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CENPX centromere protein X [ Homo sapiens (human) ]

Gene ID: 201254, updated on 1-Mar-2024

Summary

Official Symbol
CENPXprovided by HGNC
Official Full Name
centromere protein Xprovided by HGNC
Primary source
HGNC:HGNC:11422
See related
Ensembl:ENSG00000169689 MIM:615128; AllianceGenome:HGNC:11422
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
D9; MHF2; CENP-X; FAAP10; STRA13
Summary
Enables DNA binding activity. Contributes to double-stranded DNA binding activity. Involved in replication fork processing and resolution of meiotic recombination intermediates. Part of FANCM-MHF complex and Fanconi anaemia nuclear complex. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in prostate (RPKM 17.1), colon (RPKM 14.3) and 25 other tissues See more
Orthologs
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Genomic context

See CENPX in Genome Data Viewer
Location:
17q25.3
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (82018703..82022878, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (82885862..82890037, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (79976579..79980754, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124904087 Neighboring gene uncharacterized LOC105371939 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:79934117-79934890 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:79934891-79935662 Neighboring gene ASPSCR1 tether for SLC2A4, UBX domain containing Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:79947643-79948352 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:79949063-79949770 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:79951899-79952606 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:79958937-79959584 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:79961033-79961554 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:79961555-79962076 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:79962077-79962598 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:79963388-79963894 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:79966024-79966524 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:79972873-79973594 Neighboring gene Sharpr-MPRA regulatory region 10297 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:79974318-79975039 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:79979009-79979681 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:79981231-79982154 Neighboring gene leucine rich repeat containing 45 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:79987649-79988172 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9180 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9181 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9182 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9183 Neighboring gene Rac family small GTPase 3

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

Clone Names

  • MGC14480

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
contributes_to double-stranded DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in cell division IEA
Inferred from Electronic Annotation
more info
 
involved_in chromosome segregation NAS
Non-traceable Author Statement
more info
PubMed 
involved_in interstrand cross-link repair IDA
Inferred from Direct Assay
more info
PubMed 
involved_in kinetochore assembly IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of protein ubiquitination TAS
Traceable Author Statement
more info
PubMed 
involved_in replication fork processing IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in replication fork processing IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in resolution of meiotic recombination intermediates IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in resolution of meiotic recombination intermediates IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
part_of FANCM-MHF complex IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of FANCM-MHF complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of FANCM-MHF complex IPI
Inferred from Physical Interaction
more info
PubMed 
part_of Fanconi anaemia nuclear complex IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of Fanconi anaemia nuclear complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of chromatin IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytosol TAS
Traceable Author Statement
more info
 
part_of inner kinetochore IPI
Inferred from Physical Interaction
more info
PubMed 
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 X
Names
FANCM associated histone fold protein 2
FANCM-interacting histone fold protein 2
Fanconi anemia-associated polypeptide of 10 kDa
retinoic acid-inducible gene D9 protein homolog
stimulated by retinoic acid 13 homolog
stimulated by retinoic acid gene 13 protein homolog

NCBI Reference Sequences (RefSeq)

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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_001271006.2NP_001257935.1  centromere protein X isoform 1

    See identical proteins and their annotated locations for NP_001257935.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    BQ648002, HY110543
    Consensus CDS
    CCDS59303.1
    UniProtKB/Swiss-Prot
    A8MT69, O00281, O00282, Q96DD4, Q96F51
    UniProtKB/TrEMBL
    J3QR01
    Related
    ENSP00000376168.3, ENST00000392359.8
    Conserved Domains (1) summary
    pfam09415
    Location:1280
    CENP-X; CENP-S associating Centromere protein X
  2. NM_001271007.2NP_001257936.1  centromere protein X isoform 3

    See identical proteins and their annotated locations for NP_001257936.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an exon in the coding region, and uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. The encoded isoform (3) is shorter, compared to isoform 1.
    Source sequence(s)
    AC137723, BC011610
    Consensus CDS
    CCDS59302.1
    UniProtKB/Swiss-Prot
    A8MT69
    Related
    ENSP00000462015.1, ENST00000580435.5
    Conserved Domains (1) summary
    pfam09415
    Location:1256
    CENP-X; CENP-S associating Centromere protein X
  3. NM_001330536.2NP_001317465.1  centromere protein X isoform 4

    Status: VALIDATED

    Source sequence(s)
    BC011610, CB110145, HY070528, HY092955
    Consensus CDS
    CCDS82223.1
    UniProtKB/TrEMBL
    J3QRS1
    Related
    ENSP00000464357.1, ENST00000584347.1
    Conserved Domains (1) summary
    pfam09415
    Location:1246
    CENP-X; CENP-S associating Centromere protein X
  4. NM_144998.4NP_659435.2  centromere protein X isoform 2

    See identical proteins and their annotated locations for NP_659435.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an exon in the coding region, compared to variant 1. The encoded isoform (2) is shorter, compared to isoform 1.
    Source sequence(s)
    BC009571, BC011610
    Consensus CDS
    CCDS32772.1
    UniProtKB/Swiss-Prot
    A8MT69
    Related
    ENSP00000302951.6, ENST00000306704.10
    Conserved Domains (1) summary
    pfam09415
    Location:1262
    CENP-X; CENP-S associating Centromere protein X

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    82018703..82022878 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024450639.2XP_024306407.1  centromere protein X isoform X1

    Conserved Domains (1) summary
    pfam09415
    Location:1246
    CENP-X; CENP-S associating Centromere protein X

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    82885862..82890037 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054315368.1XP_054171343.1  centromere protein X isoform X1