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    OPCML opioid binding protein/cell adhesion molecule like [ Homo sapiens (human) ]

    Gene ID: 4978, updated on 2-Nov-2024

    Summary

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    Official Symbol
    OPCMLprovided by HGNC
    Official Full Name
    opioid binding protein/cell adhesion molecule likeprovided by HGNC
    Primary source
    HGNC:HGNC:8143
    See related
    Ensembl:ENSG00000183715 MIM:600632; AllianceGenome:HGNC:8143
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    OPCM; OBCAM; IGLON1
    Summary
    This gene encodes a member of the IgLON subfamily in the immunoglobulin protein superfamily of proteins. The encoded preprotein is proteolytically processed to generate the mature protein. This protein is localized in the plasma membrane and may have an accessory role in opioid receptor function. This gene has an ortholog in rat and bovine. The opioid binding-cell adhesion molecule encoded by the rat gene binds opioid alkaloids in the presence of acidic lipids, exhibits selectivity for mu ligands and acts as a GPI-anchored protein. Since the encoded protein is highly conserved in species during evolution, it may have a fundamental role in mammalian systems. Alternative splicing results in multiple transcript variants, at least one of which encodes an isoform that is proteolytically processed. [provided by RefSeq, Jan 2016]
    Expression
    Biased expression in brain (RPKM 9.6) and kidney (RPKM 0.2) See more
    Orthologs
    mouse all
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    Genomic context

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    See OPCML in Genome Data Viewer
    Location:
    11q25
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (132414981..133532501, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (132453523..133574050, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (132284875..133402396, complement)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene neurotrimin Neighboring gene uncharacterized LOC124902795 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr11:131958013-131959212 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5761 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr11:131992888-131993886 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5762 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5763 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:132115578-132116078 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:132154202-132154771 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:132154772-132155340 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5764 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr11:132188093-132189292 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:132199915-132200414 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:132204500-132205000 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5765 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:132324306-132324486 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr11:132340747-132341946 Neighboring gene NTM intronic transcript Neighboring gene uncharacterized LOC124902819 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr11:132483305-132484504 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr11:132502505-132503704 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:132513245-132513744 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:132551286-132551786 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:132551787-132552287 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:132755960-132756466 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr11:132780259-132781458 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:132789928-132790505 Neighboring gene uncharacterized LOC105369580 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:132930114-132930614 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:132934609-132935182 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4085 Neighboring gene Sharpr-MPRA regulatory region 13378 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:133085747-133086246 Neighboring gene uncharacterized LOC124902796 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5766 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:133207744-133208254 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:133230716-133231216 Neighboring gene MPRA-validated peak1519 silencer Neighboring gene Sharpr-MPRA regulatory region 13397 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4086 Neighboring gene small nucleolar RNA U13 Neighboring gene OPCML intronic transcript 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:133367412-133367912 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:133367913-133368413 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4087 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:133378571-133379070 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr11:133380000-133380899 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:133411065-133411636 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:133415514-133416432 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:133424165-133424756 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:133424757-133425347 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr11:133440092-133441291 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:133498537-133499043 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:133499044-133499549 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:133511071-133511692 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:133590113-133591005 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:133600941-133601440 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:133616212-133617180 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:133657715-133658245 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr11:133672578-133673777 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr11:133678028-133678694 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:133678695-133679361 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:133679362-133680028 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:133712096-133712638 Neighboring gene long intergenic non-protein coding RNA 2743 Neighboring gene spermatogenesis associated 19

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. OPCML Exerts Antitumor Effects in Cholangiocarcinoma via AXL/STAT3 Inactivation and Rho GTPase Down-regulation. Khamko R, et al. Cancer Genomics Proteomics, 2021 Nov-Dec. PMID 34697068, Free PMC Article
    2. Regulation of an opioid-binding protein in NG108-15 cells parallels regulation of delta-opioid receptors. Lane CM, et al. Proc Natl Acad Sci U S A, 1992 Dec 1. PMID 1333602, Free PMC Article
    3. Cloning, sequencing and localization to chromosome 11 of a cDNA encoding a human opioid-binding cell adhesion molecule (OBCAM). Shark KB, et al. Gene, 1995 Apr 3. PMID 7721093
    4. Opioid-binding protein/cell adhesion molecule-like (OPCML) gene and promoter methylation status in women with ovarian cancer. Czekierdowski A, et al. Neuro Endocrinol Lett, 2006 Oct. PMID 17159813
    5. Expression of cellular adhesion molecule 'OPCML' is down-regulated in gliomas and other brain tumours. Reed JE, et al. Neuropathol Appl Neurobiol, 2007 Feb. PMID 17239010

