain

pfam06469
Location:1906 → 2073

DUF1088; Domain of Unknown Function (DUF1088)

pfam14844
Location:2099 → 2196

PH_BEACH; PH domain associated with Beige/BEACH

pfam15787
Location:451 → 711

DUF4704; Domain of unknown function (DUF4704)

cl22861
Location:229 → 376

LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

cl29593
Location:2625 → 2825

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...