CNRIP1

gene
On this page

Also known as DKFZP566K1924CRIP1CRIP1aCRIP1b

Summary

CNRIP1 (cannabinoid receptor interacting protein 1, HGNC:24546) is a protein-coding gene on chromosome 2p14, encoding CB1 cannabinoid receptor-interacting protein 1 (Q96F85). Suppresses cannabinoid receptor CNR1-mediated tonic inhibition of voltage-gated calcium channels.

This gene encodes a protein that interacts with the C-terminal tail of cannabinoid receptor 1. Two transcript variants encoding different isoforms have been described for this gene.

Source: NCBI Gene 25927 — RefSeq curated summary.

At a glance

  • GWAS associations: 3
  • Clinical variants (ClinVar): 67 total — 1 pathogenic
  • MANE Select transcript: NM_015463

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:24546
Approved symbolCNRIP1
Namecannabinoid receptor interacting protein 1
Location2p14
Locus typegene with protein product
StatusApproved
AliasesDKFZP566K1924, CRIP1, CRIP1a, CRIP1b
Ensembl geneENSG00000119865
Ensembl biotypeprotein_coding
OMIM618538
Entrez25927

Gene structure

Transcript identifiers

Ensembl transcripts: 5 — 4 protein_coding, 1 protein_coding_CDS_not_defined

ENST00000263655, ENST00000409559, ENST00000409862, ENST00000481714, ENST00000954140

RefSeq mRNA: 7 — MANE Select: NM_015463 NM_001111101, NM_001371604, NM_001371605, NM_001371606, NM_001371607, NM_001371608, NM_015463

CCDS: CCDS1886, CCDS46311

Canonical transcript exons

ENST00000263655 — 3 exons

ExonStartEnd
ENSE000008102436829301068294026
ENSE000010064576831922268319949
ENSE000034788176831715768317307

Expression profiles

Bgee: expression breadth ubiquitous, 252 present calls, max score 99.53.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 23.4358 / max 265.0385, expressed in 1345 samples.

FANTOM5 promoters (11 alternative TSS)

Promoter IDTPM avgSamples expressed
2886810.53011234
288777.23541209
288743.62371070
288700.7690346
288730.3573182
288760.2983178
288720.2620119
288750.155970
288690.097336
288710.077037

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
secondary oocyteCL:000065599.53gold quality
oocyteCL:000002399.51gold quality
middle temporal gyrusUBERON:000277199.38gold quality
Brodmann (1909) area 23UBERON:001355499.14gold quality
Brodmann (1909) area 46UBERON:000648398.38gold quality
tendon of biceps brachiiUBERON:000818897.69gold quality
primary visual cortexUBERON:000243697.61gold quality
superior frontal gyrusUBERON:000266197.56gold quality
entorhinal cortexUBERON:000272897.38gold quality
dorsolateral prefrontal cortexUBERON:000983497.23gold quality
prefrontal cortexUBERON:000045197.18gold quality
frontal cortexUBERON:000187097.05gold quality
occipital lobeUBERON:000202197.00gold quality
postcentral gyrusUBERON:000258196.94gold quality
cerebral cortexUBERON:000095696.88gold quality
neocortexUBERON:000195096.88gold quality
cortical plateUBERON:000534396.82gold quality
right frontal lobeUBERON:000281096.80gold quality
Brodmann (1909) area 9UBERON:001354096.79gold quality
parietal lobeUBERON:000187296.68gold quality
temporal lobeUBERON:000187196.67gold quality
anterior cingulate cortexUBERON:000983596.44gold quality
tibiaUBERON:000097996.42gold quality
Ammon’s hornUBERON:000195496.38gold quality
cerebellar hemisphereUBERON:000224596.32gold quality
cerebellumUBERON:000203796.25gold quality
cerebellar cortexUBERON:000212996.24gold quality
right hemisphere of cerebellumUBERON:001489096.18gold quality
amygdalaUBERON:000187696.17gold quality
cardiac muscle of right atriumUBERON:000337996.14gold quality

Single-cell (SCXA)

Detected in 16 experiment(s), a significant marker in 15.

