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    Raly RALY heterogeneous nuclear ribonucleoprotein [ Rattus norvegicus (Norway rat) ]

    Gene ID: 296301, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Ralyprovided by RGD
    Official Full Name
    RALY heterogeneous nuclear ribonucleoproteinprovided by RGD
    Primary source
    RGD:1307228
    See related
    EnsemblRapid:ENSRNOG00000017405 AllianceGenome:RGD:1307228
    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 RNA binding activity; identical protein binding activity; and transcription coregulator activity. Predicted to be involved in cholesterol homeostasis and negative regulation of transcription by RNA polymerase II. Predicted to be part of catalytic step 2 spliceosome. Predicted to be active in nucleus. Orthologous to human RALY (RALY heterogeneous nuclear ribonucleoprotein). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 364.1), Heart (RPKM 284.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Raly in Genome Data Viewer
    Location:
    3q41
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (163766183..163830726)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (143306039..143370542)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (150322834..150387345)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134486467 Neighboring gene ribosomal protein L38 like 6 Neighboring gene Sec61 translocon subunit gamma, pseudogene 7 Neighboring gene eukaryotic translation initiation factor 2 subunit beta Neighboring gene small nucleolar RNA SNORA44

    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. Feedback modulation of cholesterol metabolism by the lipid-responsive non-coding RNA LeXis. Sallam T, et al. Nature, 2016 Jun 2. PMID 27251289, Free PMC Article
    2. PHF6 interacts with the nucleosome remodeling and deacetylation (NuRD) complex. Todd MA, et al. J Proteome Res, 2012 Aug 3. PMID 22720776
    3. Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis. Jurica MS, et al. RNA, 2002 Apr. PMID 11991638, Free PMC Article
    4. p38α MAPK proximity assay reveals a regulatory mechanism of alternative splicing in cardiomyocytes. Dumont AA, et al. Biochim Biophys Acta Mol Cell Res, 2019 Dec. PMID 31505169
    5. Interactome analysis of AMP-activated protein kinase (AMPK)-α1 and -β1 in INS-1 pancreatic beta-cells by affinity purification-mass spectrometry. Moon S, et al. Sci Rep, 2014 Mar 14. PMID 24625528, Free PMC Article

    See all (9) citations in PubMed

    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

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription coregulator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in cholesterol homeostasis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of catalytic step 2 spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    RNA-binding protein Raly
    Names
    RNA binding protein, autoantigenic (hnRNP-associated with lethal yellow homolog)
    hnRNP-associated with lethal yellow

    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_001011958.1 → NP_001011958.1  RNA-binding protein Raly

      See identical proteins and their annotated locations for NP_001011958.1

      Status: PROVISIONAL

      Source sequence(s)
      BC087074
      UniProtKB/TrEMBL
      A0A8I6A4E6, Q5PQR0
      Conserved Domains (1) summary
      cd12604
      Location:20 → 95
      RRM_RALY; RNA recognition motif (RRM) found in vertebrate RNA-binding protein Raly

    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_086021.1 Reference GRCr8

      Range
      163766183..163830726
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008762314.2 → XP_008760536.1  RNA-binding protein Raly isoform X1

      See identical proteins and their annotated locations for XP_008760536.1

      UniProtKB/TrEMBL
      A0A0G2K974, A0A8I6A4E6
      Conserved Domains (1) summary
      cd12604
      Location:20 → 95
      RRM_RALY; RNA recognition motif (RRM) found in vertebrate RNA-binding protein Raly

    2. XM_063283371.1 → XP_063139441.1  RNA-binding protein Raly isoform X2

      UniProtKB/TrEMBL
      A0A8I6A4E6, Q5PQR0

    3. XM_008762317.4 → XP_008760539.1  RNA-binding protein Raly isoform X2

      See identical proteins and their annotated locations for XP_008760539.1

      UniProtKB/TrEMBL
      A0A8I6A4E6, Q5PQR0
      Conserved Domains (1) summary
      cd12604
      Location:20 → 95
      RRM_RALY; RNA recognition motif (RRM) found in vertebrate RNA-binding protein Raly

    4. XM_039104609.2 → XP_038960537.1  RNA-binding protein Raly isoform X1

      UniProtKB/TrEMBL
      A0A0G2K974, A0A8I6A4E6
      Conserved Domains (1) summary
      cd12604
      Location:20 → 95
      RRM_RALY; RNA recognition motif (RRM) found in vertebrate RNA-binding protein Raly

    5. XM_008762315.4 → XP_008760537.1  RNA-binding protein Raly isoform X1

      See identical proteins and their annotated locations for XP_008760537.1

      UniProtKB/TrEMBL
      A0A0G2K974, A0A8I6A4E6
      Conserved Domains (1) summary
      cd12604
      Location:20 → 95
      RRM_RALY; RNA recognition motif (RRM) found in vertebrate RNA-binding protein Raly

    6. XM_063283369.1 → XP_063139439.1  RNA-binding protein Raly isoform X1

      UniProtKB/TrEMBL
      A0A0G2K974, A0A8I6A4E6

    7. XM_063283370.1 → XP_063139440.1  RNA-binding protein Raly isoform X2

      UniProtKB/TrEMBL
      A0A8I6A4E6, Q5PQR0
      Related
      ENSRNOP00000074887.3, ENSRNOT00000080485.3

    8. XM_039104610.2 → XP_038960538.1  RNA-binding protein Raly isoform X1

      UniProtKB/TrEMBL
      A0A0G2K974, A0A8I6A4E6
      Related
      ENSRNOP00000086792.2, ENSRNOT00000119280.2
      Conserved Domains (1) summary
      cd12604
      Location:20 → 95
      RRM_RALY; RNA recognition motif (RRM) found in vertebrate RNA-binding protein Raly

    9. XM_039104611.2 → XP_038960539.1  RNA-binding protein Raly isoform X2

      UniProtKB/TrEMBL
      A0A8I6A4E6, Q5PQR0
      Conserved Domains (1) summary
      cd12604
      Location:20 → 95
      RRM_RALY; RNA recognition motif (RRM) found in vertebrate RNA-binding protein Raly
    Nucleotide Protein Strain
    Heading Accession and Version

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