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Ssbp2 single-stranded DNA binding protein 2 [ Mus musculus (house mouse) ]

Gene ID: 66970, updated on 2-Nov-2024

Summary

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Official Symbol
Ssbp2provided by MGI
Official Full Name
single-stranded DNA binding protein 2provided by MGI
Primary source
MGI:MGI:1914220
See related
Ensembl:ENSMUSG00000003992 AllianceGenome:MGI:1914220
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
SSDP2; Hspc116; 1500004K09Rik; 2310079I02Rik; 9330163K02Rik; A830008M03Rik
Summary
Predicted to enable single-stranded DNA binding activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Is expressed in several structures, including adipose tissue; alimentary system; central nervous system; genitourinary system; and limb. Orthologous to human SSBP2 (single stranded DNA binding protein 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in CNS E18 (RPKM 14.2), whole brain E14.5 (RPKM 8.6) and 18 other tissues See more
Orthologs
human all
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Genomic context

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See Ssbp2 in Genome Data Viewer
Location:
13 C3; 13 47.43 cM
Exon count:
24
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (91608449..91854299)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (91460305..91706175)

Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 41014 Neighboring gene heterogeneous nuclear ribonucleoprotein K pseudogene Neighboring gene RIKEN cDNA A830009L08 gene Neighboring gene STARR-seq mESC enhancer starr_35251 Neighboring gene CapStarr-seq enhancer MGSCv37_chr13:91510584-91510802 Neighboring gene STARR-seq mESC enhancer starr_35253 Neighboring gene STARR-positive B cell enhancer mm9_chr13:91600311-91600612 Neighboring gene CapStarr-seq enhancer MGSCv37_chr13:91680694-91680899 Neighboring gene predicted gene, 41016 Neighboring gene STARR-positive B cell enhancer mm9_chr13:91775680-91775980 Neighboring gene STARR-positive B cell enhancer mm9_chr13:91776398-91776699 Neighboring gene STARR-seq mESC enhancer starr_35255 Neighboring gene RIKEN cDNA 4833422C13 gene Neighboring gene predicted gene, 22778 Neighboring gene STARR-seq mESC enhancer starr_35256 Neighboring gene acyl-CoA thioesterase 12

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 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. GWAS in Mice Maps Susceptibility to HIV-Associated Nephropathy to the Ssbp2 Locus. Steers NJ, et al. J Am Soc Nephrol, 2022 Jan. PMID 34893534, Free PMC Article
  2. SSBP2 is an in vivo tumor suppressor and regulator of LDB1 stability. Wang Y, et al. Oncogene, 2010 May 27. PMID 20348955, Free PMC Article
  3. Requirement for ssbp2 in hematopoietic stem cell maintenance and stress response. Li J, et al. J Immunol, 2014 Nov 1. PMID 25238756, Free PMC Article
  4. Ssdp proteins bind to LIM-interacting co-factors and regulate the activity of LIM-homeodomain protein complexes in vivo. van Meyel DJ, et al. Development, 2003 May. PMID 12642495
  5. Single strand DNA binding proteins 1 and 2 protect newly replicated telomeres. Gu P, et al. Cell Res, 2013 May. PMID 23459151, Free PMC Article

See all (33) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. GWAS in Mice Maps Susceptibility to HIV-Associated Nephropathy to the Ssbp2 Locus.
    Title: GWAS in Mice Maps Susceptibility to HIV-Associated Nephropathy to the Ssbp2 Locus.
  2. The results uncovered a critical regulatory function for SSBP2 in hematopoietic stem and progenitor cells gene expression and function.
    Title: Requirement for ssbp2 in hematopoietic stem cell maintenance and stress response.
  3. SSbp2 localizes to telomeres and participate in the repair of uncapped telomeres
    Title: Single strand DNA binding proteins 1 and 2 protect newly replicated telomeres.
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 IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
single-stranded DNA-binding protein 2
Names
sequence-specific single-stranded-DNA-binding protein 2

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_001360775.2 → NP_001347704.1  single-stranded DNA-binding protein 2 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC154320, CT009700
    Conserved Domains (2) summary
    smart00667
    Location:19 → 45
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:83 → 346
    SSDP; Single-stranded DNA binding protein, SSDP

