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Safb2 scaffold attachment factor B2 [ Mus musculus (house mouse) ]

Gene ID: 224902, updated on 2-Nov-2024

Summary

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Official Symbol
Safb2provided by MGI
Official Full Name
scaffold attachment factor B2provided by MGI
Primary source
MGI:MGI:2146808
See related
Ensembl:ENSMUSG00000042625 AllianceGenome:MGI:2146808
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
mKIAA0138
Summary
Predicted to enable identical protein binding activity and sequence-specific DNA binding activity. Acts upstream of or within Sertoli cell differentiation and regulation of androgen receptor signaling pathway. Predicted to be located in nuclear body. Predicted to be active in nucleus. Orthologous to human SAFB2 (scaffold attachment factor B2). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 32.5), spleen adult (RPKM 17.6) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Safb2 in Genome Data Viewer
Location:
17 D; 17 29.39 cM
Exon count:
21
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (56867971..56891673, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (56560971..56584675, complement)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene zinc and ring finger 4 Neighboring gene TINCR ubiquitin domain containing Neighboring gene STARR-positive B cell enhancer ABC_E5623 Neighboring gene scaffold attachment factor B Neighboring gene STARR-positive B cell enhancer ABC_E8687 Neighboring gene mitochondrial contact site and cristae organizing system subunit 13

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. Scaffold attachment factor B2 (SAFB2)-null mice reveal non-redundant functions of SAFB2 compared with its paralog, SAFB1. Jiang S, et al. Dis Model Mech, 2015 Sep. PMID 26092125, Free PMC Article
  2. SAFB2, a new scaffold attachment factor homolog and estrogen receptor corepressor. Townson SM, et al. J Biol Chem, 2003 May 30. PMID 12660241
  3. Misregulation of Alternative Splicing in a Mouse Model of Rett Syndrome. Li R, et al. PLoS Genet, 2016 Jun. PMID 27352031, Free PMC Article
  4. Pharmacological targeting of the Wdr5-MLL interaction in C/EBPα N-terminal leukemia. Grebien F, et al. Nat Chem Biol, 2015 Aug. PMID 26167872, Free PMC Article
  5. Comprehensive identification of phosphorylation sites in postsynaptic density preparations. Trinidad JC, et al. Mol Cell Proteomics, 2006 May. PMID 16452087

See all (33) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. despite a high degree of sequence similarity, SAFB1(-/-) and SAFB2(-/-) mice do not totally phenocopy each other
    Title: Scaffold attachment factor B2 (SAFB2)-null mice reveal non-redundant functions of SAFB2 compared with its paralog, SAFB1.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Targeted (1)  1 citation

Pathways from PubChem

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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 RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables identical protein binding IEA
Inferred from Electronic Annotation
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
enables sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within Sertoli cell differentiation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of androgen receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within regulation of androgen receptor signaling pathway IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within regulation of androgen receptor signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of mRNA processing IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear body IEA
Inferred from Electronic Annotation
more info
  
located_in nuclear body ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
scaffold attachment factor B2
Names
SAF-B2

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_001029979.4 → NP_001025150.2  scaffold attachment factor B2 isoform 1

    See identical proteins and their annotated locations for NP_001025150.2

    Status: VALIDATED

    Source sequence(s)
    CT485788
    Consensus CDS
    CCDS28907.2
    UniProtKB/Swiss-Prot
    Q80YR5, Q8K153
    Related
    ENSMUSP00000074953.6, ENSMUST00000075510.12
    Conserved Domains (3) summary
    COG0724
    Location:413 → 540
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    pfam02037
    Location:25 → 59
    SAP; SAP domain
    cl17169
    Location:450 → 525
    RRM_SF; RNA recognition motif (RRM) superfamily

  2. NM_001355463.2 → NP_001342392.1  scaffold attachment factor B2 isoform 2

    Status: VALIDATED

    Source sequence(s)
    CT485788
    Conserved Domains (2) summary
    smart00513
    Location:25 → 58
    SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation
    cl17169
    Location:450 → 525
    RRM_SF; RNA recognition motif (RRM) superfamily

  3. NM_001414449.1 → NP_001401378.1  scaffold attachment factor B2 isoform 3

    Status: VALIDATED

    Source sequence(s)
    CT485788

  4. NM_001414450.1 → NP_001401379.1  scaffold attachment factor B2 isoform 4

    Status: VALIDATED

    Source sequence(s)
    CT485788

  5. NM_001414451.1 → NP_001401380.1  scaffold attachment factor B2 isoform 5

    Status: VALIDATED

    Source sequence(s)
    CT485788

  6. NM_001414452.1 → NP_001401381.1  scaffold attachment factor B2 isoform 6

    Status: VALIDATED

    Source sequence(s)
    CT485788

  7. NM_001414453.1 → NP_001401382.1  scaffold attachment factor B2 isoform 7

    Status: VALIDATED

    Source sequence(s)
    CT485788

  8. NM_001414454.1 → NP_001401383.1  scaffold attachment factor B2 isoform 7

    Status: VALIDATED

    Source sequence(s)
    CT485788

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_000083.7 Reference GRCm39 C57BL/6J

    Range
    56867971..56891673 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006524157.4 → XP_006524220.1  scaffold attachment factor B2 isoform X1

    Conserved Domains (2) summary
    smart00513
    Location:97 → 130
    SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation
    cl17169
    Location:522 → 597
    RRM_SF; RNA recognition motif (RRM) superfamily

  2. XM_036160557.1 → XP_036016450.1  scaffold attachment factor B2 isoform X5

    Conserved Domains (1) summary
    cl17169
    Location:3 → 52
    RRM_SF; RNA recognition motif (RRM) superfamily

  3. XM_036160556.1 → XP_036016449.1  scaffold attachment factor B2 isoform X5

    Conserved Domains (1) summary
    cl17169
    Location:3 → 52
    RRM_SF; RNA recognition motif (RRM) superfamily

  4. XM_036160555.1 → XP_036016448.1  scaffold attachment factor B2 isoform X5

    Conserved Domains (1) summary
    cl17169
    Location:3 → 52
    RRM_SF; RNA recognition motif (RRM) superfamily

  5. XM_006524159.4 → XP_006524222.1  scaffold attachment factor B2 isoform X3

    Conserved Domains (1) summary
    cl17169
    Location:247 → 322
    RRM_SF; RNA recognition motif (RRM) superfamily

  6. XM_036160558.1 → XP_036016451.1  scaffold attachment factor B2 isoform X6

    Conserved Domains (1) summary
    cl17169
    Location:3 → 52
    RRM_SF; RNA recognition motif (RRM) superfamily

  7. XM_036160559.1 → XP_036016452.1  scaffold attachment factor B2 isoform X6

    Conserved Domains (1) summary
    cl17169
    Location:3 → 52
    RRM_SF; RNA recognition motif (RRM) superfamily

RNA

  1. XR_004939520.1 RNA Sequence

  2. XR_003952112.2 RNA Sequence

  3. XR_003952113.2 RNA Sequence

  4. XR_001782072.3 RNA Sequence

  5. XR_004939519.1 RNA Sequence

  6. XR_004939521.1 RNA Sequence

  7. XR_001782071.3 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q80YR5.2 GenPept UniProtKB/Swiss-Prot:Q80YR5

Gene LinkOut

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