ExperimentMarker?Max mean expression
E-MTAB-9067yes1313.08
E-MTAB-7407yes1044.46
E-CURD-112yes574.25
E-GEOD-76312yes361.78
E-CURD-6yes359.63
E-MTAB-10042yes279.90
E-MTAB-8884yes278.66
E-HCAD-6yes181.92
E-CURD-122yes18.58
E-MTAB-6701yes12.86
E-MTAB-9801yes9.84
E-HCAD-10yes9.78
E-MTAB-8410yes9.51
E-CURD-46yes5.46
E-MTAB-7303no565.44

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

49 targeting CNRIP1, 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-318599.9968.121959
HSA-MIR-520D-5P99.9873.344883
HSA-MIR-524-5P99.9873.434882
HSA-MIR-548N99.9871.944170
HSA-MIR-302C-5P99.9772.563642
HSA-MIR-365899.9673.874379
HSA-MIR-4725-3P99.9669.532520
HSA-MIR-6780B-5P99.9669.602562
HSA-MIR-3912-5P99.9566.11925
HSA-MIR-219A-5P99.9173.36735
HSA-MIR-345-3P99.8970.231421
HSA-MIR-4782-3P99.8873.31735
HSA-MIR-6766-3P99.8873.38732
HSA-MIR-670-5P99.6769.941565
HSA-MIR-447099.6669.351767
HSA-MIR-3679-3P99.6469.881599
HSA-MIR-426199.5970.303415
HSA-MIR-3120-3P99.5470.282669
HSA-MIR-464399.4967.631791
HSA-MIR-147B-5P99.4570.622432
HSA-MIR-29799.4069.581418
HSA-MIR-431699.3765.751360
HSA-MIR-568399.3668.592083
HSA-MIR-431299.3467.30511
HSA-MIR-4685-5P99.2565.991563
HSA-MIR-6837-5P99.2565.471632
HSA-MIR-122B-3P99.2168.901333
HSA-MIR-21-3P99.2168.951312
HSA-MIR-10399-5P99.1769.872610
HSA-MIR-6504-3P99.1769.312891

Literature-anchored findings (GeneRIF, showing 10)

  • CRIP1a can compete with beta-arrestins for interaction with C-terminal CB1R domains that could affect agonist-driven, beta-arrestin-mediated internalization of the CB1R. (PMID:27895162)
  • The Arg82 and Cys126 of CRIP1b are involved in the majority of hydrogen bond interactions with the CB1 receptor and are possible key residues required for interactions between the CB1 receptor and CRIP1b (PMID:28918320)
  • CNRIP1 and RUNX3 as potential DNA methylation biomarkers for CRC diagnosis and treatment (PMID:28940471)
  • Through investigations of the function and structure of CRIP1a, new pharmacotherapies based upon the CRIP-CB1 receptor interaction can be designed to treat diseases such as epilepsy, motor dysfunctions and schizophrenia (PMID:31614728)
  • A rare genomic duplication in 2p14 underlies autosomal dominant hearing loss DFNA58. (PMID:32337552)
  • Tat-Cannabinoid Receptor Interacting Protein Reduces Ischemia-Induced Neuronal Damage and Its Possible Relationship with 14-3-3eta. (PMID:32756411)
  • DNA Methylation of Cannabinoid Receptor Interacting Protein 1 Promotes Pathogenesis of Intrahepatic Cholangiocarcinoma Through Suppressing Parkin-Dependent Pyruvate Kinase M2 Ubiquitination. (PMID:32955740)
  • Cannabinoid Receptor Interacting Protein 1a (CRIP1a) in Health and Disease. (PMID:33261012)
  • Cannabinoid Receptor Type 1 Regulates Drug Reward Behavior via Glutamate Decarboxylase 67 Transcription. (PMID:34638827)
  • Deciphering the Molecular Association of Human CRIP1a with an Agonist-Bound Cannabinoid Receptor 1. (PMID:38159053)

