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    CADM2 cell adhesion molecule 2 [ Homo sapiens (human) ]

    Gene ID: 253559, updated on 2-Nov-2024

    Summary

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    Official Symbol
    CADM2provided by HGNC
    Official Full Name
    cell adhesion molecule 2provided by HGNC
    Primary source
    HGNC:HGNC:29849
    See related
    Ensembl:ENSG00000175161 MIM:609938; AllianceGenome:HGNC:29849
    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
    NECL3; IGSF4D; Necl-3; synCAM2; SynCAM 2; SynCAM-2
    Summary
    This gene encodes a member of the synaptic cell adhesion molecule 1 (SynCAM) family which belongs to the immunoglobulin (Ig) superfamily. The encoded protein has three Ig-like domains and a cytosolic protein 4.1 binding site near the C-terminus. Proteins belonging to the protein 4.1 family crosslink spectrin and interact with other cytoskeletal proteins. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Feb 2012]
    Expression
    Biased expression in brain (RPKM 29.4), fat (RPKM 2.4) and 1 other tissue See more
    Orthologs
    mouse all
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    Genomic context

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    See CADM2 in Genome Data Viewer
    Location:
    3p12.1
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (84958989..86074429)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (85024005..86146272)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (85008140..86123579)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:84954381-84954880 Neighboring gene uncharacterized LOC105377193 Neighboring gene long intergenic non-protein coding RNA 2025 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:85010305-85010847 Neighboring gene NANOG hESC enhancer GRCh37_chr3:85079080-85079638 Neighboring gene uncharacterized LOC124906200 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr3:85169693-85170523 Neighboring gene small nucleolar RNA, H/ACA box 95 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:85443162-85443393 Neighboring gene microRNA 5688 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr3:85625238-85625814 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:85794578-85794816 Neighboring gene CADM2 antisense RNA 2 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:86132353-86132853 Neighboring gene THAP domain containing 12 pseudogene 2 Neighboring gene small nucleolar RNA Z40 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr3:86224689-86225518 Neighboring gene uncharacterized LOC102723364 Neighboring gene RNA, U6 small nuclear 1129, pseudogene

    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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    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. CADM2 participates in endometriosis development by influencing the epithelial-mesenchymal transition.
      Title: CADM2 participates in endometriosis development by influencing the epithelial-mesenchymal transition.
    2. hsa_circ_0002980 prevents proliferation, migration, invasion, and epithelial-mesenchymal transition of liver cancer cells through microRNA-1303/cell adhesion molecule 2 axis.
      Title: hsa_circ_0002980 prevents proliferation, migration, invasion, and epithelial-mesenchymal transition of liver cancer cells through microRNA-1303/cell adhesion molecule 2 axis.
    3. Genetic correlation for alcohol consumption between Europeans and East Asians.
      Title: Genetic correlation for alcohol consumption between Europeans and East Asians.
    4. Liver fibrosis-derived exosomal miR-106a-5p facilitates the malignancy by targeting SAMD12 and CADM2 in hepatocellular carcinoma.
      Title: Liver fibrosis-derived exosomal miR-106a-5p facilitates the malignancy by targeting SAMD12 and CADM2 in hepatocellular carcinoma.
    5. Interaction of the Hemagglutinin Stalk Region with Cell Adhesion Molecule (CADM) 1 and CADM2 Mediates the Spread between Neurons and Neuropathogenicity of Measles Virus with a Hyperfusogenic Fusion Protein.
      Title: Interaction of the Hemagglutinin Stalk Region with Cell Adhesion Molecule (CADM) 1 and CADM2 Mediates the Spread between Neurons and Neuropathogenicity of Measles Virus with a Hyperfusogenic Fusion Protein.
    6. CADM2 is implicated in impulsive personality and numerous other traits by genome- and phenome-wide association studies in humans and mice.
      Title: CADM2 is implicated in impulsive personality and numerous other traits by genome- and phenome-wide association studies in humans and mice.
    7. Long Non-Coding RNA HCG11 Inhibits Glioma Cells Proliferation and Migration through Decoying miR-590-3p and Up-Regulating CADM2.
      Title: Long Non-Coding RNA HCG11 Inhibits Glioma Cells Proliferation and Migration through Decoying miR-590-3p and Up-Regulating CADM2.
    8. Associations between the CADM2 gene, substance use, risky sexual behavior, and self-control: A phenome-wide association study.
      Title: Associations between the CADM2 gene, substance use, risky sexual behavior, and self-control: A phenome-wide association study.
    9. Genome-wide analysis of 53,400 people with irritable bowel syndrome highlights shared genetic pathways with mood and anxiety disorders.
      Title: Genome-wide analysis of 53,400 people with irritable bowel syndrome highlights shared genetic pathways with mood and anxiety disorders.
    10. ADAMTS9-AS2 and CADM2 expression and association with the prognosis in esophageal squamous cell carcinoma.
      Title: ADAMTS9-AS2 and CADM2 expression and association with the prognosis in esophageal squamous cell carcinoma.
    Submit: New GeneRIF Correction See all GeneRIFs (28)

