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HMGN1 Gene

protein-coding   GIFtS: 59
GCID: GC21M040714

High Mobility Group Nucleosome Binding Domain 1

(Previous names: high-mobility group (nonhistone chromosomal) protein 14,...)
(Previous symbol: HMG14)
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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
High Mobility Group Nucleosome Binding Domain 11 2     High-Mobility Group Nucleosome Binding 11 2
HMG141 2 3 5     Nonhistone Chromosomal Protein HMG-141 2
High-Mobility Group (Nonhistone Chromosomal) Protein 141 2     High Mobility Group Nucleosome-Binding Domain-Containing Protein 12 3
High-Mobility Group Nucleosome Binding Domain 11 2     Non-Histone Chromosomal Protein HMG-142

External Ids:    HGNC: 49841   Entrez Gene: 31502   Ensembl: ENSG000002055817   OMIM: 1639205   UniProtKB: P051143   
ORGUL members:         

Export aliases for HMGN1 gene to outside databases

Previous GC identifers: GC21M037290 GC21M039634 GC21M039637 GC21M026182


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for HMGN1 Gene:
The protein encoded by this gene binds nucleosomal DNA and is associated with transcriptionally active chromatin.
Along with a similar protein, HMG17, the encoded protein may help maintain an open chromatin configuration around
transcribable genes. (provided by RefSeq, Aug 2011)

GeneCards Summary for HMGN1 Gene:
HMGN1 (high mobility group nucleosome binding domain 1) is a protein-coding gene. GO annotations related to this gene include nucleosomal DNA binding.

UniProtKB/Swiss-Prot: HMGN1_HUMAN, P05114
Function: Binds to the inner side of the nucleosomal DNA thus altering the interaction between the DNA and the
histone octamer. May be involved in the process which maintains transcribable genes in a unique chromatin
conformation. Inhibits the phosphorylation of nucleosomal histones H3 and H2A by RPS6KA5/MSK1 and RPS6KA3/RSK2
(By similarity)

Gene Wiki entry for HMGN1 Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000021.8  NC_018932.2  NT_011512.12  
Regulatory elements:
   Regulatory transcription factor binding sites in the HMGN1 gene promoter:
         SRF   TBP   FOXF2   SRF (504 AA)   FOXD3   HNF-4alpha2   AREB6   TFIID   Sox9   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidHMGN1 promoter sequence
   Search Chromatin IP Primers for HMGN1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat HMGN1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 21q22.2   Ensembl cytogenetic band:  21q22.2   HGNC cytogenetic band: 21q22.3

HMGN1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
HMGN1 gene location

GeneLoc information about chromosome 21         GeneLoc Exon Structure

GeneLoc location for GC21M040714:  view genomic region     (about GC identifiers)

Start:
40,714,241 bp from pter      End:
40,721,573 bp from pter
Size:
7,333 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: HMGN1_HUMAN, P05114 (See protein sequence)
Recommended Name: Non-histone chromosomal protein HMG-14  
Size: 100 amino acids; 10659 Da
Rna editing: Modified_positions=Not_applicable; Note=Partially edited. A new initiator methionine may be created
by a single uridine insertion in the 5'-UTR, causing an N-terminal extension of 45 amino acids. The existence of
the RNA edited version is supported by direct protein sequencing by MS/MS of the following peptides specific to
that version: 23-31 and 40-48. The RNA edited version is called ET-HMGN1
Mass spectrometry: Mass=10527.8; Mass_error=0.7; Method=Electrospray; Range=2-100; Source=PubMed:10739259;
Mass spectrometry: Mass=10608; Method=Electrospray; Range=2-100; Source=PubMed:10739259;
Mass spectrometry: Mass=10688; Mass_error=1.3; Method=Electrospray; Range=2-100; Source=PubMed:10739259;
Mass spectrometry: Mass=10768; Method=Electrospray; Range=2-100; Source=PubMed:10739259;
Secondary accessions: Q3KQR8

Explore the universe of human proteins at neXtProt for HMGN1: NX_P05114

Explore proteomics data for HMGN1 at MOPED

Post-translational modifications: 

