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    Yipf1 Yip1 domain family, member 1 [ Mus musculus (house mouse) ]

    Gene ID: 230584, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Yipf1provided by MGI
    Official Full Name
    Yip1 domain family, member 1provided by MGI
    Primary source
    MGI:MGI:1915532
    See related
    Ensembl:ENSMUSG00000057375 AllianceGenome:MGI:1915532
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    C030002N13Rik
    Summary
    Predicted to enable small GTPase binding activity. Predicted to be involved in vesicle-mediated transport. Predicted to be located in several cellular components, including Golgi apparatus subcompartment; nucleoplasm; and transport vesicle. Predicted to be active in Golgi apparatus. Orthologous to human YIPF1 (Yip1 domain family member 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in large intestine adult (RPKM 32.5), colon adult (RPKM 31.0) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Yipf1 in Genome Data Viewer
    Location:
    4 C7; 4 50.18 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (107149068..107217020)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (107314223..107359823)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E4642 Neighboring gene leucine rich repeat containing 42 Neighboring gene intraflagellar transport 25 Neighboring gene deiodinase, iodothyronine, type I Neighboring gene replication factor C (activator 1) 5 pseudogene Neighboring gene STARR-seq mESC enhancer starr_11024 Neighboring gene STARR-positive B cell enhancer ABC_E10245 Neighboring gene NDC1 transmembrane nucleoporin Neighboring gene GLIS family zinc finger 1 Neighboring gene RIKEN cDNA 4930552P06 gene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Histopathology reveals correlative and unique phenotypes in a high-throughput mouse phenotyping screen. Adissu HA, et al. Dis Model Mech, 2014 May. PMID 24652767, Free PMC Article
    2. Mouse screen reveals multiple new genes underlying mouse and human hearing loss. Ingham NJ, et al. PLoS Biol, 2019 Apr. PMID 30973865, Free PMC Article
    3. BioID screening of biotinylation sites using the avidin-like protein Tamavidin 2-REV identifies global interactors of stimulator of interferon genes (STING). Motani K, et al. J Biol Chem, 2020 Aug 7. PMID 32554809, Free PMC Article
    4. BGEM: an in situ hybridization database of gene expression in the embryonic and adult mouse nervous system. Magdaleno S, et al. PLoS Biol, 2006 Apr. PMID 16602821, Free PMC Article
    5. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199

    See all (19) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (1) 

    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 MGI

    Function Evidence Code Pubs
    enables small GTPase binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in vesicle-mediated transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in Golgi apparatus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in Golgi medial cisterna ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in Golgi medial cisterna ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in Golgi trans cisterna ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in Golgi trans cisterna ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in late endosome membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in trans-Golgi network ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in trans-Golgi network ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in transport vesicle IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in transport vesicle ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    protein YIPF1

    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_001205156.1 → NP_001192085.1  protein YIPF1 isoform 2

      See identical proteins and their annotated locations for NP_001192085.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an exon in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AL626784, AL645723
      UniProtKB/TrEMBL
      A2A8S3
      Related
      ENSMUSP00000115626.2, ENSMUST00000139527.8
      Conserved Domains (1) summary
      pfam04893
      Location:65 → 241
      Yip1; Yip1 domain

    2. NM_145550.3 → NP_663525.1  protein YIPF1 isoform 1

      See identical proteins and their annotated locations for NP_663525.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AI303400, AK081205, BY204210
      Consensus CDS
      CCDS18437.1
      UniProtKB/Swiss-Prot
      Q3TZU1, Q91VU1
      UniProtKB/TrEMBL
      A2A8S3
      Related
      ENSMUSP00000075113.6, ENSMUST00000075693.12
      Conserved Domains (1) summary
      pfam04893
      Location:100 → 277
      Yip1; Yip1 domain

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000070.7 Reference GRCm39 C57BL/6J

      Range
      107149068..107217020
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036164021.1 → XP_036019914.1  protein YIPF1 isoform X1

      UniProtKB/Swiss-Prot
      Q3TZU1, Q91VU1
      UniProtKB/TrEMBL
      A2A8S3
      Conserved Domains (1) summary
      pfam04893
      Location:100 → 277
      Yip1; Yip1 domain

    2. XM_006502968.5 → XP_006503031.1  protein YIPF1 isoform X2

      UniProtKB/TrEMBL
      A2A8S3
      Related
      ENSMUSP00000114898.2, ENSMUST00000128284.8
      Conserved Domains (1) summary
      pfam04893
      Location:86 → 268
      Yip1; Yip1 domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q91VU1.1 GenPept UniProtKB/Swiss-Prot:Q91VU1

    Gene LinkOut

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

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