CRIP1

gene
On this page

Also known as CRIP

Summary

CRIP1 (cysteine rich protein 1, HGNC:2360) is a protein-coding gene on chromosome 14q32.33, encoding Cysteine-rich protein 1 (P50238). Seems to have a role in zinc absorption and may function as an intracellular zinc transport protein.

Cysteine-rich intestinal protein (CRIP) belongs to the LIM/double zinc finger protein family, members of which include cysteine- and glycine-rich protein-1 (CSRP1; MIM 123876), rhombotin-1 (RBTN1; MIM 186921), rhombotin-2 (RBTN2; MIM 180385), and rhombotin-3 (RBTN3; MIM 180386). CRIP may be involved in intestinal zinc transport (Hempe and Cousins, 1991 [PubMed 1946385]).

Source: NCBI Gene 1396 — RefSeq curated summary.

At a glance

  • Clinical variants (ClinVar): 40 total
  • MANE Select transcript: NM_001311

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:2360
Approved symbolCRIP1
Namecysteine rich protein 1
Location14q32.33
Locus typegene with protein product
StatusApproved
AliasesCRIP
Ensembl geneENSG00000213145
Ensembl biotypeprotein_coding
OMIM123875
Entrez1396

Gene structure

Transcript identifiers

Ensembl transcripts: 12 — 9 protein_coding, 3 retained_intron

ENST00000330233, ENST00000392531, ENST00000409393, ENST00000460900, ENST00000461556, ENST00000496700, ENST00000903614, ENST00000903615, ENST00000903616, ENST00000919629, ENST00000919630, ENST00000945681

RefSeq mRNA: 1 — MANE Select: NM_001311 NM_001311

CCDS: CCDS10004

Canonical transcript exons

ENST00000392531 — 6 exons

ExonStartEnd
ENSE00001512301105486886105486972
ENSE00003574945105488663105488947
ENSE00003610506105488331105488388
ENSE00003620130105488471105488516
ENSE00003648579105487199105487299
ENSE00003672351105488166105488260

Expression profiles

Bgee: expression breadth ubiquitous, 132 present calls, max score 99.52.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 47.8423 / max 1870.7447, expressed in 1221 samples.

FANTOM5 promoters (11 alternative TSS)

Promoter IDTPM avgSamples expressed
14193842.55331202
1419392.7052419
1419351.7234254
1419400.2445152
1419360.2150104
1419370.145572
1419410.104238
1419280.053918
1419300.045212
1419310.033717

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
right coronary arteryUBERON:000162599.52gold quality
granulocyteCL:000009499.42gold quality
left coronary arteryUBERON:000162699.09gold quality
popliteal arteryUBERON:000225098.95gold quality
tibial arteryUBERON:000761098.95gold quality
olfactory segment of nasal mucosaUBERON:000538698.88gold quality
right uterine tubeUBERON:000130298.84gold quality
ascending aortaUBERON:000149698.80gold quality
thoracic aortaUBERON:000151598.76gold quality
descending thoracic aortaUBERON:000234598.60gold quality
leukocyteCL:000073897.77gold quality
duodenumUBERON:000211497.74gold quality
monocyteCL:000057697.63gold quality
apex of heartUBERON:000209897.58gold quality
right atrium auricular regionUBERON:000663197.37gold quality
skin of abdomenUBERON:000141697.34gold quality
zone of skinUBERON:000001497.23gold quality
lymph nodeUBERON:000002997.21gold quality
upper lobe of left lungUBERON:000895297.19gold quality
skin of legUBERON:000151197.12gold quality
colonic epitheliumUBERON:000039797.02gold quality
fallopian tubeUBERON:000388996.99gold quality
omental fat padUBERON:001041496.98gold quality
small intestineUBERON:000210896.97gold quality
vermiform appendixUBERON:000115496.79gold quality
small intestine Peyer’s patchUBERON:000345496.74gold quality
adipose tissueUBERON:000101396.73gold quality
subcutaneous adipose tissueUBERON:000219096.54gold quality
mucosa of transverse colonUBERON:000499196.33gold quality
bloodUBERON:000017896.20gold quality

Single-cell (SCXA)

Detected in 42 experiment(s), a significant marker in 37.