Cross-species orthologs

5 orthologs

OrganismSymbolGene ID
danio_reriocnrip1bENSDARG00000037337
danio_reriocnrip1aENSDARG00000091683
mus_musculusCnrip1ENSMUSG00000044629
rattus_norvegicusCnrip1ENSRNOG00000005326
caenorhabditis_elegansWBGENE00017914

Protein

Protein identifiers

CB1 cannabinoid receptor-interacting protein 1Q96F85 (reviewed: Q96F85)

All UniProt accessions (2): Q96F85, B8ZZB8

UniProt curated annotations — full annotation on UniProt →

Function. Suppresses cannabinoid receptor CNR1-mediated tonic inhibition of voltage-gated calcium channels. Does not suppress cannabinoid receptor CNR1-mediated tonic inhibition of voltage-gated calcium channels.

Subunit / interactions. Interacts with the cannabinoid receptor CNR1 (via C-terminus). Does not interact with cannabinoid receptor CNR2.

Similarity. Belongs to the CNRIP family.

Isoforms (2)

UniProt IDNamesCanonical?
Q96F85-11, CRIP1ayes
Q96F85-22, CRIP1b

RefSeq proteins (7): NP_001104571, NP_001358533, NP_001358534, NP_001358535, NP_001358536, NP_001358537, NP_056278* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR029204CNRIP1Family

Pfam: PF15043

UniProt features (3 total): chain 1, splice variant 1, sequence conflict 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q96F85-F194.940.92

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 524 (showing top): GSE45365_NK_CELL_VS_CD8A_DC_MCMV_INFECTION_UP, GSE18804_SPLEEN_MACROPHAGE_VS_TUMORAL_MACROPHAGE_UP, BENPORATH_ES_WITH_H3K27ME3, GOBP_RESPONSE_TO_ZINC_ION, GOBP_GLAND_MORPHOGENESIS, GOBP_PROSTATE_GLAND_MORPHOGENESIS, GOBP_CELLULAR_RESPONSE_TO_UV, BASSO_B_LYMPHOCYTE_NETWORK, YANG_BREAST_CANCER_ESR1_BULK_UP, chr2p14, GOBP_CELLULAR_RESPONSE_TO_LIGHT_STIMULUS, MODULE_45, KAAB_HEART_ATRIUM_VS_VENTRICLE_UP, GAUSSMANN_MLL_AF4_FUSION_TARGETS_A_UP, SCHLESINGER_METHYLATED_DE_NOVO_IN_CANCER

GO Biological Process (3): regulation of signaling receptor activity (GO:0010469), regulation of trans-synaptic signaling by endocannabinoid, modulating synaptic transmission (GO:0150036), negative regulation of signaling receptor activity (GO:2000272)

GO Molecular Function (2): type 1 cannabinoid receptor binding (GO:0031718), protein binding (GO:0005515)

GO Cellular Component (5): cytoplasm (GO:0005737), plasma membrane (GO:0005886), presynapse (GO:0098793), glutamatergic synapse (GO:0098978), GABA-ergic synapse (GO:0098982)

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
synapse3
signaling receptor activity2
cellular anatomical structure2
regulation of signal transduction1
regulation of molecular function1
modulation of chemical synaptic transmission1
trans-synaptic signaling by endocannabinoid, modulating synaptic transmission1
regulation of signaling receptor activity1
negative regulation of molecular function1
cannabinoid receptor binding1
binding1
intracellular anatomical structure1
membrane1
cell periphery1

