U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

CENPN centromere protein N [ Homo sapiens (human) ]

Gene ID: 55839, updated on 10-Oct-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 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

  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

  3. XM_054313491.1XP_054169466.1  centromere protein N isoform X2