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Aliases for METTL16 Gene

Aliases for METTL16 Gene

  • Methyltransferase Like 16 2 3 5
  • Methyltransferase 10 Domain-Containing Protein 3 4
  • Methyltransferase 10 Domain Containing 2 3
  • N6-Adenosine-Methyltransferase METTL16 3 4
  • Methyltransferase-Like Protein 16 3 4
  • U6 SnRNA Methyltransferase 2 3
  • METT10D 3 4
  • U6 Small Nuclear RNA (Adenine-(43)-N(6))-Methyltransferase 3
  • Putative Methyltransferase METT10D 3
  • EC 2.1.1.62 4
  • EC 2.1.1.- 4

External Ids for METTL16 Gene

Previous HGNC Symbols for METTL16 Gene

  • METT10D

Previous GeneCards Identifiers for METTL16 Gene

  • GC17M002319
  • GC17M002316

Summaries for METTL16 Gene

GeneCards Summary for METTL16 Gene

METTL16 (Methyltransferase Like 16) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include 23S rRNA (adenine(1618)-N(6))-methyltransferase activity.

UniProtKB/Swiss-Prot for METTL16 Gene

  • RNA N6-methyltransferase that methylates adenosine residues of a subset of RNAs and plays a key role in S-adenosyl-L-methionine homeostasis by regulating expression of MAT2A transcripts (PubMed:28525753). Able to N6-methylate a subset of mRNAs and U6 small nuclear RNAs (U6 snRNAs) (PubMed:28525753). In contrast to the METTL3-METTL14 heterodimer, only able to methylate a limited number of RNAs: requires both a 5UACAGAGAA-3 nonamer sequence and a specific RNA structure (PubMed:28525753). In presence of S-adenosyl-L-methionine, binds the 3-UTR region of MAT2A mRNA and specifically N6-methylates the first hairpin of MAT2A mRNA, leading to intron retention and preventing MAT2A mRNA splicing (PubMed:28525753). In S-adenosyl-L-methionine-limiting conditions, binds the 3-UTR region of MAT2A mRNA but stalls due to the lack of a methyl donor, leading to stimulate splicing of the MAT2A retained intron, and promoting expression of MAT2A (PubMed:28525753). In addition to mRNAs, also able to mediate N6-methylation of U6 small nuclear RNA (U6 snRNA): specifically N6-methylates adenine in position 43 of U6 snRNAs (PubMed:28525753). Specifically binds the 3-end of the MALAT1 long non-coding RNA (PubMed:27872311).

Additional gene information for METTL16 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for METTL16 Gene

Genomics for METTL16 Gene

GeneHancer (GH) Regulatory Elements for METTL16 Gene

Promoters and enhancers for METTL16 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH17I002510 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 570.2 +0.3 272 2.4 HDGF PKNOX1 CLOCK SMAD1 ARID4B SIN3A DMAP1 YBX1 ZNF2 YY1 METTL16 GC17P002512 GC17P002514 RPA1 PRPF8 SMYD4 WDR81 RN7SL608P HIC1 SRR
GH17I002389 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 54.1 +112.9 112894 18.6 CLOCK MLX FEZF1 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF143 ZNF263 MNT GC17M002401 GC17M002400 GC17M002387 METTL16 PRPF8 TSR1 HNRNPA1P16 SMYD4 ENSG00000263345
GH17I002261 Promoter/Enhancer 2.1 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 32.9 +246.8 246816 7.3 PKNOX1 SMAD1 FEZF1 ZNF2 ZNF207 ATF7 FOS RUNX3 ZNF214 ZNF491 SMG6 GC17P002267 SRR HNRNPA1P16 ENSG00000263050 METTL16 LOC105371592 DPH1 ENSG00000263345 TSR1
GH17I001939 Enhancer 0.8 ENCODE 84.4 +571.7 571716 1.6 ZNF493 ZNF529 ZFP64 ZNF213 ZNF354C ZNF202 ZNF680 ZBTB11 ZC3H11A ZNF398 SMYD4 PRPF8 METTL16 RPA1 HNRNPA1P16 WDR81 DPH1 RN7SL608P SMG6 ENSG00000263345
GH17I001712 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 23.7 +796.1 796132 7 MLX DMAP1 YBX1 YY1 ZNF143 SP3 NFYC MEF2D SSRP1 ZNF610 WDR81 MIR22 MIR22HG GC17M001715 SMYD4 PRPF8 GEMIN4 RPA1 SERPINF2 METTL16
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around METTL16 on UCSC Golden Path with GeneCards custom track

