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

Gene ID: 72475, updated on 12-May-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. Single-stranded DNA-binding proteins regulate the abundance and function of the LIM-homeodomain transcription factor LHX2 in pituitary cells. Cai Y, et al. Biochem Biophys Res Commun, 2008 Aug 22. PMID 18565323, Free PMC Article
  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 (37) 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 DNA binding IEA
Inferred from Electronic Annotation
more info
  
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
  
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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