    See all (61) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Combined OPCML and AXL Expression as a Prognostic Marker and OPCML Enhances AXL Inhibitor in Cholangiocarcinoma.
      Title: Combined OPCML and AXL Expression as a Prognostic Marker and OPCML Enhances AXL Inhibitor in Cholangiocarcinoma.
    2. OPCML Exerts Antitumor Effects in Cholangiocarcinoma via AXL/STAT3 Inactivation and Rho GTPase Down-regulation.
      Title: OPCML Exerts Antitumor Effects in Cholangiocarcinoma via AXL/STAT3 Inactivation and Rho GTPase Down-regulation.
    3. Emerging roles for the GPI-anchored tumor suppressor OPCML in cancers.
      Title: Emerging roles for the GPI-anchored tumor suppressor OPCML in cancers.
    4. Expression and promoter methylation status of OPCML and its functions in the inhibition of cell proliferation, migration, and invasion in breast cancer.
      Title: Expression and promoter methylation status of OPCML and its functions in the inhibition of cell proliferation, migration, and invasion in breast cancer.
    5. LINC00619 restricts gastric cancer progression by preventing microRNA-224-5p-mediated inhibition of OPCML.
      Title: LINC00619 restricts gastric cancer progression by preventing microRNA-224-5p-mediated inhibition of OPCML.
    6. The Schizophrenia Susceptibility Gene OPCML Regulates Spine Maturation and Cognitive Behaviors through Eph-Cofilin Signaling.
      Title: The Schizophrenia Susceptibility Gene OPCML Regulates Spine Maturation and Cognitive Behaviors through Eph-Cofilin Signaling.
    7. Human opioid-binding protein/cell adhesion molecule (OPCML) is expressed in many tissues and localizes to the plasma membrane. It is a putative tumor suppressor that acts on receptor tyrosine kinases, influencing cell cycle arrest, apoptosis, and migration. Its expression is silenced epigenetically in cancer, inferring potential diagnostic, prognostic, and therapeutic roles. [Review]
      Title: OPCML: A Promising Biomarker and Therapeutic Avenue.
    8. OPCML promoter was found to be hypermethylated in esophageal squamous cell carcinoma (ESCC) samples. Hypermethylation of the studied OPCML promoter produced no effect on OPCML protein expression in Grade 2 tumors but revealed downregulation in Grade 3 tumors. Deranged OPCML expression may lead to high-grade ESCC as well as epigenetically regulated genes that may alter the Wnt/beta-catenin and TGF-beta-Smad pathways in ...
      Title: Epigenetic deregulations of Wnt/β-catenin and transforming growth factor beta-Smad pathways in esophageal cancer: Outcome of DNA methylation.
    9. OPCML and PTPRG, coordinate to repress AXL-dependent oncogenic signalling.
      Title: The tumour suppressor OPCML promotes AXL inactivation by the phosphatase PTPRG in ovarian cancer.
    10. Here we show that, though OPCML interacts only with HER2 and not with EGFR, the interaction of OPCML with HER2 disrupts the formation of the HER2-EGFR heterodimer, and this translates into a better response to both lapatinib and erlotinib in HER2-expressing ovarian and breast cancer cell lines
      Title: The Tumor-Suppressor Protein OPCML Potentiates Anti-EGFR- and Anti-HER2-Targeted Therapy in HER2-Positive Ovarian and Breast Cancer.
    Submit: New GeneRIF Correction See all GeneRIFs (31)

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Associated conditions

    Description Tests
    Ovarian neoplasm
    MedGen: C0919267 GeneReviews: Not available
    		Compare labs

