Human Gene CARM1 (ENST00000327064.9_4) from GENCODE V47lift37
  Description: coactivator associated arginine methyltransferase 1, transcript variant 1 (from RefSeq NM_199141.2)
Gencode Transcript: ENST00000327064.9_4
Gencode Gene: ENSG00000142453.13_18
Transcript (Including UTRs)
   Position: hg19 chr19:10,982,229-11,033,751 Size: 51,523 Total Exon Count: 16 Strand: +
Coding Region
   Position: hg19 chr19:10,982,379-11,032,433 Size: 50,055 Coding Exon Count: 16 

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 (chr19:10,982,229-11,033,751)mRNA (may differ from genome)Protein (608 aa)
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HGNCMGIOMIMPubMedReactomeUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CARM1_HUMAN
DESCRIPTION: RecName: Full=Histone-arginine methyltransferase CARM1; EC=2.1.1.-; EC=2.1.1.125; AltName: Full=Coactivator-associated arginine methyltransferase 1; AltName: Full=Protein arginine N-methyltransferase 4;
FUNCTION: Methylates (mono- and asymmetric dimethylation) the guanidino nitrogens of arginyl residues in several proteins involved in DNA packaging, transcription regulation, pre-mRNA splicing, and mRNA stability. Recruited to promoters upon gene activation together with histone acetyltransferases from EP300/P300 and p160 families, methylates histone H3 at 'Arg-17' (H3R17me), forming mainly asymmetric dimethylarginine (H3R17me2a), leading to activate transcription via chromatin remodeling. During nuclear hormone receptor activation and TCF7L2/TCF4 activation, acts synergically with EP300/P300 and either one of the p160 histone acetyltransferases NCOA1/SRC1, NCOA2/GRIP1 and NCOA3/ACTR or CTNNB1/beta-catenin to activate transcription. During myogenic transcriptional activation, acts together with NCOA3/ACTR as a coactivator for MEF2C. During monocyte inflammatory stimulation, acts together with EP300/P300 as a coactivator for NF-kappa-B. Acts as coactivator for PPARG, promotes adipocyte differentiation and the accumulation of brown fat tissue. Plays a role in the regulation of pre-mRNA alternative splicing by methylation of splicing factors. Also seems to be involved in p53/TP53 transcriptional activation. Methylates EP300/P300, both at 'Arg- 2142', which may loosen its interaction with NCOA2/GRIP1, and at 'Arg-580' and 'Arg-604' in the KIX domain, which impairs its interaction with CREB and inhibits CREB-dependent transcriptional activation. Also methylates arginine residues in RNA-binding proteins PABPC1, ELAVL1 and ELAV4, which may affect their mRNA- stabilizing properties and the half-life of their target mRNAs.
CATALYTIC ACTIVITY: S-adenosyl-L-methionine + arginine-[histone] = S-adenosyl-L-homocysteine + N(omega)-methyl-arginine-[histone].
ENZYME REGULATION: Methylation of H3R17 (H3R17me) by CARM1 is stimulated by preacetylation of H3 'Lys-18' (H3K18ac) H3 'Lys-23' (H3K23ac) by EP300 and blocked by citrullination of H3 'Arg-17' (H3R17ci) by PADI4 (By similarity).
SUBUNIT: Homodimer (Probable). Interacts with the C-terminus of NCOA2/GRIP1, NCO3/ACTR and NCOA1/SRC1. Part of a complex consisting of CARM1, EP300/P300 and NCOA2/GRIP1. Interacts with FLII, TP53, myogenic factor MEF2, EP300/P300, TRIM24, CREBBP and CTNNB1. Identified in a complex containing CARM1, TRIM24 and NCOA2/GRIP1. Interacts with NCOA3/SRC3. Interacts with SNRPC (By similarity). Interacts with NR1H4. Interacts with RELA. Interacts with HTLV-1 Tax-1.
SUBCELLULAR LOCATION: Nucleus. Cytoplasm. Note=Mainly nuclear during the G1, S and G2 phases of the cell cycle. Cytoplasmic during mitosis, after breakup of the nuclear membrane.
TISSUE SPECIFICITY: Overexpressed in prostate adenocarcinomas and high-grade prostatic intraepithelial neoplasia.
PTM: Auto-methylated on Arg-550. Methylation enhances transcription coactivator activity. Methylation is required for its role in the regulation of pre-mRNA alternative splicing (By similarity).
PTM: Phosphorylation at Ser-216 interferes with S-adenosyl-L- methionine binding and strongly reduces methyltransferase activity (By similarity). Phosphorylation at Ser-216 is strongly increased during mitosis, and decreases rapidly to a very low, basal level after entry into the G1 phase of the cell cycle. Phosphorylation at Ser-216 may promote location in the cytosol.
SIMILARITY: Belongs to the protein arginine N-methyltransferase family.

