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Aliases for CHTOP Gene

Aliases for CHTOP Gene

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

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. Among its related pathways are Transport of Mature Transcript to Cytoplasm and RNA Polymerase II Transcription Termination. GO annotations related to this gene include poly(A) RNA binding.

UniProtKB/Swiss-Prot 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 Kaposis 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).

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CHTOP Gene

Genomics for CHTOP Gene

Regulatory Elements for CHTOP Gene

Enhancers for CHTOP Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01F154324 1.5 FANTOM5 ENCODE 75.7 +693.1 693134 5.7 HDGF PKNOX1 CREB3L1 WRNIP1 ZFP64 ARID4B SIN3A ZNF2 YY1 ZNF143 CHTOP LOC101928120 INTS3 THBS3 PYGO2 SLC27A3 RUSC1-AS1 DPM3 ENSG00000272654 ENSG00000238279
GH01F154351 1.4 Ensembl ENCODE 32.6 +719.3 719319 3.8 HDGF PKNOX1 ARNT CREB3L1 ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 CHTOP RUSC1-AS1 INTS3 SLC27A3 THBS3 EFNA4 ENSG00000272030 ENSG00000224784 MIR4258 KRTCAP2
GH01F153669 1.1 ENCODE 34.8 +37.1 37072 3.0 PKNOX1 ARNT CREB3L1 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF143 FOS CHTOP S100A1 SLC27A3 ENSG00000272030 INTS3 ILF2 PIR58220 TRX-CAT1-1
GH01F153696 1.7 FANTOM5 Ensembl ENCODE 20.2 +64.4 64392 3.3 PKNOX1 ARNT CREB3L1 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF143 ZNF207 SLC27A3 INTS3 S100A1 CHTOP ENSG00000272654 ENSG00000272030 S100A12 S100A9 MIR8083 RN7SL372P
GH01F154489 1.6 FANTOM5 Ensembl ENCODE 20 +859.8 859819 8.0 ATF1 PKNOX1 YY1 GATA2 ZNF548 FOS JUNB ZNF488 REST TBX21 SLC27A3 TDRD10 CHTOP KRTCAP2 SHE THBS3 DCST1 UBE2Q1-AS1 UBE2Q1 ENSG00000272030
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around CHTOP on UCSC Golden Path with GeneCards custom track

Promoters for CHTOP Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001524864 818 2401 HDGF PKNOX1 ARNT CREB3L1 MLX ARID4B SIN3A DMAP1 ZNF2 YY1

Genomic Location for CHTOP Gene

Chromosome:
1
Start:
153,633,982 bp from pter
End:
153,646,306 bp from pter
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=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAH70027.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAL55869.1; Type=Frameshift; Positions=181; 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 Lys 16, Lys 81, and Lys 226
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for CHTOP Gene

Domains & Families for CHTOP Gene

Protein Domains for CHTOP Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for CHTOP Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

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

No data available for Gene Families 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 Kaposis 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).

Gene Ontology (GO) - Molecular Function for CHTOP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA --
GO:0005515 protein binding IPI 14667819
GO:0008327 methyl-CpG binding IDA 25284789
GO:0044822 poly(A) RNA binding IDA 22658674
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

Inhibitory RNA Products

Flow Cytometry 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

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:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006369 termination of RNA polymerase II transcription TAS --
GO:0006405 RNA export from nucleus TAS --
GO:0006406 mRNA export from nucleus TAS --
genes like me logo Genes that share ontologies with CHTOP: view

No data available for SIGNOR curated interactions for CHTOP Gene

Transcripts for CHTOP Gene

Unigene Clusters for CHTOP Gene

Chromatin target of PRMT1:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry 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
ECgene alternative splicing isoforms 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, PaxDb, MaxQB, and MOPED for CHTOP Gene



Protein tissue co-expression partners for CHTOP Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CHTOP Gene:

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).
genes like me logo Genes that share expression patterns with CHTOP: view

Primer Products

No data available for mRNA differential expression in normal tissues 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 35
  • 100 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Chtop 35
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CHTOP 34 35
  • 97.58 (n)
dog
(Canis familiaris)
Mammalia CHTOP 34 35
  • 97.58 (n)
oppossum
(Monodelphis domestica)
Mammalia CHTOP 35
  • 94 (a)
OneToOne
chicken
(Gallus gallus)
Aves CHTOP 35
  • 89 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CHTOP 35
  • 90 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.6026 34
African clawed frog
(Xenopus laevis)
Amphibia MGC52883 34
zebrafish
(Danio rerio)
Actinopterygii chtopa 35
  • 71 (a)
OneToMany
chtopb 35
  • 35 (a)
OneToMany
wufb17a05 34
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6891 35
  • 32 (a)
OneToOne
Species where no ortholog for CHTOP was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya 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 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)

Paralogs for CHTOP Gene

No data available for Paralogs for CHTOP Gene

Variants for CHTOP Gene

Sequence variations from dbSNP and Humsavar for CHTOP Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs10158761 -- 153,638,950(+) atctc(A/G)gctca intron-variant
rs10797056 -- 153,641,307(+) GGCTT(A/G)CTAGG intron-variant
rs10908746 -- 153,639,949(+) TTGTA(G/T)TTTTA intron-variant
rs111282933 -- 153,642,620(+) GCAAT(A/G)GTGAG intron-variant
rs111613249 -- 153,640,664(+) TACTC(G/T)GGAGG intron-variant

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)

Relevant External Links for CHTOP Gene

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

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CHTOP Gene

Disorders for CHTOP Gene

Relevant External Links for CHTOP

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CHTOP

No disorders were found for CHTOP Gene.

No data available for MalaCards , 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 A.J. … Grusby M.J. (J. Biol. Chem. 2009) 2 3 4 64
  2. 5-Hydroxymethylcytosine plays a critical role in glioblastomagenesis by recruiting the CHTOP-methylosome complex. (PMID: 25284789) Takai H. … Akiyama T. (Cell Rep 2014) 3 4 64
  3. Chtop is a component of the dynamic TREX mRNA export complex. (PMID: 23299939) Chang C.T. … Wilson S.A. (EMBO J. 2013) 3 4 64
  4. Mapping interactions between mRNA export factors in living cells. (PMID: 23826332) Teng I.F. … Wilson S.A. (PLoS ONE 2013) 3 4 64
  5. Friend of Prmt1, a novel chromatin target of protein arginine methyltransferases. (PMID: 19858291) van Dijk T.B. … Philipsen S. (Mol. Cell. Biol. 2010) 3 4 64

Products for CHTOP Gene

Sources for CHTOP Gene

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