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CLIP4 CAP-Gly domain containing linker protein family member 4 [ Homo sapiens (human) ]

Gene ID: 79745, updated on 2-Nov-2024

Summary

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Official Symbol
CLIP4provided by HGNC
Official Full Name
CAP-Gly domain containing linker protein family member 4provided by HGNC
Primary source
HGNC:HGNC:26108
See related
Ensembl:ENSG00000115295 AllianceGenome:HGNC:26108
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
RSNL2
Summary
Predicted to enable microtubule plus-end binding activity. Predicted to be involved in cytoplasmic microtubule organization. Located in intracellular membrane-bounded organelle. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in thyroid (RPKM 10.8), skin (RPKM 7.6) and 23 other tissues See more
Orthologs
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Genomic context

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See CLIP4 in Genome Data Viewer
Location:
2p23.2
Exon count:
23
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (29097726..29183808)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (29141179..29227263)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (29320592..29406674)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15529 Neighboring gene TOG array regulator of axonemal microtubules 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15530 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:29246593-29247094 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:29264781-29265402 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:29275821-29276331 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:29285737-29286651 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:29287995-29288677 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:29289979-29290479 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:29303580-29304080 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15531 Neighboring gene uncharacterized LOC105374386 Neighboring gene CLIP4 5' region CAGE-defined mid-level expression enhancer Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11319 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11320 Neighboring gene uncharacterized LOC124907747 Neighboring gene photoreceptor cilium actin regulator Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:29474025-29474526 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:29474527-29475026 Neighboring gene ALK receptor tyrosine kinase Neighboring gene uncharacterized LOC101929386 Neighboring gene Sharpr-MPRA regulatory region 127 Neighboring gene uncharacterized LOC105374389

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. FOXC2 and CLIP4 : a potential biomarker for synchronous metastasis of ≤7-cm clear cell renal cell carcinomas. Ahn J, et al. Oncotarget, 2016 Aug 9. PMID 27283491, Free PMC Article
  2. miR-135b-5p promotes gastric carcinogenesis by targeting CLIP4-mediated JAK2/STAT3 signal pathway. Peng Z, et al. Cell Signal, 2024 Oct. PMID 39121973
  3. A Novel GLP1 Receptor Interacting Protein ATP6ap2 Regulates Insulin Secretion in Pancreatic Beta Cells. Dai FF, et al. J Biol Chem, 2015 Oct 9. PMID 26272612, Free PMC Article
  4. rec-YnH enables simultaneous many-by-many detection of direct protein-protein and protein-RNA interactions. Yang JS, et al. Nat Commun, 2018 Sep 14. PMID 30217970, Free PMC Article
  5. The CRL4(DCAF6) E3 ligase ubiquitinates CtBP1/2 to induce apoptotic signalling and promote intervertebral disc degeneration. Tseng C, et al. J Mol Med (Berl), 2023 Feb. PMID 36688959

See all (25) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. miR-135b-5p promotes gastric carcinogenesis by targeting CLIP4-mediated JAK2/STAT3 signal pathway.
    Title: miR-135b-5p promotes gastric carcinogenesis by targeting CLIP4-mediated JAK2/STAT3 signal pathway.
  2. FOXC2 and CLIP4 activity correlates to the presence of </=7-cm clear cell renal cell carcinomas (ccRCCs) with synchronous metastasis and may be potential molecular predictors of synchronous metastasis of </=7-cm ccRCCs.
    Title: FOXC2 and CLIP4 : a potential biomarker for synchronous metastasis of ≤7-cm clear cell renal cell carcinomas.
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)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ21069, FLJ32705

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables microtubule plus-end binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in cytoplasmic microtubule organization IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in cell cortex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
  
is_active_in microtubule plus-end IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
CAP-Gly domain-containing linker protein 4
Names
CAP-GLY domain containing linker protein family, member 4
restin-like protein 2