Genomic Locations for METTL16 Gene

Genomic Locations for METTL16 Gene
chr17:2,405,562-2,511,906
(GRCh38/hg38)
Size:
106,345 bases
Orientation:
Minus strand
chr17:2,308,856-2,415,200
(GRCh37/hg19)

Genomic View for METTL16 Gene

Genes around METTL16 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
METTL16 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for METTL16 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for METTL16 Gene

Proteins for METTL16 Gene

  • Protein details for METTL16 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q86W50-MET16_HUMAN
    Recommended name:
    U6 small nuclear RNA (adenine-(43)-N(6))-methyltransferase
    Protein Accession:
    Q86W50
    Secondary Accessions:
    • D3DTI8
    • Q86TE5
    • Q96T16
    • Q9BVG7

    Protein attributes for METTL16 Gene

    Size:
    562 amino acids
    Molecular mass:
    63621 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAB55094.1; Type=Erroneous termination; Positions=505; Note=Translated as Lys.; Evidence={ECO:0000305}; Sequence=CAD89999.2; Type=Frameshift; Positions=424; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for METTL16 Gene

    Alternative splice isoforms for METTL16 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for METTL16 Gene

Post-translational modifications for METTL16 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for METTL16 Gene

No data available for DME Specific Peptides for METTL16 Gene

Domains & Families for METTL16 Gene

Gene Families for METTL16 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for METTL16 Gene

Suggested Antigen Peptide Sequences for METTL16 Gene

Graphical View of Domain Structure for InterPro Entry

Q86W50

UniProtKB/Swiss-Prot:

MET16_HUMAN :
  • The VCR (vertebrate conserved) regions bind the first hairpin of MAT2A mRNAs and regulate MAT2A splicing.
  • Belongs to the methyltransferase superfamily. METTL16/RlmF family.
Domain:
  • The VCR (vertebrate conserved) regions bind the first hairpin of MAT2A mRNAs and regulate MAT2A splicing.
Family:
  • Belongs to the methyltransferase superfamily. METTL16/RlmF family.
genes like me logo Genes that share domains with METTL16: view

Function for METTL16 Gene

Molecular function for METTL16 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
S-adenosyl-L-methionine + adenine(43) in U6 snRNA = S-adenosyl-L-homocysteine + N(6)-methyladenine(43) in U6 snRNA.
UniProtKB/Swiss-Prot CatalyticActivity:
S-adenosyl-L-methionine + m(7)G(5)pppAm = S-adenosyl-L-homocysteine + m(7)G(5)pppm(6)Am.
UniProtKB/Swiss-Prot Function:
RNA N6-methyltransferase that methylates adenosine residues of a subset of RNAs and plays a key role in S-adenosyl-L-methionine homeostasis by regulating expression of MAT2A transcripts (PubMed:28525753). Able to N6-methylate a subset of mRNAs and U6 small nuclear RNAs (U6 snRNAs) (PubMed:28525753). In contrast to the METTL3-METTL14 heterodimer, only able to methylate a limited number of RNAs: requires both a 5UACAGAGAA-3 nonamer sequence and a specific RNA structure (PubMed:28525753). In presence of S-adenosyl-L-methionine, binds the 3-UTR region of MAT2A mRNA and specifically N6-methylates the first hairpin of MAT2A mRNA, leading to intron retention and preventing MAT2A mRNA splicing (PubMed:28525753). In S-adenosyl-L-methionine-limiting conditions, binds the 3-UTR region of MAT2A mRNA but stalls due to the lack of a methyl donor, leading to stimulate splicing of the MAT2A retained intron, and promoting expression of MAT2A (PubMed:28525753). In addition to mRNAs, also able to mediate N6-methylation of U6 small nuclear RNA (U6 snRNA): specifically N6-methylates adenine in position 43 of U6 snRNAs (PubMed:28525753). Specifically binds the 3-end of the MALAT1 long non-coding RNA (PubMed:27872311).