  • Phosphorylation on Ser-21 and Ser-25 weakens binding to nucleosomes and increases the rate of H3 phosphorylation
    (By similarity). Phosphorylation favors cytoplasmic localization1
  • Ubiquitination2 at Lys5, Lys14
  • Modification sites at PhosphoSitePlus

  • See HMGN1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_004956.5  
    ENSEMBL proteins: 
     ENSP00000288344   ENSP00000395291   ENSP00000370125   ENSP00000414421   ENSP00000370124  
     ENSP00000396693   ENSP00000370123   ENSP00000395787   ENSP00000355293  

    HMGN1 Human Recombinant Protein Products:

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    Novus Biologicals HMGN1 Proteins
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    ProSpec Recombinant Protein for HMGN1
    Cloud-Clone Corp. Proteins for HMGN1

     
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    antibodies-online proteins for HMGN1 (18 products) 

     
    antibodies-online peptides for HMGN1

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    antibodies-online antibodies for HMGN1 (62 products) 

    HMGN1 Assay Products:

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    antibodies-online kits for HMGN1 (19 products) 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    HMG: High-mobility group / Canonical

    1 InterPro protein domain:
     IPR000079 HMGN_fam

    Graphical View of Domain Structure for InterPro Entry P05114

    ProtoNet protein and cluster: P05114

    1 Blocks protein domain: IPB000079 High mobility group protein HMG14 and HMG17

    UniProtKB/Swiss-Prot: HMGN1_HUMAN, P05114
    Similarity: Belongs to the HMGN family


    Find genes that share domains with HMGN1           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: HMGN1_HUMAN, P05114
    Function: Binds to the inner side of the nucleosomal DNA thus altering the interaction between the DNA and the
    histone octamer. May be involved in the process which maintains transcribable genes in a unique chromatin
    conformation. Inhibits the phosphorylation of nucleosomal histones H3 and H2A by RPS6KA5/MSK1 and RPS6KA3/RSK2
    (By similarity)

         Gene Ontology (GO): 3 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding TAS8047885
    GO:0003682chromatin binding ----
    GO:0031492nucleosomal DNA binding IEA--
         
    Find genes that share ontologies with HMGN1           About GenesLikeMe


    Phenotypes:
         3 GenomeRNAi human phenotypes for HMGN1:
     Decreased Wnt reporter activit  Increased S DNA content  Increased gamma-H2AX phosphory 

         4 MGI mutant phenotypes (inferred from 1 allele(MGI details for Hmgn1):
     cellular  integument  mortality/aging  tumorigenesis 

    Find genes that share phenotypes with HMGN1           About GenesLikeMe

    Animal Models:
         MGI mouse knock-out Hmgn1tm1Mbus for HMGN1

       genOway: Develop your customized and physiologically relevant rodent model for HMGN1

    miRNA
    Products:
        
    miRTarBase miRNAs that target HMGN1:
    hsa-mir-125b-5p (MIRT045927), hsa-mir-197-3p (MIRT004185), hsa-mir-16-5p (MIRT051195), hsa-mir-100-5p (MIRT048518), hsa-mir-484 (MIRT041871)

    Block miRNA regulation of human, mouse, rat HMGN1 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate HMGN1 (see all 16):
    hsa-miR-520d-5p hsa-let-7a-2* hsa-miR-181a-2* hsa-miR-3161 hsa-let-7g* hsa-miR-548x hsa-miR-613 hsa-miR-33b
    SwitchGear 3'UTR luciferase reporter plasmidHMGN1 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat HMGN1

    Gene Editing
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    GenScript: all cDNA clones in your preferred vector: HMGN1 (NM_004965)
    Sino Biological Human cDNA Clone for HMGN1
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for HMGN1
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat HMGN1

    Cell Line
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    Browse ESI BIO Cell Lines and PureStem Progenitors for HMGN1 
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for HMGN1


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    HMGN1_HUMAN, P05114: Nucleus. Cytoplasm. Note=Cytoplasmic enrichment upon phosphorylation. The RNA edited version
    localizes to the nucleus
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5