  2. NM_001360776.2 → NP_001347705.1  single-stranded DNA-binding protein 2 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC154320, CT009700
    Conserved Domains (2) summary
    smart00667
    Location:19 → 45
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:92 → 316
    SSDP; Single-stranded DNA binding protein, SSDP

  3. NM_024186.6 → NP_077148.1  single-stranded DNA-binding protein 2 isoform 1

    See identical proteins and their annotated locations for NP_077148.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) lacks an alternate in-frame exon in the 5' coding region, compared to variant 2. The resulting isoform (1) lacks an internal segment, compared to isoform 2.
    Source sequence(s)
    AC154320, CT009700
    Consensus CDS
    CCDS26676.1
    UniProtKB/Swiss-Prot
    Q9CYZ8
    Related
    ENSMUSP00000037115.9, ENSMUST00000042122.15
    Conserved Domains (2) summary
    smart00667
    Location:19 → 45
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:92 → 308
    SSDP; Single-stranded DNA binding protein, SSDP

  4. NM_024272.5 → NP_077234.2  single-stranded DNA-binding protein 2 isoform 2

    See identical proteins and their annotated locations for NP_077234.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) represents the longest transcript and encodes isoform 2.
    Source sequence(s)
    AC154320, CT009700
    Consensus CDS
    CCDS26677.1
    UniProtKB/Swiss-Prot
    B1B188, Q99LX9, Q9CYZ8
    UniProtKB/TrEMBL
    Q540I3
    Related
    ENSMUSP00000004094.9, ENSMUST00000004094.15
    Conserved Domains (2) summary
    smart00667
    Location:19 → 45
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:83 → 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_000079.7 Reference GRCm39 C57BL/6J

    Range
    91608449..91854299
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030247373.2 → XP_030103233.1  single-stranded DNA-binding protein 2 isoform X12

    Conserved Domains (1) summary
    pfam04503
    Location:1 → 232
    SSDP; Single-stranded DNA binding protein, SSDP

  2. XM_030247371.2 → XP_030103231.1  single-stranded DNA-binding protein 2 isoform X11

    Conserved Domains (1) summary
    pfam04503
    Location:1 → 240
    SSDP; Single-stranded DNA binding protein, SSDP

  3. XM_030247377.2 → XP_030103237.1  single-stranded DNA-binding protein 2 isoform X14

    Conserved Domains (1) summary
    pfam04503
    Location:17 → 212
    SSDP; Single-stranded DNA binding protein, SSDP

  4. XM_030247376.2 → XP_030103236.1  single-stranded DNA-binding protein 2 isoform X13

    Conserved Domains (1) summary
    pfam04503
    Location:17 → 220
    SSDP; Single-stranded DNA binding protein, SSDP

  5. XM_006517334.4 → XP_006517397.1  single-stranded DNA-binding protein 2 isoform X8

    Conserved Domains (1) summary
    pfam04503
    Location:38 → 301
    SSDP; Single-stranded DNA binding protein, SSDP

  6. XM_030247368.2 → XP_030103228.1  single-stranded DNA-binding protein 2 isoform X10

    Conserved Domains (1) summary
    pfam04503
    Location:47 → 271
    SSDP; Single-stranded DNA binding protein, SSDP

  7. XM_036158126.1 → XP_036014019.1  single-stranded DNA-binding protein 2 isoform X7

    Conserved Domains (1) summary
    pfam04503
    Location:64 → 319
    SSDP; Single-stranded DNA binding protein, SSDP

  8. XM_030247369.2 → XP_030103229.1  single-stranded DNA-binding protein 2 isoform X11

    Conserved Domains (1) summary
    pfam04503
    Location:1 → 240
    SSDP; Single-stranded DNA binding protein, SSDP

  9. XM_030247372.2 → XP_030103232.1  single-stranded DNA-binding protein 2 isoform X11

    Conserved Domains (1) summary
    pfam04503
    Location:1 → 240
    SSDP; Single-stranded DNA binding protein, SSDP

  10. XM_036158129.1 → XP_036014022.1  single-stranded DNA-binding protein 2 isoform X13

    Conserved Domains (1) summary
    pfam04503
    Location:17 → 220
    SSDP; Single-stranded DNA binding protein, SSDP

