This gene encodes a small nuclear protein that is characterized by an arginine and glycine rich region. This protein may have an important role in the regulation of fetal globin gene expression and in the activation of estrogen-responsive genes. A recent study reported that this protein binds 5-hydroxymethylcytosine (5hmC) and associates with an arginine methyltransferase compl... See more...

Aliases for CHTOP Gene

Aliases for CHTOP Gene

  • Chromatin Target Of PRMT1 2 3 5
  • SRAG 2 3 4
  • FOP 2 3 4
  • Small Protein Rich In Arginine And Glycine 2 3
  • Chromatin Target Of PRMT1 Protein 3 4
  • Friend Of PRMT1 Protein 3 4
  • C1orf77 3 4
  • Small Arginine- And Glycine-Rich Protein 4
  • Chromosome 1 Open Reading Frame 77 2
  • Friend Of Prmt1 2
  • DKFZP547E1010 2
  • C10orf77 3
  • FL-SRAG 3
  • SRAG-3 3
  • SRAG-5 3
  • Pp7704 3
  • CHTOP 5

External Ids for CHTOP Gene

Previous HGNC Symbols for CHTOP Gene

  • C1orf77

Previous GeneCards Identifiers for CHTOP Gene

  • GC01P153607

Summaries for CHTOP Gene

Entrez Gene Summary for CHTOP Gene

  • This gene encodes a small nuclear protein that is characterized by an arginine and glycine rich region. This protein may have an important role in the regulation of fetal globin gene expression and in the activation of estrogen-responsive genes. A recent study reported that this protein binds 5-hydroxymethylcytosine (5hmC) and associates with an arginine methyltransferase complex (methylosome), which promotes methylation of arginine 3 of histone H4 (H4R3) and activation of genes involved in glioblastomagenesis. Alternatively spliced transcript variants encoding different isoforms have been described for this gene. [provided by RefSeq, Nov 2015]

GeneCards Summary for CHTOP Gene

CHTOP (Chromatin Target Of PRMT1) is a Protein Coding gene. Diseases associated with CHTOP include Farmer's Lung. Among its related pathways are Cleavage of Growing Transcript in the Termination Region and Transport of Mature Transcript to Cytoplasm. An important paralog of this gene is ALYREF.

UniProtKB/Swiss-Prot Summary for CHTOP Gene

  • Plays an important role in the ligand-dependent activation of estrogen receptor target genes (PubMed:19858291). May play a role in the silencing of fetal globin genes (PubMed:20688955). Recruits the 5FMC complex to ZNF148, leading to desumoylation of ZNF148 and subsequent transactivation of ZNF148 target genes (By similarity). Plays an important role in the tumorigenicity of glioblastoma cells. Binds to 5-hydroxymethylcytosine (5hmC) and associates with the methylosome complex containing PRMT1, PRMT5, MEP50 and ERH. The CHTOP-methylosome complex associated with 5hmC is recruited to selective sites on the chromosome, where it methylates H4R3 and activates the transcription of genes involved in glioblastomagenesis (PubMed:25284789).
  • Required for effective mRNA nuclear export and is a component of the TREX complex which is thought to couple mRNA transcription, processing and nuclear export, and specifically associates with spliced mRNA and not with unspliced pre-mRNA. TREX is recruited to spliced mRNAs by a transcription-independent mechanism, binds to mRNA upstream of the exon-junction complex (EJC) and is recruited in a splicing- and cap-dependent manner to a region near the 5' end of the mRNA where it functions in mRNA export to the cytoplasm via the TAP/NFX1 pathway. The TREX complex is essential for the export of Kaposi's sarcoma-associated herpesvirus (KSHV) intronless mRNAs and infectious virus production. Stimulates DDX39B ATPase and helicase activities. In cooperation with ALYREF/THOC4 enhances NXF1 RNA binding activity (PubMed:23299939).

