FCRLA Fc receptor like A [Homo sapiens (human)] - Gene

Summary

Official Symbol: FCRLAprovided by HGNC
Official Full Name: Fc receptor like Aprovided by HGNC
Primary source: HGNC:HGNC:18504
See related: Ensembl:ENSG00000132185 MIM:606891; AllianceGenome:HGNC:18504
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: FCRL; FCRX; FREB; FCRL1; FCRLX; FCRLb; FCRLd; FCRLe; FCRLM1; FCRLc1; FCRLc2
Summary: This gene encodes a protein similar to receptors for the Fc fragment of gamma immunoglobulin (IgG). These receptors, referred to as FCGRs, mediate the destruction of IgG-coated antigens and of cells induced by antibodies. This encoded protein is selectively expressed in B cells, and may be involved in their development. This protein may also be involved in the development of lymphomas. Multiple alternatively spliced transcript variants that encode different protein isoforms have been described for this gene. [provided by RefSeq, Aug 2011]
Expression: Biased expression in lymph node (RPKM 32.1), spleen (RPKM 21.2) and 3 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 1q23.3

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	1	NC_000001.11 (161707229..161714352)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	1	NC_060925.1 (161051554..161058676)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	1	NC_000001.10 (161677019..161684142)

Chromosome 1 - NC_000001.11 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: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Fc receptor-like A promotes malignant behavior in renal cell carcinoma and correlates with tumor immune infiltration.
Title: Fc receptor-like A promotes malignant behavior in renal cell carcinoma and correlates with tumor immune infiltration.
Development and Validation of the B Cell-Associated Fc Receptor-like Molecule-Based Prognostic Signature in Skin Cutaneous Melanoma.
Title: Development and Validation of the B Cell-Associated Fc Receptor-like Molecule-Based Prognostic Signature in Skin Cutaneous Melanoma.
FCRLA has long been viewed as a B cell specific protein, and this is the first time its expression has also been shown in human plasmacytoid dendritic cells
Title: B cell-specific protein FCRLA is expressed by plasmacytoid dendritic cells in humans.
FCRLA-A Resident Endoplasmic Reticulum Protein that Associates with Multiple Immunoglobulin Isotypes in B Lineage Cells
Title: FCRLA-A Resident Endoplasmic Reticulum Protein that Associates with Multiple Immunoglobulin Isotypes in B Lineage Cells.
This first genome-wide association approach for cyclophosphamide response in lupus nephritis patients yielded a robust profile of genetic associations including large-effect SNP in the FCGR2B-FCRLA locus, which may provide better insights to cyclophosphamide metabolism and efficacy.
Title: Response to Intravenous Cyclophosphamide Treatment for Lupus Nephritis Associated with Polymorphisms in the FCGR2B-FCRLA Locus.
FCGR2C SNPs that associated with vaccine efficacy in RV144 also strongly associated with the expression of FCGR2A/C and one of them also associated with the expression of Fc receptor-like A (FCRLA), another Fc-gamma receptor (FcgammaR) gene
Title: FCGR2C Polymorphisms Associated with HIV-1 Vaccine Protection Are Linked to Altered Gene Expression of Fc-γ Receptors in Human B Cells.
alternative splicing of FCRLA mRNA results in the production of isoforms differing by their domain composition and possessing either the short or long signal peptide.
Title: Characterization of human FCRLA isoforms.
The studies reported here demonstrate that FCRLA is more broadly expressed among human B lineage cells than originally reported; it is found at significant levels in resting blood B cells and at varying levels in all B-cell subsets in tonsil.
Title: FCRLA is a resident endoplasmic reticulum protein that associates with intracellular Igs, IgM, IgG and IgA.
Analysis of human cell lines has confirmed that FcRLA is not secreted but is maintained as an intracellular protein in B cells where it interacts with immunoglobulins.
Title: Fc receptor-like A associates with intracellular IgG and IgM but is dispensable for antigen-specific immune responses.
Observational study of gene-disease association. (HuGE Navigator)
Title: New genetic associations detected in a host response study to hepatitis B vaccine.

Submit: New GeneRIF Correction See all GeneRIFs (12)

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables transmembrane signaling receptor activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in cell surface receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in immune response	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
is_active_in external side of plasma membrane	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: Fc receptor-like A

Names: Fc receptor homolog expressed in B cells (FREB); Fc receptor related protein X; Fc receptor-like and mucin-like 1; fc receptor homolog expressed in B-cells; fc receptor-like and mucin-like protein 1; fc receptor-like protein; fc receptor-related protein X

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_001184866.2 → NP_001171795.2 Fc receptor-like A isoform 1 precursor

Status: REVIEWED

Description

Transcript Variant: This variant (1) represents the longest transcript and it encodes the longest protein (isoform 1). This variant has also been called FCRLa1.

