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RAB15

gene
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Summary

RAB15 (RAB15, member RAS oncogene family, HGNC:20150) is a protein-coding gene on chromosome 14q23.3, encoding Ras-related protein Rab-15 (P59190). The small GTPases Rab are key regulators of intracellular membrane trafficking, from the formation of transport vesicles to their fusion with membranes.

Enables G protein activity. Involved in positive regulation of regulated secretory pathway and receptor-mediated endocytosis. Located in cilium; endosome membrane; and perinuclear region of cytoplasm.

Source: NCBI Gene 376267 — RefSeq curated summary.

At a glance

  • MANE Select transcript: NM_001308154

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:20150
Approved symbolRAB15
NameRAB15, member RAS oncogene family
Location14q23.3
Locus typegene with protein product
StatusApproved
Ensembl geneENSG00000139998
Ensembl biotypeprotein_coding
OMIM619547
Entrez376267

Gene structure

Transcript identifiers

Ensembl transcripts: 12 — 8 protein_coding, 2 retained_intron, 2 nonsense_mediated_decay

ENST00000267512, ENST00000426039, ENST00000533601, ENST00000554593, ENST00000555256, ENST00000585059, ENST00000642625, ENST00000642782, ENST00000646728, ENST00000646754, ENST00000865638, ENST00000969799

RefSeq mRNA: 3 — MANE Select: NM_001308154 NM_001308154, NM_001330182, NM_198686

CCDS: CCDS76691, CCDS81812, CCDS9768

Canonical transcript exons

ENST00000533601 — 7 exons

ExonStartEnd
ENSE000009409856495160364951663
ENSE000016560406495107464951151
ENSE000021407526497195364972336
ENSE000022003756494581664948512
ENSE000036351946495251164952571
ENSE000036415816494866864948733
ENSE000036662756495032564950414

Expression profiles

Bgee: expression breadth ubiquitous, 248 present calls, max score 97.63.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 8.5259 / max 129.1071, expressed in 1402 samples.

FANTOM5 promoters (9 alternative TSS)

Promoter IDTPM avgSamples expressed
1436897.03051356
1436880.4218177
1436900.3369183
1436820.3327179
1436860.154869
1436830.086024
1436850.067837
1436870.049725
1436840.045824

Top tissues by expression

280 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
right hemisphere of cerebellumUBERON:001489097.63gold quality
cerebellar hemisphereUBERON:000224597.48gold quality
cerebellar cortexUBERON:000212997.43gold quality
cerebellumUBERON:000203796.71gold quality
right frontal lobeUBERON:000281096.07gold quality
prefrontal cortexUBERON:000045195.12gold quality
frontal cortexUBERON:000187094.65gold quality
dorsolateral prefrontal cortexUBERON:000983494.63gold quality
Brodmann (1909) area 9UBERON:001354094.46gold quality
cingulate cortexUBERON:000302794.44gold quality
anterior cingulate cortexUBERON:000983594.43gold quality
neocortexUBERON:000195094.35gold quality
cortical plateUBERON:000534394.03gold quality
endothelial cellCL:000011593.75gold quality
parotid glandUBERON:000183193.43gold quality
cerebral cortexUBERON:000095693.40gold quality
primary visual cortexUBERON:000243693.25gold quality
middle temporal gyrusUBERON:000277193.20gold quality
superior frontal gyrusUBERON:000266192.59gold quality
oocyteCL:000002392.41gold quality
Brodmann (1909) area 46UBERON:000648392.11gold quality
occipital lobeUBERON:000202192.03gold quality
Brodmann (1909) area 23UBERON:001355491.84gold quality
secondary oocyteCL:000065591.78gold quality
parietal lobeUBERON:000187291.69gold quality
postcentral gyrusUBERON:000258191.50gold quality
telencephalonUBERON:000189391.34gold quality
Ammon’s hornUBERON:000195491.30gold quality
amygdalaUBERON:000187690.94gold quality
cerebellar vermisUBERON:000472090.83gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 2.

