OLFM2

gene
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Also known as OlfCNOE2

Summary

OLFM2 (olfactomedin 2, HGNC:17189) is a protein-coding gene on chromosome 19p13.2, encoding Noelin-2 (O95897). Involved in transforming growth factor beta (TGF-beta)-induced smooth muscle differentiation.

Involved in positive regulation of smooth muscle cell differentiation. Acts upstream of or within protein secretion. Located in cytoplasm; extracellular region; and nucleoplasm.

Source: NCBI Gene 93145 — RefSeq curated summary.

At a glance

  • GWAS associations: 6
  • Clinical variants (ClinVar): 83 total
  • MANE Select transcript: NM_058164

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:17189
Approved symbolOLFM2
Nameolfactomedin 2
Location19p13.2
Locus typegene with protein product
StatusApproved
AliasesOlfC, NOE2
Ensembl geneENSG00000105088
Ensembl biotypeprotein_coding
OMIM617492
Entrez93145

Gene structure

Transcript identifiers

Ensembl transcripts: 8 — 6 protein_coding, 1 retained_intron, 1 nonsense_mediated_decay

ENST00000264833, ENST00000590410, ENST00000590841, ENST00000592448, ENST00000593091, ENST00000882493, ENST00000923214, ENST00000971550

RefSeq mRNA: 3 — MANE Select: NM_058164 NM_001304347, NM_001304348, NM_058164

CCDS: CCDS12221, CCDS77230, CCDS92509

Canonical transcript exons

ENST00000264833 — 6 exons

ExonStartEnd
ENSE0000067493798572639857482
ENSE0000113620898537189854863
ENSE0000126315999363049936515
ENSE0000348023198568079856913
ENSE0000361283698577159857861
ENSE0000361326598606459860794

Expression profiles

Bgee: expression breadth ubiquitous, 173 present calls, max score 98.78.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 10.8778 / max 364.2967, expressed in 1083 samples.

FANTOM5 promoters (9 alternative TSS)

Promoter IDTPM avgSamples expressed
1790514.5546737
1790501.3302374
1790491.2878383
1790451.2809416
1790460.6219321
1790470.6150257
1790440.536878
1790520.4446243
1790480.2060113

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
cortical plateUBERON:000534398.78gold quality
ganglionic eminenceUBERON:000402398.57gold quality
ventricular zoneUBERON:000305398.32gold quality
anterior cingulate cortexUBERON:000983596.99gold quality
right frontal lobeUBERON:000281096.57gold quality
Brodmann (1909) area 9UBERON:001354096.22gold quality
prefrontal cortexUBERON:000045196.13gold quality
amygdalaUBERON:000187695.50gold quality
skin of legUBERON:000151195.40gold quality
caudate nucleusUBERON:000187394.58gold quality
nucleus accumbensUBERON:000188294.18gold quality
hypothalamusUBERON:000189894.10gold quality
skin of abdomenUBERON:000141694.09gold quality
putamenUBERON:000187494.01gold quality
dorsolateral prefrontal cortexUBERON:000983493.17gold quality
neocortexUBERON:000195092.22gold quality
frontal cortexUBERON:000187091.66gold quality
right adrenal gland cortexUBERON:003582791.50gold quality
right adrenal glandUBERON:000123391.03gold quality
C1 segment of cervical spinal cordUBERON:000646991.01gold quality
zone of skinUBERON:000001490.79gold quality
left adrenal glandUBERON:000123490.53gold quality
right hemisphere of cerebellumUBERON:001489090.29gold quality
left adrenal gland cortexUBERON:003582590.18gold quality
cerebral cortexUBERON:000095689.53gold quality
forebrainUBERON:000189089.11gold quality
cerebellar hemisphereUBERON:000224588.84gold quality
cerebellar cortexUBERON:000212988.66gold quality
brainUBERON:000095588.05gold quality
adrenal cortexUBERON:000123587.52gold quality

Single-cell (SCXA)

Detected in 3 experiment(s), a significant marker in 3.

