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    Tssc4 tumor suppressing subtransferable candidate 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 361682, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Tssc4provided by RGD
    Official Full Name
    tumor suppressing subtransferable candidate 4provided by RGD
    Primary source
    RGD:1307043
    See related
    Ensembl:ENSRNOG00000032677 AllianceGenome:RGD:1307043
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Orthologous to human TSSC4 (tumor suppressing subtransferable candidate 4). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 74.1), Kidney (RPKM 61.9) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Tssc4 in Genome Data Viewer
    Location:
    1q42
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (207681420..207684244)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (198251986..198254810)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (216253786..216256610)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene achaete-scute family bHLH transcription factor 2 Neighboring gene tetraspanin 32 Neighboring gene Cd81 molecule Neighboring gene transient receptor potential cation channel, subfamily M, member 5 Neighboring gene potassium voltage-gated channel subfamily Q member 1 Neighboring gene uncharacterized LOC120099963

    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. 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
    2. 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
    3. 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

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables molecular sequestering activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables molecular sequestering activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables molecular sequestering activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables protein-containing complex binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein-containing complex binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in spliceosomal snRNP assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in spliceosomal snRNP assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in spliceosomal tri-snRNP complex assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in spliceosomal tri-snRNP complex assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in spliceosomal tri-snRNP complex assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    part_of U5 snRNP IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of U5 snRNP ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U5 snRNP ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of spliceosomal complex IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    U5 small nuclear ribonucleoprotein TSSC4
    Names
    protein TSSC4
    tumor-suppressing subchromosomal transferable fragment 4

    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_001013194.2 → NP_001013212.2  U5 small nuclear ribonucleoprotein TSSC4

      See identical proteins and their annotated locations for NP_001013212.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2 and 3 encode the same protein.
      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/Swiss-Prot
      Q5XIB1
      UniProtKB/TrEMBL
      A0A8I6AGX5, A6HYA3
      Conserved Domains (1) summary
      pfam15264
      Location:95 → 211
      TSSC4; Tumour suppressing sub-chromosomal transferable candidate 4

    2. NM_001310046.1 → NP_001296975.1  U5 small nuclear ribonucleoprotein TSSC4

      See identical proteins and their annotated locations for NP_001296975.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1, 2 and 3 encode the same protein.
      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/Swiss-Prot
      Q5XIB1
      UniProtKB/TrEMBL
      A0A8I6AGX5, A6HYA3
      Conserved Domains (1) summary
      pfam15264
      Location:95 → 211
      TSSC4; Tumour suppressing sub-chromosomal transferable candidate 4

    3. NM_001310047.1 → NP_001296976.1  U5 small nuclear ribonucleoprotein TSSC4

      See identical proteins and their annotated locations for NP_001296976.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1, 2 and 3 encode the same protein.
      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/Swiss-Prot
      Q5XIB1
      UniProtKB/TrEMBL
      A0A8I6AGX5, A6HYA3
      Related
      ENSRNOP00000045788.4, ENSRNOT00000046669.4
      Conserved Domains (1) summary
      pfam15264
      Location:95 → 211
      TSSC4; Tumour suppressing sub-chromosomal transferable candidate 4

    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_086019.1 Reference GRCr8

      Range
      207681420..207684244
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008760149.1 → XP_008758371.1  U5 small nuclear ribonucleoprotein TSSC4 isoform X1

      See identical proteins and their annotated locations for XP_008758371.1

      UniProtKB/Swiss-Prot
      Q5XIB1
      UniProtKB/TrEMBL
      A0A8I6AGX5, A6HYA3
      Related
      ENSRNOP00000091975.1, ENSRNOT00000112618.1
      Conserved Domains (1) summary
      pfam15264
      Location:95 → 211
      TSSC4; Tumour suppressing sub-chromosomal transferable candidate 4
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5XIB1.1 GenPept UniProtKB/Swiss-Prot:Q5XIB1

    Gene LinkOut

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

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