    EBI GWAS Catalog

    Description
    A genome-wide association study of behavioral disinhibition.
    EBI GWAS Catalog
    Gene-Smoking Interactions Identify Several Novel Blood Pressure Loci in the Framingham Heart Study.
    EBI GWAS Catalog
    Genome-wide association analysis of blood biomarkers in chronic obstructive pulmonary disease.
    EBI GWAS Catalog
    Genome-wide association for abdominal subcutaneous and visceral adipose reveals a novel locus for visceral fat in women.
    EBI GWAS Catalog
    Genome-wide association of body fat distribution in African ancestry populations suggests new loci.
    EBI GWAS Catalog
    Genome-wide association of sleep and circadian phenotypes.
    EBI GWAS Catalog
    Genome-wide association studies of pit-and-fissure- and smooth-surface caries in permanent dentition.
    EBI GWAS Catalog
    Genome-wide association study combining pathway analysis for typical sporadic amyotrophic lateral sclerosis in Chinese Han populations.
    EBI GWAS Catalog
    Genome-wide meta-analysis identifies six novel loci associated with habitual coffee consumption.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cell adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in neuron recognition TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in extracellular region TAS
    Traceable Author Statement
    more info
    		  
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
    		  
    located_in side of membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    opioid-binding protein/cell adhesion molecule
    Names
    IgLON family member 1
    opioid binding protein/cell adhesion molecule-like preprotein

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_012107.2 RefSeqGene

      Range
      5000..1122520
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001012393.5 → NP_001012393.1  opioid-binding protein/cell adhesion molecule isoform b precursor

      See identical proteins and their annotated locations for NP_001012393.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) represents use of an alternate promoter and therefore differs in the 5' UTR and 5' coding region, and lacks an alternate in-frame exon in the 3' coding region compared to variant 3. The encoded isoform (b) is shorter and has a distinct N-terminus compared to isoform c. The encoded isoform (b) may undergo proteolytic processing similar to isoform a.
      Source sequence(s)
      AP000843, AP000863, AP004606, AP005122
      Consensus CDS
      CCDS31722.1
      UniProtKB/TrEMBL
      B4DS15
      Related
      ENSP00000434750.1, ENST00000524381.6
      Conserved Domains (3) summary
      smart00408
      Location:142 → 199
      IGc2; Immunoglobulin C-2 Type
      smart00409
      Location:227 → 305
      IG; Immunoglobulin
      cl11960
      Location:37 → 125
      Ig; Immunoglobulin domain

    2. NM_001319103.2 → NP_001306032.1  opioid-binding protein/cell adhesion molecule isoform c precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) represents the longest transcript and encodes the longest isoform (c). The encoded isoform (c) may undergo proteolytic processing similar to isoform a.
      Source sequence(s)
      AK314077, AP000843, AP005122, BC143946, DA247864
      UniProtKB/TrEMBL
      Q6B0I4
      Related
      ENSP00000445496.1, ENST00000541867.6
      Conserved Domains (3) summary
      pfam13927
      Location:135 → 206
      Ig_3; Immunoglobulin domain
      cd00096
      Location:224 → 230
      Ig; putative Ig strand A [structural motif]
      cl11960
      Location:224 → 312
      Ig; Immunoglobulin domain

    3. NM_001319104.4 → NP_001306033.1  opioid-binding protein/cell adhesion molecule isoform d

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) represents use of an alternate promoter and therefore differs in the 5' UTR and 5' coding region, and lacks an alternate in-frame exon in the 3' coding region compared to variant 3. The encoded isoform (d) is shorter, has a distinct N-terminus, and lacks a predicted signal peptide compared to isoform c.
      Source sequence(s)
      AP000843, BC143946, BX537377, DA247864, DC332150, EU562298
      UniProtKB/TrEMBL
      B0AZR8, B2CZX3
      Conserved Domains (3) summary
      smart00409
      Location:2 → 32
      IG; Immunoglobulin
      smart00410
      Location:134 → 212
      IG_like; Immunoglobulin like
      pfam13927
      Location:35 → 106
      Ig_3; Immunoglobulin domain

