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    YIPF4 Yip1 domain family member 4 [ Homo sapiens (human) ]

    Gene ID: 84272, updated on 2-Nov-2024

    Summary

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    Official Symbol
    YIPF4provided by HGNC
    Official Full Name
    Yip1 domain family member 4provided by HGNC
    Primary source
    HGNC:HGNC:28145
    See related
    Ensembl:ENSG00000119820 MIM:617534; AllianceGenome:HGNC:28145
    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
    FinGER4; Nbla11189; YIPFalpha2
    Summary
    Predicted to be involved in endoplasmic reticulum to Golgi vesicle-mediated transport and vesicle fusion with Golgi apparatus. Located in Golgi apparatus; endoplasmic reticulum; and plasma membrane. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in thyroid (RPKM 14.7), fat (RPKM 12.2) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See YIPF4 in Genome Data Viewer
    Location:
    2p22.3
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (32277904..32316594)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (32326427..32365131)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (32502973..32541663)

    Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene solute carrier family 30 member 6 Neighboring gene RNA, U6 small nuclear 647, pseudogene Neighboring gene NLR family CARD domain containing 4 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:32502088-32502833 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11340 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:32518022-32518694 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:32521211-32521404 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:32581762-32582274 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11342 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:32582789-32583301 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:32586084-32586282 Neighboring gene baculoviral IAP repeat containing 6 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:32662063-32662288 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:32672333-32672910 Neighboring gene microRNA 558 Neighboring gene BIRC6 antisense RNA 2

    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. YIP1 family member 4 (YIPF4) is a novel cellular binding partner of the papillomavirus E5 proteins. Müller M, et al. Sci Rep, 2015 Aug 3. PMID 26235900, Free PMC Article
    2. Functional characterisation of the YIPF protein family in mammalian cells. Kranjc T, et al. Histochem Cell Biol, 2017 Apr. PMID 27999994
    3. Characterization of YIPF3 and YIPF4, cis-Golgi Localizing Yip domain family proteins. Tanimoto K, et al. Cell Struct Funct, 2011. PMID 21757827
    4. Neuroblastoma oligo-capping cDNA project: toward the understanding of the genesis and biology of neuroblastoma. Ohira M, et al. Cancer Lett, 2003 Jul 18. PMID 12880961
    5. Intrinsically Disordered Protein TEX264 Mediates ER-phagy. Chino H, et al. Mol Cell, 2019 Jun 6. PMID 31006538

    See all (32) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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

    • MGC11061

    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 endoplasmic reticulum to Golgi vesicle-mediated transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in vesicle fusion with Golgi apparatus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    		  
    located_in endoplasmic reticulum IDA
    Inferred from Direct Assay
    more info
    		  
    located_in intracellular membrane-bounded organelle IDA
    Inferred from Direct Assay
    more info
    		  
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    		  
    is_active_in trans-Golgi network IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    protein YIPF4
    Names
    YIP1 family member 4
    putative protein product of Nbla11189

    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_032312.4 → NP_115688.1  protein YIPF4

      See identical proteins and their annotated locations for NP_115688.1

      Status: VALIDATED

      Source sequence(s)
      AL121653, AL133245, BC004875, BP207600, BU608699
      Consensus CDS
      CCDS1781.1
      UniProtKB/Swiss-Prot
      Q9BSR8
      Related
      ENSP00000238831.3, ENST00000238831.9
      Conserved Domains (1) summary
      cl21557
      Location:74 → 237
      Yip1; Yip1 domain

    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
      32277904..32316594
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005264599.4 → XP_005264656.1  protein YIPF4 isoform X1

      Conserved Domains (1) summary
      cl21557
      Location:74 → 200
      Yip1; Yip1 domain

    2. XM_024453173.2 → XP_024308941.1  protein YIPF4 isoform X2

      Conserved Domains (1) summary
      cl21557
      Location:74 → 174
      Yip1; Yip1 domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060926.1 Alternate T2T-CHM13v2.0

      Range
      32326427..32365131
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054344176.1 → XP_054200151.1  protein YIPF4 isoform X1

    2. XM_054344177.1 → XP_054200152.1  protein YIPF4 isoform X2

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9BSR8.1 GenPept UniProtKB/Swiss-Prot:Q9BSR8

    Gene LinkOut

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