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    CLIP1 CAP-Gly domain containing linker protein 1 [ Homo sapiens (human) ]

    Gene ID: 6249, updated on 6-Sep-2021

    Summary

    Official Symbol
    CLIP1provided by HGNC
    Official Full Name
    CAP-Gly domain containing linker protein 1provided by HGNC
    Primary source
    HGNC:HGNC:10461
    See related
    Ensembl:ENSG00000130779 MIM:179838
    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
    RSN; CLIP; CYLN1; CLIP170; CLIP-170
    Summary
    The protein encoded by this gene links endocytic vesicles to microtubules. This gene is highly expressed in Reed-Sternberg cells of Hodgkin disease. Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Oct 2011]
    Expression
    Ubiquitous expression in thyroid (RPKM 36.8), esophagus (RPKM 33.7) and 25 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See CLIP1 in Genome Data Viewer
    Location:
    12q24.31
    Exon count:
    31
    Annotation release Status Assembly Chr Location
    109.20210514 current GRCh38.p13 (GCF_000001405.39) 12 NC_000012.12 (122271432..122422956, complement)
    105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (122756016..122907216, complement)

    Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101593348 Neighboring gene diablo IAP-binding mitochondrial protein Neighboring gene VPS33A core subunit of CORVET and HOPS complexes Neighboring gene coiled-coil domain containing 150 pseudogene 1 Neighboring gene ribosomal protein L21 pseudogene 1 Neighboring gene CLIP1 antisense RNA 1 Neighboring gene zinc finger CCHC-type containing 8 Neighboring gene arginine and serine rich coiled-coil 2

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • MGC131604

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables microtubule binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables microtubule plus-end binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables microtubule plus-end binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables tubulin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables zinc ion binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in cytoplasmic microtubule organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in microtubule bundle formation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in mitotic cell cycle TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in positive regulation of microtubule polymerization IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in positive regulation of microtubule polymerization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in centrosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in cytoplasmic vesicle membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    located_in intermediate filament TAS
    Traceable Author Statement
    more info
    PubMed 
    located_in kinetochore TAS
    Traceable Author Statement
    more info
    PubMed 
    colocalizes_with macropinosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in microtubule IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    located_in microtubule ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in microtubule cytoskeleton IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    colocalizes_with microtubule plus-end IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in ruffle IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    CAP-Gly domain-containing linker protein 1
    Names
    cytoplasmic linker protein 1
    cytoplasmic linker protein 170 alpha-2
    cytoplasmic linker protein CLIP-170
    restin (Reed-Steinberg cell-expressed intermediate filament-associated protein)

    NCBI Reference Sequences (RefSeq)

    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_030352.1 RefSeqGene

      Range
      5001..156136
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001247997.2NP_001234926.1  CAP-Gly domain-containing linker protein 1 isoform c

      See identical proteins and their annotated locations for NP_001234926.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) represents the longest transcript and encodes the longest isoform (c).
      Source sequence(s)
      AC048338, AC127002, BC126305, CB305431, M97501
      Consensus CDS
      CCDS58285.1
      UniProtKB/Swiss-Prot
      P30622
      Related
      ENSP00000479322.1, ENST00000620786.5
      Conserved Domains (5) summary
      COG5244
      Location:212812
      NIP100; Dynactin complex subunit involved in mitotic spindle partitioning in anaphase B [Cell cycle control, cell division, chromosome partitioning]
      pfam01302
      Location:215278
      CAP_GLY; CAP-Gly domain
      pfam07851
      Location:567666
      TMPIT; TMPIT-like protein
      pfam10174
      Location:4741255
      Cast; RIM-binding protein of the cytomatrix active zone
      pfam16641
      Location:14161432
      CLIP1_ZNF; CLIP1 zinc knuckle
    2. NM_001389291.1NP_001376220.1  CAP-Gly domain-containing linker protein 1 isoform d

      Status: REVIEWED

      Source sequence(s)
      AC048338, AC079406, AC127002
      Conserved Domains (4) summary
      COG0419
      Location:335835
      SbcC; DNA repair exonuclease SbcCD ATPase subunit [Replication, recombination and repair]
      COG1196
      Location:6121442
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam01302
      Location:214278
      CAP_GLY; CAP-Gly domain
      pfam16641
      Location:21262142
      CLIP1_ZNF; CLIP1 zinc knuckle
    3. NM_002956.3NP_002947.1  CAP-Gly domain-containing linker protein 1 isoform a