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_001287527.2 → NP_001274456.1  CAP-Gly domain-containing linker protein 4 isoform 1

    See identical proteins and their annotated locations for NP_001274456.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Both variants 1 and 2 encode the same isoform (1).
    Source sequence(s)
    AC105398, AK023505, AK304384, AL834443, BI600762
    Consensus CDS
    CCDS1770.1
    UniProtKB/Swiss-Prot
    A0AV10, B2RMQ3, B7Z7N8, Q7Z4U3, Q8N3C7, Q96BR7, Q96MA5, Q9H7C0
    UniProtKB/TrEMBL
    A8K6D0
    Related
    ENSP00000509159.1, ENST00000693264.1
    Conserved Domains (3) summary
    cd00204
    Location:98 → 252
    ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
    sd00045
    Location:153 → 184
    ANK; ANK repeat [structural motif]
    pfam01302
    Location:487 → 551
    CAP_GLY; CAP-Gly domain

  2. NM_001287528.2 → NP_001274457.1  CAP-Gly domain-containing linker protein 4 isoform 2

    See identical proteins and their annotated locations for NP_001274457.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, and its 3'-terminal exon extends past a splice site that is used in variant 1. The encoded isoform (2) has a shorter and distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AA429893, AF433661, AK291595, AK302325, DC317668
    Consensus CDS
    CCDS74502.1
    UniProtKB/TrEMBL
    A0A8I5KUB8
    Related
    ENSP00000384242.1, ENST00000401605.5
    Conserved Domains (4) summary
    cd00204
    Location:98 → 252
    ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
    pfam01302
    Location:488 → 551
    CAP_GLY; CAP-Gly domain
    pfam12796
    Location:111 → 217
    Ank_2; Ankyrin repeats (3 copies)
    sd00045
    Location:153 → 184
    ANK; ANK repeat [structural motif]

  3. NM_001410747.1 → NP_001397676.1  CAP-Gly domain-containing linker protein 4 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC093593, AC105398
    Consensus CDS
    CCDS92728.1
    UniProtKB/TrEMBL
    A0A8I5QKV0
    Related
    ENSP00000509643.1, ENST00000689070.1

  4. NM_024692.6 → NP_078968.3  CAP-Gly domain-containing linker protein 4 isoform 1

    See identical proteins and their annotated locations for NP_078968.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1). Both variants 1 and 2 encode the same isoform.
    Source sequence(s)
    AC105398, AK023505, AK304384, AL834443, BI600762
    Consensus CDS
    CCDS1770.1
    UniProtKB/Swiss-Prot
    A0AV10, B2RMQ3, B7Z7N8, Q7Z4U3, Q8N3C7, Q96BR7, Q96MA5, Q9H7C0
    UniProtKB/TrEMBL
    A8K6D0
    Related
    ENSP00000327009.5, ENST00000320081.10
    Conserved Domains (3) summary
    cd00204
    Location:98 → 252
    ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
    sd00045
    Location:153 → 184
    ANK; ANK repeat [structural motif]
    pfam01302
    Location:487 → 551
    CAP_GLY; CAP-Gly domain

RNA

  1. NR_109844.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses alternate 5' and 3'-terminal exons, lacks an internal exon, and uses an alternate splice site at an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AA429893, AK057267, AL834443
    Related
    ENST00000456385.5

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_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    29097726..29183808
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005264562.3 → XP_005264619.1  CAP-Gly domain-containing linker protein 4 isoform X1

    See identical proteins and their annotated locations for XP_005264619.1

    UniProtKB/Swiss-Prot
    A0AV10, B2RMQ3, B7Z7N8, Q7Z4U3, Q8N3C7, Q96BR7, Q96MA5, Q9H7C0
    UniProtKB/TrEMBL
    A8K6D0
    Conserved Domains (3) summary
    cd00204
    Location:98 → 252
    ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
    sd00045
    Location:153 → 184
    ANK; ANK repeat [structural motif]
    pfam01302
    Location:487 → 551
    CAP_GLY; CAP-Gly domain

