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    CHTOP chromatin target of PRMT1 [ Homo sapiens (human) ]

    Gene ID: 26097, updated on 28-Oct-2024

    Summary

    Official Symbol
    CHTOPprovided by HGNC
    Official Full Name
    chromatin target of PRMT1provided by HGNC
    Primary source
    HGNC:HGNC:24511
    See related
    Ensembl:ENSG00000160679 MIM:614206; AllianceGenome:HGNC:24511
    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
    FOP; SRAG; SRAG-3; SRAG-5; pp7704; C1orf77; FL-SRAG; C10orf77
    Summary
    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]
    Expression
    Ubiquitous expression in testis (RPKM 21.4), spleen (RPKM 20.4) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See CHTOP in Genome Data Viewer
    Location:
    1q21.3
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (153634066..153646306)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (152771330..152783570)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (153606542..153618782)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:153588740-153589240 Neighboring gene S100 calcium binding protein A14 Neighboring gene S100 calcium binding protein A13 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:153599403-153600228 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:153601055-153601878 Neighboring gene S100 calcium binding protein A1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1750 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1342 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1751 Neighboring gene SNAP associated protein Neighboring gene interleukin enhancer binding factor 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1343 Neighboring gene tRNA-iMet (anticodon CAT) 1-1

    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

    • FLJ40551, MGC86949, MGC131924, DKFZp547E1010

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables methyl-CpG 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 chromatin remodeling IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in mRNA export from nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in mRNA export from nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of ATP-dependent activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of helicase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in nuclear speck IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nuclear speck IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of transcription export complex IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    chromatin target of PRMT1 protein
    Names
    friend of PRMT1 protein
    small protein rich in arginine and glycine

    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.

    Genomic

    1. NG_030030.1 RefSeqGene

      Range
      5085..17325
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001206612.2NP_001193541.1  chromatin target of PRMT1 protein isoform 2

      See identical proteins and their annotated locations for NP_001193541.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate, in-frame acceptor splice site in the coding region compared to variant 1. The resulting isoform (2) is 1 aa longer than isoform 1.
      Source sequence(s)
      AI929184, BC108721, BC120961, DC387712
      Consensus CDS
      CCDS72917.1
      UniProtKB/TrEMBL
      A0AA34QVV3
      Related
      ENSP00000357679.4, ENST00000368690.7
      Conserved Domains (1) summary
      pfam13865
      Location:210244
      FoP_duplication; C-terminal duplication domain of Friend of PRMT1
    2. NM_001244664.2NP_001231593.1  chromatin target of PRMT1 protein isoform 3

      See identical proteins and their annotated locations for NP_001231593.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks two consecutive exons in the coding region, which results in a translational frameshift compared to variant 1. The resulting isoform (3) has a distinct C-terminus and is shorter than isoform 1.
      Source sequence(s)
      AF318362, AL162258, BC108721, BP375397, DC387712
      Consensus CDS
      CCDS72918.1
      UniProtKB/TrEMBL
      A0A087X1B7
      Related
      ENSP00000484038.1, ENST00000614256.4
    3. NM_001317077.2NP_001304006.1  chromatin target of PRMT1 protein isoform 4

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) lacks an in-frame coding exon in the 3' region compared to variant 1. The resulting isoform (4, also known as SRAG-5) is shorter, lacking an internal protein segment compared to isoform 1.
      Source sequence(s)
      AF261137, AI929184, BC108721
      Consensus CDS
      CCDS81380.1
      UniProtKB/Swiss-Prot
      Q9Y3Y2
      Related
      ENSP00000385228.1, ENST00000403433.5
      Conserved Domains (1) summary
      pfam13865
      Location:162197
      FoP_duplication; C-terminal duplication domain of Friend of PRMT1
    4. NM_015607.4NP_056422.2  chromatin target of PRMT1 protein isoform 1

      See identical proteins and their annotated locations for NP_056422.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes isoform 1.
      Source sequence(s)
      AF261137, AI929184, BC108721
      Consensus CDS
      CCDS1048.1
      UniProtKB/Swiss-Prot
      D3DV55, Q0VAQ8, Q2VPI9, Q5T7Y8, Q5T7Y9, Q5T7Z0, Q6NSM4, Q6PB28, Q8WYT9, Q9BUC5, Q9H034, Q9H2L0, Q9Y3Y2
      UniProtKB/TrEMBL
      A0AA34QVV3
      Related
      ENSP00000357683.3, ENST00000368694.8
      Conserved Domains (1) summary
      pfam13865
      Location:209243
      FoP_duplication; C-terminal duplication domain of Friend of PRMT1

    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_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      153634066..153646306
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017000993.2XP_016856482.1  chromatin target of PRMT1 protein isoform X1

      Conserved Domains (1) summary
      pfam13865
      Location:163198
      FoP_duplication; C-terminal duplication domain of Friend of PRMT1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      152771330..152783570
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054335899.1XP_054191874.1  chromatin target of PRMT1 protein isoform X1