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

Gene ID: 361682, updated on 2-Nov-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
EnsemblRapid: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
Predicted to enable molecular sequestering activity. Predicted to be involved in spliceosomal tri-snRNP complex assembly. Predicted to be part of U5 snRNP. Predicted to be active in cytoplasm and nucleus. Orthologous to human TSSC4 (tumor suppressing subtransferable candidate 4). [provided by Alliance of Genome Resources, Nov 2024]
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 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
    Related
    ENSRNOP00000105750.1, ENSRNOT00000169555.1
    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
    Related
    ENSRNOP00000091975.1, ENSRNOT00000112618.2
    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, ENSRNOT00000046669.5
    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
    ENSRNOP00000099890.1, ENSRNOT00000153150.1
    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

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