Source sequence(s)

AL359541

Consensus CDS

CCDS53415.2

Related

ENSP00000356930.3, ENST00000367953.7

Conserved Domains (2) summary

pfam13895
Location:177 → 266

Ig_2; Immunoglobulin domain

cl11960
Location:85 → 152

Ig; Immunoglobulin domain
NM_001184867.2 → NP_001171796.2 Fc receptor-like A isoform 3 precursor

Status: REVIEWED

Description

Transcript Variant: This variant (3) lacks two alternate, in-frame segments, compared to variant 1. The resulting protein (isoform 3) is shorter when it is compared to isoform 1. This variant has also been called FCRLb.

Source sequence(s)

AL359541

Consensus CDS

CCDS53417.2

Related

ENSP00000439838.1, ENST00000546024.5

Conserved Domains (1) summary

pfam13895
Location:82 → 171

Ig_2; Immunoglobulin domain
NM_001184870.2 → NP_001171799.2 Fc receptor-like A isoform 4 precursor

Status: REVIEWED

Description

Transcript Variant: This variant (4) lacks two alternate, in-frame segments, compared to variant 1. The resulting protein (isoform 4) is shorter when it is compared to isoform 1. This variant has also been called FCRLc1.

Source sequence(s)

AL359541

Consensus CDS

CCDS53416.2

Related

ENSP00000442870.1, ENST00000540521.5

Conserved Domains (1) summary

pfam13895
Location:37 → 126

Ig_2; Immunoglobulin domain
NM_001184871.2 → NP_001171800.2 Fc receptor-like A isoform 7

Status: REVIEWED

Description

Transcript Variant: This variant (7) lacks four alternate, in-frame segments, compared to variant 1. The resulting protein (isoform 7) is shorter when it is compared to isoform 1. This variant has also been called FCRLe.

Source sequence(s)

AL359541

Consensus CDS

CCDS53420.1

Related

ENSP00000344808.3, ENST00000350710.3
NM_001184872.2 → NP_001171801.2 Fc receptor-like A isoform 5

Status: REVIEWED

Description

Transcript Variant: This variant (5) lacks three alternate, in-frame segments, compared to variant 1. The resulting protein (isoform 5) is shorter when it is compared to isoform 1. This variant has also been called FCRLc2.

Source sequence(s)

AL359541

Consensus CDS

CCDS53419.2

Related

ENSP00000356934.3, ENST00000367957.7

Conserved Domains (1) summary

pfam13895
Location:31 → 120

Ig_2; Immunoglobulin domain
NM_001184873.2 → NP_001171802.2 Fc receptor-like A isoform 6 precursor

Status: REVIEWED

Description

Transcript Variant: This variant (6) lacks three alternate, in-frame segments, compared to variant 1. The resulting protein (isoform 6) is shorter when it is compared to isoform 1. This variant has also been called FCRLd.

Source sequence(s)

AL359541

Consensus CDS

CCDS53418.1

UniProtKB/TrEMBL

Q5VXA5

Related

ENSP00000356926.2, ENST00000367949.6
NM_001366195.2 → NP_001353124.2 Fc receptor-like A isoform 8 precursor

Status: REVIEWED

Source sequence(s)

AL359541

Conserved Domains (2) summary

pfam13895
Location:176 → 265

Ig_2; Immunoglobulin domain

cl11960
Location:84 → 151

Ig; Immunoglobulin domain
NM_001366196.2 → NP_001353125.2 Fc receptor-like A isoform 9 precursor

Status: REVIEWED

Source sequence(s)

AL359541

Consensus CDS

CCDS91091.1

Related

ENSP00000294798.7, ENST00000349527.8

Conserved Domains (1) summary

cl11960
Location:79 → 146

Ig; Immunoglobulin domain
NM_032738.4 → NP_116127.4 Fc receptor-like A isoform 2 precursor

Status: REVIEWED

Description

Transcript Variant: This variant (2) lacks an alternate, in-frame segment, compared to variant 1. The resulting protein (isoform 2) is shorter when it is compared to isoform 1. This variant has also been called FCRLa.

Source sequence(s)

AL359541

Consensus CDS

CCDS30926.2

UniProtKB/Swiss-Prot

A0N0M1, A6NC03, A6NL20, F5H720, F8W743, G3V1J2, Q5VXA1, Q5VXA2, Q5VXA3, Q5VXA4, Q5VXB0, Q5VXB1, Q7L513, Q8NEW4, Q8WXH3, Q96PC6, Q96PJ0, Q96PJ1, Q96PJ2, Q96PJ4, Q9BR57

Related

ENSP00000236938.7, ENST00000236938.12

Conserved Domains (2) summary

pfam13895
Location:171 → 260

Ig_2; Immunoglobulin domain

cl11960
Location:79 → 146

Ig; Immunoglobulin domain