Additional gene information for CHTOP Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CHTOP Gene

Genomics for CHTOP Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for CHTOP Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CHTOP on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for CHTOP

Genomic Locations for CHTOP Gene

Genomic Locations for CHTOP Gene
chr1:153,633,982-153,646,306
(GRCh38/hg38)
Size:
12,325 bases
Orientation:
Plus strand
chr1:153,606,458-153,618,782
(GRCh37/hg19)
Size:
12,325 bases
Orientation:
Plus strand

Genomic View for CHTOP Gene

Genes around CHTOP on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CHTOP Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CHTOP Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CHTOP Gene

Proteins for CHTOP Gene

  • Protein details for CHTOP Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y3Y2-CHTOP_HUMAN
    Recommended name:
    Chromatin target of PRMT1 protein
    Protein Accession:
    Q9Y3Y2
    Secondary Accessions:
    • D3DV55
    • Q0VAQ8
    • Q2VPI9
    • Q5T7Y8
    • Q5T7Y9
    • Q5T7Z0
    • Q6NSM4
    • Q6PB28
    • Q8WYT9
    • Q9BUC5
    • Q9H034
    • Q9H2L0

    Protein attributes for CHTOP Gene

    Size:
    248 amino acids
    Molecular mass:
    26397 Da
    Quaternary structure:
    • Interacts with PRMT1 and PRMT5 (PubMed:25284789). Interacts with the 5FMC complex; the interaction is methylation-dependent. Interacts with FYTTD1, SET and PRC1 complex members CBX4, RNF2 and PHC2; the interactions are methylation-independent. Interacts with ZNF148 (By similarity). Component of the transcription/export (TREX) complex at least composed of ALYREF/THOC4, DDX39B, SARNP/CIP29, CHTOP and the THO subcomplex; TREX seems to have dynamic structure involving ATP-dependent remodeling; in the complex interacts (methylated) with ALYREF/THOC4 and with DDX39B in a methylation-independent manner. Interacts (methylated) with NXF1; the interaction is mutually exclusive with the NXF1:THOC5 interaction (PubMed:23299939, PubMed:23826332). Interacts with WDR77 and ERH (PubMed:25284789).
    SequenceCaution:
    • Sequence=AAH02733.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305}; Sequence=AAH70027.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305}; Sequence=AAL55869.1; Type=Frameshift; Evidence={ECO:0000305};

    Alternative splice isoforms for CHTOP Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CHTOP Gene

Post-translational modifications for CHTOP Gene

  • Asymmetrically methylated by PRMT1 (PubMed:25284789). Symmetrically methylated by PRMT5 (By similarity).
  • Ubiquitination at Lys16, Lys81, and Lys226
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for CHTOP Gene

Domains & Families for CHTOP Gene

Gene Families for CHTOP Gene

Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for CHTOP Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for CHTOP Gene

GenScript: Design optimal peptide antigens:
  • Small arginine- and glycine-rich protein (CHTOP_HUMAN)
genes like me logo Genes that share domains with CHTOP: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for CHTOP Gene

Function for CHTOP Gene

Molecular function for CHTOP Gene

UniProtKB/Swiss-Prot Function:
Plays an important role in the ligand-dependent activation of estrogen receptor target genes (PubMed:19858291). May play a role in the silencing of fetal globin genes (PubMed:20688955). Recruits the 5FMC complex to ZNF148, leading to desumoylation of ZNF148 and subsequent transactivation of ZNF148 target genes (By similarity). Plays an important role in the tumorigenicity of glioblastoma cells. Binds to 5-hydroxymethylcytosine (5hmC) and associates with the methylosome complex containing PRMT1, PRMT5, MEP50 and ERH. The CHTOP-methylosome complex associated with 5hmC is recruited to selective sites on the chromosome, where it methylates H4R3 and activates the transcription of genes involved in glioblastomagenesis (PubMed:25284789).
UniProtKB/Swiss-Prot Function:
Required for effective mRNA nuclear export and is a component of the TREX complex which is thought to couple mRNA transcription, processing and nuclear export, and specifically associates with spliced mRNA and not with unspliced pre-mRNA. TREX is recruited to spliced mRNAs by a transcription-independent mechanism, binds to mRNA upstream of the exon-junction complex (EJC) and is recruited in a splicing- and cap-dependent manner to a region near the 5' end of the mRNA where it functions in mRNA export to the cytoplasm via the TAP/NFX1 pathway. The TREX complex is essential for the export of Kaposi's sarcoma-associated herpesvirus (KSHV) intronless mRNAs and infectious virus production. Stimulates DDX39B ATPase and helicase activities. In cooperation with ALYREF/THOC4 enhances NXF1 RNA binding activity (PubMed:23299939).

