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    Yipf1 Yip1 domain family, member 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 298312, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Yipf1provided by RGD
    Official Full Name
    Yip1 domain family, member 1provided by RGD
    Primary source
    RGD:735206
    See related
    Ensembl:ENSRNOG00000010512 AllianceGenome:RGD:735206
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    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, Apr 2022]
    Expression
    Biased expression in Liver (RPKM 86.0), Adrenal (RPKM 75.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Yipf1 in Genome Data Viewer
    Location:
    5q34
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (127340962..127376270)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (122112144..122147729)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (126932730..126968110)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134486960 Neighboring gene iodothyronine deiodinase 1 Neighboring gene NDC1 transmembrane nucleoporin Neighboring gene GLIS family zinc finger 1 Neighboring gene uncharacterized LOC102551042

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. YIPF1, YIPF2, and YIPF6 are medial-/trans-Golgi and trans-Golgi network-localized Yip domain family proteins, which play a role in the Golgi reassembly and glycan synthesis. Soonthornsit J, et al. Exp Cell Res, 2017 Apr 15. PMID 28286305
    2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Clone Names

    • MGC72975

    Gene Ontology Provided by RGD

    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 IEA
    Inferred from Electronic Annotation
    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 membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in Golgi trans cisterna IEA
    Inferred from Electronic Annotation
    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 endosome membrane IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    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
    Names
    YIP1 family member 1

    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_199383.2 → NP_955415.1  protein YIPF1

      See identical proteins and their annotated locations for NP_955415.1

      Status: PROVISIONAL

      Source sequence(s)
      BC062239
      UniProtKB/Swiss-Prot
      Q6P6G5
      UniProtKB/TrEMBL
      A6JYR7, A6JYR8
      Related
      ENSRNOP00000014091.2, ENSRNOT00000014091.5
      Conserved Domains (1) summary
      pfam04893
      Location:100 → 277
      Yip1; Yip1 domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086023.1 Reference GRCr8

      Range
      127340962..127376270
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006238505.5 → XP_006238567.1  protein YIPF1 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AM16, A0A8I6AMB3
      Related
      ENSRNOP00000094494.1
      Conserved Domains (1) summary
      pfam04893
      Location:86 → 268
      Yip1; Yip1 domain

    2. XM_006238504.5 → XP_006238566.1  protein YIPF1 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZZB9
      Related
      ENSRNOP00000083468.1
      Conserved Domains (1) summary
      pfam04893
      Location:100 → 277
      Yip1; Yip1 domain

    3. XM_039109555.2 → XP_038965483.1  protein YIPF1 isoform X3

      Conserved Domains (1) summary
      pfam04893
      Location:7 → 161
      Yip1; Yip1 domain

    RNA

    1. XR_010066357.1 RNA Sequence

    2. XR_005504395.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6P6G5.1 GenPept UniProtKB/Swiss-Prot:Q6P6G5

    Gene LinkOut

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

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