ExperimentMarker?Max mean expression
E-GEOD-84465yes23.04
E-MTAB-5061yes5.98
E-ANND-3yes3.46

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

49 targeting OLFM2, 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-4692100.0067.322066
HSA-MIR-5196-5P100.0067.982761
HSA-MIR-5692A100.0074.406850
HSA-MIR-4510100.0066.602050
HSA-MIR-6127100.0066.762188
HSA-MIR-6129100.0066.462080
HSA-MIR-6130100.0066.692012
HSA-MIR-6133100.0066.482064
HSA-MIR-4747-5P100.0067.902681
HSA-MIR-451499.9967.101870
HSA-MIR-95-5P99.8972.173973
HSA-MIR-548E-5P99.8972.734486
HSA-MIR-477999.8666.501583
HSA-MIR-444799.8567.812900
HSA-MIR-548AZ-5P99.8369.943230
HSA-MIR-548T-5P99.8369.913220
HSA-MIR-6756-5P99.8267.972466
HSA-MIR-7110-5P99.8067.841712
HSA-MIR-6842-5P99.8067.541587
HSA-MIR-674599.7465.331321
HSA-MIR-442899.7366.411733
HSA-MIR-4524A-3P99.7266.852406
HSA-MIR-371499.7170.742671
HSA-MIR-6766-5P99.6867.702325
HSA-MIR-317599.6566.302031
HSA-MIR-182799.6368.573265
HSA-MIR-451699.6167.783390
HSA-MIR-6752-5P99.5967.321243
HSA-MIR-6751-5P99.5664.991145
HSA-MIR-363-5P99.4664.511015

Literature-anchored findings (GeneRIF, showing 7)

  • The Arg144Gln mutation in OLFM2 is a possible disease-causing mutation in Japanese patients with OAG. Common polymorphisms in OLFM2 and OPTN may interactively contribute to the development of OAG, indicating a polygenic etiology. (PMID:17122126)
  • Olfm2 physically interacts with serum response factor (SRF) without affecting the SRF-myocardin interaction. (PMID:25298399)
  • Our study indicates that OLFM2 is likely to be important in mammalian eye development and disease and should be considered as a gene for human ocular anomalies. (PMID:27844144)
  • plasma OLFM2 is a potential biomarker for restenosis and may be a novel target for the treatment of restenosis. (PMID:29553861)
  • New Insights of OLFM2 and OLFM4 in Gut-Liver Axis and Their Potential Involvement in Nonalcoholic Fatty Liver Disease. (PMID:35806447)
  • The Role of Olfactomedin 2 in the Adipose Tissue-Liver Axis and Its Implication in Obesity-Associated Nonalcoholic Fatty Liver Disease. (PMID:36982296)
  • OLFM2 promotes epithelial-mesenchymal transition, migration, and invasion in colorectal cancer through the TGF-beta/Smad signaling pathway. (PMID:38350902)

Cross-species orthologs

4 orthologs

OrganismSymbolGene ID
danio_rerioolfm2aENSDARG00000077847
danio_rerioolfm2bENSDARG00000102825
mus_musculusOlfm2ENSMUSG00000032172
rattus_norvegicusOlfm2ENSRNOG00000020519

Paralogs (9): MYOC (ENSG00000034971), OLFM4 (ENSG00000102837), OLFML3 (ENSG00000116774), OLFM3 (ENSG00000118733), OLFM1 (ENSG00000130558), OLFML2B (ENSG00000162745), OLFML1 (ENSG00000183801), OLFML2A (ENSG00000185585), GLDN (ENSG00000186417)

Protein

Protein identifiers

Noelin-2O95897 (reviewed: O95897)

