U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Chtop chromatin target of PRMT1 [ Mus musculus (house mouse) ]

    Gene ID: 66511, updated on 27-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Chtopprovided by MGI
    Official Full Name
    chromatin target of PRMT1provided by MGI
    Primary source
    MGI:MGI:1913761
    See related
    Ensembl:ENSMUSG00000001017 AllianceGenome:MGI:1913761
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Fop; Srag; 2500003M10Rik
    Summary
    Predicted to enable methyl-CpG binding activity. Acts upstream of or within in utero embryonic development. Predicted to be located in nucleolus. Predicted to be part of transcription export complex. Predicted to be active in nuclear speck. Is expressed in several structures, including alimentary system; dorsal root ganglion; integumental system; olfactory epithelium; and thymus. Orthologous to human CHTOP (chromatin target of PRMT1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 23.1), CNS E14 (RPKM 20.3) and 28 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Chtop in Genome Data Viewer
    Location:
    3 F1; 3 39.24 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (90405846..90417400, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (90498539..90509527, complement)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E56 Neighboring gene nuclear encoded tRNA methionine 11 (anticodon CAT) Neighboring gene interleukin enhancer binding factor 2 Neighboring gene STARR-positive B cell enhancer ABC_E2084 Neighboring gene SNAP-associated protein Neighboring gene STARR-positive B cell enhancer ABC_E2085 Neighboring gene STARR-seq mESC enhancer starr_08290 Neighboring gene S100 calcium binding protein A1 Neighboring gene S100 calcium binding protein A13 Neighboring gene S100 calcium binding protein A14

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. CHTOP Promotes Microglia-Mediated Inflammation by Regulating Cell Metabolism and Inflammatory Gene Expression. Zhou X, et al. J Immunol, 2024 Feb 15. PMID 38117276
    2. Identification of the small protein rich in arginine and glycine (SRAG): a newly identified nucleolar protein that can regulate cell proliferation. Zullo AJ, et al. J Biol Chem, 2009 May 1. PMID 19254951, Free PMC Article
    3. Fetal globin expression is regulated by Friend of Prmt1. van Dijk TB, et al. Blood, 2010 Nov 18. PMID 20688955, Free PMC Article
    4. Friend of Prmt1, a novel chromatin target of protein arginine methyltransferases. van Dijk TB, et al. Mol Cell Biol, 2010 Jan. PMID 19858291, Free PMC Article
    5. Compromised transcription-mRNA export factor THOC2 causes R-loop accumulation, DNA damage and adverse neurodevelopment. Bhattacharjee R, et al. Nat Commun, 2024 Feb 8. PMID 38331934, Free PMC Article

    See all (37) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. CHTOP Promotes Microglia-Mediated Inflammation by Regulating Cell Metabolism and Inflammatory Gene Expression.
      Title: CHTOP Promotes Microglia-Mediated Inflammation by Regulating Cell Metabolism and Inflammatory Gene Expression.
    2. The recently identified chromatin factor Friend of Prmt1 (FOP) is a critical modulator of gamma-globin gene expression.
      Title: Fetal globin expression is regulated by Friend of Prmt1.
    3. Fop is tightly associated with chromatin, and that it is modified by both asymmetric and symmetric arginine methylation in vivo. Fop plays an important role in the ligand-dependent activation of estrogen receptor target genes, including TFF1 (pS2).
      Title: Friend of Prmt1, a novel chromatin target of protein arginine methyltransferases.
    Submit: New GeneRIF Correction

    Variation

    Go to the top of the page Help

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (1) 

    Pathways from PubChem

    Go to the top of the page

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables methyl-CpG binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables methyl-CpG binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in chromatin remodeling ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within in utero embryonic development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in mRNA export from nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of ATP-dependent activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of helicase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nuclear speck IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nuclear speck IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of transcription export complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    chromatin target of PRMT1 protein
    Names
    Friend of PRMT1 protein
    small arginine- and glycine-rich protein
    small protein rich in arginine and glycine

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001293776.1 → NP_001280705.1  chromatin target of PRMT1 protein isoform 1

      See identical proteins and their annotated locations for NP_001280705.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AC160552, AK047914, BE852996
      Consensus CDS
      CCDS79968.1
      UniProtKB/Swiss-Prot
      Q0VBG3, Q3U7V6, Q3UF43, Q3V105, Q5XJG9, Q8C5N4, Q9CY57, Q9D7T3, Q9DB03, Q9DC54, Q9JJ95
      UniProtKB/TrEMBL
      Q2VPR3
      Related
      ENSMUSP00000061800.7, ENSMUST00000049937.13
      Conserved Domains (1) summary
      pfam13865
      Location:208 → 244
      FoP_duplication; C-terminal duplication domain of Friend of PRMT1

    2. NM_001293777.1 → NP_001280706.1  chromatin target of PRMT1 protein isoform 2

      See identical proteins and their annotated locations for NP_001280706.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AC160552, AK047914, BE852996, CX234428
      UniProtKB/TrEMBL
      Q2VPR3
      Conserved Domains (1) summary
      pfam13865
      Location:207 → 243
      FoP_duplication; C-terminal duplication domain of Friend of PRMT1