ExperimentMarker?Max mean expression
E-MTAB-3929yes414.76
E-ANND-3yes6.07

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): EGR4

miRNA regulators (miRDB)

137 targeting RAB15, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-4476100.0068.182030
HSA-MIR-6876-5P100.0067.682126
HSA-MIR-30A-5P100.0076.313233
HSA-MIR-30B-5P100.0076.293248
HSA-MIR-30C-5P100.0076.293248
HSA-MIR-30D-5P100.0076.323233
HSA-MIR-30E-5P100.0076.323242
HSA-MIR-5193100.0067.261744
HSA-MIR-29A-3P100.0073.111835
HSA-MIR-29B-3P100.0073.181833
HSA-MIR-29C-3P100.0073.151833
HSA-MIR-6127100.0066.762188
HSA-MIR-6129100.0066.462080
HSA-MIR-450099.9972.722367
HSA-MIR-3667-3P99.9967.171636
HSA-MIR-6870-5P99.9968.552115
HSA-MIR-607799.9968.042299
HSA-LET-7A-5P99.9872.291790
HSA-LET-7B-5P99.9872.311790
HSA-LET-7C-5P99.9872.291790
HSA-LET-7E-5P99.9872.291790
HSA-LET-7F-5P99.9872.561784
HSA-LET-7G-5P99.9872.371784
HSA-LET-7I-5P99.9872.371788
HSA-MIR-98-5P99.9872.331787
HSA-MIR-4723-5P99.9768.702034
HSA-MIR-569899.9768.492029
HSA-MIR-7111-5P99.9768.482062
HSA-MIR-7152-3P99.9767.47849
HSA-MIR-426799.9666.532368

Literature-anchored findings (GeneRIF, showing 4)

  • Rab15 effector protein is a binding partner for Rab15-GTP. (PMID:16195351)
  • Rab15 expression correlates with retinoic acid-induced differentiation of neuroblastoma cells (PMID:21491086)
  • identified 4 Rab15 isoforms, Rab15CN, Rab15AN1, Rab15AN2 and Rab15AN3 in neuroblastoma cells and demonstrated that Rab15 isoform balance was significantly decreased in spheres of neuroblastoma cells; study suggests Rab15 alternative splicing may serve as a biomarker to discriminate tumor-initiating cells (TICs) from non-TICs in neuroblastoma (PMID:22427180)
  • Ehrlichia chaffeensis Etf-3 Induces Host RAB15 Upregulation for Bacterial Intracellular Growth. (PMID:38473798)

Cross-species orthologs

3 orthologs

OrganismSymbolGene ID
danio_reriorab15ENSDARG00000026484
mus_musculusRab15ENSMUSG00000021062
rattus_norvegicusRab15ENSRNOG00000007364

Paralogs (68): RAB27B (ENSG00000041353), RAB27A (ENSG00000069974), RAB7A (ENSG00000075785), RABL2B (ENSG00000079974), RAB21 (ENSG00000080371), RAB10 (ENSG00000084733), RAB18 (ENSG00000099246), RAB36 (ENSG00000100228), IFT27 (ENSG00000100360), RAB40AL (ENSG00000102128), RAB11A (ENSG00000103769), RAB2A (ENSG00000104388), RAB3D (ENSG00000105514), RAB3A (ENSG00000105649), RAB5C (ENSG00000108774), RAB34 (ENSG00000109113), RAB5B (ENSG00000111540), RAB35 (ENSG00000111737), RAB23 (ENSG00000112210), DNAJC27 (ENSG00000115137), RAB29 (ENSG00000117280), RAB32 (ENSG00000118508), RAB14 (ENSG00000119396), RAB9B (ENSG00000123570), RAB9A (ENSG00000123595), RAB38 (ENSG00000123892), RAB22A (ENSG00000124209), RAB17 (ENSG00000124839), RAB2B (ENSG00000129472), RAB25 (ENSG00000132698), RAB33A (ENSG00000134594), RAB30 (ENSG00000137502), RAB1A (ENSG00000138069), RAB20 (ENSG00000139832), RAB40B (ENSG00000141542), RAB13 (ENSG00000143545), RABL2A (ENSG00000144134), RAB5A (ENSG00000144566), RAB19 (ENSG00000146955), RAB41 (ENSG00000147127)

Protein

Protein identifiers

Ras-related protein Rab-15 — P59190 (reviewed: P59190)

All UniProt accessions (8): P59190, A0A2R8Y7G7, A0A2R8YDI9, A0A2R8YFB8, G3V196, G3V562, G5EMR8, J3QSF4

UniProt curated annotations — full annotation on UniProt →

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 recruit to membranes different sets of downstream effectors directly responsible for vesicle formation, movement, tethering and fusion. RAB15 may act in concert with RAB3A in regulating aspects of synaptic vesicle membrane flow within the nerve terminal.

Subunit / interactions. The GTP bound form of RAB15 interacts with REP15. Interacts (GTP-bound form) with MICAL1, MICAL3, MICALCL, EHBP1 and EHBP1L1.

Subcellular location. Cell membrane.

Activity regulation. Regulated by guanine nucleotide exchange factors (GEFs) which promote the exchange of bound GDP for free GTP. Regulated by GTPase activating proteins (GAPs) which increase the GTP hydrolysis activity. Inhibited by GDP dissociation inhibitors (GDIs).

