Cerebellar dysfunction with variable cognitive and behavioral abnormalities

disease
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Also known as CAMTA1-related disorderCANPMRcerebellar ataxia, nonprogressive, with intellectual disabilitycerebellar ataxia, nonprogressive, with mental retardationnon-progressive cerebellar ataxia with intellectual disabilitynonprogressive cerebellar ataxia with intellectual disability

Summary

Cerebellar dysfunction with variable cognitive and behavioral abnormalities (MONDO:0013886) is a disease caused by CAMTA1 (GenCC Definitive), with 7 cohort genes.

At a glance

  • Prevalence: <1 / 1 000 000 (Worldwide) [Orphanet-validated]
  • Causal gene: CAMTA1 (GenCC Definitive)
  • Cohort genes: 7
  • ClinVar variants: 177
  • Phenotypes (HPO): 39

Clinical features

Epidemiology

Prevalence records

2 prevalence record(s), Orphanet:

TypeClassValueGeographyValidation
Cases/families15WorldwideValidated
Point prevalence<1 / 1 000 000WorldwideValidated

Signs & symptoms

Clinical features (HPO)

39 HPO clinical features (Orphanet curated; top 39 by frequency):

HPO IDTermFrequency
HP:0001256Intellectual disability, mildVery frequent (80-99%)
HP:0001263Global developmental delayVery frequent (80-99%)
HP:0000179Thick lower lip vermilionFrequent (30-79%)
HP:0000276Long faceFrequent (30-79%)
HP:0000307Pointed chinFrequent (30-79%)
HP:0000343Long philtrumFrequent (30-79%)
HP:0000414Bulbous noseFrequent (30-79%)
HP:0000445Wide noseFrequent (30-79%)
HP:0000463Anteverted naresFrequent (30-79%)
HP:0000486StrabismusFrequent (30-79%)
HP:0000490Deeply set eyeFrequent (30-79%)
HP:0000718Aggressive behaviorFrequent (30-79%)
HP:0000729Autistic behaviorFrequent (30-79%)
HP:0000750Delayed speech and language developmentFrequent (30-79%)
HP:0001251AtaxiaFrequent (30-79%)
HP:0001260DysarthriaFrequent (30-79%)
HP:0001310DysmetriaFrequent (30-79%)
HP:0001319Neonatal hypotoniaFrequent (30-79%)
HP:0001321Cerebellar hypoplasiaFrequent (30-79%)
HP:0002019ConstipationFrequent (30-79%)
HP:0002317Unsteady gaitFrequent (30-79%)
HP:0002354Memory impairmentFrequent (30-79%)
HP:0002470Nonprogressive cerebellar ataxiaFrequent (30-79%)
HP:0002536Abnormal cortical gyrationFrequent (30-79%)
HP:0011166Focal myoclonic seizureFrequent (30-79%)
HP:0012433Abnormal social behaviorFrequent (30-79%)
HP:0000639NystagmusExcluded (0%)
HP:0002403Positive Romberg signExcluded (0%)
HP:0000160Narrow mouthVery rare (<1-4%)
HP:0000256MacrocephalyVery rare (<1-4%)
HP:0001348Brisk reflexesVery rare (<1-4%)
HP:0002003Large foreheadVery rare (<1-4%)
HP:0002080Intention tremorVery rare (<1-4%)
HP:0002120Cerebral cortical atrophyVery rare (<1-4%)
HP:0007256Abnormal pyramidal signVery rare (<1-4%)
HP:0011067MesiodensVery rare (<1-4%)
HP:0025517Hypoplastic hippocampusVery rare (<1-4%)
HP:0100540Palpebral edemaVery rare (<1-4%)
HP:0400005Short earVery rare (<1-4%)

Identifiers

Disease identifiers

FieldValue
Canonical namecerebellar dysfunction with variable cognitive and behavioral abnormalities
Mondo IDMONDO:0013886
OMIM614756
Orphanet314647
DOIDDOID:0050998
SNOMED CT723441001
UMLSC3553661
MedGen766575
GARD0017429
Is cancer (heuristic)no

Also known as: CAMTA1-related disorder · CANPMR · cerebellar ataxia, nonprogressive, with intellectual disability · cerebellar ataxia, nonprogressive, with mental retardation · cerebellar dysfunction with variable cognitive and behavioral abnormalities · non-progressive cerebellar ataxia with intellectual disability · nonprogressive cerebellar ataxia with intellectual disability

Data availability: 177 ClinVar variants · 4 GenCC gene-disease records.