Protein interactions and networks

STRING

524 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
CNRIP1CNR1P21554745
CNRIP1SEPTIN9Q9UHD8660
CNRIP1SNAPINO95295606
CNRIP1DAGLBQ8NCG7555
CNRIP1DAGLAQ9Y4D2553
CNRIP1VIMP08670552
CNRIP1SPARTQ8N0X7479
CNRIP1ABHD6Q9BV23478
CNRIP1DNAJC14Q6Y2X3459
CNRIP1FBXO48Q5FWF7456
CNRIP1CDO1P78513448
CNRIP1LRRC28Q86X40420
CNRIP1ZSCAN18Q8TBC5399
CNRIP1PLD6Q8N2A8393
CNRIP1ADHFE1Q8IWW8392

IntAct

23 interactions, top by confidence:

ABTypeScore
CNRIP1PRTFDC1psi-mi:“MI:0915”(physical association)0.560
YIF1ACNRIP1psi-mi:“MI:0915”(physical association)0.560
ZFP41LRP4psi-mi:“MI:0914”(association)0.530
PGLYRP1IFNA2psi-mi:“MI:0914”(association)0.530
C20orf203POTEIpsi-mi:“MI:0914”(association)0.530
TK2psi-mi:“MI:0915”(physical association)0.400
CNRIP1GCH1psi-mi:“MI:0915”(physical association)0.370
SSTATP1A2psi-mi:“MI:0914”(association)0.350
MAPTSHTN1psi-mi:“MI:0914”(association)0.350
RBM18GSNpsi-mi:“MI:0914”(association)0.350
CNRIP1UTP4psi-mi:“MI:0914”(association)0.350
MAPTPITPNM1psi-mi:“MI:2364”(proximity)0.270
MAPTpsi-mi:“MI:2364”(proximity)0.270
CNRIP1PRTFDC1psi-mi:“MI:0915”(physical association)0.000
CNRIP1YIF1Apsi-mi:“MI:0915”(physical association)0.000
RUNX1CNRIP1psi-mi:“MI:0915”(physical association)0.000

BioGRID (35): KCTD5 (Affinity Capture-MS), CIRH1A (Affinity Capture-MS), CNRIP1 (Affinity Capture-MS), CNRIP1 (Affinity Capture-MS), CNRIP1 (Affinity Capture-MS), CNRIP1 (Affinity Capture-MS), CIRH1A (Affinity Capture-MS), CNRIP1 (Affinity Capture-MS), KCTD2 (Affinity Capture-MS), CNRIP1 (Affinity Capture-MS), CNRIP1 (Affinity Capture-MS), CNRIP1 (Affinity Capture-MS), CNRIP1 (Two-hybrid), CNRIP1 (Affinity Capture-Western), CNRIP1 (Two-hybrid)

ESM2 similar proteins: B3M1E1, B3P4N5, B4GZ20, B4HJC0, B4NKI9, B4PVH6, B4QVW6, H2KYU6, O08619, O57538, P00488, P10493, P10759, P12260, P22735, P22758, P23606, P29458, P34501, P52183, P79734, P79820, P91309, Q01432, Q05187, Q17QM9, Q24151, Q29B63, Q29RZ2, Q41969, Q5M8N0, Q5R4L5, Q66K08, Q6GQ76, Q6MVH7, Q7KRR5, Q8BH61, Q92143, Q95QZ9, Q96F85

Diamond homologs: Q17QM9, Q5M7A7, Q5M8N0, Q96F85, Q9GKT6

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic1
Likely pathogenic0
Uncertain significance49
Likely benign0
Benign3

Top pathogenic / likely-pathogenic (1)

Variant IDHGVSClassification
3252105NC_000002.12:g.68218674_68450455dupPathogenic

SpliceAI

692 predictions. Top by Δscore:

