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Hmg20b high mobility group 20B [ Mus musculus (house mouse) ]

Gene ID: 15353, updated on 6-Jun-2024

Summary

Official Symbol
Hmg20bprovided by MGI
Official Full Name
high mobility group 20Bprovided by MGI
Primary source
MGI:MGI:1341190
See related
Ensembl:ENSMUSG00000020232 AllianceGenome:MGI:1341190
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
Hmgx2; BRAF35; Hmgxb2; Smarce1r
Summary
Predicted to enable four-way junction DNA binding activity. Acts upstream of or within negative regulation of protein sumoylation; positive regulation of neuron differentiation; and skeletal muscle cell differentiation. Predicted to be located in condensed nuclear chromosome and nuclear body. Predicted to be part of BRCA2-BRAF35 complex. Predicted to be active in nucleus. Is expressed in several structures, including branchial arch; central nervous system; early conceptus; foregut; and genitourinary system. Orthologous to human HMG20B (high mobility group 20B). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in duodenum adult (RPKM 74.1), adrenal adult (RPKM 70.0) and 28 other tissues See more
Orthologs
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Genomic context

See Hmg20b in Genome Data Viewer
Location:
10 C1; 10 39.72 cM
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (81181880..81186777, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (81346046..81350943, complement)

Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene thromboxane A2 receptor Neighboring gene GIPC PDZ domain containing family, member 3 Neighboring gene STARR-positive B cell enhancer ABC_E1809 Neighboring gene STARR-seq mESC enhancer starr_27329 Neighboring gene STARR-positive B cell enhancer ABC_E11448 Neighboring gene major facilitator superfamily domain containing 12 Neighboring gene tektin bundle interacting protein 1 Neighboring gene fizzy and cell division cycle 20 related 1 Neighboring gene STARR-seq mESC enhancer starr_27331

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding TAS
Traceable Author Statement
more info
PubMed 
enables four-way junction DNA binding ISO
Inferred from Sequence Orthology
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
part_of BRCA2-BRAF35 complex ISO
Inferred from Sequence Orthology
more info
PubMed 
located_in chromosome IEA
Inferred from Electronic Annotation
more info
 
located_in condensed nuclear chromosome ISO
Inferred from Sequence Orthology
more info
PubMed 
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
 
located_in nucleus NAS
Non-traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related
Names
BRCA2-associated factor 35
HMG box-containing protein 20B
SMARCE1-related protein
high mobility group 20 B
high mobility group protein 20 B
structural DNA-binding protein BRAF35

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_001163165.2NP_001156637.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform c

    See identical proteins and their annotated locations for NP_001156637.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1-3 all encode the same isoform (c).
    Source sequence(s)
    AC155937
    Consensus CDS
    CCDS24055.1
    UniProtKB/Swiss-Prot
    Q9NSF7, Q9NSF8, Q9Z104
    UniProtKB/TrEMBL
    Q3U1L0, Q3U1X5
    Related
    ENSMUSP00000100961.3, ENSMUST00000105324.9
    Conserved Domains (1) summary
    cd01390
    Location:70134
    HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...
  2. NM_001163166.1NP_001156638.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform c

    See identical proteins and their annotated locations for NP_001156638.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1-3 all encode the same isoform (c).
    Source sequence(s)
    AK153816, BE956207
    Consensus CDS
    CCDS24055.1
    UniProtKB/Swiss-Prot
    Q9NSF7, Q9NSF8, Q9Z104
    UniProtKB/TrEMBL
    Q3U1L0, Q3U1X5
    Related
    ENSMUSP00000100960.2, ENSMUST00000105323.8
    Conserved Domains (1) summary
    cd01390
    Location:70134
    HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...
  3. NM_001428541.1NP_001415470.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform a

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4), as well as variants 5 and 6, encodes the longest isoform (a).
    Source sequence(s)
    AC155937
  4. NM_001428542.1NP_001415471.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform a

    Status: VALIDATED

    Source sequence(s)
    AC155937
  5. NM_001428543.1NP_001415472.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform a

    Status: VALIDATED

    Source sequence(s)
    AC155937
  6. NM_001428544.1NP_001415473.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform b

    Status: VALIDATED

    Source sequence(s)
    AC155937
    UniProtKB/TrEMBL
    Q3U1X5
  7. NM_001428545.1NP_001415474.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform d

    Status: VALIDATED

    Source sequence(s)
    AC155937
    UniProtKB/TrEMBL
    Q3U1X5
  8. NM_001428546.1NP_001415475.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform e

    Status: VALIDATED

    Description
    Transcript Variant: This variant (9), as well as variant 10, encodes isoform e.
    Source sequence(s)
    AC155937
    UniProtKB/TrEMBL
    Q05DT2
  9. NM_001428547.1NP_001415476.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform e

    Status: VALIDATED

    Source sequence(s)
    AC155937
    UniProtKB/TrEMBL
    Q05DT2
  10. NM_010440.4NP_034570.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform c

    See identical proteins and their annotated locations for NP_034570.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes isoform c. Variants 1-3 all encode the same isoform (c).
    Source sequence(s)
    AC155937
    Consensus CDS
    CCDS24055.1
    UniProtKB/Swiss-Prot
    Q9NSF7, Q9NSF8, Q9Z104
    UniProtKB/TrEMBL
    Q3U1L0, Q3U1X5
    Related
    ENSMUSP00000020454.5, ENSMUST00000020454.11
    Conserved Domains (1) summary
    cd01390
    Location:70134
    HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...

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_000076.7 Reference GRCm39 C57BL/6J

    Range
    81181880..81186777 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036155645.1XP_036011538.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X2

    Conserved Domains (2) summary
    PRK10246
    Location:57167
    PRK10246; exonuclease subunit SbcC; Provisional
    smart00935
    Location:2690
    OmpH; Outer membrane protein (OmpH-like)
  2. XM_006513248.3XP_006513311.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X1

    Conserved Domains (3) summary
    smart00935
    Location:190254
    OmpH; Outer membrane protein (OmpH-like)
    cd01390
    Location:70134
    HMGB-UBF_HMG-box; class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal ...
    pfam15258
    Location:314400
    FAM222A; Protein family of FAM222A
  3. XM_036155646.1XP_036011539.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X2

    Conserved Domains (2) summary
    PRK10246
    Location:57167
    PRK10246; exonuclease subunit SbcC; Provisional
    smart00935
    Location:2690
    OmpH; Outer membrane protein (OmpH-like)
  4. XM_006513249.5XP_006513312.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X1

    Conserved Domains (3) summary
    smart00935
    Location:190254
    OmpH; Outer membrane protein (OmpH-like)
    cd01390
    Location:70134
    HMGB-UBF_HMG-box; class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal ...
    pfam15258
    Location:314400
    FAM222A; Protein family of FAM222A