Alternative names: Olfactomedin-2

All UniProt accessions (4): O95897, K7EIS8, K7EKW2, K7ELC6

UniProt curated annotations — full annotation on UniProt →

Function. Involved in transforming growth factor beta (TGF-beta)-induced smooth muscle differentiation. TGF-beta induces expression and translocation of OLFM2 to the nucleus where it binds to SRF, causing its dissociation from the transcriptional repressor HEY2/HERP1 and facilitating binding of SRF to target genes. Plays a role in AMPAR complex organization. Is a regulator of vascular smooth-muscle cell (SMC) phenotypic switching, that acts by promoting RUNX2 and inhibiting MYOCD binding to SRF. SMC phenotypic switching is the process through which vascular SMCs undergo transition between a quiescent contractile phenotype and a proliferative synthetic phenotype in response to pathological stimuli. SMC phenotypic plasticity is essential for vascular development and remodeling.

Subunit / interactions. Peripherally associated with AMPAR complex. AMPAR complex consists of an inner core made of 4 pore-forming GluA/GRIA proteins (GRIA1, GRIA2, GRIA3 and GRIA4) and 4 major auxiliary subunits arranged in a twofold symmetry. One of the two pairs of distinct binding sites is occupied either by CNIH2, CNIH3 or CACNG2, CACNG3. The other harbors CACNG2, CACNG3, CACNG4, CACNG8 or GSG1L. This inner core of AMPAR complex is complemented by outer core constituents binding directly to the GluA/GRIA proteins at sites distinct from the interaction sites of the inner core constituents. Outer core constituents include at least PRRT1, PRRT2, CKAMP44/SHISA9, FRRS1L and NRN1. The proteins of the inner and outer core serve as a platform for other, more peripherally associated AMPAR constituents, including OLFM2. Alone or in combination, these auxiliary subunits control the gating and pharmacology of the AMPAR complex and profoundly impact their biogenesis and protein processing. Interacts with GRIA2. Interacts with OLFM1 and OLFM3. Interacts with SRF; the interaction promotes dissociation of SRF from the transcriptional repressor HEY2. Interacts with RUNX2.

Subcellular location. Secreted. Synapse. Membrane. Nucleus. Cytoplasm.

Tissue specificity. Expressed in aortic smooth muscle (at protein level). In the fetus, expressed in the brain and ocular tissues including lens vesicle and optic cup.

Post-translational modifications. N-glycosylated.

Induction. By TGF-beta.

RefSeq proteins (3): NP_001291276, NP_001291277, NP_477512* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR003112Olfac-like_domDomain
IPR022082Noelin_domDomain
IPR050605Olfactomedin-like_domainFamily

Pfam: PF02191, PF12308

UniProt features (17 total): glycosylation site 6, sequence variant 3, mutagenesis site 2, coiled-coil region 2, signal peptide 1, chain 1, disulfide bond 1, domain 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-O95897-F184.370.54

Functional residue map

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

Disulfide bonds (1): 195–377

Glycosylation sites (6): 441, 74, 155, 275, 310, 399

Mutagenesis-validated functional residues (2):

PositionPhenotype
144no effect on secretion.
420completely blocks secretion. also significantly inhibits secretion of olfm1 and olfm3.

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 105 (showing top): MYOGENIN_Q6, GOBP_REGULATION_OF_SMOOTH_MUSCLE_CELL_DIFFERENTIATION, GOBP_POSITIVE_REGULATION_OF_MUSCLE_CELL_DIFFERENTIATION, GOBP_SMOOTH_MUSCLE_CELL_DIFFERENTIATION, PAX8_B, GOBP_MUSCLE_STRUCTURE_DEVELOPMENT, GOBP_POSITIVE_REGULATION_OF_CELL_DIFFERENTIATION, GOBP_REGULATION_OF_MUSCLE_CELL_DIFFERENTIATION, GOBP_SECRETION, GOBP_POSITIVE_REGULATION_OF_DEVELOPMENTAL_PROCESS, MODULE_342, GOCC_PLASMA_MEMBRANE_SIGNALING_RECEPTOR_COMPLEX, GOBP_MUSCLE_CELL_DIFFERENTIATION, GOCC_AMPA_GLUTAMATE_RECEPTOR_COMPLEX, GOCC_SYNAPSE

