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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
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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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