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HMGN3 high mobility group nucleosomal binding domain 3 [ Homo sapiens (human) ]

Gene ID: 9324, updated on 12-Oct-2019

Summary

Official Symbol
HMGN3provided by HGNC
Official Full Name
high mobility group nucleosomal binding domain 3provided by HGNC
Primary source
HGNC:HGNC:12312
See related
Ensembl:ENSG00000118418 MIM:604502
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
TRIP7; PNAS-24; PNAS-25
Summary
The protein encoded by this gene binds thyroid hormone receptor beta in the presence of thyroid hormone. The encoded protein, a member of the HMGN protein family, is thought to reduce the compactness of the chromatin fiber in nucleosomes, thereby enhancing transcription from chromatin templates. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. There is a related pseudogene on chromosome 1. [provided by RefSeq, Jan 2016]
Expression
Ubiquitous expression in heart (RPKM 45.8), adrenal (RPKM 40.5) and 25 other tissues See more
Orthologs

Genomic context

See HMGN3 in Genome Data Viewer
Location:
6q14.1
Exon count:
7
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 6 NC_000006.12 (79201245..79234682, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (79910962..79944455, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene interleukin 1 receptor associated kinase 1 binding protein 1 Neighboring gene tRNA-Phe (anticodon GAA) 8-1 Neighboring gene pleckstrin homology domain interacting protein Neighboring gene nucleoporin 155kDa pseudogene Neighboring gene HMGN3 antisense RNA 1 Neighboring gene dnaJ homolog subfamily B member 6-like Neighboring gene lung cancer associated lncRNA 1

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ42187, DKFZp686E20226

Gene Ontology Provided by GOA

Function Evidence Code Pubs
nucleosomal DNA binding IEA
Inferred from Electronic Annotation
more info
 
thyroid hormone receptor binding NAS
Non-traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
biological_process ND
No biological Data available
more info
 
chromatin organization IEA
Inferred from Electronic Annotation
more info
 
positive regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
regulation of insulin secretion involved in cellular response to glucose stimulus IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
chromatin IEA
Inferred from Electronic Annotation
more info
 
cytosol IDA
Inferred from Direct Assay
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
high mobility group nucleosome-binding domain-containing protein 3
Names
TR-interacting protein 7
thyroid hormone receptor interacting protein 7

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_029598.1 RefSeqGene

    Range
    5057..38494
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001201362.2NP_001188291.1  high mobility group nucleosome-binding domain-containing protein 3 isoform c

    See identical proteins and their annotated locations for NP_001188291.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) retains an alternate segment in the 3' region compared to variant 1, which results in a different 3' coding region and 3' UTR. The resulting isoform (c) is shorter and has a distinct C-terminus compared to isoform a.
    Source sequence(s)
    AI028183, AL355796, BU619570, BX641808
    UniProtKB/Swiss-Prot
    Q15651
    Conserved Domains (1) summary
    smart00527
    Location:287
    HMG17; domain in high mobilty group proteins HMG14 and HMG 17
  2. NM_001201363.2NP_001188292.1  high mobility group nucleosome-binding domain-containing protein 3 isoform d

    See identical proteins and their annotated locations for NP_001188292.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) contains an alternate in-frame exon in the 3' coding region compared to variant 1. The resulting isoform (d) is longer than isoform a.
    Source sequence(s)
    AL355796
    Consensus CDS
    CCDS75485.1
    UniProtKB/Swiss-Prot
    Q15651
    UniProtKB/TrEMBL
    A0A087WZE9
    Related
    ENSP00000482613.1, ENST00000620514.1
    Conserved Domains (1) summary
    pfam01101
    Location:196
    HMG14_17; HMG14 and HMG17
  3. NM_001318884.2NP_001305813.1  high mobility group nucleosome-binding domain-containing protein 3 isoform e

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) contains an alternate exon in the 3' coding region, which results in a frameshift, compared to variant 1. The resulting isoform (e) is longer and has a distinct C-terminus compared to isoform a.
    Source sequence(s)
    AL355796
    UniProtKB/Swiss-Prot
    Q15651
    Conserved Domains (1) summary
    pfam01101
    Location:196
    HMG14_17; HMG14 and HMG17
  4. NM_001318885.2NP_001305814.1  high mobility group nucleosome-binding domain-containing protein 3 isoform f

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) lacks an alternate in-frame exon in the 5' coding region compared to variant 1. The resulting isoform (f) is shorter than isoform a.
    Source sequence(s)
    AL355796
    UniProtKB/Swiss-Prot
    Q15651
    Conserved Domains (1) summary
    pfam01101
    Location:376
    HMG14_17; HMG14 and HMG17
  5. NM_001318886.2NP_001305815.1  high mobility group nucleosome-binding domain-containing protein 3 isoform g

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) contains an alternate in-frame exon in the 3' coding region compared to variant 1. The resulting isoform (g) is longer than isoform a.
    Source sequence(s)
    AL355796
    UniProtKB/Swiss-Prot
    Q15651
    Conserved Domains (1) summary
    pfam01101
    Location:196
    HMG14_17; HMG14 and HMG17
  6. NM_001318887.2NP_001305816.1  high mobility group nucleosome-binding domain-containing protein 3 isoform h

    Status: REVIEWED

    Description
    Transcript Variant: This variant (8) uses an alternate splice site in the 3' region compared to variant 1, which results in a different 3' coding region and 3' UTR. The resulting isoform (h) is longer and has a distinct C-terminus compared to isoform a.
    Source sequence(s)
    AL355796
    UniProtKB/Swiss-Prot
    Q15651
    Conserved Domains (1) summary
    pfam01101
    Location:196
    HMG14_17; HMG14 and HMG17
  7. NM_001318888.2NP_001305817.1  high mobility group nucleosome-binding domain-containing protein 3 isoform i

    Status: REVIEWED

    Description
    Transcript Variant: This variant (9) lacks an in-frame exon compared to variant 1. The encoded isoform (i) is shorter than isoform a.
    Source sequence(s)
    AL355796
    UniProtKB/Swiss-Prot
    Q15651
  8. NM_004242.4NP_004233.1  high mobility group nucleosome-binding domain-containing protein 3 isoform a

    See identical proteins and their annotated locations for NP_004233.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes isoform a.
    Source sequence(s)
    AL355796
    Consensus CDS
    CCDS4988.1
    UniProtKB/Swiss-Prot
    Q15651
    Related
    ENSP00000341267.5, ENST00000344726.9
    Conserved Domains (1) summary
    pfam01101
    Location:193
    HMG14_17; HMG14 and HMG17
  9. NM_138730.3NP_620058.1  high mobility group nucleosome-binding domain-containing protein 3 isoform b

    See identical proteins and their annotated locations for NP_620058.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 3' coding region, which results in a frameshift, compared to variant 1. The resulting isoform (b) is shorter and has a distinct C-terminus compared to isoform a.
    Source sequence(s)
    AL355796
    Consensus CDS
    CCDS4989.1
    UniProtKB/Swiss-Prot
    Q15651
    Related
    ENSP00000275036.7, ENST00000275036.11
    Conserved Domains (1) summary
    pfam01101
    Location:177
    HMG14_17; HMG14 and HMG17

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20190905

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p13 Primary Assembly

    Range
    79201245..79234682 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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