  2. XM_011533110.2 → XP_011531412.1  CAP-Gly domain-containing linker protein 4 isoform X4

    UniProtKB/TrEMBL
    A0A8I5KXU9, Q4ZFY2
    Related
    ENSP00000508721.1, ENST00000687104.1
    Conserved Domains (4) summary
    cd00204
    Location:1 → 145
    ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
    pfam01302
    Location:381 → 444
    CAP_GLY; CAP-Gly domain
    pfam12796
    Location:4 → 110
    Ank_2; Ankyrin repeats (3 copies)
    sd00045
    Location:46 → 77
    ANK; ANK repeat [structural motif]

  3. XM_005264563.2 → XP_005264620.1  CAP-Gly domain-containing linker protein 4 isoform X1

    See identical proteins and their annotated locations for XP_005264620.1

    UniProtKB/Swiss-Prot
    A0AV10, B2RMQ3, B7Z7N8, Q7Z4U3, Q8N3C7, Q96BR7, Q96MA5, Q9H7C0
    UniProtKB/TrEMBL
    A8K6D0
    Conserved Domains (3) summary
    cd00204
    Location:98 → 252
    ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
    sd00045
    Location:153 → 184
    ANK; ANK repeat [structural motif]
    pfam01302
    Location:487 → 551
    CAP_GLY; CAP-Gly domain

  4. XM_006712104.3 → XP_006712167.1  CAP-Gly domain-containing linker protein 4 isoform X1

    See identical proteins and their annotated locations for XP_006712167.1

    UniProtKB/Swiss-Prot
    A0AV10, B2RMQ3, B7Z7N8, Q7Z4U3, Q8N3C7, Q96BR7, Q96MA5, Q9H7C0
    UniProtKB/TrEMBL
    A8K6D0
    Related
    ENSP00000385594.1, ENST00000404424.5
    Conserved Domains (3) summary
    cd00204
    Location:98 → 252
    ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
    sd00045
    Location:153 → 184
    ANK; ANK repeat [structural motif]
    pfam01302
    Location:487 → 551
    CAP_GLY; CAP-Gly domain

  5. XM_047445849.1 → XP_047301805.1  CAP-Gly domain-containing linker protein 4 isoform X2

    UniProtKB/TrEMBL
    A0A8I5QKP4
    Related
    ENSP00000509057.1, ENST00000686125.1

  6. XM_011533109.2 → XP_011531411.1  CAP-Gly domain-containing linker protein 4 isoform X1

    See identical proteins and their annotated locations for XP_011531411.1

    UniProtKB/Swiss-Prot
    A0AV10, B2RMQ3, B7Z7N8, Q7Z4U3, Q8N3C7, Q96BR7, Q96MA5, Q9H7C0
    UniProtKB/TrEMBL
    A8K6D0
    Conserved Domains (3) summary
    cd00204
    Location:98 → 252
    ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
    sd00045
    Location:153 → 184
    ANK; ANK repeat [structural motif]
    pfam01302
    Location:487 → 551
    CAP_GLY; CAP-Gly domain

  7. XM_017004958.2 → XP_016860447.1  CAP-Gly domain-containing linker protein 4 isoform X1

    UniProtKB/Swiss-Prot
    A0AV10, B2RMQ3, B7Z7N8, Q7Z4U3, Q8N3C7, Q96BR7, Q96MA5, Q9H7C0
    UniProtKB/TrEMBL
    A8K6D0
    Related
    ENSP00000508552.1, ENST00000690063.1
    Conserved Domains (3) summary
    cd00204
    Location:98 → 252
    ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
    sd00045
    Location:153 → 184
    ANK; ANK repeat [structural motif]
    pfam01302
    Location:487 → 551
    CAP_GLY; CAP-Gly domain