ExperimentMarker?Max mean expression
E-MTAB-6308yes13028.30
E-MTAB-6653yes8476.17
E-GEOD-130148yes7837.67
E-MTAB-8410yes6235.12
E-MTAB-8221yes6215.47
E-MTAB-8381yes6117.58
E-GEOD-124263yes4107.04
E-MTAB-10287yes3999.33
E-MTAB-10283yes3773.11
E-MTAB-6701yes3772.01
E-GEOD-124472yes2940.26
E-GEOD-134144yes2710.24
E-HCAD-8yes2489.10
E-MTAB-10885yes2300.60
E-MTAB-11011yes2180.35

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

10 targeting CRIP1, 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-425599.7267.701541
HSA-MIR-468899.4864.68828
HSA-MIR-6743-5P99.4863.60721
HSA-MIR-6791-5P99.1665.921844
HSA-MIR-6761-5P98.7168.031504
HSA-MIR-4700-5P98.6367.431915
HSA-MIR-299-5P98.5671.141140
HSA-MIR-3173-5P97.3565.821282
HSA-MIR-6799-3P97.3565.601302
HSA-MIR-6789-5P94.0566.19285

Literature-anchored findings (GeneRIF, showing 14)

  • CRIP1 expression is associated with long-term survival and no metastases in osteosarcoma patients. (PMID:22202598)
  • This study provides evidence for a prognostic clinical potential of the combined study of GAL-3 and CRIP-1 in endometrial cancer (PMID:26708131)
  • CRIP1 gene expression was correlated to measures of cardiac hypertrophy in Hypertension patients. Assessment of circulating CRIP1 (cystein-rich protein 1) levels as biomarkers showed a strong association with increased risk for incident stroke. (PMID:28784648)
  • CRIP1 acts as an oncogene in the cell proliferation, migration, and invasion processes of thyroid carcinoma. CRIP1 may serve well as an independent prognostic marker with significant predictive power for use in thyroid carcinoma therapy. (PMID:29059670)
  • The CRIP1 expression level was highest in the highly metastatic colon cancer cell lines and CRIP1 silencing did not significantly affect the percentage of apoptotic SW620 and HT29 cells. (PMID:29179181)
  • CRIP1 promotes cell migration and invasion, mediates epithelial-mesenchymal transition, and activates the Wnt/betacatenin signaling pathway in cervical cancer (PMID:29959029)
  • The current research reveals a vital role of CRIP1 in colorectal cancer(CRC) progression, which provide a novel target for clinical drug resistance of colorectal cancer and undoubtedly contributing to the therapeutic strategies in CRC. (PMID:30850009)
  • CRIP1 cooperates with BRCA2 to drive the nuclear enrichment of RAD51 and to facilitate homologous repair upon DNA damage induced by chemotherapy. (PMID:34262130)
  • Cysteine-Rich Intestinal Protein 1 Served as an Epithelial Ovarian Cancer Marker via Promoting Wnt/beta-Catenin-Mediated EMT and Tumour Metastasis. (PMID:34413913)
  • Comprehensive Analysis of CRIP1 in Patients with Ovarian Cancer, including ceRNA Network, Immune-Infiltration Pattern, and Clinical Benefit. (PMID:35140819)
  • CRIP1 suppresses BBOX1-mediated carnitine metabolism to promote stemness in hepatocellular carcinoma. (PMID:35775648)
  • CRIP1 supports the growth and migration of AML-M5 subtype cells by activating Wnt/beta-catenin pathway. (PMID:37224580)
  • CRIP1 fosters MDSC trafficking and resets tumour microenvironment via facilitating NF-kappaB/p65 nuclear translocation in pancreatic ductal adenocarcinoma. (PMID:37541772)
  • CRIP1 involves the pathogenesis of multiple myeloma via dual-regulation of proteasome and autophagy. (PMID:38199044)