Disease family

Classification path: disease › human disease › disease by etiologic mechanism › disease of genetic or genomic mechanism › hereditary disease › autosomal genetic disease › autosomal dominant disease › autosomal dominant cerebellar ataxia › autosomal dominant cerebellar ataxia type I › cerebellar dysfunction with variable cognitive and behavioral abnormalities

Related subtypes (29): Machado-Joseph disease, spinocerebellar ataxia type 29, spinocerebellar ataxia type 34, spinocerebellar ataxia type 1, spinocerebellar ataxia type 2, spinocerebellar ataxia type 4, cerebellar ataxia-areflexia-pes cavus-optic atrophy-sensorineural hearing loss syndrome, autosomal dominant cerebellar ataxia, deafness and narcolepsy, spinocerebellar ataxia type 12, spinocerebellar ataxia type 13, spinocerebellar ataxia type 14, spinocerebellar ataxia type 15/16, spinocerebellar ataxia type 17, spinocerebellar ataxia type 19/22, spinocerebellar ataxia type 21, spinocerebellar ataxia type 18, spinocerebellar ataxia type 20, spinocerebellar ataxia type 25, spinocerebellar ataxia type 8, spinocerebellar ataxia type 27, spinocerebellar ataxia type 23, spinocerebellar ataxia type 28, spinocerebellar ataxia type 35, spinocerebellar ataxia type 32, spinocerebellar ataxia type 36, spinocerebellar ataxia type 37, spinocerebellar ataxia type 40, spinocerebellar ataxia 46, neurodevelopmental disorder with motor abnormalities, seizures, and facial dysmorphism

Genetics & variants

GWAS landscape

No GWAS associations recorded — common-variant (GWAS) studies don’t cover this disease (typical for Mendelian / rare diseases). See the curated gene cohort and Mendelian overlap below.

Variant details and genetic-evidence tiers

ClinVar germline variants

177 retrieved; paginated sample, class counts are floors:

91 uncertain significance, 25 pathogenic, 23 likely pathogenic, 10 benign, 8 likely benign, 7 conflicting classifications of pathogenicity, 7 benign/likely benign, 6 pathogenic/likely pathogenic

