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    Ssbp3 single-stranded DNA binding protein 3 [ Mus musculus (house mouse) ]

    Gene ID: 72475, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Ssbp3provided by MGI
    Official Full Name
    single-stranded DNA binding protein 3provided by MGI
    Primary source
    MGI:MGI:1919725
    See related
    Ensembl:ENSMUSG00000061887 AllianceGenome:MGI:1919725
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    LAST; SSDP1; 2610021L12Rik; 2610200M23Rik; 5730488C10Rik
    Summary
    This gene encodes a member of the Ssdp (sequence-specific single-stranded DNA binding protein) family of proteins. The encoded protein binds specifically to single-stranded pyrimidine-rich DNA elements. The encoded protein has been shown to be important for head development and may play a role in the differentiation of spinal interneurons. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Apr 2015]
    Expression
    Ubiquitous expression in whole brain E14.5 (RPKM 48.2), CNS E14 (RPKM 47.8) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Ssbp3 in Genome Data Viewer
    Location:
    4 C7; 4 49.9 cM
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (106768667..106906891)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (106911470..107049694)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_11003 Neighboring gene STARR-seq mESC enhancer starr_11004 Neighboring gene predicted gene, 31125 Neighboring gene STARR-seq mESC enhancer starr_11008 Neighboring gene VISTA enhancer mm1527 Neighboring gene STARR-positive B cell enhancer ABC_E6196 Neighboring gene predicted gene, 52672 Neighboring gene STARR-seq mESC enhancer starr_11016 Neighboring gene STARR-seq mESC enhancer starr_11017 Neighboring gene STARR-positive B cell enhancer ABC_E3500 Neighboring gene VISTA enhancer mm1261 Neighboring gene STARR-positive B cell enhancer ABC_E1035 Neighboring gene mitochondrial ribosomal protein L37 Neighboring gene cytochrome b5 reductase-like Neighboring gene CUB domain containing protein 2

    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. Single-stranded DNA binding protein Ssbp3 induces differentiation of mouse embryonic stem cells into trophoblast-like cells. Liu J, et al. Stem Cell Res Ther, 2016 May 28. PMID 27236334, Free PMC Article
    2. The role of the proline-rich domain of Ssdp1 in the modular architecture of the vertebrate head organizer. Enkhmandakh B, et al. Proc Natl Acad Sci U S A, 2006 Aug 1. PMID 16864769, Free PMC Article
    3. Structure and functional characterization of single-strand DNA binding protein SSDP1: carboxyl-terminal of SSDP1 has transcription activity. Wu L. Biochem Biophys Res Commun, 2006 Jan 20. PMID 16325762
    4. Cloning of a cDNA encoding a sequence-specific single-stranded-DNA-binding protein from Rattus norvegicus. Raval-Fernandes S, et al. Gene, 1999 Sep 3. PMID 10524251
    5. SSDP1 gene encodes a protein with a conserved N-terminal FORWARD domain. Bayarsaihan D. Biochim Biophys Acta, 2002 Sep 23. PMID 12479417

    See all (39) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The SSBP3 co-regulator is required for glucose homeostasis, pancreatic islet architecture, and beta-cell identity.
      Title: The SSBP3 co-regulator is required for glucose homeostasis, pancreatic islet architecture, and beta-cell identity.
    2. Ssbp3 induces differentiation of mouse embryonic stem cells into trophoblast-like cells.
      Title: Single-stranded DNA binding protein Ssbp3 induces differentiation of mouse embryonic stem cells into trophoblast-like cells.
    3. SSBP3 Interacts With Islet-1 and Ldb1 to Impact Pancreatic beta-Cell Target Genes
      Title: SSBP3 Interacts With Islet-1 and Ldb1 to Impact Pancreatic β-Cell Target Genes.
    4. Data demonstrate that components of the Ldb1-dependent module can be subdivided further into discrete functional domains and that the proline-rich stretch of Ssdp1 is critical for embryonic head development.
      Title: The role of the proline-rich domain of Ssdp1 in the modular architecture of the vertebrate head organizer.
    5. Ssdp1 regulates the development of late head organizer tissues and body growth by functioning as an essential activator component of a Lim1 complex through interaction with Ldb1.
      Title: Ssdp1 regulates head morphogenesis of mouse embryos by activating the Lim1-Ldb1 complex.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    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 protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables single-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    enables transcription coactivator activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within cell differentiation TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in head development IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in head morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within hematopoietic progenitor cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of mesendoderm development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in midbrain-hindbrain boundary initiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of anterior head development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of cell population proliferation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in prechordal plate formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein-containing complex assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of protein-containing complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of transcription regulator complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    single-stranded DNA-binding protein 3
    Names
    Lck-associated signal transducer
    sequence-specific single-stranded-DNA-binding protein

