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    Ushbp1 USH1 protein network component harmonin binding protein 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 290629, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Ushbp1provided by RGD
    Official Full Name
    USH1 protein network component harmonin binding protein 1provided by RGD
    Primary source
    RGD:1310859
    See related
    Ensembl:ENSRNOG00000023485 AllianceGenome:RGD:1310859
    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 PDZ domain binding activity. Orthologous to human USHBP1 (USH1 protein network component harmonin binding protein 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Lung (RPKM 210.1), Heart (RPKM 117.0) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ushbp1 in Genome Data Viewer
    Location:
    16p14
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 16 NC_086034.1 (18091311..18101927, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (18057321..18067933, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (19781276..19791832, complement)

    Chromosome 16 - NC_086034.1Genomic Context describing neighboring genes Neighboring gene occludin/ELL domain containing 1 Neighboring gene nuclear receptor subfamily 2, group F, member 6 Neighboring gene uncharacterized LOC134482465 Neighboring gene BRISC and BRCA1 A complex member 1 Neighboring gene ankyrin repeat and LEM domain containing 1

    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. Interaction of MCC2, a novel homologue of MCC tumor suppressor, with PDZ-domain Protein AIE-75. Ishikawa S, et al. Gene, 2001 Apr 4. PMID 11311560
    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

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC124707

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables PDZ domain binding ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    harmonin-binding protein USHBP1
    Names
    USH1C-binding protein 1
    Usher syndrome 1C binding protein 1
    usher syndrome type-1C protein-binding protein 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_001033687.1 → NP_001028859.1  harmonin-binding protein USHBP1

      See identical proteins and their annotated locations for NP_001028859.1

      Status: PROVISIONAL

      Source sequence(s)
      BC101905
      UniProtKB/Swiss-Prot
      Q3T1I3
      UniProtKB/TrEMBL
      A6K9T1
      Related
      ENSRNOP00000042639.3, ENSRNOT00000040393.5
      Conserved Domains (1) summary
      pfam10506
      Location:288 → 352
      MCC-bdg_PDZ; PDZ domain of MCC-2 bdg protein for Usher syndrome

    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_086034.1 Reference GRCr8

      Range
      18091311..18101927 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039094294.2 → XP_038950222.1  harmonin-binding protein USHBP1 isoform X1

    2. XM_039094295.2 → XP_038950223.1  harmonin-binding protein USHBP1 isoform X2

      Conserved Domains (1) summary
      pfam10506
      Location:288 → 352
      MCC-bdg_PDZ; PDZ domain of MCC-2 bdg protein for Usher syndrome
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q3T1I3.1 GenPept UniProtKB/Swiss-Prot:Q3T1I3

    Gene LinkOut

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

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