Cross-species orthologs

2 orthologs

OrganismSymbolGene ID
mus_musculusCrip1ENSMUSG00000006360
rattus_norvegicusCrip1ENSRNOG00000027990

Paralogs (20): FHL1 (ENSG00000022267), LMO3 (ENSG00000048540), LHX5 (ENSG00000089116), ZFHX4 (ENSG00000091656), LHX2 (ENSG00000106689), LHX6 (ENSG00000106852), LHX3 (ENSG00000107187), LHX4 (ENSG00000121454), LMO2 (ENSG00000135363), ZFHX2 (ENSG00000136367), LMX1B (ENSG00000136944), ZFHX3 (ENSG00000140836), LMO4 (ENSG00000143013), LHX9 (ENSG00000143355), CRIP3 (ENSG00000146215), LHX8 (ENSG00000162624), LMX1A (ENSG00000162761), LMO1 (ENSG00000166407), CRIP2 (ENSG00000182809), LHX1 (ENSG00000273706)

Protein

Protein identifiers

Cysteine-rich protein 1P50238 (reviewed: P50238)

Alternative names: Cysteine-rich heart protein, Cysteine-rich intestinal protein

All UniProt accessions (1): P50238

UniProt curated annotations — full annotation on UniProt →

Function. Seems to have a role in zinc absorption and may function as an intracellular zinc transport protein.

RefSeq proteins (1): NP_001302* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR001781Znf_LIMDomain

Pfam: PF00412

UniProt features (6 total): modified residue 3, chain 1, domain 1, sequence conflict 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-P50238-F182.410.25

Functional residue map

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

Post-translational modifications (3): 9, 22, 68

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 373 (showing top): GSE45365_NK_CELL_VS_CD8A_DC_MCMV_INFECTION_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, GOBP_CELLULAR_RESPONSE_TO_LIGHT_STIMULUS, MODULE_45, KAAB_HEART_ATRIUM_VS_VENTRICLE_UP, SCHLESINGER_METHYLATED_DE_NOVO_IN_CANCER, GAUSSMANN_MLL_AF4_FUSION_TARGETS_E_UP, GOBP_RESPONSE_TO_METAL_ION, TRAYNOR_RETT_SYNDROM_DN

GO Biological Process (8): immune response (GO:0006955), heart development (GO:0007507), intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630), response to zinc ion (GO:0010043), regulation of gene expression (GO:0010468), prostate gland stromal morphogenesis (GO:0060741), cellular response to antibiotic (GO:0071236), cellular response to UV-B (GO:0071493)

GO Molecular Function (3): zinc ion binding (GO:0008270), peptide binding (GO:0042277), metal ion binding (GO:0046872)

GO Cellular Component (1): cytoplasm (GO:0005737)

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
immune system process1
response to stimulus1
animal organ development1
circulatory system development1
DNA damage response1
intrinsic apoptotic signaling pathway1
response to metal ion1
gene expression1
regulation of macromolecule biosynthetic process1
developmental process involved in reproduction1
anatomical structure morphogenesis1
prostate gland morphogenesis1
connective tissue development1
response to antibiotic1
cellular response to chemical stimulus1
response to UV-B1
cellular response to UV1
transition metal ion binding1
binding1
cation binding1
intracellular anatomical structure1
cellular anatomical structure1

Protein interactions and networks

STRING

566 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
CRIP1LMO1P25800774
CRIP1LMO2P25791614
CRIP1SPARCP09486576
CRIP1MTA1Q13330469
CRIP1AGO2Q9UKV8468
CRIP1FGD2Q7Z6J4468
CRIP1ASB9Q96DX5448
CRIP1S100A6P06703437
CRIP1MMUTP22033432
CRIP1CNR1P21554430
CRIP1ANXA2P07355417
CRIP1RPAINQ86UA6405
CRIP1ANXA1P04083403
CRIP1GPD1LQ8N335399
CRIP1S100A10P08206389

IntAct

12 interactions, top by confidence:

