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

Gene ID: 304656, updated on 2-Nov-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, Nov 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 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

    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

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