  8. XM_017004959.3 → XP_016860448.1  CAP-Gly domain-containing linker protein 4 isoform X3

    UniProtKB/TrEMBL
    A0A8I5KUB8

  9. XM_047445851.1 → XP_047301807.1  CAP-Gly domain-containing linker protein 4 isoform X5

    UniProtKB/TrEMBL
    G3XAK3
    Related
    ENSP00000414417.1, ENST00000415891.5

  10. XM_047445848.1 → XP_047301804.1  CAP-Gly domain-containing linker protein 4 isoform X1

    UniProtKB/Swiss-Prot
    A0AV10, B2RMQ3, B7Z7N8, Q7Z4U3, Q8N3C7, Q96BR7, Q96MA5, Q9H7C0

  11. XM_047445850.1 → XP_047301806.1  CAP-Gly domain-containing linker protein 4 isoform X4

    UniProtKB/TrEMBL
    A0A8I5KXU9
    Related
    ENSP00000509274.1, ENST00000691796.1

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    29141179..29227263
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054343950.1 → XP_054199925.1  CAP-Gly domain-containing linker protein 4 isoform X1

    UniProtKB/Swiss-Prot
    A0AV10, B2RMQ3, B7Z7N8, Q7Z4U3, Q8N3C7, Q96BR7, Q96MA5, Q9H7C0

  2. XM_054343954.1 → XP_054199929.1  CAP-Gly domain-containing linker protein 4 isoform X4

    UniProtKB/TrEMBL
    A0A8I5KXU9

  3. XM_054343946.1 → XP_054199921.1  CAP-Gly domain-containing linker protein 4 isoform X1

    UniProtKB/Swiss-Prot
    A0AV10, B2RMQ3, B7Z7N8, Q7Z4U3, Q8N3C7, Q96BR7, Q96MA5, Q9H7C0

  4. XM_054343947.1 → XP_054199922.1  CAP-Gly domain-containing linker protein 4 isoform X1

    UniProtKB/Swiss-Prot
    A0AV10, B2RMQ3, B7Z7N8, Q7Z4U3, Q8N3C7, Q96BR7, Q96MA5, Q9H7C0

  5. XM_054343952.1 → XP_054199927.1  CAP-Gly domain-containing linker protein 4 isoform X2

    UniProtKB/TrEMBL
    A0A8I5QKP4

  6. XM_054343948.1 → XP_054199923.1  CAP-Gly domain-containing linker protein 4 isoform X1

    UniProtKB/Swiss-Prot
    A0AV10, B2RMQ3, B7Z7N8, Q7Z4U3, Q8N3C7, Q96BR7, Q96MA5, Q9H7C0

  7. XM_054343951.1 → XP_054199926.1  CAP-Gly domain-containing linker protein 4 isoform X1

    UniProtKB/Swiss-Prot
    A0AV10, B2RMQ3, B7Z7N8, Q7Z4U3, Q8N3C7, Q96BR7, Q96MA5, Q9H7C0

  8. XM_054343953.1 → XP_054199928.1  CAP-Gly domain-containing linker protein 4 isoform X3

  9. XM_054343956.1 → XP_054199931.1  CAP-Gly domain-containing linker protein 4 isoform X5

    UniProtKB/TrEMBL
    G3XAK3

  10. XM_054343949.1 → XP_054199924.1  CAP-Gly domain-containing linker protein 4 isoform X1

    UniProtKB/Swiss-Prot
    A0AV10, B2RMQ3, B7Z7N8, Q7Z4U3, Q8N3C7, Q96BR7, Q96MA5, Q9H7C0

  11. XM_054343955.1 → XP_054199930.1  CAP-Gly domain-containing linker protein 4 isoform X4

    UniProtKB/TrEMBL
    A0A8I5KXU9
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8N3C7.1 GenPept UniProtKB/Swiss-Prot:Q8N3C7

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