VariantEffectΔscore
2:68294027:C:CCacceptor_gain1.0000
2:68319220:A:ACdonor_gain1.0000
2:68319221:C:CCdonor_gain1.0000
2:68319221:CTCGA:Cdonor_gain1.0000
2:68317275:A:Tacceptor_gain0.9900
2:68294024:GAAC:Gacceptor_loss0.9800
2:68294028:T:Gacceptor_loss0.9800
2:68319320:CACCT:Cacceptor_gain0.9800
2:68294023:TGAA:Tacceptor_gain0.9700
2:68317150:GCCTT:Gdonor_loss0.9700
2:68317151:CCTT:Cdonor_loss0.9700
2:68317152:CTT:Cdonor_loss0.9700
2:68317153:TTA:Tdonor_loss0.9700
2:68317154:TACCG:Tdonor_loss0.9700
2:68317155:A:Tdonor_loss0.9700
2:68317156:C:Adonor_loss0.9700
2:68317156:CCGG:Cdonor_gain0.9700
2:68318415:T:TAdonor_gain0.9700
2:68319221:CT:Cdonor_gain0.9700
2:68319324:T:Cacceptor_gain0.9700
2:68306985:T:TCacceptor_gain0.9600
2:68318400:TC:Tdonor_gain0.9600
2:68318401:C:CTdonor_gain0.9600
2:68319258:A:Cdonor_gain0.9600
2:68294024:GAA:Gacceptor_gain0.9500
2:68294025:AA:Aacceptor_gain0.9500
2:68316882:A:Cdonor_gain0.9500
2:68317155:A:ACdonor_gain0.9500
2:68317156:C:CCdonor_gain0.9500
2:68318448:T:Adonor_gain0.9500

AlphaMissense

1073 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
2:68293918:A:GC147R1.000
2:68293947:C:AG137V1.000
2:68293947:C:TG137E1.000
2:68293948:C:GG137R1.000
2:68293948:C:TG137R1.000
2:68293960:G:CH133D1.000
2:68293985:C:AK124N1.000
2:68293985:C:GK124N1.000
2:68293986:T:AK124M1.000
2:68293987:T:CK124E1.000
2:68293987:T:GK124Q1.000
2:68293996:A:GW121R1.000
2:68293996:A:TW121R1.000
2:68294013:C:TG115E1.000
2:68294014:C:AG115W1.000
2:68317182:C:GR102P1.000
2:68317183:G:CR102G1.000
2:68317188:C:TG100E1.000
2:68317222:A:CY89D1.000
2:68319258:A:TV48D1.000
2:68319282:A:GL40P1.000
2:68319284:C:AK39N1.000
2:68319284:C:GK39N1.000
2:68319286:T:CK39E1.000
2:68319291:G:AT37I1.000
2:68319305:G:CF32L1.000
2:68319305:G:TF32L1.000
2:68319306:A:CF32C1.000
2:68319306:A:GF32S1.000
2:68319307:A:CF32V1.000

dbSNP variants (sampled 300 via entrez): RS1000006430 (2:68304114 G>A,T), RS1000008838 (2:68295672 T>C), RS1000049874 (2:68286374 A>G), RS1000251477 (2:68293766 A>T), RS1000269640 (2:68289591 C>A,G,T), RS1000289037 (2:68302099 A>T), RS1000433927 (2:68306869 A>G,T), RS1000462512 (2:68319907 G>A), RS1000463554 (2:68306640 G>A,T), RS1000616964 (2:68313068 G>T), RS1000660548 (2:68302355 T>G), RS1000871818 (2:68291111 G>A), RS1000932547 (2:68312063 T>C), RS1000963751 (2:68311787 A>G), RS1000982095 (2:68300511 G>A,C)

Disease associations

OMIM: gene MIM:618538 | disease phenotypes: MIM:615654

GenCC curated gene-disease

Mondo (2): breast ductal adenocarcinoma (MONDO:0005590), autosomal dominant nonsyndromic hearing loss 58 (MONDO:0014293)

Orphanet (1): Rare autosomal dominant non-syndromic sensorineural deafness type DFNA (Orphanet:90635)

HPO phenotypes

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

GWAS associations

3 associations (top):

StudyTraitp-value
GCST007267_88Systolic blood pressure5.000000e-10
GCST007325_227General risk tolerance (MTAG)4.000000e-09
GCST90002394_486Monocyte percentage of white cells7.000000e-10

