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

Gene ID: 296301, updated on 17-Aug-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 and transcription coregulator activity. Predicted to be involved in cholesterol homeostasis and regulation of nucleic acid-templated transcription. 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, Apr 2022]
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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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 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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