Human Gene CHTOP (ENST00000368694.8_8) from GENCODE V47lift37
  Description: chromatin target of PRMT1, transcript variant 1 (from RefSeq NM_015607.4)
Gencode Transcript: ENST00000368694.8_8
Gencode Gene: ENSG00000160679.14_13
Transcript (Including UTRs)
   Position: hg19 chr1:153,606,542-153,618,782 Size: 12,241 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg19 chr1:153,609,065-153,617,745 Size: 8,681 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:153,606,542-153,618,782)mRNA (may differ from genome)Protein (248 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CHTOP_HUMAN
DESCRIPTION: RecName: Full=Chromatin target of PRMT1 protein; AltName: Full=Friend of PRMT1 protein; AltName: Full=Small arginine- and glycine-rich protein; Short=SRAG;
FUNCTION: Plays an important role in the ligand-dependent activation of estrogen receptor target genes. May play a role in the silencing of fetal globin genes.
SUBUNIT: Interacts with PRMT1.
SUBCELLULAR LOCATION: Nucleus. Nucleus, nucleolus. Note=Associated with facultative heterochromatin.
DEVELOPMENTAL STAGE: Broadly expressed at E16.5.
PTM: Asymmetrically methylated by PRMT1. Symmetrically methylated by PRMT5.
SEQUENCE CAUTION: Sequence=AAH02733.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=AAH70027.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=AAL55869.1; Type=Frameshift; Positions=181;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 23.89 RPKM in Thyroid
Total median expression: 792.85 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -109.00295-0.369 Picture PostScript Text
3' UTR -271.201037-0.262 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR025715 - FoP_duplication

Pfam Domains:
PF13865 - C-terminal duplication domain of Friend of PRMT1

ModBase Predicted Comparative 3D Structure on Q9Y3Y2
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0005515 protein binding
GO:0008327 methyl-CpG binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006405 RNA export from nucleus
GO:0006406 mRNA export from nucleus
GO:0008284 positive regulation of cell proliferation
GO:0031062 positive regulation of histone methylation
GO:0031124 mRNA 3'-end processing
GO:0032781 positive regulation of ATPase activity
GO:0051028 mRNA transport
GO:0051096 positive regulation of helicase activity

Cellular Component:
GO:0000346 transcription export complex
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005730 nucleolus
GO:0016607 nuclear speck
GO:0036464 cytoplasmic ribonucleoprotein granule


-  Descriptions from all associated GenBank mRNAs
  KJ902416 - Synthetic construct Homo sapiens clone ccsbBroadEn_11810 CHTOP gene, encodes complete protein.
AF261137 - Homo sapiens HT031 mRNA, complete cds.
AK095230 - Homo sapiens cDNA FLJ37911 fis, clone CTONG1000052.
AF318362 - Homo sapiens pp7704 mRNA, complete cds.
BC120961 - Homo sapiens chromosome 1 open reading frame 77, mRNA (cDNA clone MGC:149447 IMAGE:40115305), complete cds.
BC120962 - Homo sapiens chromosome 1 open reading frame 77, mRNA (cDNA clone MGC:149448 IMAGE:40115306), complete cds.
BC108721 - Homo sapiens chromosome 1 open reading frame 77, mRNA (cDNA clone MGC:131924 IMAGE:4450075), complete cds.
AL512704 - Homo sapiens mRNA; cDNA DKFZp667H066 (from clone DKFZp667H066).
BC059949 - Homo sapiens chromosome 1 open reading frame 77, mRNA (cDNA clone IMAGE:5501425), partial cds.
BC002733 - Homo sapiens chromosome 1 open reading frame 77, mRNA (cDNA clone IMAGE:3632227), complete cds.
AK097870 - Homo sapiens cDNA FLJ40551 fis, clone THYMU2002162.
AK308713 - Homo sapiens cDNA, FLJ98754.
AK309844 - Homo sapiens cDNA, FLJ99885.
JD073470 - Sequence 54494 from Patent EP1572962.
JD191432 - Sequence 172456 from Patent EP1572962.
JD422423 - Sequence 403447 from Patent EP1572962.
AL050260 - Homo sapiens mRNA; cDNA DKFZp564E1082 (from clone DKFZp564E1082).
BC070027 - Homo sapiens chromosome 1 open reading frame 77, mRNA (cDNA clone IMAGE:30340083), complete cds.
JD342531 - Sequence 323555 from Patent EP1572962.
JD061521 - Sequence 42545 from Patent EP1572962.
JD114094 - Sequence 95118 from Patent EP1572962.
JD506423 - Sequence 487447 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9Y3Y2 (Reactome details) participates in the following event(s):

R-HSA-8849157 TREX complex binds spliced, capped mRNA:CBC:EJC cotranscriptionally
R-HSA-75096 Docking of the TAP:EJC Complex with the NPC
R-HSA-72185 mRNA polyadenylation
R-HSA-72180 Cleavage of mRNA at the 3'-end
R-HSA-159101 NXF1:NXT1 (TAP:p15) binds capped mRNA:CBC:EJC:TREX (minus DDX39B)
R-HSA-72187 mRNA 3'-end processing
R-HSA-159236 Transport of Mature mRNA derived from an Intron-Containing Transcript
R-HSA-72203 Processing of Capped Intron-Containing Pre-mRNA
R-HSA-72202 Transport of Mature Transcript to Cytoplasm
R-HSA-109688 Cleavage of Growing Transcript in the Termination Region
R-HSA-8953854 Metabolism of RNA
R-HSA-73856 RNA Polymerase II Transcription Termination
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: C1orf77, CHTOP_HUMAN, D3DV55, ENST00000368694.1, ENST00000368694.2, ENST00000368694.3, ENST00000368694.4, ENST00000368694.5, ENST00000368694.6, ENST00000368694.7, FOP, HT031, NM_015607, PP7704, Q0VAQ8, Q2VPI9, Q5T7Y8, Q5T7Y9, Q5T7Z0, Q6NSM4, Q6PB28, Q8WYT9, Q9BUC5, Q9H034, Q9H2L0, Q9Y3Y2, uc318gyy.1, uc318gyy.2
UCSC ID: ENST00000368694.8_8
RefSeq Accession: NM_015607.4
Protein: Q9Y3Y2 (aka CHTOP_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.