GO Biological Process (4): signal transduction (GO:0007165), protein secretion (GO:0009306), positive regulation of smooth muscle cell differentiation (GO:0051152), regulation of vascular associated smooth muscle cell dedifferentiation (GO:1905174)

GO Molecular Function (1): protein binding (GO:0005515)

GO Cellular Component (8): extracellular region (GO:0005576), obsolete extracellular space (GO:0005615), nucleus (GO:0005634), nucleoplasm (GO:0005654), cytoplasm (GO:0005737), AMPA glutamate receptor complex (GO:0032281), synapse (GO:0045202), membrane (GO:0016020)

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
cellular anatomical structure4
regulation of cellular process2
cell communication1
cellular process1
signaling1
cellular response to stimulus1
protein transport1
secretion by cell1
establishment of protein localization to extracellular region1
protein localization to extracellular region1
smooth muscle cell differentiation1
positive regulation of muscle cell differentiation1
regulation of smooth muscle cell differentiation1
regulation of developmental process1
vascular associated smooth muscle cell dedifferentiation1
binding1
intracellular membrane-bounded organelle1
nuclear lumen1
intracellular anatomical structure1
ionotropic glutamate receptor complex1
cell junction1

Protein interactions and networks

STRING

890 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
OLFM2AVPR2P30518479
OLFM2OPTNQ96CV9476
OLFM2UBL5Q9BZL1446
OLFM2GRIA1P42261437
OLFM2COL5A3P25940417
OLFM2FBXL12Q9NXK8405
OLFM2TCF23Q7RTU1402
OLFM2PRKCSHP14314394
OLFM2ISYNA1Q9NPH2392
OLFM2SH3BGRP55822390
OLFM2PIDD1Q9HB75382
OLFM2GUK1Q16774376
OLFM2RBMS2Q15434371
OLFM2KRTAP8-1Q8IUC2369
OLFM2OCIAD2Q56VL3367

IntAct

80 interactions, top by confidence:

ABTypeScore
OLFM1OLFM2psi-mi:“MI:0914”(association)0.640
FBXO6MAN2B1psi-mi:“MI:0914”(association)0.640
SDF2L1OLFM2psi-mi:“MI:0914”(association)0.640
OLFM2psi-mi:“MI:0915”(physical association)0.560
OLFM2psi-mi:“MI:0915”(physical association)0.560
OLFM2NOTCH2NLCpsi-mi:“MI:0915”(physical association)0.560
KRTAP1-3OLFM2psi-mi:“MI:0915”(physical association)0.560
FBXO2TMEM131Lpsi-mi:“MI:0914”(association)0.530
ADAMTS4MANBApsi-mi:“MI:0914”(association)0.530
C1orf54EXTL3psi-mi:“MI:0914”(association)0.530
BLOC1S6OLFM2psi-mi:“MI:0915”(physical association)0.370
OLFM2ZSWIM8psi-mi:“MI:0914”(association)0.350
OLFM3AGRNpsi-mi:“MI:0914”(association)0.350
OLFM1psi-mi:“MI:0914”(association)0.350
CGATRIOpsi-mi:“MI:0914”(association)0.350
CXCL5OLFM2psi-mi:“MI:0914”(association)0.350
OLFM3OLFM2psi-mi:“MI:0914”(association)0.350
HLA-GTMEM131Lpsi-mi:“MI:0914”(association)0.350
BTNL2TMEM131Lpsi-mi:“MI:0914”(association)0.350
LY86TMEM131Lpsi-mi:“MI:0914”(association)0.350
IL5RAPOTEFpsi-mi:“MI:0914”(association)0.350
NCR3POTEFpsi-mi:“MI:0914”(association)0.350
DNAJB9POTEFpsi-mi:“MI:0914”(association)0.350

