U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    CENPN centromere protein N [ Homo sapiens (human) ]

    Gene ID: 55839, updated on 3-Dec-2024

    Summary

    Official Symbol
    CENPNprovided by HGNC
    Official Full Name
    centromere protein Nprovided by HGNC
    Primary source
    HGNC:HGNC:30873
    See related
    Ensembl:ENSG00000166451 MIM:611509; AllianceGenome:HGNC:30873
    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
    BM039; CENP-N; ICEN32; C16orf60
    Summary
    The protein encoded by this gene forms part of the nucleosome-associated complex and is important for kinetochore assembly. It is bound to kinetochores during S phase and G2 and recruits other proteins to the centromere. Pseudogenes of this gene are located on chromosome 2. Alternative splicing results in multiple transcript variants that encode different protein isoforms. [provided by RefSeq, Jul 2012]
    Expression
    Ubiquitous expression in prostate (RPKM 4.4), bone marrow (RPKM 3.9) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See CENPN in Genome Data Viewer
    Location:
    16q23.2
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (81007214..81033107)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (87068448..87094631)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (81040819..81066712)

    Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene androgen receptor regulated long noncoding RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11172 Neighboring gene Sharpr-MPRA regulatory region 7727 Neighboring gene C-X9-C motif containing 2 Neighboring gene NANOG hESC enhancer GRCh37_chr16:81032399-81032965 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11173 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7748 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11174 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11175 Neighboring gene CENPN antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7749 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7750 Neighboring gene ATM interactor Neighboring gene chromosome 16 open reading frame 46 Neighboring gene uncharacterized LOC105371361

    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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ13607, FLJ22660

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in CENP-A containing chromatin assembly IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in chromosome segregation NAS
    Non-traceable Author Statement
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    part_of inner kinetochore IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    is_active_in nucleoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    located_in nucleus NAS
    Non-traceable Author Statement
    more info
    PubMed 

    General protein information

    Preferred Names
    centromere protein N
    Names
    interphase centromere complex protein 32

    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_001100624.3NP_001094094.2  centromere protein N isoform 2

      See identical proteins and their annotated locations for NP_001094094.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate 3' terminal exon compared to variant 1. The resulting protein (isoform 2) has a shorter and distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AC092718, AK023669, BC039021, HY167728
      Consensus CDS
      CCDS42200.1
      UniProtKB/Swiss-Prot
      A8MZE6, B3KN53, B4DJD1, B4DPY7, C9JJM5, D3DUK8, E7ES30, E7ETS3, Q96H22, Q9NZ83
      Related
      ENSP00000305608.5, ENST00000305850.10
      Conserved Domains (1) summary
      pfam05238
      Location:3339
      CENP-N; Kinetochore protein CHL4 like
    2. NM_001100625.3NP_001094095.2  centromere protein N isoform 1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AK023669, AK026313, HY374758
      Consensus CDS
      CCDS42199.1
      UniProtKB/Swiss-Prot
      Q96H22
      Related
      ENSP00000377007.3, ENST00000393335.7
      Conserved Domains (1) summary
      pfam05238
      Location:3315
      CENP-N; Kinetochore protein CHL4 like
    3. NM_001270473.2NP_001257402.1  centromere protein N isoform 4

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) lacks an exon in the coding region and uses an alternate 3' terminal exon compared to variant 1. The resulting protein (isoform 4) is shorter than isoform 1.
      Source sequence(s)
      AC092718, AK023669, AK296024, BC039021
      Consensus CDS
      CCDS58483.1
      UniProtKB/Swiss-Prot
      Q96H22
      Related
      ENSP00000395235.3, ENST00000439957.7
      Conserved Domains (1) summary
      pfam05238
      Location:3319
      CENP-N; Kinetochore protein CHL4 like
    4. NM_001270474.2NP_001257403.1  centromere protein N isoform 5

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) lacks an exon in the coding region and uses an alternate 3' terminal exon compared to variant 1. The resulting protein (isoform 5) is shorter than isoform 1.
      Source sequence(s)
      AC092718, AK023669, AK298554, BC039021, HY363272
      Consensus CDS
      CCDS58482.1
      UniProtKB/Swiss-Prot
      Q96H22
      Related
      ENSP00000393991.2, ENST00000428963.6
      Conserved Domains (1) summary
      pfam05238
      Location:3305
      CENP-N; Kinetochore protein CHL4 like
    5. NM_018455.6NP_060925.2  centromere protein N isoform 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks several exons in the 3' coding region and uses an alternate 3' terminal exon, compared to variant 1. The resulting protein (isoform 3) has a shorter and distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      BC007334, BQ013821, HY167728
      Consensus CDS
      CCDS10931.1
      UniProtKB/TrEMBL
      H3BMC7
      Related
      ENSP00000299572.5, ENST00000299572.9
      Conserved Domains (1) summary
      pfam05238
      Location:3165
      CENP-N; Kinetochore protein CHL4 like

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

      Range
      81007214..81033107
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006721236.5XP_006721299.1  centromere protein N isoform X1

      See identical proteins and their annotated locations for XP_006721299.1

      UniProtKB/Swiss-Prot
      A8MZE6, B3KN53, B4DJD1, B4DPY7, C9JJM5, D3DUK8, E7ES30, E7ETS3, Q96H22, Q9NZ83
      Conserved Domains (1) summary
      pfam05238
      Location:3339
      CENP-N; Kinetochore protein CHL4 like
    2. XM_047434366.1XP_047290322.1  centromere protein N isoform X2

    3. XM_017023456.3XP_016878945.1  centromere protein N isoform X3

      UniProtKB/TrEMBL
      H3BMC7
      Related
      ENSP00000454327.1, ENST00000564669.5
      Conserved Domains (1) summary
      pfam05238
      Location:3165
      CENP-N; Kinetochore protein CHL4 like

    Reference GRCh38.p14 PATCHES

    Genomic

    1. NW_025791800.1 Reference GRCh38.p14 PATCHES

      Range
      55152..81346
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054333194.1XP_054189169.1  centromere protein N isoform X1

      UniProtKB/Swiss-Prot
      A8MZE6, B3KN53, B4DJD1, B4DPY7, C9JJM5, D3DUK8, E7ES30, E7ETS3, Q96H22, Q9NZ83
    2. XM_054333196.1XP_054189171.1  centromere protein N isoform X3

      UniProtKB/TrEMBL
      H3BMC7
    3. XM_054333195.1XP_054189170.1  centromere protein N isoform X2

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060940.1 Alternate T2T-CHM13v2.0

      Range
      87068448..87094631
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054313490.1XP_054169465.1  centromere protein N isoform X1

    2. XM_054313492.1XP_054169467.1  centromere protein N isoform X3

      UniProtKB/TrEMBL
      H3BMC7
    3. XM_054313491.1XP_054169466.1  centromere protein N isoform X2