Format

Send to:

Choose Destination
    • Showing Current items.

    Raly hnRNP-associated with lethal yellow [ Mus musculus (house mouse) ]

    Gene ID: 19383, updated on 23-Jun-2021

    Summary

    Official Symbol
    Ralyprovided by MGI
    Official Full Name
    hnRNP-associated with lethal yellowprovided by MGI
    Primary source
    MGI:MGI:97850
    See related
    Ensembl:ENSMUSG00000027593
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Mer; Merc; AI663842
    Expression
    Ubiquitous expression in ovary adult (RPKM 41.7), liver E14 (RPKM 41.0) and 28 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Raly in Genome Data Viewer
    Location:
    2 H1; 2 76.83 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (154632840..154712930)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (154790920..154871010)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 2 NC_000068.6 (154616846..154692997)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC118568528 Neighboring gene predicted gene, 38598 Neighboring gene ribosomal protein L7A pseudogene Neighboring gene eukaryotic translation initiation factor 2, subunit 2 (beta) Neighboring gene nonagouti Neighboring gene predicted gene, 39965

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Gene trapped (1)  1 citation
    • Endonuclease-mediated (1) 

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables RNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables transcription coregulator activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA splicing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cholesterol homeostasis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of nucleic acid-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    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
    PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    part_of spliceosomal complex IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    RNA-binding protein Raly
    Names
    hnRNP associated with lethal yellow protein
    maternally-expressed hnRNP C-related protein

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001139511.1NP_001132983.1  RNA-binding protein Raly short isoform

      See identical proteins and their annotated locations for NP_001132983.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an exon in the 5' coding region, compared to variant 1. It encodes a protein that is 16 amino acids shorter than the long isoform.
      Source sequence(s)
      AK135386, CF424086, CO812619
      Consensus CDS
      CCDS16939.1
      UniProtKB/Swiss-Prot
      Q64012
      UniProtKB/TrEMBL
      Q3U3F6
      Related
      ENSMUSP00000105323.4, ENSMUST00000109701.10
      Conserved Domains (1) summary
      cd12604
      Location:2095
      RRM_RALY; RNA recognition motif (RRM) found in vertebrate RNA-binding protein Raly
    2. NM_001139512.1NP_001132984.1  RNA-binding protein Raly short isoform

      See identical proteins and their annotated locations for NP_001132984.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) has multiple differences in the 5' UTR and lacks an exon in the 5' coding region, compared to variant 1. It encodes a protein that is 16 amino acids shorter than the long isoform.
      Source sequence(s)
      BY028715, CF424086, CO812619, L17076
      Consensus CDS
      CCDS16939.1
      UniProtKB/Swiss-Prot
      Q64012
      UniProtKB/TrEMBL
      Q3U3F6
      Conserved Domains (1) summary
      cd12604
      Location:2095
      RRM_RALY; RNA recognition motif (RRM) found in vertebrate RNA-binding protein Raly
    3. NM_001139513.1NP_001132985.1  RNA-binding protein Raly long isoform

      See identical proteins and their annotated locations for NP_001132985.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform.
      Source sequence(s)
      CF424086, CO812619, CX214615, L17076
      Consensus CDS
      CCDS50767.1
      UniProtKB/Swiss-Prot
      Q64012
      Related
      ENSMUSP00000112090.3, ENSMUST00000116389.9
      Conserved Domains (1) summary
      cd12604
      Location:2095
      RRM_RALY; RNA recognition motif (RRM) found in vertebrate RNA-binding protein Raly
    4. NM_023130.3NP_075619.2  RNA-binding protein Raly short isoform

      See identical proteins and their annotated locations for NP_075619.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has an additional exon in the 5' UTR and lacks an exon in the 5' coding region, compared to variant 1. It encodes a protein that is 16 amino acids shorter than the long isoform.
      Source sequence(s)
      AK014356, CF424086, CO812619
      Consensus CDS
      CCDS16939.1
      UniProtKB/Swiss-Prot
      Q64012
      UniProtKB/TrEMBL
      Q3U3F6
      Related
      ENSMUSP00000058105.7, ENSMUST00000058089.13
      Conserved Domains (1) summary
      cd12604
      Location:2095
      RRM_RALY; RNA recognition motif (RRM) found in vertebrate RNA-binding protein Raly

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000068.8 Reference GRCm39 C57BL/6J

      Range
      154632840..154712930
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006499016.3XP_006499079.1  RNA-binding protein Raly isoform X2

      See identical proteins and their annotated locations for XP_006499079.1

      UniProtKB/Swiss-Prot
      Q64012
      UniProtKB/TrEMBL
      Q3U3F6
      Conserved Domains (1) summary
      cd12604
      Location:2095
      RRM_RALY; RNA recognition motif (RRM) found in vertebrate RNA-binding protein Raly
    2. XM_006499014.5XP_006499077.1  RNA-binding protein Raly isoform X1

      See identical proteins and their annotated locations for XP_006499077.1

      UniProtKB/Swiss-Prot
      Q64012
      Conserved Domains (1) summary
      cd12604
      Location:2095
      RRM_RALY; RNA recognition motif (RRM) found in vertebrate RNA-binding protein Raly
    3. XM_036159726.1XP_036015619.1  RNA-binding protein Raly isoform X1

      Conserved Domains (1) summary
      cd12604
      Location:2095
      RRM_RALY; RNA recognition motif (RRM) found in vertebrate RNA-binding protein Raly
    4. XM_036159729.1XP_036015622.1  RNA-binding protein Raly isoform X2

      Conserved Domains (1) summary
      cd12604
      Location:2095
      RRM_RALY; RNA recognition motif (RRM) found in vertebrate RNA-binding protein Raly
    5. XM_006499013.5XP_006499076.1  RNA-binding protein Raly isoform X1

      See identical proteins and their annotated locations for XP_006499076.1

      UniProtKB/Swiss-Prot
      Q64012
      Related
      ENSMUSP00000029120.8, ENSMUST00000029120.14
      Conserved Domains (1) summary
      cd12604
      Location:2095
      RRM_RALY; RNA recognition motif (RRM) found in vertebrate RNA-binding protein Raly
    6. XM_006499015.4XP_006499078.1  RNA-binding protein Raly isoform X1

      See identical proteins and their annotated locations for XP_006499078.1

      UniProtKB/Swiss-Prot
      Q64012
      Conserved Domains (1) summary
      cd12604
      Location:2095
      RRM_RALY; RNA recognition motif (RRM) found in vertebrate RNA-binding protein Raly
    Support Center