    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_001355532.1 → NP_001342461.1  single-stranded DNA-binding protein 3 isoform c

      Status: REVIEWED

      Source sequence(s)
      AI854733, AK011853, AK017711, AL607132, BB618782, BB842651, CO429463, CX200383
      UniProtKB/TrEMBL
      Q8BMY2
      Conserved Domains (1) summary
      pfam04503
      Location:1 → 255
      SSDP; Single-stranded DNA binding protein, SSDP

    2. NM_023672.2 → NP_076161.2  single-stranded DNA-binding protein 3 isoform a

      See identical proteins and their annotated locations for NP_076161.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
      Source sequence(s)
      AI854733, AK011853, AK017711, CO429463, CX200383
      Consensus CDS
      CCDS18427.1
      UniProtKB/Swiss-Prot
      Q99LC6, Q9D032, Q9EQP3
      Related
      ENSMUSP00000030367.9, ENSMUST00000030367.15
      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 365
      SSDP; Single-stranded DNA binding protein, SSDP

    3. NM_198438.1 → NP_940840.1  single-stranded DNA-binding protein 3 isoform b

      See identical proteins and their annotated locations for NP_940840.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1. The encoded isoform (b) is shorter than isoform a.
      Source sequence(s)
      AI854733, AK011853, AK017711, AK153733, CO429463, CX200383
      Consensus CDS
      CCDS18428.1
      UniProtKB/Swiss-Prot
      Q9D032
      UniProtKB/TrEMBL
      Q3U5B9
      Related
      ENSMUSP00000072536.7, ENSMUST00000072753.13
      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 338
      SSDP; Single-stranded DNA binding protein, SSDP

    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_000070.7 Reference GRCm39 C57BL/6J

      Range
      106768667..106906891
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006503415.4 → XP_006503478.1  single-stranded DNA-binding protein 3 isoform X5

      See identical proteins and their annotated locations for XP_006503478.1

      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 352
      SSDP; Single-stranded DNA binding protein, SSDP

    2. XM_006503411.4 → XP_006503474.1  single-stranded DNA-binding protein 3 isoform X1

      See identical proteins and their annotated locations for XP_006503474.1

      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 387
      SSDP; Single-stranded DNA binding protein, SSDP

    3. XM_006503413.4 → XP_006503476.1  single-stranded DNA-binding protein 3 isoform X3

      See identical proteins and their annotated locations for XP_006503476.1

      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 373
      SSDP; Single-stranded DNA binding protein, SSDP

    4. XM_006503412.4 → XP_006503475.1  single-stranded DNA-binding protein 3 isoform X2

      See identical proteins and their annotated locations for XP_006503475.1

      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 379
      SSDP; Single-stranded DNA binding protein, SSDP

    5. XM_006503414.4 → XP_006503477.1  single-stranded DNA-binding protein 3 isoform X4

      See identical proteins and their annotated locations for XP_006503477.1

      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 360
      SSDP; Single-stranded DNA binding protein, SSDP

    6. XM_006503416.4 → XP_006503479.1  single-stranded DNA-binding protein 3 isoform X6

      See identical proteins and their annotated locations for XP_006503479.1

      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 346
      SSDP; Single-stranded DNA binding protein, SSDP

    7. XM_006503417.5 → XP_006503480.1  single-stranded DNA-binding protein 3 isoform X7

      UniProtKB/TrEMBL
      Q8BMY2
      Conserved Domains (1) summary
      pfam04503
      Location:1 → 277
      SSDP; Single-stranded DNA binding protein, SSDP

    8. XM_006503420.4 → XP_006503483.1  single-stranded DNA-binding protein 3 isoform X9

      UniProtKB/TrEMBL
      Q8BMY2
      Conserved Domains (1) summary
      pfam04503
      Location:12 → 250
      SSDP; Single-stranded DNA binding protein, SSDP

    9. XM_036164459.1 → XP_036020352.1  single-stranded DNA-binding protein 3 isoform X8

      UniProtKB/TrEMBL
      Q3U5B9
      Conserved Domains (1) summary
      pfam04503
      Location:4 → 250
      SSDP; Single-stranded DNA binding protein, SSDP
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9D032.2 GenPept UniProtKB/Swiss-Prot:Q9D032

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