BioGRID (117): KRTAP10-3 (Two-hybrid), OLFM2 (Affinity Capture-MS), KRTAP10-3 (Two-hybrid), OLFM2 (Affinity Capture-MS), ZFHX4 (Affinity Capture-MS), RNF40 (Affinity Capture-MS), TUBB1 (Affinity Capture-MS), DVL2 (Affinity Capture-MS), FEM1B (Affinity Capture-MS), OLFM2 (Affinity Capture-MS), KDM5C (Affinity Capture-MS), MSTO1 (Affinity Capture-MS), LRIF1 (Affinity Capture-MS), ZSWIM8 (Affinity Capture-MS), CBY1 (Affinity Capture-MS)

ESM2 similar proteins: A2AV25, A5PJQ2, O35764, O43278, O43827, O70165, O95841, O95897, P02675, P02678, P04115, P12804, P14480, P30203, P33573, Q0P4P2, Q14314, Q1RMR1, Q24K15, Q29041, Q29042, Q29RY7, Q2KJ51, Q2TNK5, Q568Y7, Q5EA66, Q5FB95, Q5I2E5, Q5XK91, Q640P2, Q6AX44, Q6TMA8, Q8BM13, Q8IUK5, Q8K0E8, Q8N539, Q8NI99, Q8R0Z6, Q8R1Q3, Q91ZV7

Diamond homologs: A2BD09, A4IIT5, A6QLD2, B0BNI5, B5MFE9, O70624, O88917, O88923, O88998, O94910, O95490, O95897, O97817, O97827, O97831, P63056, P63057, Q0P3W2, Q0V9V5, Q0VCP3, Q25C36, Q2PT31, Q3UZZ4, Q3V1G4, Q568Y7, Q594P2, Q62609, Q66H86, Q68BL7, Q68BL8, Q6UWY5, Q6UX06, Q80TR1, Q80TS3, Q863A3, Q866N2, Q8BHP7, Q8BK62, Q8BM13, Q8JZZ7

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance63
Likely benign4
Benign12

Top pathogenic / likely-pathogenic (0)

SpliceAI

1361 predictions. Top by Δscore:

VariantEffectΔscore
19:9856803:TCACC:Tdonor_loss1.0000
19:9856804:CA:Cdonor_loss1.0000
19:9856805:AC:Adonor_gain1.0000
19:9856805:ACCC:Adonor_loss1.0000
19:9856806:CC:Cdonor_gain1.0000
19:9856909:ACAGC:Aacceptor_gain1.0000
19:9856910:CAGC:Cacceptor_gain1.0000
19:9856910:CAGCC:Cacceptor_gain1.0000
19:9856914:C:CCacceptor_gain1.0000
19:9857262:CCCAG:Cdonor_gain1.0000
19:9857266:G:Cdonor_gain1.0000
19:9857710:CCCA:Cdonor_loss1.0000
19:9857712:CA:Cdonor_loss1.0000
19:9857714:C:CGdonor_loss1.0000
19:9860639:TCTCA:Tdonor_loss1.0000
19:9860640:CTCA:Cdonor_loss1.0000
19:9860643:A:ACdonor_gain1.0000
19:9860644:C:CCdonor_gain1.0000
19:9860644:CCTT:Cdonor_gain1.0000
19:9860790:AGAGT:Aacceptor_gain1.0000
19:9860791:GAGT:Gacceptor_gain1.0000
19:9860793:GT:Gacceptor_gain1.0000
19:9860795:C:CCacceptor_gain1.0000
19:9869062:ATC:Adonor_gain1.0000
19:9869064:C:Adonor_gain1.0000
19:9856800:CACT:Cdonor_loss0.9900
19:9856801:ACTC:Adonor_loss0.9900
19:9856805:A:ACdonor_gain0.9900
19:9856806:C:CCdonor_gain0.9900
19:9856806:CCCGG:Cdonor_gain0.9900