Domain organisation. Switch 1, switch 2 and the interswitch regions are characteristic of Rab GTPases and mediate the interactions with Rab downstream effectors. The switch regions undergo conformational changes upon nucleotide binding which drives interaction with specific sets of effector proteins, with most effectors only binding to GTP-bound Rab.

Similarity. Belongs to the small GTPase superfamily. Rab family.

Isoforms (2)

UniProt IDNamesCanonical?
P59190-11yes
P59190-22

RefSeq proteins (3): NP_001295083, NP_001317111, NP_941959 (=MANE)

Domains & families (InterPro)

IDNameType
IPR001806Small_GTPaseFamily
IPR005225Small_GTP-bdDomain
IPR027417P-loop_NTPaseHomologous_superfamily
IPR041826Rab15Family
IPR050305Small_GTPase_RabFamily

Pfam: PF00071

Catalyzed reactions (Rhea), 1 shown:

  • GTP + H2O = GDP + phosphate + H(+) (RHEA:19669)

UniProt features (27 total): binding site 19, short sequence motif 2, lipid moiety-binding region 2, chain 1, region of interest 1, modified residue 1, splice variant 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-P59190-F189.770.74

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Ligand- & substrate-binding residues (19): 22; 23; 35; 39; 40; 40; 63; 66; 121; 122; 124; 151 …

Post-translational modifications (3): 212, 210, 212

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

IDPathway
R-HSA-8873719RAB geranylgeranylation

MSigDB gene sets: 109 (showing top): TGGTGCT_MIR29A_MIR29B_MIR29C, KOBAYASHI_EGFR_SIGNALING_24HR_UP, GOBP_REGULATION_OF_EXOCYTOSIS, GOBP_VESICLE_MEDIATED_TRANSPORT, GOBP_REGULATION_OF_VESICLE_MEDIATED_TRANSPORT, GOBP_EXOCYTOSIS, GOBP_POSITIVE_REGULATION_OF_REGULATED_SECRETORY_PATHWAY, DOANE_RESPONSE_TO_ANDROGEN_DN, BILD_E2F3_ONCOGENIC_SIGNATURE, GOBP_POSITIVE_REGULATION_OF_EXOCYTOSIS, SCHAEFFER_PROSTATE_DEVELOPMENT_48HR_UP, GOBP_SECRETION, GOBP_REGULATION_OF_REGULATED_SECRETORY_PATHWAY, TATA_C, TCCAGAG_MIR518C

GO Biological Process (5): exocytosis (GO:0006887), receptor-mediated endocytosis (GO:0006898), protein transport (GO:0015031), Rab protein signal transduction (GO:0032482), positive regulation of regulated secretory pathway (GO:1903307)

GO Molecular Function (7): G protein activity (GO:0003925), GTP binding (GO:0005525), metal ion binding (GO:0046872), nucleotide binding (GO:0000166), GTPase activity (GO:0003924), protein binding (GO:0005515), hydrolase activity (GO:0016787)

GO Cellular Component (7): cytoplasm (GO:0005737), plasma membrane (GO:0005886), cilium (GO:0005929), endosome membrane (GO:0010008), perinuclear region of cytoplasm (GO:0048471), extracellular exosome (GO:0070062), membrane (GO:0016020)

Reactome top-level categories

Rollup of top-1 pathways:

CategoryPathways
Post-translational protein modification1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
cellular anatomical structure3
vesicle-mediated transport1
secretion by cell1
vesicle fusion to plasma membrane1
endocytosis1
transport1
intracellular protein localization1
establishment of protein localization1
small GTPase-mediated signal transduction1
regulated exocytosis1
positive regulation of exocytosis1
regulation of regulated secretory pathway1
GTPase activity1
molecular function regulator activity1
guanyl ribonucleotide binding1
purine ribonucleoside triphosphate binding1
cation binding1
nucleoside phosphate binding1
heterocyclic compound binding1
ribonucleoside triphosphate phosphatase activity1
binding1
catalytic activity1
intracellular anatomical structure1
membrane1
cell periphery1
intraciliary transport particle1
membrane-bounded organelle1
plasma membrane bounded cell projection1
endosome1
cytoplasmic vesicle membrane1
bounding membrane of organelle1
cytoplasm1
extracellular vesicle1