Enzyme Numbers (IUBMB) for METTL16 Gene

Phenotypes From GWAS Catalog for METTL16 Gene

Gene Ontology (GO) - Molecular Function for METTL16 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IDA 27872311
GO:0008168 methyltransferase activity IEA --
GO:0016422 mRNA (2-O-methyladenosine-N6-)-methyltransferase activity IEA,IDA 28525753
GO:0016740 transferase activity IEA --
GO:0030629 U6 snRNA 3-end binding IDA 28525753
genes like me logo Genes that share ontologies with METTL16: view

Phenotypes for METTL16 Gene

genes like me logo Genes that share phenotypes with METTL16: view

Animal Models for METTL16 Gene

MGI Knock Outs for METTL16:

Clone Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for METTL16 Gene

Localization for METTL16 Gene

Subcellular locations from UniProtKB/Swiss-Prot for METTL16 Gene

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 METTL16 gene
Compartment Confidence
nucleus 5
cytosol 3

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoplasm (3)
  • Cytosol (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for METTL16 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA,IBA 27872311
genes like me logo Genes that share ontologies with METTL16: view

Pathways & Interactions for METTL16 Gene

SuperPathways for METTL16 Gene

No Data Available

Gene Ontology (GO) - Biological Process for METTL16 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006397 mRNA processing IEA --
GO:0008380 RNA splicing IEA --
GO:0010608 posttranscriptional regulation of gene expression IDA 28525753
GO:0032259 methylation IEA --
GO:0048024 regulation of mRNA splicing, via spliceosome IDA 28525753
genes like me logo Genes that share ontologies with METTL16: view

No data available for Pathways by source and SIGNOR curated interactions for METTL16 Gene

Drugs & Compounds for METTL16 Gene

No Compound Related Data Available

Transcripts for METTL16 Gene

Unigene Clusters for METTL16 Gene

Methyltransferase like 16:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for METTL16 Gene

No ASD Table

Relevant External Links for METTL16 Gene

GeneLoc Exon Structure for
METTL16
ECgene alternative splicing isoforms for
METTL16

Expression for METTL16 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for METTL16 Gene

Protein differential expression in normal tissues from HIPED for METTL16 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (24.3) and CD8 Tcells (7.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for METTL16 Gene



Protein tissue co-expression partners for METTL16 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of METTL16 Gene:

METTL16

SOURCE GeneReport for Unigene cluster for METTL16 Gene:

Hs.632237

Evidence on tissue expression from TISSUES for METTL16 Gene

  • Nervous system(4.7)
  • Muscle(4.2)
genes like me logo Genes that share expression patterns with METTL16: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for METTL16 Gene

Orthologs for METTL16 Gene

This gene was present in the common ancestor of animals.

