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    Hmga1 high mobility group AT-hook 1 [ Mus musculus (house mouse) ]

    Gene ID: 15361, updated on 5-Sep-2021

    Summary

    Official Symbol
    Hmga1provided by MGI
    Official Full Name
    high mobility group AT-hook 1provided by MGI
    Primary source
    MGI:MGI:96160
    See related
    Ensembl:ENSMUSG00000046711
    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
    Hmg; Hmga; Hmgi; Hmgy; Hmgiy; HMGI(Y; Hmga1a; Hmga1b; HMG-I(Y; AL023995
    Summary
    This locus encodes a member of the nuclear, non-histone high mobility group protein family. This architectural transcription factor binds to A-T rich DNA sequences and participates in enhanceosome formation, chromatin remodeling and regulation of transcription. This protein functions in many cellular processes, including cell growth and differentiation. Alternatively spliced transcript variants have been described. [provided by RefSeq, Oct 2009]
    Expression
    Ubiquitous expression in thymus adult (RPKM 119.5), liver E14.5 (RPKM 82.7) and 27 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Hmga1 in Genome Data Viewer
    Location:
    17 A3.3; 17 14.5 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (27775548..27782646)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (27556574..27563672)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 17 NC_000083.5 (27693519..27700617)

    Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene predicted gene 16005 Neighboring gene predicted gene 9703 Neighboring gene expressed sequence AI413582 Neighboring gene nudix (nucleotide diphosphate linked moiety X)-type motif 3

    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)

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • 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 IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables DNA-(apurinic or apyrimidinic site) endonuclease activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA-binding transcription activator activity, RNA polymerase II-specific IDA
    Inferred from Direct Assay
    more info
     
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    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 IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables minor groove of adenine-thymine-rich DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables nuclear receptor coactivator activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables peroxisome proliferator activated receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables retinoic acid receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables retinoid X receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables structural constituent of chromatin TAS
    Traceable Author Statement
    more info
    PubMed 
    enables transcription coactivator activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables transcription coregulator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of RNA polymerase II transcription regulator complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in senescence-associated heterochromatin focus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    high mobility group protein HMG-I/HMG-Y
    Names
    high mobility group AT-hook protein 1
    high mobility group protein A1
    high mobility group protein I

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001025427.3NP_001020598.1  high mobility group protein HMG-I/HMG-Y isoform a

      See identical proteins and their annotated locations for NP_001020598.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 through 5 encode the same isoform (a), also known as isoform I.
      Source sequence(s)
      AK171334, AV018894, BY270784
      Consensus CDS
      CCDS28564.1
      UniProtKB/Swiss-Prot
      P17095
      UniProtKB/TrEMBL
      Q566K0
      Related
      ENSMUSP00000156173.2, ENSMUST00000232265.2
    2. NM_001039356.2NP_001034445.1  high mobility group protein HMG-I/HMG-Y isoform a

      See identical proteins and their annotated locations for NP_001034445.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1 through 5 encode the same isoform (a), also known as isoform I.
      Source sequence(s)
      AK171334, AV018894, BY270784, GH454882
      Consensus CDS
      CCDS28564.1
      UniProtKB/Swiss-Prot
      P17095
      UniProtKB/TrEMBL
      Q566K0
      Related
      ENSMUSP00000113015.2, ENSMUST00000118599.9
      Conserved Domains (1) summary
      pfam06217
      Location:487
      GAGA_bind; GAGA binding protein-like family
    3. NM_001166535.1NP_001160007.1  high mobility group protein HMG-I/HMG-Y isoform a

      See identical proteins and their annotated locations for NP_001160007.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. Variants 1 through 5 encode the same isoform (a), also known as isoform I.
      Source sequence(s)
      AK171334, AV018894, BY165675, BY270784
      Consensus CDS
      CCDS28564.1
      UniProtKB/Swiss-Prot
      P17095
      UniProtKB/TrEMBL
      Q566K0
      Related
      ENSMUSP00000113916.2, ENSMUST00000119486.9
      Conserved Domains (1) summary
      pfam06217
      Location:487
      GAGA_bind; GAGA binding protein-like family
    4. NM_001166536.1NP_001160008.1  high mobility group protein HMG-I/HMG-Y isoform a