ABTypeScore
CRIP1TK1psi-mi:“MI:0914”(association)0.530
TK2psi-mi:“MI:0915”(physical association)0.400
SH2D3CANXA2P2psi-mi:“MI:0914”(association)0.350
PRKD1psi-mi:“MI:0914”(association)0.350
MAPTSHTN1psi-mi:“MI:0914”(association)0.350
CRIP1VOPP1psi-mi:“MI:0915”(physical association)0.000
CRIP1HAP1psi-mi:“MI:0915”(physical association)0.000
CRIP1SH3GL3psi-mi:“MI:0915”(physical association)0.000

BioGRID (58): ADSL (Co-fractionation), AK2 (Co-fractionation), ATOX1 (Co-fractionation), CFL1 (Co-fractionation), CFL2 (Co-fractionation), CKMT1B (Co-fractionation), CKMT1A (Co-fractionation), CRIP1 (Co-fractionation), CRIP1 (Co-fractionation), CRIP1 (Co-fractionation), CRIP1 (Co-fractionation), CRIP1 (Co-fractionation), CRIP1 (Co-fractionation), CRIP1 (Co-fractionation), CRIP1 (Co-fractionation)

ESM2 similar proteins: O00151, O04193, O35115, O70400, O70433, O80839, P21291, P29675, P36201, P47875, P50238, P50461, P50462, P50463, P50464, P52943, P52944, P53777, P63254, P63255, P67966, P67967, P97315, Q0VFX8, Q14192, Q16527, Q1ECF5, Q1LZA7, Q24400, Q2KI95, Q3MHY1, Q4KM31, Q4U0T9, Q500W4, Q56K04, Q5E9E1, Q5R7Y1, Q5RCT4, Q5RGJ5, Q5ZLR4

Diamond homologs: A8DZE6, E1BKA3, F1MF74, F1QH17, F1QWK4, G3MWR8, O04193, O14014, O80839, P21291, P29675, P34416, P36201, P47875, P50238, P50460, P50461, P50462, P50463, P52943, P53410, P53777, P63254, P63255, P67966, P67967, P97314, P97315, Q04584, Q05158, Q0VFX8, Q13642, Q14192, Q16527, Q1ECF5, Q24400, Q2KI95, Q32LE9, Q3MHY1, Q4U0T9

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance27
Likely benign0
Benign3

Top pathogenic / likely-pathogenic (0)

SpliceAI

741 predictions. Top by Δscore:

VariantEffectΔscore
14:105486508:G:GTdonor_gain1.0000
14:105488164:A:AGacceptor_gain1.0000
14:105488165:G:GAacceptor_gain1.0000
14:105488327:GCA:Gacceptor_loss1.0000
14:105488329:A:AGacceptor_gain1.0000
14:105488329:A:Cacceptor_loss1.0000
14:105488330:G:GAacceptor_gain1.0000
14:105488330:GC:Gacceptor_gain1.0000
14:105488330:GCAC:Gacceptor_gain1.0000
14:105488384:TAAAG:Tdonor_loss1.0000
14:105488385:AAAGG:Adonor_loss1.0000
14:105488386:AAGG:Adonor_loss1.0000
14:105488388:GGTAT:Gdonor_loss1.0000
14:105488389:G:Tdonor_loss1.0000
14:105488390:T:Adonor_loss1.0000
14:105488469:A:AGacceptor_gain1.0000
14:105488469:AGGC:Aacceptor_loss1.0000
14:105488470:G:Aacceptor_loss1.0000
14:105488470:G:GAacceptor_gain1.0000
14:105488514:CAGG:Cdonor_loss1.0000
14:105488516:GGTA:Gdonor_loss1.0000
14:105488517:G:GAdonor_loss1.0000
14:105488518:T:Gdonor_loss1.0000
14:105486370:A:Gdonor_gain0.9900
14:105486482:TCCTC:Tdonor_gain0.9900
14:105486575:G:GTdonor_gain0.9900
14:105486584:G:Tdonor_gain0.9900
14:105488161:T:TAacceptor_gain0.9900
14:105488161:TGCA:Tacceptor_loss0.9900
14:105488164:A:Tacceptor_loss0.9900

