CCL23

C-C motif chemokine ligand 23, the group of Chemokine ligands

Basic information

Region (hg38): 17:36013056-36017972

Previous symbols: [ "SCYA23" ]

Links

ENSG00000274736 ∙ NCBI:6368 ∙ OMIM:602494 ∙ HGNC:10622 ∙ Uniprot:P55773 ∙ 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 CCL23 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the CCL23 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						0
missense			17			17
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	17	0	0

Variants in CCL23

This is a list of pathogenic ClinVar variants found in the CCL23 region.

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

Position	Type	Phenotype	Significance	ClinVar
17-36013219-C-T		not specified	Uncertain significance (Feb 05, 2024)
17-36013229-G-C		not specified	Uncertain significance (Jul 20, 2022)
17-36013270-G-A		not specified	Uncertain significance (May 17, 2023)
17-36013288-C-G		not specified	Uncertain significance (Dec 03, 2021)
17-36013753-G-A		not specified	Uncertain significance (Mar 01, 2024)
17-36013769-T-C		not specified	Uncertain significance (Jul 14, 2021)
17-36013804-G-A		not specified	Uncertain significance (Mar 17, 2023)
17-36013813-C-T		not specified	Uncertain significance (Aug 13, 2021)
17-36013814-G-A			Uncertain significance (-)
17-36013820-T-C		not specified	Uncertain significance (Jun 24, 2022)
17-36013826-A-G		not specified	Uncertain significance (Mar 16, 2022)
17-36013826-A-T		not specified	Uncertain significance (Jun 24, 2022)
17-36013838-C-T		not specified	Uncertain significance (Jan 04, 2024)
17-36013866-A-T		not specified	Uncertain significance (Mar 11, 2024)
17-36013908-C-T		not specified	Uncertain significance (Jul 27, 2022)
17-36014346-C-T		not specified	Uncertain significance (Feb 10, 2022)
17-36014382-C-T		not specified	Uncertain significance (Jan 23, 2023)
17-36017882-C-T		not specified	Uncertain significance (Dec 13, 2022)

GnomAD

Source: gnomAD

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Shows chemotactic activity for monocytes, resting T- lymphocytes, and neutrophils, but not for activated lymphocytes. Inhibits proliferation of myeloid progenitor cells in colony formation assays. This protein can bind heparin. Binds CCR1. CCL23(19-99), CCL23(22-99), CCL23(27-99), CCL23(30-99) are more potent chemoattractants than the small-inducible cytokine A23. {ECO:0000269|PubMed:15905581}.
• Pathway: Chemokine signaling pathway - Homo sapiens (human);Cytokine-cytokine receptor interaction - Homo sapiens (human);Signaling by GPCR;Signal Transduction;Formyl peptide receptors bind formyl peptides and many other ligands;Peptide ligand-binding receptors;Class A/1 (Rhodopsin-like receptors);GPCR ligand binding;G alpha (i) signalling events;G alpha (q) signalling events;GPCR downstream signalling (Consensus)

Recessive Scores

• pRec: 0.0665

Intolerance Scores

• loftool: 0.683
• rvis_EVS: 0.28
• rvis_percentile_EVS: 71.08

Haploinsufficiency Scores

• pHI: 0.0885
• hipred: N
• hipred_score: 0.112

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.653

Gene Damage Prediction

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

Gene ontology

• Biological process: monocyte chemotaxis;cellular calcium ion homeostasis;chemotaxis;inflammatory response;immune response;signal transduction;G protein-coupled receptor signaling pathway;cell-cell signaling;negative regulation of cell population proliferation;regulation of signaling receptor activity;neutrophil chemotaxis;positive regulation of GTPase activity;eosinophil chemotaxis;lymphocyte chemotaxis;chemokine-mediated signaling pathway;positive regulation of ERK1 and ERK2 cascade;cellular response to interferon-gamma;cellular response to interleukin-1;cellular response to tumor necrosis factor;negative regulation of C-C chemokine binding
• Cellular component: extracellular region;extracellular space;cell
• Molecular function: chemokine activity;heparin binding;CCR1 chemokine receptor binding;CCR chemokine receptor binding