    Gene Ontology (GO): 3 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000785chromatin IEA--
    GO:0005634nucleus IDA--
    GO:0005737cytoplasm IEA--

    Find genes that share ontologies with HMGN1           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    SuperPaths for HMGN1 About    
    See pathways by source

    SuperPathContained pathways About
    1ERK Signaling
    ERK Signaling0.61
    2Influenza A
    Herpes simplex infection0.33
    3Packaging Of Telomere Ends
    Histone modification0.31
    4p38 MAPK Signaling Pathway (WikiPathways)
    p38 MAPK Signaling Pathway
    5Chromatin Regulation / Acetylation
    Chromatin Regulation / Acetylation


    Find genes that share SuperPaths with HMGN1           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    1 Downloadable PowerPoint Slide of GeneGlobe Pathway Central Maps for HMGN1
        ERK Signaling

    1 Cell Signaling Technology (CST) Pathway for HMGN1
        Chromatin Regulation / Acetylation

    1 BioSystems Pathway for HMGN1
        p38 MAPK Signaling Pathway



    1 Kegg Pathway  (Kegg details for HMGN1):
        Herpes simplex infection

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for HMGN1
    Interactions:

        GeneGlobe Interaction Network for HMGN1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 19)

    Selected Interacting proteins for HMGN1 (P051143 ENSP000003701254) via UniProtKB, MINT, STRING, and/or I2D (see all 19)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    PRKACAP176123, ENSP000003095914I2D: score=2 STRING: ENSP00000309591
    ERCC6Q034683, ENSP000003480894I2D: score=1 STRING: ENSP00000348089
    HMGN2P052043, ENSP000003552284I2D: score=1 STRING: ENSP00000355228
    BTG2P785433, ENSP000002905514I2D: score=1 STRING: ENSP00000290551
    EP300Q094723, ENSP000002632534I2D: score=2 STRING: ENSP00000263253
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 10):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000720pyrimidine dimer repair by nucleotide-excision repair IEA--
    GO:0006283transcription-coupled nucleotide-excision repair IEA--
    GO:0006325chromatin organization IEA--
    GO:0006357regulation of transcription from RNA polymerase II promoter IEA--
    GO:0010224response to UV-B IEA--

    Find genes that share ontologies with HMGN1           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for HMGN1

    3 Novoseek inferred chemical compound relationships for HMGN1 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    anisomycin 69.7 2 15327773 (1)
    okadaic acid 34.1 4 10739259 (2)
    serine 18.6 3 15147216 (2), 16729963 (1)



    Find genes that share compounds with HMGN1           About GenesLikeMe



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for HMGN1 gene: 
    NM_004965.6  

    Unigene Cluster for HMGN1:

    High mobility group nucleosome binding domain 1
    Hs.356285  [show with all ESTs]
    Unigene Representative Sequence: AK056033
    Selected Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 21):
    ENST00000288344 ENST00000486741 ENST00000431390 ENST00000380749(uc002yxo.3)
    ENST00000492280(uc021wjh.1) ENST00000436324 ENST00000380748 ENST00000419378
    ENST00000489072 ENST00000482192 ENST00000380747 ENST00000485550 ENST00000490032
    ENST00000443046 ENST00000464078 ENST00000491183 ENST00000479586 ENST00000471260

    miRNA
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    Selected qRT-PCR Assays for microRNAs that regulate HMGN1 (see all 16):
    hsa-miR-520d-5p hsa-let-7a-2* hsa-miR-181a-2* hsa-miR-3161 hsa-let-7g* hsa-miR-548x hsa-miR-613 hsa-miR-33b
    SwitchGear 3'UTR luciferase reporter plasmidHMGN1 3' UTR sequence
    Inhib. RNA
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    Primer
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    OriGene qPCR primer pairs and template standards for HMGN1
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      QuantiTect SYBR Green Assays in human, mouse, rat HMGN1
      QuantiFast Probe-based Assays in human, mouse, rat HMGN1

    Additional mRNA sequence: 

    AK056033.1 AK130775.1 AK315410.1 BC000075.2 BC023984.1 BC070153.1 BC070154.1 BC071643.1 
    BC072672.1 BC106080.1 BC107741.1 BT007337.1 J02621.1 