Protein interactions and networks

STRING

946 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
RAB15REP15Q6BDI9884
RAB15MICALL1Q8N3F8721
RAB15EEA1Q15075660
RAB15MAPK1IP1LQ8NDC0567
RAB15TFRCP02786548
RAB15GCC2Q8IWJ2474
RAB15SMCR8Q8TEV9458
RAB15WDR41Q9HAD4457
RAB15C9orf72Q96LT7421
RAB15MYRIPQ8NFW9417
RAB15MICALL2Q8IY33366
RAB15UNC13DQ70J99365
RAB15PLLPQ9Y342361
RAB15ZNF205O95201359
RAB15SLCO6A1Q86UG4354

IntAct

28 interactions, top by confidence:

ABTypeScore
RAB15RAP1GDS1psi-mi:“MI:0914”(association)0.640
SLC25A6HRASpsi-mi:“MI:0914”(association)0.530
CFTRCNOT1psi-mi:“MI:0914”(association)0.480
RAB15E6psi-mi:“MI:0915”(physical association)0.370
CD177MYO1Gpsi-mi:“MI:0914”(association)0.350
Mpsi-mi:“MI:0914”(association)0.350
CFTRPOTEFpsi-mi:“MI:0914”(association)0.350
RYBPPIPSLpsi-mi:“MI:0914”(association)0.350
RYBPFAM186Apsi-mi:“MI:0914”(association)0.350
GABARAPL1psi-mi:“MI:0914”(association)0.350
SDCBPpsi-mi:“MI:0914”(association)0.350
CUL3KIF21Bpsi-mi:“MI:0914”(association)0.350
H2AB1UBBpsi-mi:“MI:0914”(association)0.350
MICALL1PLCG1psi-mi:“MI:0914”(association)0.350
RAB15NRDCpsi-mi:“MI:0914”(association)0.350
SLC15A3GXYLT2psi-mi:“MI:0914”(association)0.350
SLC22A11CNOT1psi-mi:“MI:0914”(association)0.350
IPO5psi-mi:“MI:0914”(association)0.350

BioGRID (50): RAP1GDS1 (Affinity Capture-MS), TOR1AIP2 (Affinity Capture-MS), RAB15 (Affinity Capture-MS), RAB15 (Affinity Capture-MS), RAB15 (Affinity Capture-MS), VDAC3 (Co-fractionation), BAG6 (Affinity Capture-Western), RAB15 (Affinity Capture-MS), RAB15 (Negative Genetic), RAB15 (Affinity Capture-RNA), RAB15 (Proximity Label-MS), RAB15 (Affinity Capture-MS), RAB15 (Affinity Capture-MS), RABIF (Two-hybrid), TOR1AIP2 (Affinity Capture-MS)

ESM2 similar proteins: A6QR46, C4YL11, O00194, O18334, O23657, O49841, O80501, P0CY30, P0CY31, P10949, P17608, P20340, P34213, P35279, P35289, P35293, P36017, P55745, P59190, P61294, P62823, P62824, P90726, Q05976, Q0IIG8, Q17R06, Q1KME6, Q1RMR4, Q22782, Q54DA7, Q55FK2, Q5R5H5, Q5RAV6, Q5ZLG1, Q6DHC1, Q8CG50, Q8HZJ5, Q8K386, Q8MXS1, Q96E17

Diamond homologs: A4FV54, C4YL11, F1PTE3, O24466, O42819, O76173, O95716, P01123, P07560, P0CY30, P0CY31, P10536, P10949, P11023, P11620, P16976, P17609, P20336, P20790, P20791, P22125, P22127, P22128, P24409, P25228, P28186, P28188, P31584, P33723, P34139, P34140, P35276, P35280, P35281, P35286, P35289, P36861, P40392, P41924, P51153

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

0 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance0
Likely benign0
Benign0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1144 predictions. Top by Δscore:

VariantEffectΔscore
14:64948508:AATGA:Aacceptor_gain1.0000
14:64948509:ATGA:Aacceptor_gain1.0000
14:64948510:TGA:Tacceptor_gain1.0000
14:64948510:TGAC:Tacceptor_loss1.0000
14:64948511:GA:Gacceptor_gain1.0000
14:64948513:C:CCacceptor_gain1.0000
14:64948513:CT:Cacceptor_loss1.0000
14:64948514:T:Cacceptor_loss1.0000
14:64948663:CTCAC:Cdonor_loss1.0000
14:64948665:CA:Cdonor_loss1.0000
14:64948667:CCT:Cdonor_gain1.0000
14:64948730:CCAG:Cacceptor_gain1.0000
14:64948731:CAG:Cacceptor_gain1.0000
14:64948731:CAGC:Cacceptor_gain1.0000
14:64948734:C:CCacceptor_gain1.0000
14:64948735:T:Aacceptor_loss1.0000
14:64950321:TTACC:Tdonor_loss1.0000
14:64950322:TACCT:Tdonor_loss1.0000
14:64950323:A:ACdonor_gain1.0000
14:64950324:C:CCdonor_gain1.0000
14:64950324:CCTG:Cdonor_gain1.0000
14:64950410:GCGTA:Gacceptor_gain1.0000
14:64950411:CGTA:Cacceptor_gain1.0000
14:64950411:CGTAC:Cacceptor_gain1.0000
14:64950412:GTA:Gacceptor_gain1.0000
14:64950413:TA:Tacceptor_gain1.0000
14:64950413:TACT:Tacceptor_loss1.0000
14:64950415:C:CCacceptor_gain1.0000
14:64950422:C:CTacceptor_gain1.0000
14:64950423:A:Tacceptor_gain1.0000

