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Hmga1b high mobility group AT-hook 1B [ Mus musculus (house mouse) ]

Gene ID: 111241, updated on 11-Apr-2024

Summary

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Official Symbol
Hmga1bprovided by MGI
Official Full Name
high mobility group AT-hook 1Bprovided by MGI
Primary source
MGI:MGI:96161
See related
Ensembl:ENSMUSG00000078249 AllianceGenome:MGI:96161
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
Hmgi-rs1; Hmga1-rs1
Summary
Predicted to enable several functions, including DNA binding activity; catalytic activity, acting on DNA; and nuclear receptor coactivator activity. Predicted to be involved in several processes, including oncogene-induced cell senescence; positive regulation of cellular senescence; and regulation of transcription, DNA-templated. Predicted to be located in nucleus and senescence-associated heterochromatin focus. Is expressed in several structures, including alimentary system; brain; respiratory system; sensory organ; and urinary system. Human ortholog(s) of this gene implicated in type 2 diabetes mellitus. Orthologous to human HMGA1 (high mobility group AT-hook 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in thymus adult (RPKM 118.1), liver E14.5 (RPKM 79.6) and 27 other tissues See more
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Genomic context

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Location:
11 E2; 11 84.51 cM
Exon count:
1
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (120653620..120655218)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (120762794..120764392)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E5314 Neighboring gene dicarbonyl L-xylulose reductase Neighboring gene carbonyl reductase 2 Neighboring gene STARR-seq mESC enhancer starr_31367 Neighboring gene NADPH-dependent carbonyl reductase pseudogene Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:120637476-120637735 Neighboring gene STARR-seq mESC enhancer starr_31368 Neighboring gene RFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase

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. Large scale localization of protein phosphorylation by use of electron capture dissociation mass spectrometry. Sweet SM, et al. Mol Cell Proteomics, 2009 May. PMID 19131326, Free PMC Article
  2. Specific phosphopeptide enrichment with immobilized titanium ion affinity chromatography adsorbent for phosphoproteome analysis. Zhou H, et al. J Proteome Res, 2008 Sep. PMID 18630941
  3. A differential phosphoproteomic analysis of retinoic acid-treated P19 cells. Smith JC, et al. J Proteome Res, 2007 Aug. PMID 17622165
  4. Sequence and analysis of the murine Hmgiy (Hmga1) gene locus. Pedulla ML, et al. Gene, 2001 Jun 13. PMID 11410365
  5. Complete murine cDNA sequence, genomic structure, and tissue expression of the high mobility group protein HMG-I(Y). Johnson KR, et al. J Biol Chem, 1988 Dec 5. PMID 3192537

See all (24) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (3) 

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

Clone Names

  • MGC6198, MGC18558, MGC102580

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables 5'-deoxyribose-5-phosphate lyase activity ISO
Inferred from Sequence Orthology
more info
  
enables DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables DNA binding, bending ISO
Inferred from Sequence Orthology
more info
  
enables DNA-(apurinic or apyrimidinic site) endonuclease activity ISO
Inferred from Sequence Orthology
more info
  
enables RNA binding ISO
Inferred from Sequence Orthology
more info
  
enables cis-regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables enzyme binding ISO
Inferred from Sequence Orthology
more info
  
enables minor groove of adenine-thymine-rich DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables molecular adaptor activity ISO
Inferred from Sequence Orthology
more info
  
enables molecular function activator activity ISO
Inferred from Sequence Orthology
more info
  
enables nuclear receptor coactivator activity ISO
Inferred from Sequence Orthology
more info
  
enables nuclear retinoic acid receptor binding ISO
Inferred from Sequence Orthology
more info
  
enables nuclear retinoid X receptor binding ISO
Inferred from Sequence Orthology
more info
  
enables peroxisome proliferator activated receptor binding ISO
Inferred from Sequence Orthology
more info
  
enables transcription coactivator activity ISO
Inferred from Sequence Orthology
more info
  
enables transcription coregulator binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in base-excision repair ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of cell population proliferation ISO
Inferred from Sequence Orthology
more info
  
involved_in oncogene-induced cell senescence ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of senescence-associated heterochromatin focus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
high mobility group protein HMG-I/HMG-Y
Names
HMG-I(Y)
high mobility group AT-hook I, related sequence 1
high mobility group AT-hook protein 1
high mobility group protein A1

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_001166476.1 → NP_001159948.1  high mobility group protein HMG-I/HMG-Y isoform 1

    See identical proteins and their annotated locations for NP_001159948.1

    Status: VALIDATED

    Description
    Transcript Variant: This intronless variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AL663090
    Consensus CDS
    CCDS49010.1
    UniProtKB/Swiss-Prot
    P17095, Q91WV2, Q924L7, Q924L8
    UniProtKB/TrEMBL
    Q566K0
    Related
    ENSMUSP00000100667.3, ENSMUST00000105046.4
    Conserved Domains (1) summary
    pfam06217
    Location:4 → 87
    GAGA_bind; GAGA binding protein-like family

  2. NM_001166477.1 → NP_001159949.1  high mobility group protein HMG-I/HMG-Y isoform 2

    See identical proteins and their annotated locations for NP_001159949.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an in-frame segment of the 5' coding region compared to variant 1. It encodes isoform 2, which is shorter than isoform 1.
    Source sequence(s)
    AL663090
    UniProtKB/TrEMBL
    A0A338P6G6, Q3TVP0
    Conserved Domains (1) summary
    PRK10475
    Location:31 → 75
    PRK10475; 23S rRNA pseudouridine synthase F; Provisional

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_000077.7 Reference GRCm39 C57BL/6J

    Range
    120653620..120655218
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NG_005748.3: Suppressed sequence

    Description
    NG_005748.3: This RefSeq was permanently suppressed because it is now thought that this gene does encode a protein.
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P17095.4 GenPept UniProtKB/Swiss-Prot:P17095

Gene LinkOut

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