      See identical proteins and their annotated locations for NP_001160008.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) differs in the 5' UTR compared to variant 1. Variants 1 through 5 encode the same isoform (a), also known as isoform I.
      Source sequence(s)
      AK171334, AV018894, BY270784
      Consensus CDS
      CCDS28564.1
      UniProtKB/Swiss-Prot
      P17095
      UniProtKB/TrEMBL
      Q566K0
      Related
      ENSMUSP00000155886.2, ENSMUST00000232013.2
      Conserved Domains (1) summary
      pfam06217
      Location:487
      GAGA_bind; GAGA binding protein-like family
    5. NM_001166537.1NP_001160009.1  high mobility group protein HMG-I/HMG-Y isoform b

      See identical proteins and their annotated locations for NP_001160009.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (6) uses an alternate, in-frame splice site in the 5' coding region compared to variant 1. The encoded isoform (b) is shorter than isoform a. Variants 6 through 10 encode the same isoform (b), also known as isoform Y.
      Source sequence(s)
      AK155661, AK171334, AV018894, BM937661, CF730372
      Consensus CDS
      CCDS50044.1
      UniProtKB/Swiss-Prot
      P17095
      UniProtKB/TrEMBL
      Q3TVP0, Q566K0
      Related
      ENSMUSP00000114101.2, ENSMUST00000118570.2
      Conserved Domains (1) summary
      PRK10475
      Location:3175
      PRK10475; 23S rRNA pseudouridine synthase F; Provisional
    6. NM_001166539.1NP_001160011.1  high mobility group protein HMG-I/HMG-Y isoform b

      See identical proteins and their annotated locations for NP_001160011.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (7) differs in the 5' UTR and uses an alternate, in-frame splice site in the 5' coding region compared to variant 1. The encoded isoform (b) is shorter than isoform a. Variants 6 through 10 encode the same isoform (b), also known as isoform Y.
      Source sequence(s)
      AK171334, AV018894, BY270784, GH454882
      Consensus CDS
      CCDS50044.1
      UniProtKB/Swiss-Prot
      P17095
      UniProtKB/TrEMBL
      Q3TVP0, Q566K0
      Related
      ENSMUSP00000156327.2, ENSMUST00000231825.2
      Conserved Domains (1) summary
      PRK10475
      Location:3175
      PRK10475; 23S rRNA pseudouridine synthase F; Provisional
    7. NM_001166540.1NP_001160012.1  high mobility group protein HMG-I/HMG-Y isoform b

      See identical proteins and their annotated locations for NP_001160012.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (8) differs in the 5' UTR and uses an alternate, in-frame splice site in the 5' coding region compared to variant 1. The encoded isoform (b) is shorter than isoform a. Variants 6 through 10 encode the same isoform (b), also known as isoform Y.
      Source sequence(s)
      AK155661, AK171334, AV018894, BY165675, BY270784
      Consensus CDS
      CCDS50044.1
      UniProtKB/Swiss-Prot
      P17095
      UniProtKB/TrEMBL
      Q3TVP0, Q566K0
      Related
      ENSMUSP00000156044.2, ENSMUST00000232552.2
      Conserved Domains (1) summary
      PRK10475
      Location:3175
      PRK10475; 23S rRNA pseudouridine synthase F; Provisional
    8. NM_001166541.1NP_001160013.1  high mobility group protein HMG-I/HMG-Y isoform b

      See identical proteins and their annotated locations for NP_001160013.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (9) differs in the 5' UTR and uses an alternate, in-frame splice site in the 5' coding region compared to variant 1. The encoded isoform (b) is shorter than isoform a. Variants 6 through 10 encode the same isoform (b), also known as isoform Y.
      Source sequence(s)
      AK155661, AK171334, AV018894, BY270784
      Consensus CDS
      CCDS50044.1
      UniProtKB/Swiss-Prot
      P17095
      UniProtKB/TrEMBL
      Q3TVP0, Q566K0
      Related
      ENSMUSP00000110538.4, ENSMUST00000114888.11
      Conserved Domains (1) summary
      PRK10475
      Location:3175
      PRK10475; 23S rRNA pseudouridine synthase F; Provisional
    9. NM_001166542.1NP_001160014.1  high mobility group protein HMG-I/HMG-Y isoform b