Phenotypes From GWAS Catalog for CHTOP Gene

Gene Ontology (GO) - Molecular Function for CHTOP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA,HDA 22658674
GO:0005515 protein binding IPI 14667819
GO:0008327 methyl-CpG binding IDA 25284789
genes like me logo Genes that share ontologies with CHTOP: view
genes like me logo Genes that share phenotypes with CHTOP: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CHTOP

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CHTOP Gene

Localization for CHTOP Gene

Subcellular locations from UniProtKB/Swiss-Prot for CHTOP Gene

Nucleus. Nucleus, nucleolus. Nucleus, nucleoplasm. Nucleus speckle. Note=Mostly associated with facultative heterochromatin (By similarity). Localizes to regions surrounding nuclear speckles known as perispeckles in which TREX complex assembly seems to occur (PubMed:23826332). {ECO:0000250 UniProtKB:Q9CY57, ECO:0000269 PubMed:23826332}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CHTOP gene
Compartment Confidence
nucleus 5
mitochondrion 2
extracellular 1
cytoskeleton 1
endoplasmic reticulum 1
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear speckles (4)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for CHTOP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000346 transcription export complex IDA 23299939
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
GO:0005730 nucleolus IEA --
GO:0016607 nuclear speck IEA,IDA 23299939
genes like me logo Genes that share ontologies with CHTOP: view

Pathways & Interactions for CHTOP Gene

genes like me logo Genes that share pathways with CHTOP: view

Gene Ontology (GO) - Biological Process for CHTOP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001701 in utero embryonic development IEA --
GO:0006405 RNA export from nucleus TAS --
GO:0006406 mRNA export from nucleus TAS --
GO:0008284 positive regulation of cell proliferation IMP 25284789
GO:0031062 positive regulation of histone methylation IMP 25284789
genes like me logo Genes that share ontologies with CHTOP: view

No data available for SIGNOR curated interactions for CHTOP Gene

Drugs & Compounds for CHTOP Gene

No Compound Related Data Available

Transcripts for CHTOP Gene

mRNA/cDNA for CHTOP Gene

4 REFSEQ mRNAs :
17 NCBI additional mRNA sequence :
7 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CHTOP

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CHTOP Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b · 3c · 3d ^ 4 ^ 5a · 5b · 5c ^ 6a · 6b · 6c ^ 7a · 7b · 7c · 7d · 7e · 7f
SP1: - - - - -
SP2: - - - - -
SP3: - - - - - - - - - -
SP4: - - -
SP5: - -
SP6: - - - - - - -
SP7: - - - - -
SP8: - - - - -
SP9: - - - - - - -
SP10: - - - -
SP11:
SP12: -

Relevant External Links for CHTOP Gene

GeneLoc Exon Structure for
CHTOP

Expression for CHTOP Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for CHTOP Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for CHTOP Gene

This gene is overexpressed in Peripheral blood mononuclear cells (10.0) and Testis (8.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for CHTOP Gene



Protein tissue co-expression partners for CHTOP Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for CHTOP

SOURCE GeneReport for Unigene cluster for CHTOP Gene:

Hs.611057

mRNA Expression by UniProt/SwissProt for CHTOP Gene:

Q9Y3Y2-CHTOP_HUMAN
Tissue specificity: Expressed in an erythroid progenitor cell line derived from peripheral blood. Expressed in glioblastoma cells (PubMed:25284789).

