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    Sbno1 strawberry notch 1 [ Mus musculus (house mouse) ]

    Gene ID: 243272, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Sbno1provided by MGI
    Official Full Name
    strawberry notch 1provided by MGI
    Primary source
    MGI:MGI:2384298
    See related
    Ensembl:ENSMUSG00000038095 AllianceGenome:MGI:2384298
    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
    sno; Sbno; mSno1; 9330180L10Rik
    Summary
    Predicted to enable chromatin DNA binding activity and histone binding activity. Predicted to be involved in regulation of DNA-templated transcription. Predicted to be active in nucleus. Is expressed in several structures, including brain; cardiovascular system; genitourinary system; gut; and liver. Orthologous to human SBNO1 (strawberry notch homolog 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 13.5), testis adult (RPKM 12.3) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Sbno1 in Genome Data Viewer
    Location:
    5 F; 5 63.54 cM
    Exon count:
    34
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (124506765..124564059, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (124368702..124426007, complement)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene mitochondrial translation release factor in rescue Neighboring gene cyclin dependent kinase 2 associated protein 1 Neighboring gene STARR-seq mESC enhancer starr_14338 Neighboring gene STARR-positive B cell enhancer ABC_E851 Neighboring gene lysine methyltransferase 5A Neighboring gene Rab interacting lysosomal protein-like 2 Neighboring gene peptidylprolyl isomerase A pseudogene

    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. Strawberry Notch 1 (SBNO1) promotes proliferation of spermatogonial stem cells via the noncanonical Wnt pathway in mice. Shen C, et al. Asian J Androl, 2019 Jul-Aug. PMID 30198493, Free PMC Article
    2. A mouse homologue of Strawberry Notch is transcriptionally regulated by Reelin signal. Baba K, et al. Biochem Biophys Res Commun, 2006 Dec 1. PMID 17045962
    3. A mouse-specific retrotransposon drives a conserved Cdk2ap1 isoform essential for development. Modzelewski AJ, et al. Cell, 2021 Oct 28. PMID 34644528, Free PMC Article
    4. Notch and Hippo signaling converge on Strawberry Notch 1 (Sbno1) to synergistically activate Cdx2 during specification of the trophectoderm. Watanabe Y, et al. Sci Rep, 2017 Apr 12. PMID 28401892, Free PMC Article
    5. The trafficking protein Tmed2/p24beta(1) is required for morphogenesis of the mouse embryo and placenta. Jerome-Majewska LA, et al. Dev Biol, 2010 May 1. PMID 20178780, Free PMC Article

    See all (27) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

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

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Clone Names

    • MGC28589

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables chromatin DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    protein strawberry notch homolog 1
    Names
    sno, strawberry notch homolog 1
    strawberry notch homolog 1

    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_001081203.2 → NP_001074672.1  protein strawberry notch homolog 1 isoform a

      See identical proteins and their annotated locations for NP_001074672.1

      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 (a).
      Source sequence(s)
      AC127339
      Consensus CDS
      CCDS39280.1
      UniProtKB/Swiss-Prot
      Q3KQK3, Q689Z5, Q8BVN5
      UniProtKB/TrEMBL
      B2RRI2
      Related
      ENSMUSP00000066808.6, ENSMUST00000065263.12
      Conserved Domains (2) summary
      pfam13871
      Location:870 → 1146
      Helicase_C_4; C-terminal domain on Strawberry notch homolog
      pfam13872
      Location:257 → 559
      AAA_34; P-loop containing NTP hydrolase pore-1

    2. NM_001359978.1 → NP_001346907.1  protein strawberry notch homolog 1 isoform a

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a). Variants 1 and 2 both encode the same isoform (a).
      Source sequence(s)
      AC127339
      Consensus CDS
      CCDS39280.1
      UniProtKB/Swiss-Prot
      Q3KQK3, Q689Z5, Q8BVN5
      UniProtKB/TrEMBL
      B2RRI2
      Related
      ENSMUSP00000142481.2, ENSMUST00000199808.5
      Conserved Domains (2) summary
      pfam13871
      Location:870 → 1146
      Helicase_C_4; C-terminal domain on Strawberry notch homolog
      pfam13872
      Location:257 → 559
      AAA_34; P-loop containing NTP hydrolase pore-1

