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    Tssc4 tumor-suppressing subchromosomal transferable fragment 4 [ Mus musculus (house mouse) ]

    Gene ID: 56844, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Tssc4provided by MGI
    Official Full Name
    tumor-suppressing subchromosomal transferable fragment 4provided by MGI
    Primary source
    MGI:MGI:1861712
    See related
    Ensembl:ENSMUSG00000045752 AllianceGenome:MGI:1861712
    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
    ESTM671070
    Summary
    Is expressed in several structures, including extraembryonic component; gut; liver; placenta; and spleen. Orthologous to human TSSC4 (tumor suppressing subtransferable candidate 4). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in ovary adult (RPKM 20.3), limb E14.5 (RPKM 20.3) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    7 F5; 7 88.11 cM
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (142621049..142624830)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (143068416..143071093)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E4987 Neighboring gene STARR-positive B cell enhancer ABC_E6616 Neighboring gene tetraspanin 32 Neighboring gene STARR-seq mESC enhancer starr_20520 Neighboring gene STARR-positive B cell enhancer ABC_E6617 Neighboring gene STARR-seq mESC enhancer starr_20521 Neighboring gene expressed sequence R74862 Neighboring gene nonconserved acetylation island sequence M93 enhancer Neighboring gene CD81 antigen Neighboring gene VISTA enhancer mm183 Neighboring gene transient receptor potential cation channel, subfamily M, member 5 Neighboring gene STARR-seq mESC enhancer starr_20525 Neighboring gene potassium voltage-gated channel, subfamily Q, member 1 Neighboring gene predicted gene 28821

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Epigenetic dynamics of the Kcnq1 imprinted domain in the early embryo. Lewis A, et al. Development, 2006 Nov. PMID 17021040
    2. Elongation of the Kcnq1ot1 transcript is required for genomic imprinting of neighboring genes. Mancini-Dinardo D, et al. Genes Dev, 2006 May 15. PMID 16702402, Free PMC Article
    3. The two-domain hypothesis in Beckwith-Wiedemann syndrome: autonomous imprinting of the telomeric domain of the distal chromosome 7 cluster. Cerrato F, et al. Hum Mol Genet, 2005 Feb 15. PMID 15640248
    4. Sequence conservation and variability of imprinting in the Beckwith-Wiedemann syndrome gene cluster in human and mouse. Paulsen M, et al. Hum Mol Genet, 2000 Jul 22. PMID 10915772
    5. Transcription factor ASCL2 is required for development of the glycogen trophoblast cell lineage. Bogutz AB, et al. PLoS Genet, 2018 Aug. PMID 30096149, Free PMC Article

    See all (34) 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 MGI

    Function Evidence Code Pubs
    enables molecular sequestering activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables molecular_function ND
    No biological Data available
    more info
    		  
    enables protein-containing complex binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in spliceosomal snRNP assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in spliceosomal tri-snRNP complex assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of U5 snRNP ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  
    is_active_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus ISO
    Inferred from Sequence Orthology
    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

    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_001115085.1 → NP_001108557.1  U5 small nuclear ribonucleoprotein TSSC4 isoform 1

      See identical proteins and their annotated locations for NP_001108557.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1 and 3 both encode the same isoform (1).
      Source sequence(s)
      AB038011, CX239537
      Consensus CDS
      CCDS40195.1
      UniProtKB/Swiss-Prot
      Q9JHE7
      Related
      ENSMUSP00000137399.2, ENSMUST00000177841.8
      Conserved Domains (1) summary
      pfam15264
      Location:91 → 207
      TSSC4; Tumour suppressing sub-chromosomal transferable candidate 4

    2. NM_020285.2 → NP_064681.1  U5 small nuclear ribonucleoprotein TSSC4 isoform 1

      See identical proteins and their annotated locations for NP_064681.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1). Variants 1 and 3 both encode the same isoform.
      Source sequence(s)
      AB038011
      Consensus CDS
      CCDS40195.1
      UniProtKB/Swiss-Prot
      Q9JHE7
      Related
      ENSMUSP00000056582.4, ENSMUST00000060433.10
      Conserved Domains (1) summary
      pfam15264
      Location:91 → 207
      TSSC4; Tumour suppressing sub-chromosomal transferable candidate 4

    3. NM_138631.1 → NP_619537.1  U5 small nuclear ribonucleoprotein TSSC4 isoform 2

      See identical proteins and their annotated locations for NP_619537.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate coding segment compared to variant 1, that causes a frameshift. The resulting isoform (2) is shorter and has a distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AJ279797
      Consensus CDS
      CCDS40196.1
      UniProtKB/TrEMBL
      Q9JHE9
      Related
      ENSMUSP00000101540.2, ENSMUST00000105920.8
      Conserved Domains (1) summary
      pfam15264
      Location:91 → 112
      TSSC4; tumor suppressing sub-chromosomal transferable candidate 4

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000073.7 Reference GRCm39 C57BL/6J

      Range
      142621049..142624830
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017322385.3 → XP_017177874.1  U5 small nuclear ribonucleoprotein TSSC4 isoform X1

      Conserved Domains (1) summary
      pfam15264
      Location:160 → 276
      TSSC4; tumor suppressing sub-chromosomal transferable candidate 4

    2. XM_030242821.2 → XP_030098681.1  U5 small nuclear ribonucleoprotein TSSC4 isoform X3

      UniProtKB/TrEMBL
      Q9JHE9
      Related
      ENSMUSP00000146914.2, ENSMUST00000208779.2
      Conserved Domains (1) summary
      pfam15264
      Location:91 → 112
      TSSC4; tumor suppressing sub-chromosomal transferable candidate 4

    3. XM_006508648.5 → XP_006508711.1  U5 small nuclear ribonucleoprotein TSSC4 isoform X2

      Conserved Domains (1) summary
      pfam15264
      Location:160 → 181
      TSSC4; tumor suppressing sub-chromosomal transferable candidate 4
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9JHE7.1 GenPept UniProtKB/Swiss-Prot:Q9JHE7

    Gene LinkOut

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

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