MAP1LC3C

Chr 1

microtubule associated protein 1 light chain 3 gamma

Also known as: ATG8J, LC3C

NCBI Gene: 440738ENSG00000197769UniProt: Q9BXW4

Autophagy is a highly regulated bulk degradation process that plays an important role in cellular maintenance and development. MAP1LC3C is an ortholog of the yeast autophagosome protein Atg8 (He et al., 2003 [PubMed 12740394]).[supplied by OMIM, Nov 2010]

114
ClinVar variants
69
Pathogenic / LP
0.00
pLI score
0
Active trials
Clinical Summary— MAP1LC3C
⚡
Population Constraint (gnomAD)
Low constraint (pLI 0.00) — loss-of-function variants are relatively tolerated in the population.
📋
ClinVar Variants
69 Pathogenic / Likely Pathogenic· 39 VUS of 114 total submissions

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

gnomAD
Tolerant — LoF & missense variants common in population
LoF Constraint?LOEUF (Loss-of-function Observed/Expected Upper bound Fraction) is the upper bound of the 90% CI for LoF OE — the preferred gnomAD v4 metric. Lower = more intolerant to LoF. LOEUF < 0.35 = highly constrained.
1.91LOEUF
pLI 0.000
Z-score -0.70
OE 1.33 (0.72–1.91)
Tolerant

Highly tolerant — LoF variants common in population

Missense Constraint?Missense Z-score: standard deviations fewer missense variants observed vs. expected. Z > 3.09 (p < 0.001) = gene does not tolerate missense variation. OE missense < 0.6 is also considered constrained.
0.50Z-score
OE missense 0.85 (0.70–1.03)
73 obs / 85.9 exp
Tolerant

Mild missense constraint

Observed / Expected Ratios?Shaded band = 90% confidence interval. Vertical tick = point estimate. Grey threshold line = gnomAD constraint cutoff for that variant class.
LoF OE?Ratio of observed to expected LoF variants. Upper CI bound (LOEUF) ≤ 0.35 = strong LoF constraint signal.1.33 (0.72–1.91)
0≤0.351.4
Missense OE?Ratio of observed to expected missense variants. OE ≤ 0.6 = fewer missense variants than expected by chance.0.85 (0.70–1.03)
0≤0.61.4
Synonymous OE?Control metric — synonymous variants are largely neutral and expected near OE = 1.0. Significant deviation may indicate annotation issues.1.16
0≤1.21.6
LoF obs/exp: 7 / 5.3Missense obs/exp: 73 / 85.9Syn Z: -0.72

ClinVar Variant Classifications

114 submitted variants in ClinVar

ClinVar

Classification Summary

Pathogenic64
Likely Pathogenic5
VUS39
Likely Benign3
64
Pathogenic
5
Likely Pathogenic
39
VUS
3
Likely Benign

Curated Variants Distribution

Classified variants from ClinVar · 5 ACMG categories

ClassificationLoFMissense + InframeNon-codingSynonymousTotal
Pathogenic
0
0
64
0
64
Likely Pathogenic
0
0
5
0
5
VUS
0
22
17
0
39
Likely Benign
0
1
2
0
3
Benign
0
0
0
0
0
Total023880111

LoF = frameshift, stop gained/lost, canonical splice · Counts from ClinVar esearch · Updated hourly

View in ClinVar →

Protein Context — Lollipop Plot

MAP1LC3C · protein map & ClinVar variants

Showing all ClinVar variants across the protein. Search a specific variant to highlight its position.

OMIM — Genotype-Phenotype Relationships

1 OMIM entry

OMIM
Clinical Literature
Landmark / reviewRecent case evidence
Key Publications
Landmark & review papers · by relevance
PubMed
Prognosis-related autophagy genes in female lung adenocarcinoma.
Liu Z et al.·Medicine (Baltimore)
2022
Study on the Expression Profile of Autophagy-Related Genes in Colon Adenocarcinoma.
Hou M et al.·Comput Math Methods Med
2022
Autophagy-related prognostic signature for survival prediction of triple negative breast cancer.
Yang Q et al.·PeerJ
2022
Correlation of autophagy-related genes for predicting clinical prognosis in colorectal cancer.
Liu L et al.·Biomark Med
2021
Prognostic score model based on six m6A-related autophagy genes for predicting survival in esophageal squamous cell carcinoma.
Chen F et al.·J Clin Lab Anal
2022Functional
Development and validation of prognostic model based on the analysis of autophagy-related genes in colon cancer.
Wang Y et al.·Aging (Albany NY)
2021Functional
Identification of Immune-Related Gene Signatures in Lung Adenocarcinoma and Lung Squamous Cell Carcinoma.
Li N et al.·Front Immunol
2021
Prediction of Prognostic Biomarkers and Construction of an Autophagy Prognostic Model for Colorectal Cancer Using Bioinformatics.
Liu TT et al.·Technol Cancer Res Treat
2020Functional
Top 10 resultsSearch PubMed ↗
Recent Gene-Specific Literature
Gene in title · MEDLINE · newest first
Europe PMC
MAP1LC3C repression reduces CIITA- and HLA class II expression in non-small cell lung cancer.
Barbeau LMO et al.·PLoS One
2025🔓 Open Access
Microtubule-associated protein MAP1LC3C regulates lysosomal exocytosis and induces zinc reprogramming in renal cancer cells.
Verma R et al.·J Biol Chem
2023🔓 Open Access
PGM5P3-AS1 regulates MAP1LC3C to promote cell ferroptosis and thus inhibiting the malignant progression of triple-negative breast cancer.
Qi L et al.·Breast Cancer Res Treat
2022
Immunotherapeutic Value of MAP1LC3C and Its Candidate FDA-Approved Drugs Identified by Pan-Cancer Analysis, Virtual Screening and Sensitivity Analysis.
Zhang X et al.·Front Pharmacol
2022🔓 Open Access
Selective MAP1LC3C (LC3C) autophagy requires noncanonical regulators and the C-terminal peptide.
Bischoff ME et al.·J Cell Biol
2021🔓 Open Access
Top 5 resultsSearch Europe PMC ↗

Clinical Trials

Active and recruiting trials from ClinicalTrials.gov

ClinicalTrials.gov

No active trials found for this gene.

Search ClinicalTrials.gov →

External Resources

Links to major genomics databases and tools