EFO canonical traits (3, from GWAS)

EFO IDTrait name
EFO:0006335systolic blood pressure
EFO:0008579risk-taking behaviour
EFO:0007989monocyte percentage of leukocytes

MeSH disease descriptors (1)

DescriptorNameTree numbers
D018270Carcinoma, Ductal, BreastC04.557.470.200.025.232.500; C04.557.470.615.132.500; C04.588.180.390; C17.800.090.500.390

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

32 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
Valproic Acidincreases expression, affects expression, decreases expression, affects cotreatment7
trichostatin Aaffects cotreatment, increases expression3
sodium arseniteaffects cotreatment, increases expression3
entinostatincreases expression, affects cotreatment2
(+)-JQ1 compounddecreases expression2
Vorinostataffects cotreatment, increases expression2
Panobinostataffects cotreatment, increases expression2
Air Pollutantsincreases abundance, increases expression, decreases expression2
Phenylmercuric Acetateaffects cotreatment, decreases expression2
Aflatoxin B1decreases methylation, increases expression2
Particulate Matterincreases abundance, increases expression, decreases expression2
methylmercuric chloridedecreases expression1
pirinixic acidaffects binding, decreases expression, increases activity1
bisphenol Aaffects cotreatment, increases methylation1
decabromobiphenyl etherincreases expression1
arseniteaffects binding, increases reaction1
3,4,5,3’,4’-pentachlorobiphenyldecreases expression1
2-palmitoylglycerolincreases expression1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamideaffects cotreatment, increases expression, decreases expression1
abrinedecreases expression1
dorsomorphinaffects cotreatment, increases expression, decreases expression1
Temozolomideincreases expression1
Fulvestrantaffects cotreatment, increases methylation1
Acetaminophenincreases expression1
Benzo(a)pyreneincreases methylation1
Diethylhexyl Phthalatedecreases expression1
Leadaffects expression1
Rotenonedecreases expression1
Tretinoinaffects cotreatment, increases expression1
Cyclosporineincreases expression1

Clinical trials (associated diseases)

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

TrialPhaseStatusTitle
NCT03414970PHASE3ACTIVE_NOT_RECRUITINGHypofractionated Radiation Therapy After Mastectomy in Preventing Recurrence in Patients With Stage IIa-IIIa Breast Cancer
NCT00461344PHASE2TERMINATEDDocetaxel + Doxorubicin as Neoadjuvant Chemotherapy in Patients With Breast Cancer
NCT07499999PHASE2NOT_YET_RECRUITINGRandomized Double-Blind Phase II Trial of Baby Exemestane Versus Baby Tamoxifen in Post-Menopausal Women at High Risk for Breast Cancer
NCT00637364PHASE1/PHASE2SUSPENDEDHigh Intensity Focused Ultrasound Tumor Treatment for Pancreatic Cancer Pain
NCT02779855PHASE1/PHASE2COMPLETEDTalimogene Laherparepvec in Combination With Neoadjuvant Chemotherapy in Triple Negative Breast Cancer
NCT01753908EARLY_PHASE1COMPLETEDBroccoli Sprout Extract in Treating Patients With Breast Cancer
NCT01796041EARLY_PHASE1COMPLETEDIntraoperative Imaging of Breast Cancer With Indocyanine Green
NCT01208974Not specifiedACTIVE_NOT_RECRUITINGNipple-Areola Complex (NAC) Irradiation After Nipple-Sparing Mastectomy and Reconstruction
NCT01875198Not specifiedTERMINATEDOncologic Impact of Splenectomy-omitting Radical Pancreatectomy in Well-selected Left-sided Pancreatic Cancer
NCT03543397Not specifiedUNKNOWNMRI in Ductal Carcinoma in Situ (DCIS)
NCT03834532Not specifiedCOMPLETEDLiving Well After Breast Surgery