-  Primer design for this transcript
 

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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           more ... click here to view the complete list

+  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: 41.28 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 745.92 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 -95.10150-0.634 Picture PostScript Text
3' UTR -502.401318-0.381 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
IPR025799 - Arg_MeTrfase
IPR025797 - Arg_MeTrfase_CARM1
IPR020989 - Histone-Arg_MeTrfase_N

Pfam Domains:
PF05175 - Methyltransferase small domain
PF05185 - PRMT5 arginine-N-methyltransferase
PF06325 - Ribosomal protein L11 methyltransferase (PrmA)
PF08003 - Protein of unknown function (DUF1698)
PF08241 - Methyltransferase domain
PF11531 - Coactivator-associated arginine methyltransferase 1 N terminal
PF13649 - Methyltransferase domain

SCOP Domains:
49503 - Cupredoxins
51735 - NAD(P)-binding Rossmann-fold domains
53335 - S-adenosyl-L-methionine-dependent methyltransferases

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2Y1W - X-ray MuPIT 2Y1X - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q86X55
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-  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    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0001105 RNA polymerase II transcription coactivator activity
GO:0003713 transcription coactivator activity
GO:0005515 protein binding
GO:0008013 beta-catenin binding
GO:0008168 methyltransferase activity
GO:0008276 protein methyltransferase activity
GO:0008469 histone-arginine N-methyltransferase activity
GO:0016274 protein-arginine N-methyltransferase activity
GO:0016740 transferase activity
GO:0030374 ligand-dependent nuclear receptor transcription coactivator activity
GO:0035242 protein-arginine omega-N asymmetric methyltransferase activity
GO:0035642 histone methyltransferase activity (H3-R17 specific)
GO:0042054 histone methyltransferase activity
GO:0042803 protein homodimerization activity
GO:0044212 transcription regulatory region DNA binding
GO:0070577 lysine-acetylated histone binding

Biological Process:
GO:0003420 regulation of growth plate cartilage chondrocyte proliferation
GO:0006325 chromatin organization
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006366 transcription from RNA polymerase II promoter
GO:0006479 protein methylation
GO:0006977 DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest
GO:0007568 aging
GO:0008284 positive regulation of cell proliferation
GO:0016032 viral process
GO:0016571 histone methylation
GO:0019216 regulation of lipid metabolic process
GO:0019919 peptidyl-arginine methylation, to asymmetrical-dimethyl arginine
GO:0030518 intracellular steroid hormone receptor signaling pathway
GO:0030520 intracellular estrogen receptor signaling pathway
GO:0032091 negative regulation of protein binding
GO:0032259 methylation
GO:0033146 regulation of intracellular estrogen receptor signaling pathway
GO:0034969 histone arginine methylation
GO:0034970 histone H3-R2 methylation
GO:0034971 histone H3-R17 methylation
GO:0035246 peptidyl-arginine N-methylation
GO:0045600 positive regulation of fat cell differentiation
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0051092 positive regulation of NF-kappaB transcription factor activity
GO:0051591 response to cAMP
GO:0060350 endochondral bone morphogenesis
GO:0071168 protein localization to chromatin
GO:1902415 regulation of mRNA binding
GO:2000171 negative regulation of dendrite development

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0032991 macromolecular complex
GO:0090575 RNA polymerase II transcription factor complex