ClinVarVariant (HGVS)GeneClassificationReview
1334751NM_015215.4(CAMTA1):c.4744C>T (p.Arg1582Ter)CAMTA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
1342305NM_015215.4(CAMTA1):c.180_183del (p.Leu61fs)CAMTA1Pathogenicno assertion criteria provided
1342309NM_015215.4(CAMTA1):c.404A>G (p.Glu135Gly)CAMTA1Pathogenicno assertion criteria provided
1685599NM_015215.4(CAMTA1):c.3142C>T (p.Arg1048Ter)CAMTA1Pathogeniccriteria provided, multiple submitters, no conflicts
1700201NM_015215.4(CAMTA1):c.4767del (p.Lys1589fs)CAMTA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
1723214NM_015215.4(CAMTA1):c.1798dup (p.Ser600fs)CAMTA1Pathogeniccriteria provided, single submitter
1804080NM_015215.4(CAMTA1):c.2416_2419del (p.Ser806fs)CAMTA1Pathogeniccriteria provided, multiple submitters, no conflicts
2582483NM_015215.4(CAMTA1):c.1828C>T (p.Gln610Ter)CAMTA1Pathogeniccriteria provided, single submitter
280426NM_015215.4(CAMTA1):c.4231C>T (p.Arg1411Ter)CAMTA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
280872NM_015215.4(CAMTA1):c.882del (p.Tyr297fs)CAMTA1Pathogeniccriteria provided, multiple submitters, no conflicts
3254720NM_015215.4(CAMTA1):c.2072_2075del (p.Thr691fs)CAMTA1Pathogeniccriteria provided, single submitter
3376151NM_015215.4(CAMTA1):c.578del (p.Gly193fs)CAMTA1Pathogeniccriteria provided, single submitter
37006NC_000001.10:g.7119268_7200395delCAMTA1Pathogenicno assertion criteria provided
37007NC_000001.10:g.6882372_7422115dupCAMTA1Pathogenicno assertion criteria provided
37008NC_000001.9:g.6777038_6826186delCAMTA1Pathogenicno assertion criteria provided
3901214NM_015215.4(CAMTA1):c.4116_4129delinsCACGGTAGG (p.Glu1373fs)CAMTA1Pathogeniccriteria provided, single submitter
3902685NC_000001.10:g.(7700614_7721785)_(7737794_7792507)delCAMTA1Pathogeniccriteria provided, single submitter
390487NM_015215.4(CAMTA1):c.4921C>T (p.Arg1641Ter)CAMTA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
4056332NM_015215.4(CAMTA1):c.271G>T (p.Glu91Ter)CAMTA1Pathogeniccriteria provided, single submitter
4082349NM_015215.4:c.(234+1_235-1)_(438+1_439-1)delCAMTA1Pathogeniccriteria provided, single submitter
422992NM_015215.4(CAMTA1):c.838del (p.Ser280fs)CAMTA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
426685NM_015215.4(CAMTA1):c.627del (p.Lys208_Trp209insTer)CAMTA1Pathogeniccriteria provided, single submitter
432176NM_015215.4(CAMTA1):c.4780C>T (p.Arg1594Ter)CAMTA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
4813051NM_015215.4(CAMTA1):c.1747C>T (p.Gln583Ter)CAMTA1Pathogeniccriteria provided, single submitter
4813437NM_015215.4(CAMTA1):c.294del (p.Lys99fs)CAMTA1Pathogeniccriteria provided, single submitter
599309NM_015215.4(CAMTA1):c.511-18459_511-15460delCAMTA1Pathogeniccriteria provided, single submitter
801430NM_015215.4(CAMTA1):c.2639G>A (p.Trp880Ter)CAMTA1Pathogeniccriteria provided, multiple submitters, no conflicts
973263NM_015215.4(CAMTA1):c.4049_4051delinsGTGCTGC (p.Pro1350fs)CAMTA1Pathogeniccriteria provided, single submitter
976737NM_015215.4(CAMTA1):c.3585_3592del (p.Trp1197fs)CAMTA1Pathogeniccriteria provided, single submitter
982402NM_015215.4(CAMTA1):c.249_252del (p.Ala82_Tyr83insTer)CAMTA1Pathogenicno assertion criteria provided

Genes & proteins

Mendelian disease overlap and somatic drivers

GenCC: 4 · Orphanet: 7 · OMIM-shared: 0 · Dual-evidence (GWAS+Mendelian): 0

GenCC gene–disease validity (cohort genes)

the Disease column is the GenCC-asserted condition — a cohort gene’s strongest validity may be for a related predisposition syndrome.

GeneClassificationInheritanceDiseaseRecords
CAMTA1DefinitiveAutosomal dominantcerebellar dysfunction with variable cognitive and behavioral abnormalities4

Orphanet rare-disease linkage (cohort genes)

GeneOrphanet IDRare disease
CAMTA1Orphanet:157791Epithelioid hemangioendothelioma
CAMTA1Orphanet:314647Non-progressive cerebellar ataxia with intellectual disability
SLC9A1Orphanet:448251Progressive autosomal recessive ataxia-deafness syndrome
PRDM16Orphanet:154Familial isolated dilated cardiomyopathy
PRDM16Orphanet:16061p36 deletion syndrome
PRDM16Orphanet:54260Left ventricular noncompaction
NID1Orphanet:269215Isolated Dandy-Walker malformation without hydrocephalus

Cohort genes → proteins

7 cohort genes, 6 distinct canonical proteins.