AlphaMissense

1394 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
14:64951660:G:CD63E1.000
14:64951660:G:TD63E1.000
14:64951661:T:AD63V1.000
14:64951661:T:GD63A1.000
14:64951662:C:GD63H1.000
14:64972012:G:AT22I1.000
14:64950373:C:AK122N0.999
14:64950373:C:GK122N0.999
14:64950375:T:CK122E0.999
14:64950386:A:GL118P0.999
14:64950386:A:TL118H0.999
14:64951094:A:GW102R0.999
14:64951094:A:TW102R0.999
14:64951150:C:TG83E0.999
14:64951151:C:AG83W0.999
14:64951151:C:GG83R0.999
14:64951151:C:TG83R0.999
14:64951652:C:TG66E0.999
14:64951653:C:AG66W0.999
14:64951653:C:GG66R0.999
14:64951653:C:TG66R0.999
14:64951661:T:CD63G0.999
14:64951662:C:AD63Y0.999
14:64951663:C:AW62C0.999
14:64951663:C:GW62C0.999
14:64952512:A:GW62R0.999
14:64952512:A:TW62R0.999
14:64952561:A:CF45L0.999
14:64952561:A:TF45L0.999
14:64952563:A:GF45L0.999

dbSNP variants (sampled 300 via entrez): RS1000009500 (14:64963830 C>A), RS1000368282 (14:64966661 T>A,C), RS1000441747 (14:64966413 C>T), RS1000535100 (14:64963982 G>C), RS1000683510 (14:64960475 A>C), RS1000758060 (14:64973852 C>T), RS1000949489 (14:64970211 C>CA), RS1000999737 (14:64955817 T>C), RS1001115580 (14:64956031 C>T), RS1001269031 (14:64970291 A>T), RS1001345864 (14:64973916 CG>C,CGG), RS1001513221 (14:64946451 G>A), RS1001551050 (14:64956915 C>A), RS1001761891 (14:64950795 A>C,T), RS1001779361 (14:64953355 G>A,C,T)

Disease associations

OMIM: gene MIM:619547 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

0 associations (top):

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

27 total (human), top 27 by PubMed support.

ChemicalActions (top 5)PubMed papers
Valproic Acidaffects cotreatment, increases expression, increases methylation7
Arsenic Trioxidedecreases expression, increases expression2
Benzo(a)pyreneincreases expression, affects methylation2
Progesteroneaffects cotreatment, decreases expression2
Cyclosporinedecreases expression2
FR900359affects phosphorylation1
tris(2-butoxyethyl) phosphateaffects expression1
beta-lapachonedecreases expression, increases expression1
tris(1,3-dichloro-2-propyl)phosphatedecreases expression1
sodium arsenitedecreases expression, increases abundance1
epigallocatechin gallateincreases expression1
phenethyl isothiocyanateaffects binding1
Am 580decreases expression1
pentabromodiphenyl etherdecreases expression1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamideaffects cotreatment, increases expression1
abrinedecreases expression1
dorsomorphinaffects cotreatment, increases expression1
incobotulinumtoxinAdecreases expression1
Rosiglitazonedecreases expression1
Temozolomideincreases expression1
Sunitinibdecreases expression1
Arsenicdecreases expression, increases abundance1
Doxorubicindecreases expression1
Estradioldecreases expression, affects cotreatment1
Ivermectindecreases expression1
Leadaffects expression1
Tretinoindecreases expression1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.

No linked Atlas pages yet — the cross-entity mesh grows as the corpus expands.

About this page

Generated deterministically by Sugi Atlas from primary biomedical databases via BioBTree. Every record on this page traces to a primary source.

Generated
Atlas version
v1.1.4
BioBTree
v2.0.2

Sources 75

This page pulls from 75 datasets indexed by BioBTree:

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