Orthologs for METTL16 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia METTL16 33 34
  • 99.53 (n)
dog
(Canis familiaris)
Mammalia METTL16 33 34
  • 89.88 (n)
cow
(Bos Taurus)
Mammalia METTL16 33 34
  • 89.35 (n)
-- 34
  • 75 (a)
OneToMany
mouse
(Mus musculus)
Mammalia Mettl16 33 16 34
  • 86.47 (n)
oppossum
(Monodelphis domestica)
Mammalia METTL16 34
  • 82 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia METTL16 34
  • 74 (a)
OneToOne
chicken
(Gallus gallus)
Aves METTL16 33 34
  • 71.15 (n)
lizard
(Anolis carolinensis)
Reptilia METTL16 34
  • 71 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia mettl16 33
  • 68.4 (n)
Str.3947 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.7647 33
zebrafish
(Danio rerio)
Actinopterygii mettl16 33 34
  • 71.84 (n)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.2774 33
fruit fly
(Drosophila melanogaster)
Insecta CG7544 33 34
  • 51 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011889 33
  • 45 (n)
worm
(Caenorhabditis elegans)
Secernentea mett-10 33 34
  • 48.71 (n)
Species where no ortholog for METTL16 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)

Evolution for METTL16 Gene

ENSEMBL:
Gene Tree for METTL16 (if available)
TreeFam:
Gene Tree for METTL16 (if available)

Paralogs for METTL16 Gene

No data available for Paralogs for METTL16 Gene

Variants for METTL16 Gene

Sequence variations from dbSNP and Humsavar for METTL16 Gene

SNP ID Clin Chr 17 pos Variation AA Info Type
rs1000002512 -- 2,449,497(-) C/T intron_variant
rs1000010457 -- 2,452,732(-) A/G intron_variant
rs1000050927 -- 2,492,754(-) A/G intron_variant
rs1000138064 -- 2,449,140(-) C/G intron_variant
rs1000152506 -- 2,487,968(-) G/A intron_variant

Structural Variations from Database of Genomic Variants (DGV) for METTL16 Gene

Variant ID Type Subtype PubMed ID
esv22012 CNV loss 19812545
esv2669015 CNV deletion 23128226
esv2675053 CNV deletion 23128226
esv3554000 CNV deletion 23714750
esv3639709 CNV loss 21293372
esv3639710 CNV loss 21293372
esv3892947 CNV gain 25118596
nsv1063109 CNV gain 25217958
nsv1066055 CNV gain 25217958
nsv1109041 CNV deletion 24896259
nsv1110917 OTHER inversion 24896259
nsv1113841 CNV deletion 24896259
nsv111844 CNV deletion 16902084
nsv1144785 CNV deletion 24896259
nsv574224 CNV gain 21841781
nsv819217 CNV loss 19587683
nsv833338 CNV loss 17160897

Variation tolerance for METTL16 Gene

Residual Variation Intolerance Score: 28.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.01; 50.03% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for METTL16 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
METTL16

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for METTL16 Gene

Disorders for METTL16 Gene

Additional Disease Information for METTL16

No disorders were found for METTL16 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for METTL16 Gene

Publications for METTL16 Gene

  1. The U6 snRNA m6A Methyltransferase METTL16 Regulates SAM Synthetase Intron Retention. (PMID: 28525753) Pendleton KE … Conrad NK (Cell 2017) 2 3 4 58
  2. Human METTL16 is a N6-methyladenosine (m6A) methyltransferase that targets pre-mRNAs and various non-coding RNAs. (PMID: 29051200) Warda AS … Bohnsack MT (EMBO reports 2017) 2 3 58
  3. Methyltransferase-like protein 16 binds the 3'-terminal triple helix of MALAT1 long noncoding RNA. (PMID: 27872311) Brown JA … Steitz JA (Proceedings of the National Academy of Sciences of the United States of America 2016) 3 4 58
  4. The ybiN gene of Escherichia coli encodes adenine-N6 methyltransferase specific for modification of A1618 of 23 S ribosomal RNA, a methylated residue located close to the ribosomal exit tunnel. (PMID: 18021804) Sergiev PV … Dontsova OA (Journal of molecular biology 2008) 2 3 58
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58

Products for METTL16 Gene

Sources for METTL16 Gene

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