Evidence partition

SubsetGenes
multi_evidence7

Cohort genes (full)

SymbolHGNCEnsemblUniProtNameEvidence
CAMTA1HGNC:18806ENSG00000171735Q9Y6Y1Calmodulin-binding transcription activator 1gencc,clinvar
SLC9A1HGNC:11071ENSG00000090020P19634Sodium/hydrogen exchanger 1clinvar
PRDM16HGNC:14000ENSG00000142611Q9HAZ2Histone-lysine N-methyltransferase PRDM16clinvar
CAMTA2HGNC:18807ENSG00000108509O94983Calmodulin-binding transcription activator 2clinvar
CFAP107HGNC:28567ENSG00000157330Q8N1D5Cilia- and flagella-associated protein 107clinvar
OBI1-AS1HGNC:42700ENSG00000234377OBI1 antisense RNA 1clinvar
NID1HGNC:7821ENSG00000116962P14543Nidogen-1clinvar

Cohort function summary

Lead sentence per gene, UniProt-curated.

SymbolProtein nameFunction (lead sentence)
CAMTA1Calmodulin-binding transcription activator 1Transcriptional activator.
SLC9A1Sodium/hydrogen exchanger 1Electroneutral Na(+) /H(+) antiporter that extrudes Na(+) in exchange for external protons driven by the inward sodium ion chemical gradient, protecting cells from acidification that occurs from metabolism.
PRDM16Histone-lysine N-methyltransferase PRDM16Transcription regulator that acts both as a histone methyltransferase or chromatin adapter, depending on the context.
CAMTA2Calmodulin-binding transcription activator 2Transcription activator.
CFAP107Cilia- and flagella-associated protein 107Microtubule inner protein (MIP) part of the dynein-decorated doublet microtubules (DMTs) in cilia axoneme, which is required for motile cilia beating.
NID1Nidogen-1Sulfated glycoprotein widely distributed in basement membranes and tightly associated with laminin.

Protein-family classification

Druggable: 2 · Difficult: 1 · Unknown: 4 · Druggable fraction: 0.29

Family distribution

Cohort families vs a genome-wide background (hypergeometric, BH-FDR; fold = observed/expected). Counts kept; sorted by enrichment, so the catch-all Other/Unknown bucket no longer leads.

FamilyGenesFoldFDR
Antibody/Immunoglobulin28.3×0.066
Transcription factor11.2×0.626
Other/Unknown41.0×0.626

Per-gene assignment

SymbolFamilyDruggable?ECInterPro (top 3)
CAMTA1Antibody/ImmunoglobulinyesIQ_motif_EF-hand-BS, Ankyrin_rpt, IPT_dom
SLC9A1Other/UnknownnoNHE-1-like, NaH_exchanger, Cation/H_exchanger_TM
PRDM16Transcription factorno2.1.1.367SET_dom, Znf_C2H2_type, Znf_C2H2_sf
CAMTA2Antibody/ImmunoglobulinyesIPT_dom, CG-1_dom, Ig-like_fold
CFAP107Other/UnknownnoCFAP68/107, CFAP107
OBI1-AS1Other/Unknownno
NID1Other/UnknownnoLDLR_classB_rpt, EGF-type_Asp/Asn_hydroxyl_site, Thyroglobulin_1

Expression context

Cohort genes with no expression data: 0.

7 cohort genes are a single-cell marker in ≥1 SCXA experiment.

Breadth distribution (Bgee present_calls)

BucketGenes
narrow (1-5 tissues)0
moderate (6-20)0
broad (>20)7
unknown0

Top tissues across cohort

TissueCohort genes
parotid gland2
heart right ventricle1
postcentral gyrus1
mucosa of transverse colon1
oocyte1
ascending aorta1
pigmented layer of retina1
sural nerve1
cerebellar hemisphere1
right frontal lobe1
right hemisphere of cerebellum1
bronchial epithelial cell1
bronchus1
right uterine tube1
caudate nucleus1
corpus callosum1
male germ line stem cell (sensu Vertebrata) in testis1
lower lobe of lung1
mucosa of stomach1
stromal cell of endometrium1

Per-gene tissue summary (top 30)