AlphaMissense

2962 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
19:9854252:G:CN433K1.000
19:9854252:G:TN433K1.000
19:9854257:A:GW432R1.000
19:9854257:A:TW432R1.000
19:9854602:A:GW317R1.000
19:9854602:A:TW317R1.000
19:9856843:C:AW217C1.000
19:9856843:C:GW217C1.000
19:9856845:A:GW217R1.000
19:9856845:A:TW217R1.000
19:9856850:C:TG215D1.000
19:9856852:G:CF214L1.000
19:9856852:G:TF214L1.000
19:9856854:A:GF214L1.000
19:9854247:C:AG435V0.999
19:9854247:C:TG435D0.999
19:9854253:T:AN433I0.999
19:9854255:C:AW432C0.999
19:9854255:C:GW432C0.999
19:9854265:A:GL429P0.999
19:9854265:A:TL429H0.999
19:9854287:A:CY422D0.999
19:9854315:G:CN412K0.999
19:9854315:G:TN412K0.999
19:9854365:A:CY396D0.999
19:9854410:A:CY381D0.999
19:9854412:A:GL380P0.999
19:9854420:G:CC377W0.999
19:9854421:C:AC377F0.999
19:9854421:C:TC377Y0.999

dbSNP variants (sampled 300 via entrez): RS1000022610 (19:9859871 G>A,C), RS1000048748 (19:9913836 G>A,T), RS1000068125 (19:9853803 CTGGGGG>C,CTGGGGGTGGGGG), RS1000069185 (19:9933426 CG>C), RS1000093022 (19:9873464 G>T), RS1000119150 (19:9924575 C>T), RS1000128128 (19:9868154 G>A), RS1000195440 (19:9916529 CA>C), RS1000205352 (19:9897012 C>T), RS1000207431 (19:9906605 A>G), RS1000254798 (19:9907369 C>A,T), RS1000287804 (19:9927509 G>T), RS1000295555 (19:9871784 C>G), RS1000377592 (19:9883646 T>C), RS1000386966 (19:9929562 C>G,T)

Disease associations

OMIM: gene MIM:617492 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

6 associations (top):

StudyTraitp-value
GCST000880_35Menarche (age at onset)2.000000e-07
GCST002541_117Menarche (age at onset)2.000000e-13
GCST003993_19Menarche (age at onset)1.000000e-06
GCST006585_1182Blood protein levels6.000000e-157
GCST006914_11Sleep duration1.000000e-10
GCST90000025_553Appendicular lean mass3.000000e-16

EFO canonical traits (2, from GWAS)

EFO IDTrait name
EFO:0004703age at menarche
EFO:0004980appendicular lean mass

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

25 total (human), top 25 by PubMed support.

ChemicalActions (top 5)PubMed papers
sodium arsenitedecreases expression, increases expression3
Benzo(a)pyreneaffects methylation, increases methylation2
ethyl-p-hydroxybenzoatedecreases expression1
mono-(2-ethylhexyl)phthalateincreases methylation1
benzo(e)pyreneincreases methylation1
aflatoxin B2increases methylation1
S-(1,2-dichlorovinyl)cysteineaffects response to substance, increases expression, affects cotreatment1
di-n-butylphosphoric acidaffects expression1
abrineincreases expression1
bisphenol Sincreases methylation1
jinfukangdecreases expression1
incobotulinumtoxinAdecreases expression1
Sunitinibdecreases expression1
Acetaminophendecreases expression1
Doxorubicinincreases expression1
Estradiolaffects cotreatment, increases expression1
Lipopolysaccharidesaffects response to substance, affects cotreatment, increases expression1
Methapyrileneincreases methylation1
Silicon Dioxidedecreases expression1
Smokedecreases expression1
Tobacco Smoke Pollutiondecreases expression1
Triclosanincreases expression1
Aflatoxin B1increases methylation1
Asbestos, Serpentineincreases methylation1
Palmitic Acidincreases 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.