    Selected DOTS entries (see all 47):

    DT.100667845  DT.92407831  DT.453431  DT.100641194  DT.100777072  DT.407720  DT.85104211  DT.100867204 
    DT.100687765  DT.92460767  DT.100720066  DT.100848559  DT.121142563  DT.121142587  DT.87015269  DT.100667842 
    DT.102835942  DT.100876365  DT.95374498  DT.121142550  DT.121142552  DT.121142588  DT.95374491  DT.121142520 

    Selected AceView cDNA sequences (see all 792):

    BE350703 BE350040 BM848551 BM738339 CR601988 BX345019 BM856844 BM781940 
    BX381971 BM844093 AA399515 CA455132 BM694239 BX391387 AA035302 CR625531 
    BQ637154 CB112498 CR619497 CR618139 CF139003 BM782087 AA829309 BP368003 

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    HMGN1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GCTTTTTAGA
    HMGN1 Expression
    About this image


    HMGN1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 10) fully expand
     
     Epithelial Cells
             Fetal Corneal Basal Epithelial Cells Corneal Epithelium
     
     Eye (Sensory Organs)    fully expand to see all 2 entries
             Fetal Corneal Basal Epithelial Cells Corneal Epithelium
     
     Umbilical Cord (Extraembryonic Tissues)    fully expand to see all 2 entries
             Umbilical cord blood-derived hematopoietic stem cells
     
     Blood (Hematopoietic System)    fully expand to see all 2 entries
             Umbilical cord blood-derived hematopoietic stem cells
     
     Neural Tube (Nervous System)    fully expand to see all 2 entries
             Metencephalon
    HMGN1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    HMGN1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.356285
        Custom PCR Arrays for HMGN1
    Primer
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    OriGene qPCR primer pairs and template standards for HMGN1
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    QuantiFast Probe-based Assays in human, mouse, rat HMGN1
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for HMGN1

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of chordates.

    Orthologs for HMGN1 gene from Selected species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Hmgn11 , 5 high mobility group nucleosomal binding domain 11, 5 81.05(n)1
    85.26(a)1
      16 (56.83 cM)5
    153121  NM_008251.31  NP_032277.31 
     961206185 
    chicken
    (Gallus gallus)
    Aves HMGN11 high mobility group nucleosome binding domain 1 72.57(n)
    68.75(a)
      395999  NM_205106.1  NP_990437.1 
    lizard
    (Anolis carolinensis)
    Reptilia HMGN16
    high mobility group nucleosome binding domain 1
    73(a)
    1 ↔ 1
    3(139707874-139718848)
    African clawed frog
    (Xenopus laevis)
    Amphibia hmgn1-prov2 high-mobility group nucleosome binding domain 1 80.05(n)    BC054972.1 
    rainbow trout
    (Oncorhynchus mykiss)
    Actinopterygii CA351454.12   -- 78.91(n)    CA351454.1 


    ENSEMBL Gene Tree for HMGN1 (if available)
    TreeFam Gene Tree for HMGN1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section

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    Paralogs for HMGN1 gene
    2 SIMAP similar genes for HMGN1 using alignment to 9 protein entries:     HMGN1_HUMAN (see all proteins):
    HMGN5    HMGN3

    Find genes that share paralogs with HMGN1           About GenesLikeMe


    Selected Pseudogenes.org Pseudogenes for HMGN1 (see all 47)
    PGOHUM00000238683 PGOHUM00000242128 PGOHUM00000242169 PGOHUM00000250397 PGOHUM00000239377