-  Descriptions from all associated GenBank mRNAs
  BC156435 - Synthetic construct Homo sapiens clone IMAGE:100062976, MGC:190647 coactivator-associated arginine methyltransferase 1 (CARM1) mRNA, encodes complete protein.
BC172490 - Synthetic construct Homo sapiens clone IMAGE:100069184, MGC:199195 coactivator-associated arginine methyltransferase 1 (CARM1) mRNA, encodes complete protein.
AL833242 - Homo sapiens mRNA; cDNA DKFZp761A1520 (from clone DKFZp761A1520).
JC506674 - Sequence 42 from Patent EP2733220.
JC737786 - Sequence 42 from Patent WO2014075939.
JC506688 - Sequence 56 from Patent EP2733220.
JC737800 - Sequence 56 from Patent WO2014075939.
JC506674 - Sequence 42 from Patent EP2733220.
JC737786 - Sequence 42 from Patent WO2014075939.
JC506661 - Sequence 29 from Patent EP2733220.
JC737773 - Sequence 29 from Patent WO2014075939.
JC506688 - Sequence 56 from Patent EP2733220.
JC737800 - Sequence 56 from Patent WO2014075939.
JC506666 - Sequence 34 from Patent EP2733220.
JC737778 - Sequence 34 from Patent WO2014075939.
BC046240 - Homo sapiens coactivator-associated arginine methyltransferase 1, mRNA (cDNA clone IMAGE:4859203), partial cds.
AF055027 - Homo sapiens clone 24658 mRNA sequence.
BC036886 - Homo sapiens coactivator-associated arginine methyltransferase 1, mRNA (cDNA clone IMAGE:5399617), partial cds.
JD389923 - Sequence 370947 from Patent EP1572962.
BC070496 - Homo sapiens cDNA clone IMAGE:6094041, partial cds.
JD451649 - Sequence 432673 from Patent EP1572962.
JD124845 - Sequence 105869 from Patent EP1572962.
JD129186 - Sequence 110210 from Patent EP1572962.
JD493762 - Sequence 474786 from Patent EP1572962.
JD365871 - Sequence 346895 from Patent EP1572962.
JD519032 - Sequence 500056 from Patent EP1572962.
JD392014 - Sequence 373038 from Patent EP1572962.
JD226450 - Sequence 207474 from Patent EP1572962.
JD192693 - Sequence 173717 from Patent EP1572962.
JD518843 - Sequence 499867 from Patent EP1572962.
JD392302 - Sequence 373326 from Patent EP1572962.
JD455405 - Sequence 436429 from Patent EP1572962.
JD445302 - Sequence 426326 from Patent EP1572962.
JD398293 - Sequence 379317 from Patent EP1572962.
JD152107 - Sequence 133131 from Patent EP1572962.
JD142269 - Sequence 123293 from Patent EP1572962.
JD424282 - Sequence 405306 from Patent EP1572962.
JD161273 - Sequence 142297 from Patent EP1572962.
DQ582098 - Homo sapiens piRNA piR-32210, complete sequence.
JD076059 - Sequence 57083 from Patent EP1572962.
JD173559 - Sequence 154583 from Patent EP1572962.
JD390892 - Sequence 371916 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_carm1Pathway - Transcription Regulation by Methyltransferase of CARM1
h_vdrPathway - Control of Gene Expression by Vitamin D Receptor
h_carm-erPathway - CARM1 and Regulation of the Estrogen Receptor
h_her2Pathway - Role of ERBB2 in Signal Transduction and Oncology

Reactome (by CSHL, EBI, and GO)

Protein Q86X55 (Reactome details) participates in the following event(s):

R-HSA-3215152 TP53 in complex with EP300, PRMT1 and CARM1 binds the GADD45A promoter
R-HSA-9009526 CARM1 binds TBP:TFIIA:DDX5:ESR1:estrogen:TFF1 gene
R-HSA-400143 Fatty acid ligands activate PPARA
R-HSA-5205822 CARM1 methylates arginine-18 (H3R17) of histone H3
R-HSA-5229010 CARM1 methylates arginine-27 of histone H3 (H3R26)
R-HSA-9023860 Histone acetyltransferases are recruited to the TFF1 gene
R-HSA-5205824 CARM1, PRMT6 methylate arginine-3 of histone H3 (H3R2)
R-HSA-6804114 TP53 Regulates Transcription of Genes Involved in G2 Cell Cycle Arrest
R-HSA-9018519 Estrogen-dependent gene expression
R-HSA-400206 Regulation of lipid metabolism by Peroxisome proliferator-activated receptor alpha (PPARalpha)
R-HSA-6791312 TP53 Regulates Transcription of Cell Cycle Genes
R-HSA-8939211 ESR-mediated signaling
R-HSA-3214858 RMTs methylate histone arginines
R-HSA-556833 Metabolism of lipids
R-HSA-3700989 Transcriptional Regulation by TP53
R-HSA-9006931 Signaling by Nuclear Receptors
R-HSA-3247509 Chromatin modifying enzymes
R-HSA-1430728 Metabolism
R-HSA-212436 Generic Transcription Pathway
R-HSA-162582 Signal Transduction
R-HSA-4839726 Chromatin organization
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: A6NN38, CARM1_HUMAN, ENST00000327064.1, ENST00000327064.2, ENST00000327064.3, ENST00000327064.4, ENST00000327064.5, ENST00000327064.6, ENST00000327064.7, ENST00000327064.8, NM_199141, PRMT4, Q86X55, uc317sez.1, uc317sez.2
UCSC ID: ENST00000327064.9_4
RefSeq Accession: NM_199141.2
Protein: Q86X55 (aka CARM1_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.