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    A genome-wide meta-analysis of association studies of Cloninger's Temperament Scales.
    EBI GWAS Catalog
    Association analyses of 249,796 individuals reveal 18 new loci associated with body mass index.
    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 meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture.
    EBI GWAS Catalog
    GWAS of Longevity in CHARGE Consortium Confirms APOE and FOXO3 Candidacy.
    EBI GWAS Catalog

    Variation

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    See Variation Viewer (GRCh37.p13)

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC104534, MGC138341, MGC138343

    Gene Ontology Provided by GOA

    Process Evidence Code Pubs
    involved_in homophilic cell adhesion via plasma membrane adhesion molecules IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in axon IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in neuronal cell body membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
    		  
    located_in synapse IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    cell adhesion molecule 2
    Names
    immunoglobulin superfamily member 4D
    nectin-like 3
    nectin-like protein 3
    synaptic cell adhesion molecule 2

    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.

    mRNA and Protein(s)

    1. NM_001167674.2 → NP_001161146.1  cell adhesion molecule 2 isoform 1 precursor

      See identical proteins and their annotated locations for NP_001161146.1

      Status: REVIEWED

      Source sequence(s)
      AC107024, BC105999, BC112138
      Consensus CDS
      CCDS54614.1
      UniProtKB/Swiss-Prot
      G3XHN7, G3XHN8, Q3KQY9, Q658Q7, Q8IZP8, Q8N3J6
      Related
      ENSP00000384575.2, ENST00000407528.6
      Conserved Domains (5) summary
      smart00294
      Location:388 → 406
      4.1m; putative band 4.1 homologues' binding motif
      smart00408
      Location:240 → 303
      IGc2; Immunoglobulin C-2 Type
      cd00096
      Location:242 → 251
      Ig; Ig strand B [structural motif]
      cd05884
      Location:120 → 223
      IgI_2_Necl-3; Second immunoglobulin (Ig)-like domain of nectin-like molecule-3 (Necl-3); member of the I-set of Ig superfamily domains
      cd07701
      Location:26 → 121
      IgV_1_Necl-3; First (N-terminal) immunoglobulin (Ig)-like domain of nectin-like molecule-3; member of the V-set of Ig superfamily (IgSF) domains

    2. NM_001167675.2 → NP_001161147.1  cell adhesion molecule 2 isoform 2 precursor

      See identical proteins and their annotated locations for NP_001161147.1

      Status: REVIEWED

      Source sequence(s)
      AC107024, BC105999
      Consensus CDS
      CCDS54613.1
      UniProtKB/TrEMBL
      B4DJ19, G3XHN4
      Related
      ENSP00000373200.3, ENST00000383699.8
      Conserved Domains (5) summary
      smart00294
      Location:357 → 375
      4.1m; putative band 4.1 homologues' binding motif
      smart00408
      Location:249 → 312
      IGc2; Immunoglobulin C-2 Type
      cd00096
      Location:251 → 260
      Ig; Ig strand B [structural motif]
      cd05884
      Location:129 → 232
      IgI_2_Necl-3; Second immunoglobulin (Ig)-like domain of nectin-like molecule-3 (Necl-3); member of the I-set of Ig superfamily domains
      cd07701
      Location:35 → 130
      IgV_1_Necl-3; First (N-terminal) immunoglobulin (Ig)-like domain of nectin-like molecule-3; member of the V-set of Ig superfamily (IgSF) domains