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for HMGN1 (see all 294)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 21 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1161631911,2
    F--40713753(+) AGGTCT/GATTGC 1 -- ds50011Minor allele frequency- G:0.01WA 118
    rs27763061,2
    C,F,A--40713754(+) ggtctA/Gttgcc 1 -- ds500110Minor allele frequency- G:0.37NA WA CSA EA 372
    rs1810985191,2
    --40713769(+) AGCAAC/TAGGTT 1 -- ds50010--------
    rs99742661,2
    C,F--40713770(+) gcaatA/Gggtta 1 -- ds50013Minor allele frequency- G:0.10WA NA EA 358
    rs28547271,2
    C,F,A,H--40713787(-) atgtaA/Ggctgt 1 -- ds500122Minor allele frequency- G:0.37NS EA NA WA CSA 2346
    rs27763071,2
    C,F,A,H--40713833(+) actctC/Gtatga 1 -- ds500127Minor allele frequency- G:0.24NS EA NA WA CSA 2778
    rs1857456161,2
    --40713866(+) AACAAC/TGTGTT 1 -- ds50010--------
    rs1893243051,2
    --40713938(+) CACTTA/CAAAAA 1 -- ds50010--------
    rs757864001,2
    C,F--40713939(+) ACTTAC/AAAAAA 1 -- ds50011Minor allele frequency- A:0.50WA 2
    rs1809560701,2
    --40713962(+) GATCAA/TATATG 1 -- ds50010--------

    HapMap Linkage Disequilibrium report for HMGN1 (40714241 - 40721573 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for HMGN1:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv913744CNV Loss21882294

    Site Specific Mutation Identification with PCR Assays
    1 Copy Number PCR Panel containing HMGN1:
    Prostate Cancer
    SeqTarget long-range PCR primers for resequencing HMGN1
    DNA2.0 Custom Variant and Variant Library Synthesis for HMGN1

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 163920    OMIM disorders: --

    1 disease from the University of Copenhagen DISEASES database for HMGN1:
    Cockayne syndrome

    Find genes that share disorders with HMGN1           About GenesLikeMe

    2 Novoseek inferred disease relationships for HMGN1 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    down syndrome 29.8 4 1825298 (2), 2140193 (1), 1360278 (1)
    breast cancer 0 1 15147216 (1)


    Export disorders for HMGN1 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for HMGN1 gene, integrated from 10 sources (see all 87):
    (articles sorted by number of sources associating them with HMGN1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Chromosomal protein HMG-14. Identification, characterization, and chromosome localization of a functional gene from the large human multigene family. (PubMed id 2563381)1, 2, 3 Landsman D....Bustin M. (J. Biol. Chem. 1989)
    2. Chromosomal protein HMG-14. Complete human cDNA sequence and evidence for a multigene family. (PubMed id 3782107)1, 2, 3 Landsman D.... Bustin M. (J. Biol. Chem. 1986)
    3. Phosphorylation and subcellular redistribution of high mobility group proteins 14 and 17, analyzed by mass spectrometry. (PubMed id 10739259)1, 2, 9 Louie D.F.... Ahn N.G. (Protein Sci. 2000)
    4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    5. The DNA sequence of human chromosome 21. (PubMed id 10830953)1, 2 Hattori M.... Yaspo M.-L. (Nature 2000)
    6. Aberrant expression of high mobility group chromosomal protein 14 affects cellular differentiation. (PubMed id 8514795)1, 9 Pash J.M....Bustin M. (J. Biol. Chem. 1993)
    7. Stimulation of RNA polymerase II elongation by chromosomal protein HMG-14. (PubMed id 8047885)1, 9 Ding H.F....Hansen U. (Science 1994)
    8. Identification of novel in vivo phosphorylation sites in high mobility group N1 protein from the MCF-7 human breast cancer cells. (PubMed id 15147216)1, 9 Zou Y....Wang Y. (Biochemistry 2004)
    9. Acetylation of novel sites in the nucleosomal binding domain of chromosomal protein HMG-14 by p300 alters its interaction with nucleosomes. (PubMed id 10753971)1, 9 Bergel M....Bustin M. (J. Biol. Chem. 2000)
    10. Phosphorylation of human high mobility group N1 protein by protein kinase CK2. (PubMed id 16729963)1, 9 Jiang X.G. and Wang Y. (Biochem. Biophys. Res. Commun. 2006)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 3150 HGNC: 4984 AceView: HMGN1 Ensembl:ENSG00000205581 euGenes: HUgn3150
    ECgene: HMGN1 Kegg: 3150 H-InvDB: HMGN1

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for HMGN1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for HMGN1 gene:
    Search GeneIP for patents involving HMGN1

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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