SymbolBgee breadthFANTOM5 breadthSCXATop tissues
CAMTA1287ubiquitousmarkerparotid gland, postcentral gyrus, heart right ventricle
SLC9A1273ubiquitousmarkerparotid gland, mucosa of transverse colon, oocyte
PRDM16202broadmarkersural nerve, pigmented layer of retina, ascending aorta
CAMTA2239ubiquitousmarkerright hemisphere of cerebellum, cerebellar hemisphere, right frontal lobe
CFAP10796tissue_specificmarkerright uterine tube, bronchial epithelial cell, bronchus
OBI1-AS1121tissue_specificmarkermale germ line stem cell (sensu Vertebrata) in testis, caudate nucleus, corpus callosum
NID1262ubiquitousmarkerstromal cell of endometrium, mucosa of stomach, lower lobe of lung

Protein interactions among cohort

Intra-cohort edges: 1.

Hub genes (top 10 by interactor count)

SymbolInteractor count
PRDM162,633
SLC9A12,023
NID11,702
CAMTA1994
CFAP107695
CAMTA2641
OBI1-AS10

Intra-cohort edges

ABSources
CAMTA1CAMTA2string_interaction

Structural data

PDB: 4 · AlphaFold-only: 2 · No structure: 1

Cohort genes with PDB structures (top 30)

SymbolUniProtPDB entries
SLC9A1P1963420
PRDM16Q9HAZ22
CFAP107Q8N1D52
CAMTA1Q9Y6Y11

AlphaFold-only cohort genes (top 30 by pLDDT)

SymbolUniProtpLDDT
NID1P1454378.50
CAMTA2O9498360.82

Function

Pathway analysis

Distinct Reactome pathways touched by cohort: 13. Enrichment computed across 7 evidence-associated genes (3 with Reactome annotation).

Pathways by enrichment

Over-representation of cohort genes vs the genome-wide background (hypergeometric test, Benjamini-Hochberg FDR; fold = observed/expected over 3 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.

PathwayCohort genesFoldFDRSample cohort genes
Sodium/Proton exchangers1423.0×0.018SLC9A1
Hyaluronan metabolism1317.2×0.018SLC9A1
Hyaluronan degradation1237.9×0.018SLC9A1
Laminin interactions1126.9×0.020NID1
Transcriptional regulation of brown and beige adipocyte differentiation by EBF21126.9×0.020PRDM16
Glycosaminoglycan metabolism173.2×0.029SLC9A1
PKMTs methylate histone lysines153.6×0.033PRDM16
R-HSA-425393143.3×0.033SLC9A1
Metabolism of carbohydrates and carbohydrate derivatives140.1×0.033SLC9A1
Degradation of the extracellular matrix139.2×0.033NID1
SLC-mediated transmembrane transport119.7×0.059SLC9A1
Transport of small molecules18.4×0.124SLC9A1
Metabolism13.9×0.237SLC9A1

GO biological processes by enrichment

Over-representation of cohort genes vs the genome-wide background (hypergeometric test, Benjamini-Hochberg FDR; fold = observed/expected over 6 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.

GO termCohort genesFoldFDRSample cohort genes
positive regulation of calcineurin-NFAT signaling cascade2267.5×0.002CAMTA1, SLC9A1
positive regulation of mitochondrial membrane permeability11404.3×0.012SLC9A1
regulation of the force of heart contraction by cardiac conduction11404.3×0.012SLC9A1
negative regulation of white fat cell differentiation11404.3×0.012PRDM16
beige fat cell differentiation1936.2×0.013PRDM16
tolerance induction in gut-associated lymphoid tissue1702.2×0.013PRDM16
positive regulation of the force of heart contraction1561.7×0.013SLC9A1
regulation of cellular respiration1468.1×0.013PRDM16
regulation of basement membrane organization1468.1×0.013NID1
maintenance of cell polarity1401.2×0.013SLC9A1
cellular response to antibiotic1401.2×0.013SLC9A1
regulation of cardiac muscle cell membrane potential1401.2×0.013SLC9A1
negative regulation of granulocyte differentiation1351.1×0.013PRDM16
regulatory T cell differentiation1351.1×0.013PRDM16
positive regulation of action potential1351.1×0.013SLC9A1
negative regulation of muscle cell differentiation1280.9×0.013PRDM16
cardiac muscle cell contraction1280.9×0.013SLC9A1
glomerular basement membrane development1255.3×0.013NID1
regulation of pH1234.1×0.013SLC9A1
response to acidic pH1216.1×0.013SLC9A1
regulation of cardiac muscle contraction by calcium ion signaling1216.1×0.013SLC9A1
heterochromatin organization1216.1×0.013PRDM16
cellular response to electrical stimulus1216.1×0.013SLC9A1
cellular response to epinephrine stimulus1216.1×0.013SLC9A1
positive regulation of integrin-mediated signaling pathway1216.1×0.013NID1
positive regulation of muscle cell differentiation1187.2×0.013NID1
cardiac muscle hypertrophy in response to stress1175.5×0.013CAMTA2
sodium ion export across plasma membrane1175.5×0.013SLC9A1
cellular response to cold1175.5×0.013SLC9A1
hyaluronan catabolic process1165.2×0.013SLC9A1