    3. NM_001256502.2 → NP_001243431.1  cell adhesion molecule 2 isoform 4

      See identical proteins and their annotated locations for NP_001243431.1

      Status: REVIEWED

      Source sequence(s)
      AC018361, AC107024, AC117452, AC119726
      UniProtKB/Swiss-Prot
      Q8N3J6
      Conserved Domains (4) summary
      smart00294
      Location:280 → 298
      4.1m; putative band 4.1 homologues' binding motif
      cd05884
      Location:33 → 115
      Ig2_Necl-3; Second immunoglobulin (Ig)-like domain of nectin-like molecule-3 (Necl-3, also known as cell adhesion molecule 2 (CADM2))
      smart00408
      Location:132 → 195
      IGc2; Immunoglobulin C-2 Type
      smart00410
      Location:131 → 205
      IG_like; Immunoglobulin like

    4. NM_001256503.2 → NP_001243432.1  cell adhesion molecule 2 isoform 4

      See identical proteins and their annotated locations for NP_001243432.1

      Status: REVIEWED

      Source sequence(s)
      AC018361, AC107024, AC117452, AC119726
      UniProtKB/Swiss-Prot
      Q8N3J6
      Conserved Domains (4) summary
      smart00294
      Location:280 → 298
      4.1m; putative band 4.1 homologues' binding motif
      cd05884
      Location:33 → 115
      Ig2_Necl-3; Second immunoglobulin (Ig)-like domain of nectin-like molecule-3 (Necl-3, also known as cell adhesion molecule 2 (CADM2))
      smart00408
      Location:132 → 195
      IGc2; Immunoglobulin C-2 Type
      smart00410
      Location:131 → 205
      IG_like; Immunoglobulin like

    5. NM_001256504.2 → NP_001243433.1  cell adhesion molecule 2 isoform 5

      See identical proteins and their annotated locations for NP_001243433.1

      Status: REVIEWED

      Source sequence(s)
      AC018361, AC107024, AC117452, AC119726, AC119729
      UniProtKB/Swiss-Prot
      Q8N3J6
      Conserved Domains (3) summary
      smart00294
      Location:240 → 258
      4.1m; putative band 4.1 homologues' binding motif
      smart00408
      Location:132 → 195
      IGc2; Immunoglobulin C-2 Type
      cd05884
      Location:33 → 115
      Ig2_Necl-3; Second immunoglobulin (Ig)-like domain of nectin-like molecule-3 (Necl-3, also known as cell adhesion molecule 2 (CADM2))

    6. NM_001256505.2 → NP_001243434.1  cell adhesion molecule 2 isoform 5

      See identical proteins and their annotated locations for NP_001243434.1

      Status: REVIEWED

      Source sequence(s)
      AC018361, AC107024, AC117452, AC119726
      UniProtKB/Swiss-Prot
      Q8N3J6
      Conserved Domains (3) summary
      smart00294
      Location:240 → 258
      4.1m; putative band 4.1 homologues' binding motif
      smart00408
      Location:132 → 195
      IGc2; Immunoglobulin C-2 Type
      cd05884
      Location:33 → 115
      Ig2_Necl-3; Second immunoglobulin (Ig)-like domain of nectin-like molecule-3 (Necl-3, also known as cell adhesion molecule 2 (CADM2))

    7. NM_001375960.1 → NP_001362889.1  cell adhesion molecule 2 isoform 6 precursor

      Status: REVIEWED

      Source sequence(s)
      AC107024, AC117452, AC119726, AC119729, AC132660
      Conserved Domains (5) summary
      smart00294
      Location:397 → 415
      4.1m; putative band 4.1 homologues' binding motif
      smart00408
      Location:249 → 312
      IGc2; Immunoglobulin C-2 Type
      cd00096
      Location:251 → 260
      Ig; Ig strand B [structural motif]
      cd05884
      Location:129 → 232
      IgI_2_Necl-3; Second immunoglobulin (Ig)-like domain of nectin-like molecule-3 (Necl-3); member of the I-set of Ig superfamily domains
      cd07701
      Location:35 → 130
      IgV_1_Necl-3; First (N-terminal) immunoglobulin (Ig)-like domain of nectin-like molecule-3; member of the V-set of Ig superfamily (IgSF) domains