      See identical proteins and their annotated locations for NP_002947.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) lacks an alternate in-frame exon compared to variant 3. The resulting isoform (a) has the same N- and C-termini but is shorter compared to isoform c.
      Source sequence(s)
      AC127002, AK126990, M97501, X64838
      Consensus CDS
      CCDS9232.1
      UniProtKB/Swiss-Prot
      P30622
      UniProtKB/TrEMBL
      A0A024RBR1, B3KXA5
      Related
      ENSP00000351665.2, ENST00000358808.6
      Conserved Domains (4) summary
      TIGR04523
      Location:4291147
      Mplasa_alph_rch; helix-rich Mycoplasma protein
      pfam01302
      Location:215278
      CAP_GLY; CAP-Gly domain
      pfam07851
      Location:556655
      TMPIT; TMPIT-like protein
      pfam16641
      Location:14051421
      CLIP1_ZNF; CLIP1 zinc knuckle
    4. NM_198240.3NP_937883.1  CAP-Gly domain-containing linker protein 1 isoform b

      See identical proteins and their annotated locations for NP_937883.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks two consecutive alternate in-frame exons compared to variant 3. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform c.
      Source sequence(s)
      AC127002, AK126990, BM998166, M97501, X64838
      Consensus CDS
      CCDS9233.1
      UniProtKB/Swiss-Prot
      P30622
      UniProtKB/TrEMBL
      B3KXA5
      Related
      ENSP00000445531.1, ENST00000537178.5
      Conserved Domains (5) summary
      COG1196
      Location:6091250
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      COG5244
      Location:212866
      NIP100; Dynactin complex subunit involved in mitotic spindle partitioning in anaphase B [Cell cycle control, cell division, chromosome partitioning]
      pfam01302
      Location:215278
      CAP_GLY; CAP-Gly domain
      pfam07851
      Location:521620
      TMPIT; TMPIT-like protein
      pfam16641
      Location:13701386
      CLIP1_ZNF; CLIP1 zinc knuckle

    RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

    Reference GRCh38.p13 Primary Assembly

    Genomic

    1. NC_000012.12 Reference GRCh38.p13 Primary Assembly

      Range
      122271432..122422956 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017019790.1XP_016875279.1  CAP-Gly domain-containing linker protein 1 isoform X6

      UniProtKB/Swiss-Prot
      P30622
      Conserved Domains (5) summary
      COG1196
      Location:6091250
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      COG5244
      Location:212866
      NIP100; Dynactin complex subunit involved in mitotic spindle partitioning in anaphase B [Cell cycle control, cell division, chromosome partitioning]
      pfam01302
      Location:215278
      CAP_GLY; CAP-Gly domain
      pfam07851
      Location:521620
      TMPIT; TMPIT-like protein
      pfam16641
      Location:13701386
      CLIP1_ZNF; CLIP1 zinc knuckle
    2. XM_017019788.2XP_016875277.1  CAP-Gly domain-containing linker protein 1 isoform X5

    3. XM_017019791.2XP_016875280.1  CAP-Gly domain-containing linker protein 1 isoform X7

    4. XM_006719552.4XP_006719615.1  CAP-Gly domain-containing linker protein 1 isoform X2

      Conserved Domains (4) summary
      TIGR04523
      Location:4291147
      Mplasa_alph_rch; helix-rich Mycoplasma protein
      pfam01302
      Location:215278
      CAP_GLY; CAP-Gly domain
      pfam07851
      Location:556655
      TMPIT; TMPIT-like protein
      pfam16641
      Location:14071423
      CLIP1_ZNF; CLIP1 zinc knuckle
    5. XM_017019787.2XP_016875276.1  CAP-Gly domain-containing linker protein 1 isoform X4

    6. XM_005253593.3XP_005253650.1  CAP-Gly domain-containing linker protein 1 isoform X1

      Conserved Domains (5) summary
      COG5244
      Location:212812
      NIP100; Dynactin complex subunit involved in mitotic spindle partitioning in anaphase B [Cell cycle control, cell division, chromosome partitioning]
      pfam01302
      Location:215278
      CAP_GLY; CAP-Gly domain
      pfam07851
      Location:567666
      TMPIT; TMPIT-like protein
      pfam10174
      Location:4741255
      Cast; RIM-binding protein of the cytomatrix active zone
      pfam16641
      Location:14181434
      CLIP1_ZNF; CLIP1 zinc knuckle
    7. XM_017019792.2XP_016875281.1  CAP-Gly domain-containing linker protein 1 isoform X8

    8. XM_017019786.1XP_016875275.1  CAP-Gly domain-containing linker protein 1 isoform X3

      UniProtKB/Swiss-Prot
      P30622
      UniProtKB/TrEMBL
      A0A024RBR1
      Conserved Domains (4) summary
      TIGR04523
      Location:4291147
      Mplasa_alph_rch; helix-rich Mycoplasma protein
      pfam01302
      Location:215278
      CAP_GLY; CAP-Gly domain
      pfam07851
      Location:556655
      TMPIT; TMPIT-like protein
      pfam16641
      Location:14051421
      CLIP1_ZNF; CLIP1 zinc knuckle
    9. XM_017019789.1XP_016875278.1  CAP-Gly domain-containing linker protein 1 isoform X5

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