    3. NM_001293778.1 → NP_001280707.1  chromatin target of PRMT1 protein isoform 4

      See identical proteins and their annotated locations for NP_001280707.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks an in-frame exon in the 3' coding region compared to variant 1. The encoded isoform (4) is shorter than isoform 1.
      Source sequence(s)
      AC160552, AK047914, BE852996, BQ746440
      Consensus CDS
      CCDS79967.1
      UniProtKB/TrEMBL
      E9PW20, Q2VPR3
      Related
      ENSMUSP00000102969.2, ENSMUST00000107346.8
      Conserved Domains (1) summary
      pfam13865
      Location:162 → 198
      FoP_duplication; C-terminal duplication domain of Friend of PRMT1

    4. NM_001293779.1 → NP_001280708.1  chromatin target of PRMT1 protein isoform 5

      See identical proteins and their annotated locations for NP_001280708.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) uses an alternate in-frame splice site in the 5' coding region and lacks an in-frame exon in the 3' coding region compared to variant 1. The encoded isoform (5) is shorter than isoform 1.
      Source sequence(s)
      AC160552, AK005377, BE852996
      Consensus CDS
      CCDS79966.1
      UniProtKB/TrEMBL
      Q2VPR3
      Related
      ENSMUSP00000075936.5, ENSMUST00000076639.11
      Conserved Domains (1) summary
      pfam13865
      Location:161 → 197
      FoP_duplication; C-terminal duplication domain of Friend of PRMT1

    5. NM_001293780.1 → NP_001280709.1  chromatin target of PRMT1 protein isoform 6

      See identical proteins and their annotated locations for NP_001280709.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) differs in the 5' UTR and has multiple differences in the coding region, but maintains the reading frame compared to variant 1. One of these differences results in translation initiation at a downstream start codon compared to variant 1. The encoded isoform (6) has a shorter N-terminus compared to isoform 1.
      Source sequence(s)
      AC160552
      Consensus CDS
      CCDS79965.1
      UniProtKB/TrEMBL
      B7ZMS6
      Related
      ENSMUSP00000102966.2, ENSMUST00000107343.8
      Conserved Domains (1) summary
      pfam13865
      Location:138 → 175
      FoP_duplication; C-terminal duplication domain of Friend of PRMT1

    6. NM_001293781.1 → NP_001280710.1  chromatin target of PRMT1 protein isoform 7

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) differs in the 5' UTR and has multiple differences in the coding region, but maintains the reading frame compared to variant 1. One of these differences results in translation initiation at a downstream start codon compared to variant 1. The encoded isoform (7) has a shorter N-terminus compared to isoform 1.
      Source sequence(s)
      AC160552, AK047914, AK077960, BE852996
      Consensus CDS
      CCDS79964.1
      UniProtKB/Swiss-Prot
      Q9CY57
      Related
      ENSMUSP00000102965.2, ENSMUST00000107342.2
      Conserved Domains (1) summary
      pfam13865
      Location:136 → 172
      FoP_duplication; C-terminal duplication domain of Friend of PRMT1

    7. NM_001293782.1 → NP_001280711.1  chromatin target of PRMT1 protein isoform 3

      See identical proteins and their annotated locations for NP_001280711.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (8) differs in the 5' UTR, lacks a portion of the 5' coding region, and uses a downstream start codon compared to variant 1. The encoded isoform (3) has a shorter N-terminus compared to isoform 1. Variants 3 and 8 encode the same isoform.
      Source sequence(s)
      AC160552, BC051939, BE852996
      Consensus CDS
      CCDS17532.1
      UniProtKB/TrEMBL
      Q2VPR3
      Related
      ENSMUSP00000102967.2, ENSMUST00000107344.8
      Conserved Domains (1) summary
      pfam13865
      Location:183 → 219
      FoP_duplication; C-terminal duplication domain of Friend of PRMT1

    8. NM_023215.6 → NP_075704.2  chromatin target of PRMT1 protein isoform 3

      See identical proteins and their annotated locations for NP_075704.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region, and uses a downstream start codon compared to variant 1. The encoded isoform (3) has a shorter N-terminus compared to isoform 1. Variants 3 and 8 encode the same isoform.
      Source sequence(s)
      AC160552, AK004558, BE852996
      Consensus CDS
      CCDS17532.1
      UniProtKB/TrEMBL
      Q2VPR3
      Related
      ENSMUSP00000001043.8, ENSMUST00000001043.14
      Conserved Domains (1) summary
      pfam13865
      Location:183 → 219
      FoP_duplication; C-terminal duplication domain of Friend of PRMT1

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000069.7 Reference GRCm39 C57BL/6J

      Range
      90405846..90417400 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_004941377.1 RNA Sequence

    2. XR_867226.4 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9CY57.2 GenPept UniProtKB/Swiss-Prot:Q9CY57

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous