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    CD99L2 CD99 molecule like 2 [ Homo sapiens (human) ]

    Gene ID: 83692, updated on 10-Dec-2024

    Summary

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    Official Symbol
    CD99L2provided by HGNC
    Official Full Name
    CD99 molecule like 2provided by HGNC
    Primary source
    HGNC:HGNC:18237
    See related
    Ensembl:ENSG00000102181 MIM:300846; AllianceGenome:HGNC:18237
    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
    CD99B; MIC2L1
    Summary
    This gene encodes a cell-surface protein that is similar to CD99. A similar protein in mouse functions as an adhesion molecule during leukocyte extravasation. Alternate splicing results in multiple transcript variants. [provided by RefSeq, May 2010]
    Expression
    Ubiquitous expression in brain (RPKM 33.3), fat (RPKM 18.8) and 23 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See CD99L2 in Genome Data Viewer
    Location:
    Xq28
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (150766336..150898668, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (149033979..149166303, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (149934809..150067141, complement)

    Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:149733744-149734666 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:149734667-149735588 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 21050 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 30021 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 30022 Neighboring gene myotubularin 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 21051 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 21052 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 30023 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 30024 Neighboring gene myotubularin related protein 1 Neighboring gene cytochrome P450 family 2 subfamily C member 64, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 21053 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:149940339-149940886 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:149940887-149941432 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:149946045-149946676 Neighboring gene uncharacterized LOC124905294 Neighboring gene peptidylprolyl isomerase A pseudogene 91 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 30025 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:150058782-150059282 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:150059283-150059783 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 21054 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chrX:150070302-150070988 Neighboring gene uncharacterized LOC124905297 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chrX:150070989-150071673 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:150071674-150072359 Neighboring gene long intergenic non-protein coding RNA 2927

    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
    • 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. Human CD99L2 Regulates a Unique Step in Leukocyte Transmigration. Rutledge NS, et al. J Immunol, 2022 Sep 1. PMID 35914838, Free PMC Article
    2. The murine CD99-related molecule CD99-like 2 (CD99L2) is an adhesion molecule involved in the inflammatory response. Schenkel AR, et al. Cell Commun Adhes, 2007 Sep-Oct. PMID 18163232
    3. Interaction of CD99 with its paralog CD99L2 positively regulates CD99L2 trafficking to cell surfaces. Nam G, et al. J Immunol, 2013 Dec 1. PMID 24133166, Free PMC Article
    4. Whole-exome sequencing points to considerable genetic heterogeneity of cerebral palsy. McMichael G, et al. Mol Psychiatry, 2015 Feb. PMID 25666757
    5. Cloning, genomic organization, alternative transcripts and expression analysis of CD99L2, a novel paralog of human CD99, and identification of evolutionary conserved motifs. Suh YH, et al. Gene, 2003 Mar 27. PMID 12706889

    See all (35) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Human CD99L2 Regulates a Unique Step in Leukocyte Transmigration.
      Title: Human CD99L2 Regulates a Unique Step in Leukocyte Transmigration.
    2. This study identified predicted pathogenic, hemizygous variants on chromosome X in disease genes CD99L2.
      Title: Whole-exome sequencing points to considerable genetic heterogeneity of cerebral palsy.
    Submit: New GeneRIF Correction

    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

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    HIV-1 interactions

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    Replication interactions

    Interaction Pubs
    HIV-1 infection (VSV-G pseudotyped) of CEMT4 T cells downregulates plasma membrane expression of CD99L2 PubMed

    Go to the HIV-1, Human Interaction Database

    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

    • DKFZp761H2024

    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 diapedesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of T cell extravasation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of neutrophil extravasation IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in adherens junction IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cell surface IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in focal adhesion HDA PubMed 
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    CD99 antigen-like protein 2
    Names
    MIC2 like 1
    MIC2-like protein 1

    NCBI Reference Sequences (RefSeq)

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    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_021320.2 RefSeqGene