    4. NM_001319105.2 → NP_001306034.1  opioid-binding protein/cell adhesion molecule isoform e

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) differs in the 5' UTR, lacks a portion of the 5' coding region, uses a downstream translation start site, and lacks an alternate in-frame exon in the 3' coding region compared to variant 3. The encoded isoform (e) is shorter and lacks a predicted signal peptide compared to isoform c.
      Source sequence(s)
      AK316491, AP000843, AP005122, BC143946, DA247864
      Consensus CDS
      CCDS81649.1
      UniProtKB/TrEMBL
      Q6B0I4
      Related
      ENSP00000363910.4, ENST00000374778.4
      Conserved Domains (3) summary
      cd00096
      Location:199 → 203
      Ig; Ig strand B [structural motif]
      pfam13927
      Location:94 → 165
      Ig_3; Immunoglobulin domain
      cl11960
      Location:183 → 271
      Ig; Immunoglobulin domain

    5. NM_001319106.2 → NP_001306035.1  opioid-binding protein/cell adhesion molecule isoform f precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (6) uses an alternate in-frame splice site in the 5' coding region and lacks an alternate in-frame exon in the 3' coding region compared to variant 3. The encoded isoform (f) may undergo proteolytic processing similar to isoform a.
      Source sequence(s)
      AK314077, AP000843, AP005122, BC143946, BX537377, DA247864
      UniProtKB/TrEMBL
      B7ZLQ0, Q6B0I4
      Conserved Domains (3) summary
      smart00408
      Location:149 → 205
      IGc2; Immunoglobulin C-2 Type
      smart00409
      Location:233 → 311
      IG; Immunoglobulin
      cl11960
      Location:44 → 132
      Ig; Immunoglobulin domain

    6. NM_002545.5 → NP_002536.1  opioid-binding protein/cell adhesion molecule isoform a preproprotein

      See identical proteins and their annotated locations for NP_002536.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) lacks an alternate in-frame exon in the 3' coding region compared to variant 3. The encoded isoform (a) is shorter than isoform c.
      Source sequence(s)
      AK314077, AP000843, AP005122, BC143946, BX537377, DA247864, L34774
      Consensus CDS
      CCDS8492.1
      UniProtKB/Swiss-Prot
      B2CZX2, B7ZLQ1, Q14982, Q17RN7, Q7Z3W6
      UniProtKB/TrEMBL
      A8K0Y0, Q6B0I4
      Related
      ENSP00000330862.7, ENST00000331898.11
      Conserved Domains (3) summary
      smart00408
      Location:149 → 206
      IGc2; Immunoglobulin C-2 Type
      smart00409
      Location:234 → 312
      IG; Immunoglobulin
      cl11960
      Location:44 → 132
      Ig; Immunoglobulin domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

      Range
      132414981..133532501 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006718846.4 → XP_006718909.1  opioid-binding protein/cell adhesion molecule isoform X1

      See identical proteins and their annotated locations for XP_006718909.1

      UniProtKB/TrEMBL
      B4DS15
      Conserved Domains (4) summary
      smart00408
      Location:142 → 198
      IGc2; Immunoglobulin C-2 Type
      smart00410
      Location:226 → 304
      IG_like; Immunoglobulin like
      pfam00047
      Location:222 → 303
      ig; Immunoglobulin domain
      cl11960
      Location:37 → 125
      Ig; Immunoglobulin domain

    2. XM_047427032.1 → XP_047282988.1  opioid-binding protein/cell adhesion molecule isoform X2

      Conserved Domains (3) summary
      cd00096
      Location:199 → 203
      Ig; Ig strand B [structural motif]
      pfam13927
      Location:94 → 165
      Ig_3; Immunoglobulin domain
      cl11960
      Location:183 → 271
      Ig; Immunoglobulin domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      132453523..133574050 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054368974.1 → XP_054224949.1  opioid-binding protein/cell adhesion molecule isoform X1

    2. XM_054368975.1 → XP_054224950.1  opioid-binding protein/cell adhesion molecule isoform X2

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q14982.1 GenPept UniProtKB/Swiss-Prot:Q14982

    Gene LinkOut

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