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    YIF1A Yip1 interacting factor homolog A, membrane trafficking protein [ Homo sapiens (human) ]

    Gene ID: 10897, updated on 3-Nov-2024

    Summary

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    Official Symbol
    YIF1Aprovided by HGNC
    Official Full Name
    Yip1 interacting factor homolog A, membrane trafficking proteinprovided by HGNC
    Primary source
    HGNC:HGNC:16688
    See related
    Ensembl:ENSG00000174851 MIM:611484; AllianceGenome:HGNC:16688
    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
    54TM; YIF1; YIF1P; FinGER7
    Summary
    Predicted to be involved in endoplasmic reticulum to Golgi vesicle-mediated transport. Located in Golgi apparatus and endoplasmic reticulum-Golgi intermediate compartment. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in duodenum (RPKM 11.2), liver (RPKM 9.6) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See YIF1A in Genome Data Viewer
    Location:
    11q13.2
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (66284580..66289143, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (66278243..66282806, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (66052051..66056614, complement)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5041 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:66036329-66037210 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr11:66039357-66040556 Neighboring gene uncharacterized LOC107984340 Neighboring gene RAB1B, member RAS oncogene family Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3585 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:66049917-66050420 Neighboring gene cornichon family AMPA receptor auxiliary protein 2 Neighboring gene Sharpr-MPRA regulatory region 5915 Neighboring gene transmembrane protein 151A Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3587 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:66083264-66083960 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3588 Neighboring gene CD248 molecule

    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. The GDP/GTP cycle of Rab5 in the regulation of endocytotic membrane traffic. Vitale G, et al. Cold Spring Harb Symp Quant Biol, 1995. PMID 8824393
    2. YIPF5 and YIF1A recycle between the ER and the Golgi apparatus and are involved in the maintenance of the Golgi structure. Yoshida Y, et al. Exp Cell Res, 2008 Nov 15. PMID 18718466
    3. Human Yip1A specifies the localization of Yif1 to the Golgi apparatus. Jin C, et al. Biochem Biophys Res Commun, 2005 Aug 19. PMID 15990086
    4. The ALS8 protein VAPB interacts with the ER-Golgi recycling protein YIF1A and regulates membrane delivery into dendrites. Kuijpers M, et al. EMBO J, 2013 Jul 17. PMID 23736259, Free PMC Article
    5. A novel Golgi membrane protein is part of a GTPase-binding protein complex involved in vesicle targeting. Matern H, et al. EMBO J, 2000 Sep 1. PMID 10970842, Free PMC Article

    See all (46) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. YIF1A is involved in the maintenance of the Golgi structure.
      Title: YIPF5 and YIF1A recycle between the ER and the Golgi apparatus and are involved in the maintenance of the Golgi structure.
    2. Human Yip1A (YIPF5) interacts with and localizes human Yif1 (YIF1A) to the Golgi apparatus.
      Title: Human Yip1A specifies the localization of Yif1 to the Golgi apparatus.
    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

    EBI GWAS Catalog

    Description
    Large-scale genome-wide association analysis of bipolar disorder identifies a new susceptibility locus near ODZ4.
    EBI GWAS Catalog

    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

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    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 protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in COPII-coated ER to Golgi transport vesicle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    		  
    is_active_in Golgi membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in endoplasmic reticulum membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum membrane TAS
    Traceable Author Statement
    more info
    		  
    is_active_in endoplasmic reticulum-Golgi intermediate compartment IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum-Golgi intermediate compartment IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in endoplasmic reticulum-Golgi intermediate compartment membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in intracellular membrane-bounded organelle IDA
    Inferred from Direct Assay
    more info
    		  

    General protein information

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    Preferred Names
    protein YIF1A
    Names
    54TMp
    YIP1-interacting factor homolog A
    Yip1p-interacting factor
    putative Rab5-interacting protein
    putative transmembrane protein 54TMp

    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_001300861.2 → NP_001287790.1  protein YIF1A isoform 2

      See identical proteins and their annotated locations for NP_001287790.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
      Source sequence(s)
      AK226003, BG397210, DB085949
      Consensus CDS
      CCDS73325.1
      UniProtKB/TrEMBL
      A6NGW1, A8K509
      Related
      ENSP00000352437.6, ENST00000359461.10
      Conserved Domains (1) summary
      pfam03878
      Location:57 → 235
      YIF1; YIF1

    2. NM_020470.3 → NP_065203.2  protein YIF1A isoform 1

      See identical proteins and their annotated locations for NP_065203.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AK291124, BC001299, BC009892
      Consensus CDS
      CCDS8132.1
      UniProtKB/Swiss-Prot
      A6NM00, O95070, Q96G83, Q9BVD0
      UniProtKB/TrEMBL
      A8K509
      Related
      ENSP00000366098.4, ENST00000376901.9
      Conserved Domains (1) summary
      pfam03878
      Location:57 → 287
      YIF1; YIF1

    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_000011.10 Reference GRCh38.p14 Primary Assembly

      Range
      66284580..66289143 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      66278243..66282806 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O95070.2 GenPept UniProtKB/Swiss-Prot:O95070

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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