GALR2

galanin receptor 2, the group of Galanin receptors

Basic information

Region (hg38): 17:76074781-76077537

Links

ENSG00000182687 ∙ NCBI:8811 ∙ OMIM:603691 ∙ HGNC:4133 ∙ Uniprot:O43603 ∙ AlphaFold ∙ GenCC ∙ jax ∙ Sfari ∙ GnomAD ∙ Pubmed ∙ ClinVar

Phenotypes

GenCC

Source: genCC

No genCC data.

ClinVar

This is a list of variants' phenotypes submitted to ClinVar and linked to the GALR2 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the GALR2 gene is commonly pathogenic or not.

In the table, we include only reliable ClinVar variants with their consequences to MANE Select, Mane Plus Clinical transcripts, or transcripts with TSL equals 1. Click the count to view the source variants.

Warning: slight differences between displayed counts and the number of variants in ClinVar may occur, primarily due to (1) the application of a different transcript and/or consequence by our variant effect predictor or (2) differences in clinical significance: we classify Benign/Likely benign variants as Likely benign and Pathogenic/Likely pathogenic variants as Likely pathogenic.

Variant type	Pathogenic	Likely pathogenic	VUS	Likely benign	Benign	Sum
synonymous				1		1
missense			36	4	2	42
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	36	5	2

Variants in GALR2

This is a list of pathogenic ClinVar variants found in the GALR2 region.

You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.

Position	Type	Phenotype	Significance	ClinVar
17-76074890-G-A		not specified	Uncertain significance (Dec 12, 2023)
17-76074893-T-C		not specified	Uncertain significance (Jul 15, 2021)
17-76074894-C-T		not specified	Uncertain significance (Dec 20, 2023)
17-76074991-C-G		not specified	Uncertain significance (Oct 08, 2024)
17-76075010-A-C		not specified	Uncertain significance (Sep 03, 2024)
17-76075032-T-G		not specified	Uncertain significance (Nov 06, 2023)
17-76075094-G-C		not specified	Uncertain significance (Jul 08, 2024)
17-76075097-C-A		not specified	Uncertain significance (Feb 27, 2023)
17-76075122-C-T		not specified	Uncertain significance (May 17, 2023)
17-76075211-C-A		not specified	Uncertain significance (Dec 02, 2021)
17-76075213-C-G		not specified	Uncertain significance (Nov 11, 2024)
17-76075234-C-A			Likely benign (Aug 15, 2018)
17-76076649-C-A		not specified	Uncertain significance (Jun 22, 2024)
17-76076685-C-G		not specified	Uncertain significance (Sep 13, 2023)
17-76076780-C-A		not specified	Uncertain significance (May 26, 2023)
17-76076815-G-A		not specified	Uncertain significance (Feb 17, 2022)
17-76076851-G-A		not specified	Uncertain significance (Apr 24, 2024)
17-76076857-T-C		not specified	Uncertain significance (Aug 01, 2024)
17-76076859-C-A		not specified	Uncertain significance (Feb 16, 2023)
17-76076889-G-A		not specified	Uncertain significance (Sep 03, 2024)
17-76076899-T-C		not specified	Uncertain significance (Jan 20, 2023)
17-76076901-C-A		not specified	Uncertain significance (Mar 06, 2023)
17-76076924-C-A		not specified	Uncertain significance (Aug 25, 2024)
17-76076943-G-A			Benign (Mar 30, 2018)
17-76076952-C-T		not specified	Uncertain significance (Jan 23, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
GALR2	protein_coding	protein_coding	ENST00000329003	2	2748

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00000638	0.284	125605	0	30	125635	0.000119

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.388	212	228	0.928	0.0000104	2399
Missense in Polyphen		84	88.464	0.94954		1019
Synonymous	-0.0978	111	110	1.01	0.00000528	898
Loss of Function	0.0685	8	8.21	0.974	3.58e-7	74

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000354	0.000334
Ashkenazi Jewish	0.00	0.00
East Asian	0.000383	0.000381
Finnish	0.00	0.00
European (Non-Finnish)	0.000118	0.000114
Middle Eastern	0.000383	0.000381
South Asian	0.0000327	0.0000327
Other	0.000339	0.000326

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Receptor for the hormone galanin and GALP. Receptor for the hormone spexin-1 (PubMed:24517231). The activity of this receptor is mediated by G proteins that activate the phospholipase C/protein kinase C pathway (via G(q)) and that inhibit adenylyl cyclase (via G(i)). {ECO:0000269|PubMed:24517231, ECO:0000269|PubMed:25691535, ECO:0000269|PubMed:9480833, ECO:0000269|PubMed:9685625, ECO:0000269|PubMed:9832121, ECO:0000269|PubMed:9880084}.
• Pathway: Neuroactive ligand-receptor interaction - Homo sapiens (human);Peptide GPCRs;GPCRs, Class A Rhodopsin-like;Signaling by GPCR;Signal Transduction;Peptide ligand-binding receptors;Class A/1 (Rhodopsin-like receptors);GPCR ligand binding;G alpha (i) signalling events;GPCR downstream signalling (Consensus)

Recessive Scores

• pRec: 0.159

Intolerance Scores

• loftool: 0.549
• rvis_EVS: 1.17
• rvis_percentile_EVS: 92.7

Haploinsufficiency Scores

• pHI: 0.130
• hipred: N
• hipred_score: 0.459

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: S
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.215

Gene Damage Prediction

	All	Recessive	Dominant
Mendelian	Medium	Medium	Medium
Primary Immunodeficiency	Medium	Medium	Medium
Cancer	Medium	Medium	Medium

Mouse Genome Informatics

• Gene name: Galr2
• Phenotype: integument phenotype (the observable morphological and physiological characteristics of the skin and its associated structures, such as the hair, nails, sweat glands, sebaceous glands and other secretory glands that are manifested through development and lifespan); hematopoietic system phenotype; behavior/neurological phenotype (the observable actions or reactions of mammalian organisms that are manifested through development and lifespan); immune system phenotype; nervous system phenotype (the observable morphological and physiological characteristics of the extensive, intricate network of electochemical structures in the body that is comprised of the brain, spinal cord, nerves, ganglia and parts of the receptor organs that are manifested through development and lifespan)

Gene ontology

• Biological process: muscle contraction;cell surface receptor signaling pathway;G protein-coupled receptor signaling pathway;adenylate cyclase-modulating G protein-coupled receptor signaling pathway;adenylate cyclase-activating G protein-coupled receptor signaling pathway;negative regulation of adenylate cyclase activity;phospholipase C-activating G protein-coupled receptor signaling pathway;positive regulation of cytosolic calcium ion concentration;neuropeptide signaling pathway;multicellular organism development;learning or memory;feeding behavior;neuron projection development;inositol phosphate metabolic process;positive regulation of transcription by RNA polymerase II;phosphatidylinositol metabolic process;galanin-activated signaling pathway;positive regulation of large conductance calcium-activated potassium channel activity
• Cellular component: plasma membrane;integral component of plasma membrane;integral component of membrane
• Molecular function: galanin receptor activity;protein binding;G protein-coupled peptide receptor activity;peptide hormone binding;neuropeptide binding