Gene Gene information from NCBI Gene database.
Entrez ID 116442
Gene name RAB39B, member RAS oncogene family
Gene symbol RAB39B
Synonyms (NCBI Gene)
BGMRMRX72WSMNWSNXLID72
Chromosome X
Chromosome location Xq28
Summary This gene encodes a member of the Rab family of proteins. Rab proteins are small GTPases that are involved in vesicular trafficking. Mutations in this gene are associated with X-linked cognitive disability. [provided by RefSeq, Aug 2013]
SNPs SNP information provided by dbSNP.
6
SNP ID Visualize variation Clinical significance Consequence
rs267606995 G>T Pathogenic Coding sequence variant, stop gained
rs587776734 C>T Pathogenic Splice donor variant
rs587777874 G>T Pathogenic Missense variant, coding sequence variant
rs864309527 C>T Pathogenic Missense variant, coding sequence variant
rs1557314191 C>A Pathogenic Stop gained, coding sequence variant
miRNA miRNA information provided by mirtarbase database.
144
miRTarBase ID miRNA Experiments Reference
MIRT024007 hsa-miR-1-3p Microarray 18668037
MIRT555004 hsa-miR-101-3p PAR-CLIP 21572407
MIRT555004 hsa-miR-101-3p PAR-CLIP 21572407
MIRT555003 hsa-miR-144-3p PAR-CLIP 21572407
MIRT555002 hsa-miR-548n PAR-CLIP 21572407
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
31
GO ID Ontology Definition Evidence Reference
GO:0000166 Function Nucleotide binding IEA
GO:0000421 Component Autophagosome membrane IEA
GO:0003924 Function GTPase activity IBA
GO:0003924 Function GTPase activity IEA
GO:0003925 Function G protein activity IEA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
300774 16499 ENSG00000155961
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
Q96DA2
Protein name Ras-related protein Rab-39B (EC 3.6.5.2)
Protein function The small GTPases Rab are key regulators of intracellular membrane trafficking, from the formation of transport vesicles to their fusion with membranes. Rabs cycle between an inactive GDP-bound form and an active GTP-bound form that is able to r
PDB 6S5F
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00071 Ras 10 173 Ras family Domain
Tissue specificity TISSUE SPECIFICITY: Highly expressed in the brain. {ECO:0000269|PubMed:20159109}.
Sequence
Sequence length 213
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Autophagy - animal
Amyotrophic lateral sclerosis
Pathways of neurodegeneration - multiple diseases
  RAB geranylgeranylation
RAB GEFs exchange GTP for GDP on RABs
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
21
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Developmental disorder Likely pathogenic rs2124126312 RCV001843763
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Early-onset parkinsonism-intellectual disability syndrome Pathogenic rs587777874, rs864309527 RCV000150034
RCV000207511
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Intellectual disability, X-linked 72 Likely pathogenic; Pathogenic rs2124130091, rs587776734, rs267606995, rs1557314191 RCV004813203
RCV000011288
RCV000011289
RCV000503295
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Neurodevelopmental disorder Likely pathogenic rs1569561107 RCV000782058
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
AUTISTIC DISORDER CTD
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
CHROMOSOME XQ28 DUPLICATION SYNDROME ClinVar, HPO
ClinVar, HPO
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
CRANIOFACIAL ABNORMALITIES CTD
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
DEVELOPMENTAL DISABILITIES Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
2-3 toe syndactyly Syndactyly Of The Toes HPO_DG
★☆☆☆☆
Found in Text Mining only
Aphasia Aphasia Pubtator 35088096 Associate
★☆☆☆☆
Found in Text Mining only
Attention deficit hyperactivity disorder Attention Deficit Hyperactivity Disorder HPO_DG
★☆☆☆☆
Found in Text Mining only
Autism Spectrum Disorder Autism Pubtator 29152164 Associate
★☆☆☆☆
Found in Text Mining only
Autism Spectrum Disorders Autism Spectrum Disorder BEFREE 25784538
★☆☆☆☆
Found in Text Mining only
Autistic behavior Autism HPO_DG
★☆☆☆☆
Found in Text Mining only
Autistic Disorder Autism BEFREE 20159109
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Autistic Disorder Autism CTD_human_DG 20159109
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Autistic Disorder Autism Pubtator 29152164, 32873259 Associate
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Awakening Epilepsy Epilepsy CTD_human_DG 20159109
★☆☆☆☆
Found in Text Mining only