    3. NM_001359979.1 → NP_001346908.1  protein strawberry notch homolog 1 isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is 1 aa shorter compared to isoform a.
      Source sequence(s)
      AC127339
      UniProtKB/Swiss-Prot
      Q3KQK3, Q689Z5, Q8BVN5
      UniProtKB/TrEMBL
      F7CVW0
      Conserved Domains (2) summary
      pfam13871
      Location:869 → 1145
      Helicase_C_4; C-terminal domain on Strawberry notch homolog
      pfam13872
      Location:256 → 558
      AAA_34; P-loop containing NTP hydrolase pore-1

    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_000071.7 Reference GRCm39 C57BL/6J

      Range
      124506765..124564059 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036165129.1 → XP_036021022.1  protein strawberry notch homolog 1 isoform X2

      UniProtKB/Swiss-Prot
      Q3KQK3, Q689Z5, Q8BVN5
      UniProtKB/TrEMBL
      F7CVW0
      Related
      ENSMUSP00000130860.3, ENSMUST00000168651.6
      Conserved Domains (2) summary
      pfam13871
      Location:869 → 1145
      Helicase_C_4; C-terminal domain on Strawberry notch homolog
      pfam13872
      Location:256 → 558
      AAA_34; P-loop containing NTP hydrolase pore-1

    2. XM_006530320.5 → XP_006530383.1  protein strawberry notch homolog 1 isoform X3

      See identical proteins and their annotated locations for XP_006530383.1

      UniProtKB/Swiss-Prot
      Q3KQK3, Q689Z5, Q8BVN5
      Conserved Domains (2) summary
      pfam13871
      Location:835 → 1111
      Helicase_C_4; C-terminal domain on Strawberry notch homolog
      pfam13872
      Location:222 → 524
      AAA_34; P-loop containing NTP hydrolase pore-1

    3. XM_006530321.4 → XP_006530384.1  protein strawberry notch homolog 1 isoform X3

      See identical proteins and their annotated locations for XP_006530384.1

      UniProtKB/Swiss-Prot
      Q3KQK3, Q689Z5, Q8BVN5
      Conserved Domains (2) summary
      pfam13871
      Location:835 → 1111
      Helicase_C_4; C-terminal domain on Strawberry notch homolog
      pfam13872
      Location:222 → 524
      AAA_34; P-loop containing NTP hydrolase pore-1

    4. XM_006530323.4 → XP_006530386.1  protein strawberry notch homolog 1 isoform X4

      See identical proteins and their annotated locations for XP_006530386.1

      UniProtKB/Swiss-Prot
      Q3KQK3, Q689Z5, Q8BVN5
      Conserved Domains (2) summary
      pfam13871
      Location:834 → 1110
      Helicase_C_4; C-terminal domain on Strawberry notch homolog
      pfam13872
      Location:221 → 523
      AAA_34; P-loop containing NTP hydrolase pore-1

    5. XM_006530322.5 → XP_006530385.1  protein strawberry notch homolog 1 isoform X4

      See identical proteins and their annotated locations for XP_006530385.1

      UniProtKB/Swiss-Prot
      Q3KQK3, Q689Z5, Q8BVN5
      Conserved Domains (2) summary
      pfam13871
      Location:834 → 1110
      Helicase_C_4; C-terminal domain on Strawberry notch homolog
      pfam13872
      Location:221 → 523
      AAA_34; P-loop containing NTP hydrolase pore-1

    6. XM_036165130.1 → XP_036021023.1  protein strawberry notch homolog 1 isoform X2

      UniProtKB/Swiss-Prot
      Q3KQK3, Q689Z5, Q8BVN5
      UniProtKB/TrEMBL
      F7CVW0
      Conserved Domains (2) summary
      pfam13871
      Location:869 → 1145
      Helicase_C_4; C-terminal domain on Strawberry notch homolog
      pfam13872
      Location:256 → 558
      AAA_34; P-loop containing NTP hydrolase pore-1

    7. XM_006530318.4 → XP_006530381.1  protein strawberry notch homolog 1 isoform X1

      See identical proteins and their annotated locations for XP_006530381.1

      UniProtKB/Swiss-Prot
      Q3KQK3, Q689Z5, Q8BVN5
      UniProtKB/TrEMBL
      B2RRI2
      Conserved Domains (2) summary
      pfam13871
      Location:870 → 1146
      Helicase_C_4; C-terminal domain on Strawberry notch homolog
      pfam13872
      Location:257 → 559
      AAA_34; P-loop containing NTP hydrolase pore-1

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_145631.1: Suppressed sequence

      Description
      NM_145631.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q689Z5.2 GenPept UniProtKB/Swiss-Prot:Q689Z5

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