  11. XM_030247375.2 → XP_030103235.1  single-stranded DNA-binding protein 2 isoform X12

    Conserved Domains (1) summary
    pfam04503
    Location:1 → 232
    SSDP; Single-stranded DNA binding protein, SSDP

  12. XM_030247378.2 → XP_030103238.1  single-stranded DNA-binding protein 2 isoform X14

    Conserved Domains (1) summary
    pfam04503
    Location:17 → 212
    SSDP; Single-stranded DNA binding protein, SSDP

  13. XM_030247367.2 → XP_030103227.1  single-stranded DNA-binding protein 2 isoform X9

    Conserved Domains (1) summary
    pfam04503
    Location:73 → 289
    SSDP; Single-stranded DNA binding protein, SSDP

  14. XM_011244554.2 → XP_011242856.1  single-stranded DNA-binding protein 2 isoform X6

    Conserved Domains (1) summary
    pfam04503
    Location:64 → 327
    SSDP; Single-stranded DNA binding protein, SSDP

  15. XM_036158130.1 → XP_036014023.1  single-stranded DNA-binding protein 2 isoform X14

    Conserved Domains (1) summary
    pfam04503
    Location:17 → 212
    SSDP; Single-stranded DNA binding protein, SSDP

  16. XM_030247374.1 → XP_030103234.1  single-stranded DNA-binding protein 2 isoform X12

    Conserved Domains (1) summary
    pfam04503
    Location:1 → 232
    SSDP; Single-stranded DNA binding protein, SSDP

  17. XM_036158127.1 → XP_036014020.1  single-stranded DNA-binding protein 2 isoform X11

    Conserved Domains (1) summary
    pfam04503
    Location:1 → 240
    SSDP; Single-stranded DNA binding protein, SSDP

  18. XM_036158128.1 → XP_036014021.1  single-stranded DNA-binding protein 2 isoform X13

    Conserved Domains (1) summary
    pfam04503
    Location:17 → 220
    SSDP; Single-stranded DNA binding protein, SSDP

  19. XM_036158131.1 → XP_036014024.1  single-stranded DNA-binding protein 2 isoform X14

    Conserved Domains (1) summary
    pfam04503
    Location:17 → 212
    SSDP; Single-stranded DNA binding protein, SSDP

  20. XM_030247370.2 → XP_030103230.1  single-stranded DNA-binding protein 2 isoform X11

    Conserved Domains (1) summary
    pfam04503
    Location:1 → 240
    SSDP; Single-stranded DNA binding protein, SSDP

  21. XM_036158125.1 → XP_036014018.1  single-stranded DNA-binding protein 2 isoform X3

    Conserved Domains (1) summary
    pfam04503
    Location:103 → 337
    SSDP; Single-stranded DNA binding protein, SSDP

  22. XM_006517328.5 → XP_006517391.1  single-stranded DNA-binding protein 2 isoform X1

    Conserved Domains (1) summary
    pfam04503
    Location:103 → 366
    SSDP; Single-stranded DNA binding protein, SSDP

  23. XM_006517329.4 → XP_006517392.1  single-stranded DNA-binding protein 2 isoform X2

    Conserved Domains (1) summary
    pfam04503
    Location:103 → 358
    SSDP; Single-stranded DNA binding protein, SSDP

  24. XM_006517332.5 → XP_006517395.1  single-stranded DNA-binding protein 2 isoform X5

    Conserved Domains (1) summary
    pfam04503
    Location:112 → 328
    SSDP; Single-stranded DNA binding protein, SSDP

  25. XM_011244553.4 → XP_011242855.1  single-stranded DNA-binding protein 2 isoform X4

    Conserved Domains (1) summary
    pfam04503
    Location:112 → 336
    SSDP; Single-stranded DNA binding protein, SSDP

RNA

  1. XR_003950464.2 RNA Sequence

  2. XR_004938052.1 RNA Sequence

  3. XR_003950466.2 RNA Sequence

  4. XR_003950463.2 RNA Sequence

  5. XR_003950465.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9CYZ8.1 GenPept UniProtKB/Swiss-Prot:Q9CYZ8

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