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    Slx4ip SLX4 interacting protein [ Mus musculus (house mouse) ]

    Gene ID: 74243, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Slx4ipprovided by MGI
    Official Full Name
    SLX4 interacting proteinprovided by MGI
    Primary source
    MGI:MGI:1921493
    See related
    Ensembl:ENSMUSG00000027281 AllianceGenome:MGI:1921493
    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
    Slxip; 2210009G21Rik; 2410004I22Rik
    Summary
    Orthologous to human SLX4IP (SLX4 interacting protein). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in CNS E14 (RPKM 1.3), CNS E11.5 (RPKM 1.3) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Slx4ip in Genome Data Viewer
    Location:
    2 F3; 2 67.65 cM
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (136733138..136923273)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (136891213..137081351)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene predicted gene, 39943 Neighboring gene STARR-seq mESC enhancer starr_05805 Neighboring gene predicted gene, 46767 Neighboring gene STARR-positive B cell enhancer ABC_E1010 Neighboring gene McKusick-Kaufman syndrome Neighboring gene STARR-seq mESC enhancer starr_05810 Neighboring gene jagged 1 Neighboring gene STARR-seq mESC enhancer starr_05811 Neighboring gene predicted gene, 39944

    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. SLX4IP promotes RAP1 SUMOylation by PIAS1 to coordinate telomere maintenance through NF-κB and Notch signaling. Robinson NJ, et al. Sci Signal, 2021 Jun 29. PMID 34187905, Free PMC Article
    2. Mouse screen reveals multiple new genes underlying mouse and human hearing loss. Ingham NJ, et al. PLoS Biol, 2019 Apr. PMID 30973865, Free PMC Article
    3. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, et al. Development, 2000 Apr. PMID 10725249
    4. BayGenomics: a resource of insertional mutations in mouse embryonic stem cells. Stryke D, et al. Nucleic Acids Res, 2003 Jan 1. PMID 12520002, Free PMC Article
    5. Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray. Tanaka TS, et al. Proc Natl Acad Sci U S A, 2000 Aug 1. PMID 10922068, Free PMC Article

    See all (17) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. SLX4IP promotes RAP1 SUMOylation by PIAS1 to coordinate telomere maintenance through NF-kappaB and Notch signaling.
      Title: SLX4IP promotes RAP1 SUMOylation by PIAS1 to coordinate telomere maintenance through NF-κB and Notch signaling.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (2) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  

    General protein information

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    Preferred Names
    protein SLX4IP
    Names
    UPF0492 protein C20orf94 homolog

    NCBI Reference Sequences (RefSeq)

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    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_001038641.2 → NP_001033730.1  protein SLX4IP isoform 1

      See identical proteins and their annotated locations for NP_001033730.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same isoform (1).
      Source sequence(s)
      AK136226, AL713981, BC067037
      Consensus CDS
      CCDS16795.1
      UniProtKB/Swiss-Prot
      Q6NXK0, Q9CWT7, Q9D7Y9
      Conserved Domains (1) summary
      pfam15744
      Location:10 → 363
      UPF0492; Uncharacterized protein family UPF0492

    2. NM_001355669.1 → NP_001342598.1  protein SLX4IP isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks an alternate coding exon compared to variant 1, that causes a frameshift. The resulting isoform (3) has a shorter and distinct C-terminus compared to isoform 1. Variants 4, 5, and 6 all encode the same isoform (3).
      Source sequence(s)
      AL713981, AL731706, BB619962, BC067037
      Conserved Domains (1) summary
      pfam15744
      Location:10 → 39
      UPF0492; Uncharacterized protein family UPF0492

    3. NM_001355670.1 → NP_001342599.1  protein SLX4IP isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) differs in the 5' UTR and lacks an alternate coding exon compared to variant 1, that causes a frameshift. The resulting isoform (3) has a shorter and distinct C-terminus compared to isoform 1. Variants 4, 5, and 6 all encode the same isoform (3).
      Source sequence(s)
      AL713981, AL731706, BC067037
      Related
      ENSMUST00000135260.8
      Conserved Domains (1) summary
      pfam15744
      Location:10 → 39
      UPF0492; Uncharacterized protein family UPF0492