      Range
      5149..137481
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001184808.2 → NP_001171737.1  CD99 antigen-like protein 2 isoform 4 precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) lacks three consecutive in-frame exons in one region and an in-frame exon in another region, compared to variant 5. The resulting isoform (4) lacks two internal segments, compared to isoform 5.
      Source sequence(s)
      AF002223, AK293244, BC025729, DC323066
      Consensus CDS
      CCDS55527.1
      UniProtKB/Swiss-Prot
      Q8TCZ2
      Related
      ENSP00000394858.2, ENST00000437787.6
      Conserved Domains (1) summary
      pfam12301
      Location:30 → 166
      CD99L2; CD99 antigen like protein 2

    2. NM_001242614.2 → NP_001229543.1  CD99 antigen-like protein 2 isoform 5 precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) encodes the longest isoform (5).
      Source sequence(s)
      AK125020, AY358837, BC030536, DC323066
      Consensus CDS
      CCDS76044.1
      UniProtKB/Swiss-Prot
      Q8TCZ2
      Conserved Domains (1) summary
      pfam12301
      Location:30 → 249
      CD99L2; CD99 antigen like protein 2

    3. NM_031462.4 → NP_113650.2  CD99 antigen-like protein 2 isoform 1 precursor

      See identical proteins and their annotated locations for NP_113650.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) lacks an in-frame exon in the 3' region, compared to variant 5. The resulting isoform (1, also referred to as E3'-E4'-E3-E4) lacks an internal segment, compared to isoform 5.
      Source sequence(s)
      BC025729, BC030536
      Consensus CDS
      CCDS35427.1
      UniProtKB/Swiss-Prot
      A8K2D5, A8K5R0, B3KWG2, B4DDL7, E7EMK5, E9PD27, Q8TAW2, Q8TCZ0, Q8TCZ1, Q8TCZ2, Q9BQG9
      UniProtKB/TrEMBL
      A0A024RC16
      Related
      ENSP00000359403.3, ENST00000370377.8
      Conserved Domains (1) summary
      pfam12301
      Location:30 → 239
      CD99L2; CD99 antigen like protein 2

    4. NM_134445.4 → NP_604394.1  CD99 antigen-like protein 2 isoform 3 precursor

      See identical proteins and their annotated locations for NP_604394.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks three consecutive in-frame exons in one region and an in-frame exon in another region, compared to variant 5. The resulting isoform (3, also referred to as E4) lacks two internal segments, compared to isoform 5.
      Source sequence(s)
      AY078167, BC025729, DC323066
      Consensus CDS
      CCDS14697.1
      UniProtKB/Swiss-Prot
      Q8TCZ2
      Related
      ENSP00000347275.3, ENST00000355149.8
      Conserved Domains (1) summary
      pfam12301
      Location:30 → 167
      CD99L2; CD99 antigen like protein 2

    5. NM_134446.4 → NP_604395.1  CD99 antigen-like protein 2 isoform 2 precursor

      See identical proteins and their annotated locations for NP_604395.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks two consecutive in-frame exons in one region and an in-frame exon in another region, compared to variant 5. The resulting isoform (2, also referred to as E3-E4) lacks two internal segments, compared to isoform 5.
      Source sequence(s)
      AY078166, BC025729, DC323066
      Consensus CDS
      CCDS14698.1
      UniProtKB/Swiss-Prot
      Q8TCZ2
      Related
      ENSP00000417697.1, ENST00000466436.5
      Conserved Domains (1) summary
      pfam12301
      Location:30 → 190
      CD99L2; CD99 antigen like protein 2

    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_000023.11 Reference GRCh38.p14 Primary Assembly

      Range
      150766336..150898668 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047442560.1 → XP_047298516.1  CD99 antigen-like protein 2 isoform X1

    2. XM_047442562.1 → XP_047298518.1  CD99 antigen-like protein 2 isoform X1

    3. XM_047442561.1 → XP_047298517.1  CD99 antigen-like protein 2 isoform X1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060947.1 Alternate T2T-CHM13v2.0

      Range
      149033979..149166303 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054327951.1 → XP_054183926.1  CD99 antigen-like protein 2 isoform X1

    2. XM_054327953.1 → XP_054183928.1  CD99 antigen-like protein 2 isoform X1

    3. XM_054327952.1 → XP_054183927.1  CD99 antigen-like protein 2 isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8TCZ2.1 GenPept UniProtKB/Swiss-Prot:Q8TCZ2

    Gene LinkOut

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

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