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    Yju2b YJU2 splicing factor homolog B [ Rattus norvegicus (Norway rat) ]

    Gene ID: 304656, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Yju2bprovided by RGD
    Official Full Name
    YJU2 splicing factor homolog Bprovided by RGD
    Primary source
    RGD:1307598
    See related
    EnsemblRapid:ENSRNOG00000008319 AllianceGenome:RGD:1307598
    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
    Also known as
    Ccdc130; RGD1307598
    Summary
    Predicted to be involved in RNA splicing and response to virus. Predicted to be part of U2-type spliceosomal complex and post-mRNA release spliceosomal complex. Orthologous to human YJU2B (YJU2 splicing factor homolog B). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 63.2), Thymus (RPKM 50.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Yju2b in Genome Data Viewer
    Location:
    19q11
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 19 NC_086037.1 (40799392..40810885)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 19 NC_051354.1 (23894587..23906084)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 19 NC_005118.4 (25367552..25378993, complement)

    Chromosome 19 - NC_086037.1Genomic Context describing neighboring genes Neighboring gene calcium voltage-gated channel subunit alpha1 A Neighboring gene uncharacterized LOC120098528 Neighboring gene ribonucleotide reductase regulatory subunit M2 like 1 Neighboring gene similar to human chromosome 19 open reading frame 53 Neighboring gene methylthioribose-1-phosphate isomerase 1 Neighboring gene zinc finger, SWIM-type containing 4

    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. Alternative mechanisms for gene activation induced by poly(rI).poly(rC) and Newcastle disease virus. Lammers R, et al. Eur J Biochem, 1988 Dec 1. PMID 3203696
    2. Identification of novel proteins associated with both alpha-synuclein and DJ-1. Jin J, et al. Mol Cell Proteomics, 2007 May. PMID 16854843
    3. 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
    4. 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
    5. 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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC125030

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in RNA splicing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in response to virus ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of U2-type spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of post-mRNA release spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    probable splicing factor YJU2B
    Names
    coiled-coil domain containing 130
    coiled-coil domain-containing protein 130

    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_001037644.1 → NP_001032733.1  probable splicing factor YJU2B

      See identical proteins and their annotated locations for NP_001032733.1

      Status: PROVISIONAL

      Source sequence(s)
      BC107912
      UniProtKB/Swiss-Prot
      Q32PZ9
      UniProtKB/TrEMBL
      A6IY97
      Related
      ENSRNOP00000092066.1, ENSRNOT00000114282.2
      Conserved Domains (2) summary
      COG5134
      Location:8 → 224
      COG5134; Uncharacterized conserved protein [Function unknown]
      pfam04502
      Location:8 → 238
      DUF572; Family of unknown function (DUF572)

    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_086037.1 Reference GRCr8

      Range
      40799392..40810885
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063277968.1 → XP_063134038.1  probable splicing factor YJU2B isoform X3

      UniProtKB/TrEMBL
      A0A8I6GDF3
      Related
      ENSRNOP00000085853.1, ENSRNOT00000104713.2

    2. XM_006255252.5 → XP_006255314.1  probable splicing factor YJU2B isoform X1

      See identical proteins and their annotated locations for XP_006255314.1

      UniProtKB/Swiss-Prot
      Q32PZ9
      UniProtKB/TrEMBL
      A6IY97
      Related
      ENSRNOP00000011150.5, ENSRNOT00000011150.9
      Conserved Domains (2) summary
      COG5134
      Location:8 → 224
      COG5134; Uncharacterized conserved protein [Function unknown]
      pfam04502
      Location:8 → 238
      DUF572; Family of unknown function (DUF572)

    3. XM_063277967.1 → XP_063134037.1  probable splicing factor YJU2B isoform X1

      UniProtKB/Swiss-Prot
      Q32PZ9
      UniProtKB/TrEMBL
      A6IY97

    4. XM_006255253.5 → XP_006255315.1  probable splicing factor YJU2B isoform X2

      Conserved Domains (2) summary
      COG5134
      Location:2 → 160
      COG5134; Uncharacterized conserved protein [Function unknown]
      pfam04502
      Location:1 → 174
      DUF572; Family of unknown function (DUF572)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q32PZ9.1 GenPept UniProtKB/Swiss-Prot:Q32PZ9

    Gene LinkOut

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

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