    4. NM_001355671.1 → NP_001342600.1  protein SLX4IP isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) differs in the 5' UTR and lacks an alternate coding exon compared to variant 1, that causes a frameshift. The resulting isoform (3) has a shorter and distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AL713981, AL731706, BC067037, BG080315
      Conserved Domains (1) summary
      pfam15744
      Location:10 → 39
      UPF0492; Uncharacterized protein family UPF0492

    5. NM_028201.3 → NP_082477.1  protein SLX4IP isoform 2

      See identical proteins and their annotated locations for NP_082477.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and lacks two alternate coding exons compared to variant 1. The resulting isoform (2) has the same N- and C-termini, is shorter, and contains an alternate internal segment compared to isoform 1.
      Source sequence(s)
      AK010392, AL713981, BC067037
      Consensus CDS
      CCDS16796.1
      UniProtKB/Swiss-Prot
      Q9D7Y9
      Related
      ENSMUSP00000028737.7, ENSMUST00000028737.13
      Conserved Domains (1) summary
      pfam15744
      Location:10 → 293
      UPF0492; Uncharacterized protein family UPF0492

    6. NM_028834.3 → NP_083110.1  protein SLX4IP isoform 1

      See identical proteins and their annotated locations for NP_083110.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1). Variants 1 and 2 both encode the same isoform (1).
      Source sequence(s)
      AK008687, AL713981, AL731706, BC067037
      Consensus CDS
      CCDS16795.1
      UniProtKB/Swiss-Prot
      Q6NXK0, Q9CWT7, Q9D7Y9
      Related
      ENSMUSP00000096914.3, ENSMUST00000099311.9
      Conserved Domains (1) summary
      pfam15744
      Location:10 → 363
      UPF0492; Uncharacterized protein family UPF0492

    RNA

    1. NR_149746.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) differs in the 5' end, contains two alternate exons, and lacks another alternate exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AL713981, AL731706

    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_000068.8 Reference GRCm39 C57BL/6J

      Range
      136733138..136923273
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011239814.3 → XP_011238116.1  protein SLX4IP isoform X3

      See identical proteins and their annotated locations for XP_011238116.1

      Conserved Domains (1) summary
      pfam15744
      Location:10 → 134
      UPF0492; Uncharacterized protein family UPF0492

    2. XM_036162636.1 → XP_036018529.1  protein SLX4IP isoform X1

      UniProtKB/Swiss-Prot
      Q6NXK0, Q9CWT7, Q9D7Y9
      Conserved Domains (1) summary
      pfam15744
      Location:10 → 363
      UPF0492; Uncharacterized protein family UPF0492

    3. XM_036162639.1 → XP_036018532.1  protein SLX4IP isoform X4

      Conserved Domains (1) summary
      pfam15744
      Location:10 → 39
      UPF0492; Uncharacterized protein family UPF0492

    4. XM_036162638.1 → XP_036018531.1  protein SLX4IP isoform X2

      Conserved Domains (1) summary
      pfam15744
      Location:10 → 293
      UPF0492; Uncharacterized protein family UPF0492

    5. XM_011239811.3 → XP_011238113.1  protein SLX4IP isoform X1

      See identical proteins and their annotated locations for XP_011238113.1

      UniProtKB/Swiss-Prot
      Q6NXK0, Q9CWT7, Q9D7Y9
      Conserved Domains (1) summary
      pfam15744
      Location:10 → 363
      UPF0492; Uncharacterized protein family UPF0492

    6. XM_036162640.1 → XP_036018533.1  protein SLX4IP isoform X4

      Conserved Domains (1) summary
      pfam15744
      Location:10 → 39
      UPF0492; Uncharacterized protein family UPF0492

    7. XM_036162637.1 → XP_036018530.1  protein SLX4IP isoform X1

      UniProtKB/Swiss-Prot
      Q6NXK0, Q9CWT7, Q9D7Y9
      Related
      ENSMUSP00000136131.2, ENSMUST00000180277.3
      Conserved Domains (1) summary
      pfam15744
      Location:10 → 363
      UPF0492; Uncharacterized protein family UPF0492
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9D7Y9.1 GenPept UniProtKB/Swiss-Prot:Q9D7Y9

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