Evidence on tissue expression from TISSUES for CHTOP Gene

  • Nervous system(4.9)
  • Liver(4.6)
  • Lymph node(4.3)
  • Eye(4.2)
  • Kidney(3)
  • Lung(2.9)
  • Pancreas(2.5)
  • Intestine(2.4)
  • Skin(2.3)
  • Muscle(2.1)
  • Heart(2.1)
genes like me logo Genes that share expression patterns with CHTOP: view

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for CHTOP Gene

Orthologs for CHTOP Gene

This gene was present in the common ancestor of chordates.

Orthologs for CHTOP Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia CHTOP 31
  • 100 (a)
OneToOne
Mouse
(Mus musculus)
Mammalia Chtop 31
  • 99 (a)
OneToOne
Dog
(Canis familiaris)
Mammalia CHTOP 30 31
  • 97.58 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia CHTOP 30 31
  • 97.58 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia CHTOP 31
  • 94 (a)
OneToOne
Chicken
(Gallus gallus)
Aves CHTOP 31
  • 89 (a)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia CHTOP 31
  • 90 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia MGC52883 30
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia Str.6026 30
Zebrafish
(Danio rerio)
Actinopterygii chtopa 31
  • 71 (a)
OneToMany
chtopb 31
  • 35 (a)
OneToMany
wufb17a05 30
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.6891 31
  • 32 (a)
OneToOne
Species where no ortholog for CHTOP was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Fruit Fly (Drosophila melanogaster)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rat (Rattus norvegicus)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for CHTOP Gene

ENSEMBL:
Gene Tree for CHTOP (if available)
TreeFam:
Gene Tree for CHTOP (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CHTOP: view image

Paralogs for CHTOP Gene

Paralogs for CHTOP Gene

genes like me logo Genes that share paralogs with CHTOP: view

Variants for CHTOP Gene

Additional dbSNP identifiers (rs#s) for CHTOP Gene

Structural Variations from Database of Genomic Variants (DGV) for CHTOP Gene

Variant ID Type Subtype PubMed ID
dgv582n54 CNV gain 21841781

Variation tolerance for CHTOP Gene

Residual Variation Intolerance Score: 52.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.85; 34.68% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CHTOP Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CHTOP

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for CHTOP Gene

Disorders for CHTOP Gene

MalaCards: The human disease database

(1) MalaCards diseases for CHTOP Gene - From: DISEASES

Disorder Aliases PubMed IDs
farmer's lung
  • farmer lung
- elite association - COSMIC cancer census association via MalaCards
Search CHTOP in MalaCards View complete list of genes associated with diseases
genes like me logo Genes that share disorders with CHTOP: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CHTOP Gene

Publications for CHTOP Gene

  1. Identification of the small protein rich in arginine and glycine (SRAG): a newly identified nucleolar protein that can regulate cell proliferation. (PMID: 19254951) Zullo AJ … Grusby MJ (The Journal of biological chemistry 2009) 2 3 4
  2. 5-Hydroxymethylcytosine plays a critical role in glioblastomagenesis by recruiting the CHTOP-methylosome complex. (PMID: 25284789) Takai H … Akiyama T (Cell reports 2014) 3 4
  3. Mapping interactions between mRNA export factors in living cells. (PMID: 23826332) Teng IF … Wilson SA (PloS one 2013) 3 4
  4. Chtop is a component of the dynamic TREX mRNA export complex. (PMID: 23299939) Chang CT … Wilson SA (The EMBO journal 2013) 3 4
  5. Friend of Prmt1, a novel chromatin target of protein arginine methyltransferases. (PMID: 19858291) van Dijk TB … Philipsen S (Molecular and cellular biology 2010) 3 4

Products for CHTOP Gene

Sources for CHTOP Gene