    8. NM_001375961.1 → NP_001362890.1  cell adhesion molecule 2 isoform 7

      Status: REVIEWED

      Source sequence(s)
      AC107024, AC117452, AC119726, AC119729, AC132660
      UniProtKB/TrEMBL
      B4DJ19
      Conserved Domains (4) summary
      smart00294
      Location:341 → 359
      4.1m; putative band 4.1 homologues' binding motif
      smart00408
      Location:233 → 296
      IGc2; Immunoglobulin C-2 Type
      cd05884
      Location:134 → 216
      Ig2_Necl-3; Second immunoglobulin (Ig)-like domain of nectin-like molecule-3 (Necl-3, also known as cell adhesion molecule 2 (CADM2))
      cd07701
      Location:19 → 113
      Ig1_Necl-3; First (N-terminal) immunoglobulin (Ig)-like domain of nectin-like molecule-3 (Necl-3, also known as cell adhesion molecule 2 (CADM2))

    9. NM_001375964.1 → NP_001362893.1  cell adhesion molecule 2 isoform 8 precursor

      Status: REVIEWED

      Source sequence(s)
      AC107024, AC117452, AC119726, AC119729, AC132660
      UniProtKB/TrEMBL
      B4DJ19
      Conserved Domains (4) summary
      smart00294
      Location:311 → 329
      4.1m; putative band 4.1 homologues' binding motif
      smart00408
      Location:203 → 266
      IGc2; Immunoglobulin C-2 Type
      cd07701
      Location:35 → 129
      Ig1_Necl-3; First (N-terminal) immunoglobulin (Ig)-like domain of nectin-like molecule-3 (Necl-3, also known as cell adhesion molecule 2 (CADM2))
      cl11960
      Location:129 → 186
      Ig; Immunoglobulin domain

    10. NM_001375967.1 → NP_001362896.1  cell adhesion molecule 2 isoform 9 precursor

      Status: REVIEWED

      Source sequence(s)
      AC107024, AC117452, AC119726, AC119729, AC132660
      UniProtKB/TrEMBL
      B4DJ19
      Conserved Domains (4) summary
      smart00294
      Location:307 → 325
      4.1m; putative band 4.1 homologues' binding motif
      smart00408
      Location:199 → 262
      IGc2; Immunoglobulin C-2 Type
      cd05884
      Location:100 → 182
      Ig2_Necl-3; Second immunoglobulin (Ig)-like domain of nectin-like molecule-3 (Necl-3, also known as cell adhesion molecule 2 (CADM2))
      cl11960
      Location:29 → 79
      Ig; Immunoglobulin domain

    11. NM_001375968.1 → NP_001362897.1  cell adhesion molecule 2 isoform 10 precursor

      Status: REVIEWED

      Source sequence(s)
      AC107024, AC117452, AC119726, AC119729, AC132660
      Conserved Domains (3) summary
      smart00294
      Location:260 → 278
      4.1m; putative band 4.1 homologues' binding motif
      smart00408
      Location:152 → 215
      IGc2; Immunoglobulin C-2 Type
      cl11960
      Location:66 → 135
      Ig; Immunoglobulin domain

    12. NM_001381963.1 → NP_001368892.1  cell adhesion molecule 2 isoform 11 precursor

      Status: REVIEWED

      Source sequence(s)
      AC107024, AC117452, AC119726, AC132660
      UniProtKB/TrEMBL
      B4DJ19
      Conserved Domains (5) summary
      smart00294
      Location:348 → 366
      4.1m; putative band 4.1 homologues' binding motif
      smart00408
      Location:240 → 303
      IGc2; Immunoglobulin C-2 Type
      cd00096
      Location:242 → 251
      Ig; Ig strand B [structural motif]
      cd05884
      Location:120 → 223
      IgI_2_Necl-3; Second immunoglobulin (Ig)-like domain of nectin-like molecule-3 (Necl-3); member of the I-set of Ig superfamily domains
      cd07701
      Location:26 → 121
      IgV_1_Necl-3; First (N-terminal) immunoglobulin (Ig)-like domain of nectin-like molecule-3; member of the V-set of Ig superfamily (IgSF) domains