AlphaMissense

504 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
14:105487269:T:CC4R0.998
14:105488195:T:AW24R0.998
14:105488195:T:CW24R0.998
14:105488197:G:CW24C0.998
14:105488197:G:TW24C0.998
14:105488207:T:CC28R0.998
14:105488349:T:AC52S0.998
14:105488350:G:CC52S0.998
14:105488207:T:AC28S0.997
14:105488208:G:CC28S0.997
14:105488216:T:CC31R0.997
14:105488349:T:CC52R0.997
14:105488350:G:AC52Y0.997
14:105488361:T:CC56R0.997
14:105488376:T:CF61L0.997
14:105488378:T:AF61L0.997
14:105488378:T:GF61L0.997
14:105487271:T:GC4W0.996
14:105488198:C:AH25N0.996
14:105488200:T:AH25Q0.996
14:105488200:T:GH25Q0.996
14:105488209:C:GC28W0.996
14:105488211:T:CL29P0.996
14:105488216:T:AC31S0.996
14:105488217:G:CC31S0.996
14:105488361:T:AC56S0.996
14:105488362:G:CC56S0.996
14:105487278:T:CC7R0.995
14:105488198:C:GH25D0.995
14:105488208:G:AC28Y0.995

dbSNP variants (sampled 300 via entrez): RS1000295542 (14:105488052 C>A,G,T), RS1000667177 (14:105487883 C>T), RS1001031537 (14:105487090 C>A,T), RS1001472181 (14:105487815 G>A), RS1001839283 (14:105487601 C>G), RS1003110800 (14:105486418 G>C), RS1003475743 (14:105485492 C>A,G,T), RS1003548203 (14:105486642 G>A,C,T), RS1003852628 (14:105485267 C>T), RS1004541725 (14:105487549 C>G,T), RS1004762604 (14:105487376 G>A,T), RS1006219165 (14:105486397 G>A,C), RS1006436563 (14:105486171 C>G), RS1008036610 (14:105485576 A>G), RS1008100122 (14:105489328 T>C,G)

Disease associations

OMIM: gene MIM:123875 | disease phenotypes:

GenCC curated gene-disease

Mondo (1): breast ductal adenocarcinoma (MONDO:0005590)

Orphanet (0):

HPO phenotypes

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

GWAS associations

0 associations (top):

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

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

ChemicalActions (top 5)PubMed papers
Valproic Acidincreases expression, affects expression, increases methylation, affects cotreatment8
Estradiolaffects expression, affects cotreatment, increases expression, decreases expression4
bisphenol Aaffects expression, decreases expression, increases expression3
trichostatin Aaffects cotreatment, increases expression3
entinostatincreases expression, affects cotreatment2
belinostataffects cotreatment, increases expression2
Resveratroldecreases expression, increases expression2
Air Pollutantsincreases abundance, increases expression2
Cisplatinaffects cotreatment, increases expression2
Tetrachlorodibenzodioxinincreases expression2
aristolochic acid Iincreases expression1
bisphenol Fincreases expression1
methylmercuric chloridedecreases expression1
pirinixic acidaffects binding, increases activity, increases expression1
sodium arsenatedecreases expression, increases abundance1
arseniteaffects expression1
tris(1,3-dichloro-2-propyl)phosphatedecreases expression1
sodium arseniteincreases expression1
4-aminophenylarsenoxideaffects binding, decreases reaction1
di-n-butylphosphoric acidaffects expression1
paricalcitolaffects cotreatment, increases expression1
K 7174decreases expression1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamideaffects cotreatment, increases expression1
ICG 001increases expression1
trans-10,cis-12-conjugated linoleic acidincreases expression1
abrinedecreases expression1
dorsomorphinincreases expression, affects cotreatment1
jinfukangaffects cotreatment, increases expression1
(+)-JQ1 compounddecreases expression1
4-(4-((5-(4,5-dimethyl-2-nitrophenyl)-2-furanyl)methylene)-4,5-dihydro-3-methyl-5-oxo-1H-pyrazol-1-yl)benzoic acidincreases 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

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