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CLIP3 CAP-Gly domain containing linker protein 3 [ Homo sapiens (human) ]

Gene ID: 25999, updated on 6-May-2021

Summary

Official Symbol
CLIP3provided by HGNC
Official Full Name
CAP-Gly domain containing linker protein 3provided by HGNC
Primary source
HGNC:HGNC:24314
See related
Ensembl:ENSG00000105270 MIM:607382
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
RSNL1; CLIPR59; CLIPR-59
Summary
This gene encodes a member of the cytoplasmic linker protein 170 family. Members of this protein family contain a cytoskeleton-associated protein glycine-rich domain and mediate the interaction of microtubules with cellular organelles. The encoded protein plays a role in T cell apoptosis by facilitating the association of tubulin and the lipid raft ganglioside GD3. The encoded protein also functions as a scaffold protein mediating membrane localization of phosphorylated protein kinase B. Alternatively spliced transcript variants have been observed for this gene. [provided by RefSeq, Dec 2010]
Expression
Biased expression in brain (RPKM 97.6), endometrium (RPKM 19.6) and 9 other tissues See more
Orthologs
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Genomic context

See CLIP3 in Genome Data Viewer
Location:
19q13.12
Exon count:
14
Annotation release Status Assembly Chr Location
109.20210226 current GRCh38.p13 (GCF_000001405.39) 19 NC_000019.10 (36014660..36032873, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (36505562..36523775, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene spectrin repeat containing nuclear envelope family member 4 Neighboring gene uncharacterized LOC101927572 Neighboring gene alkB homolog 6 Neighboring gene THAP domain containing 8 Neighboring gene RNY5 pseudogene 10 Neighboring gene WD repeat domain 62

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?

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of CAP-GLY domain containing linker protein 3 (CLIP3) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ33413, DKFZp586N1922

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables ganglioside binding IDA
Inferred from Direct Assay
more info
PubMed 
enables microtubule binding IDA
Inferred from Direct Assay
more info
PubMed 
enables microtubule binding IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables microtubule plus-end binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
located_in Golgi stack IEA
Inferred from Electronic Annotation
more info
 
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytosol TAS
Traceable Author Statement
more info
 
located_in early endosome membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in membrane raft IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in microtubule plus-end IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in plasma membrane IMP
Inferred from Mutant Phenotype
more info
PubMed 
located_in recycling endosome membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in trans-Golgi network ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in trans-Golgi network membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in trans-Golgi network membrane IMP
Inferred from Mutant Phenotype
more info
PubMed 

General protein information

Preferred Names
CAP-Gly domain-containing linker protein 3
Names
CLIP-170-related 59 kDa protein
cytoplasmic linker protein 170-related 59 kDa protein
restin-like 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.

mRNA and Protein(s)

  1. NM_001199570.2NP_001186499.1  CAP-Gly domain-containing linker protein 3

    See identical proteins and their annotated locations for NP_001186499.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AK289509, AL117468
    Consensus CDS
    CCDS12486.1
    UniProtKB/Swiss-Prot
    Q96DZ5
    Related
    ENSP00000466832.1, ENST00000593074.5
    Conserved Domains (3) summary
    sd00045
    Location:120157
    ANK; ANK repeat [structural motif]
    pfam01302
    Location:418482
    CAP_GLY; CAP-Gly domain
    pfam12796
    Location:122228
    Ank_2; Ankyrin repeats (3 copies)
  2. NM_015526.3NP_056341.1  CAP-Gly domain-containing linker protein 3

    See identical proteins and their annotated locations for NP_056341.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AJ427922, AL117468
    Consensus CDS
    CCDS12486.1
    UniProtKB/Swiss-Prot
    Q96DZ5
    Related
    ENSP00000353732.3, ENST00000360535.9
    Conserved Domains (3) summary
    sd00045
    Location:120157
    ANK; ANK repeat [structural motif]
    pfam01302
    Location:418482
    CAP_GLY; CAP-Gly domain
    pfam12796
    Location:122228
    Ank_2; Ankyrin repeats (3 copies)

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210226

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p13 Primary Assembly

    Range
    36014660..36032873 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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