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

Gene ID: 74243, updated on 5-Mar-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, Apr 2022]
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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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. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, et al. Development, 2000 Apr. PMID 10725249
  3. 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
  4. 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
  5. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article

See all (15) 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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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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