Therapeutics

Drug target analysis

Approved (phase 4): 1 · Phase ≥3: 1 · Phased (≥1): 1 · Undrugged: 6

Druggability breadth: 2 of 7 evidence-associated genes (29%) have a ChEMBL target (buckets above are over the deeply-mined display cohort).

Genes with an approved drug

The molecule shown is one approved compound that hits the gene — not necessarily a drug of choice or one indicated for this disease.

SymbolExample approved molecule
SLC9A1AMILORIDE

Top cohort targets by molecule count

SymbolMoleculesMax phase
SLC9A164
CAMTA100
PRDM1600
CAMTA200
CFAP10700
OBI1-AS100
NID100

Drugs targeting cohort genes (top 30)

MoleculeMax phaseTargets in cohort
AMILORIDE4SLC9A1
SABIPORIDE2SLC9A1
RIMEPORIDE2SLC9A1
ZONIPORIDE2SLC9A1
CARIPORIDE2SLC9A1
ENIPORIDE2SLC9A1

Bioactivity and enzyme data

Enzyme cohort genes (≥1 EC): 1.

Cohort genes with ChEMBL bioactivity (full, sorted by assay count)

SymbolAssaysType breakdown
SLC9A136Binding:28, Functional:7, ADMET:1
PRDM162Binding:2

Cohort enzymes (BRENDA EC)

SymbolEC numbersNames
PRDM162.1.1.367, 2.1.1.370[histone H3]-lysine9 N-methyltransferase, [histone H3]-lysine4 N-dimethyltransferase

Pharmacogenomics

Cohort genes with a PharmGKB record: 6; with CPIC/DPWG dosing guidelines: 0.

No cohort gene has a CPIC/DPWG genotype-guided dosing guideline (PharmGKB).

Chemical tractability of cohort targets

6 approved/phased compounds have measured bioactivity against a cohort gene (and aren’t yet in disease-level trials). This is a research / tractability signal, NOT a therapeutic recommendation — a bioactivity row often reflects off-target or screening binding (e.g. promiscuous kinase inhibitors against a cohort kinase), implying no disease mechanism.

CompoundMax phaseCohort target (bioactivity)
AMILORIDE4SLC9A1
SABIPORIDE2SLC9A1
RIMEPORIDE2SLC9A1
ZONIPORIDE2SLC9A1
CARIPORIDE2SLC9A1
ENIPORIDE2SLC9A1

Druggability pyramid

Cohort genes binned by druggability tier (high → low):

TierDefinitionGenesSymbols
AApproved (phase 4 drug)1SLC9A1
BPhased (≥1) drug, not yet approved0
CDruggable family + PDB, no drug1CAMTA1
DDruggable family + AlphaFold only, no drug1CAMTA2
EDifficult family or no structure, no drug4PRDM16, CFAP107, OBI1-AS1, NID1

Undrugged target profiles

6 cohort genes are undrugged. Ranked by ‘starting-point quality’ (assay depth + drugged-partner adjacency).

SymbolChEMBL assaysDrugged partners (top 3)
CAMTA10
PRDM162
CAMTA20
CFAP1070
OBI1-AS10
NID10

Clinical trials & evidence

Clinical trials

Clinical trials: 0.