      See identical proteins and their annotated locations for NP_001160014.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (10) differs in the 5' UTR and uses an alternate, in-frame splice site in the 5' coding region compared to variant 1. The encoded isoform (b) is shorter than isoform a. Variants 6 through 10 encode the same isoform (b), also known as isoform Y.
      Source sequence(s)
      AK155661, AK171334, AV018894, BY270784
      Consensus CDS
      CCDS50044.1
      UniProtKB/Swiss-Prot
      P17095
      UniProtKB/TrEMBL
      Q3TVP0, Q566K0
      Related
      ENSMUSP00000155876.2, ENSMUST00000231358.2
      Conserved Domains (1) summary
      PRK10475
      Location:3175
      PRK10475; 23S rRNA pseudouridine synthase F; Provisional
    10. NM_001166543.1NP_001160015.1  high mobility group protein HMG-I/HMG-Y isoform c

      See identical proteins and their annotated locations for NP_001160015.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (11) differs in the 5' UTR and uses an alternate, in-frame splice site in the 3' coding region compared to variant 1. The encoded isoform (c) is shorter than isoform a. Variants 11 and 12 encode the same isoform (c).
      Source sequence(s)
      AK171334, AV018894, BY165675, BY270784
      Consensus CDS
      CCDS89033.1
      UniProtKB/TrEMBL
      Q3TE85, Q566K0
      Related
      ENSMUSP00000155874.2, ENSMUST00000232253.2
      Conserved Domains (1) summary
      pfam06217
      Location:4101
      GAGA_bind; GAGA binding protein-like family
    11. NM_001166544.1NP_001160016.1  high mobility group protein HMG-I/HMG-Y isoform c

      See identical proteins and their annotated locations for NP_001160016.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (12) differs in the 5' UTR and uses an alternate, in-frame splice site in the 3' coding region compared to variant 1. The encoded isoform (c) is shorter than isoform a. Variants 11 and 12 encode the same isoform (c).
      Source sequence(s)
      AK171334, AV018894, BY270784
      Consensus CDS
      CCDS89033.1
      UniProtKB/TrEMBL
      Q3TE85, Q566K0
      Related
      ENSMUSP00000113068.3, ENSMUST00000117600.9
      Conserved Domains (1) summary
      pfam06217
      Location:4101
      GAGA_bind; GAGA binding protein-like family
    12. NM_001166545.1NP_001160017.1  high mobility group protein HMG-I/HMG-Y isoform d

      Status: REVIEWED

      Description
      Transcript Variant: This variant (13) differs in the 5' UTR and uses an alternate, in-frame splice site in the 5' coding region compared to variant 1. The encoded isoform (d) is longer than isoform a.
      Source sequence(s)
      AK171334, AV018894, BY270784, CF951929
      Consensus CDS
      CCDS89032.1
      UniProtKB/TrEMBL
      Q566K0
      Related
      ENSMUSP00000155922.2, ENSMUST00000231796.2
    13. NM_001166546.1NP_001160018.1  high mobility group protein HMG-I/HMG-Y isoform e

      Status: REVIEWED

      Description
      Transcript Variant: This variant (14) uses an alternate splice site in the 3' coding region, which results in a frameshift, compared to variant 1. It encodes isoform e, which has a longer and distinct C-terminus, compared to isoform a.
      Source sequence(s)
      AK171334, AV018894, BY270784
      Consensus CDS
      CCDS89034.1
      UniProtKB/TrEMBL
      Q566K0
      Related
      ENSMUSP00000155966.2, ENSMUST00000231866.2
    14. NM_016660.3NP_057869.2  high mobility group protein HMG-I/HMG-Y isoform a

      See identical proteins and their annotated locations for NP_057869.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes isoform a. Variants 1 through 5 encode the same isoform (a), also known as isoform I.
      Source sequence(s)
      AK171334, AV018894, BM937661, CF730372
      Consensus CDS
      CCDS28564.1
      UniProtKB/Swiss-Prot
      P17095
      UniProtKB/TrEMBL
      Q566K0
      Related
      ENSMUSP00000156199.2, ENSMUST00000231874.2
      Conserved Domains (1) summary
      pfam06217
      Location:487
      GAGA_bind; GAGA binding protein-like family

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

    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
      27775548..27782646
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030249514.2XP_030105374.1  high mobility group protein HMG-I/HMG-Y isoform X1

    2. XM_030249515.2XP_030105375.1  high mobility group protein HMG-I/HMG-Y isoform X2

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