    13. NM_001381964.1 → NP_001368893.1  cell adhesion molecule 2 isoform 1 precursor

      Status: REVIEWED

      Source sequence(s)
      AC107024, AC117452, AC119726, AC132660
      Consensus CDS
      CCDS54614.1
      UniProtKB/Swiss-Prot
      G3XHN7, G3XHN8, Q3KQY9, Q658Q7, Q8IZP8, Q8N3J6
      Conserved Domains (5) summary
      smart00294
      Location:388 → 406
      4.1m; putative band 4.1 homologues' binding motif
      smart00408
      Location:240 → 303
      IGc2; Immunoglobulin C-2 Type
      cd00096
      Location:242 → 251
      Ig; Ig strand B [structural motif]
      cd05884
      Location:120 → 223
      IgI_2_Necl-3; Second immunoglobulin (Ig)-like domain of nectin-like molecule-3 (Necl-3); member of the I-set of Ig superfamily domains
      cd07701
      Location:26 → 121
      IgV_1_Necl-3; First (N-terminal) immunoglobulin (Ig)-like domain of nectin-like molecule-3; member of the V-set of Ig superfamily (IgSF) domains

    14. NM_153184.4 → NP_694854.2  cell adhesion molecule 2 isoform 3 precursor

      See identical proteins and their annotated locations for NP_694854.2

      Status: REVIEWED

      Source sequence(s)
      AC107024, AC117452, AC119726, AC119729
      Consensus CDS
      CCDS33792.1
      UniProtKB/Swiss-Prot
      Q8N3J6
      Related
      ENSP00000384193.2, ENST00000405615.2
      Conserved Domains (4) summary
      smart00294
      Location:390 → 408
      4.1m; putative band 4.1 homologues' binding motif
      smart00408
      Location:242 → 305
      IGc2; Immunoglobulin C-2 Type
      cd05884
      Location:143 → 225
      Ig2_Necl-3; Second immunoglobulin (Ig)-like domain of nectin-like molecule-3 (Necl-3, also known as cell adhesion molecule 2 (CADM2))
      cd07701
      Location:28 → 122
      Ig1_Necl-3; First (N-terminal) immunoglobulin (Ig)-like domain of nectin-like molecule-3 (Necl-3, also known as cell adhesion molecule 2 (CADM2))

    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_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      84958989..86074429
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017006062.3 → XP_016861551.1  cell adhesion molecule 2 isoform X1

    2. XM_047447872.1 → XP_047303828.1  cell adhesion molecule 2 isoform X3

    3. XM_017006063.3 → XP_016861552.1  cell adhesion molecule 2 isoform X2

      UniProtKB/TrEMBL
      B4DJ19
      Conserved Domains (5) summary
      smart00294
      Location:350 → 368
      4.1m; putative band 4.1 homologues' binding motif
      cd05884
      Location:143 → 225
      Ig2_Necl-3; Second immunoglobulin (Ig)-like domain of nectin-like molecule-3 (Necl-3, also known as cell adhesion molecule 2 (CADM2))
      cd07701
      Location:28 → 122
      Ig1_Necl-3; First (N-terminal) immunoglobulin (Ig)-like domain of nectin-like molecule-3 (Necl-3, also known as cell adhesion molecule 2 (CADM2))
      smart00408
      Location:242 → 305
      IGc2; Immunoglobulin C-2 Type
      smart00410
      Location:241 → 315
      IG_like; Immunoglobulin like

    Reference GRCh38.p14 PATCHES

    Genomic

    1. NW_018654711.1 Reference GRCh38.p14 PATCHES

      Range
      174212..174894
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      85024005..86146272
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054345952.1 → XP_054201927.1  cell adhesion molecule 2 isoform X1

    2. XM_054345954.1 → XP_054201929.1  cell adhesion molecule 2 isoform X3

    3. XM_054345953.1 → XP_054201928.1  cell adhesion molecule 2 isoform X2

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8N3J6.1 GenPept UniProtKB/Swiss-Prot:Q8N3J6

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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