METTL16
methyltransferase 16, RNA N6-adenosine | MGC3329, METT10D

Enables RNA binding activity and RNA methyltransferase activity. Involved in RNA processing and regulation of mRNA metabolic process. Located in cytoplasm and nucleus. [provided by Alliance of Genome Resources, Jul 2025]

Member of: DE-2 DE-2.25
Biological processes 32 terms
RNA binding (GO:0003723)RNA binding (GO:0003723)RNA methylation (GO:0001510)RNA modification (GO:0009451)RNA stem-loop binding (GO:0035613)S-adenosylmethionine biosynthetic process (GO:0006556)U6 snRNA (adenine(43)-N6)-methyltransferase activity (GO:0120048)U6 snRNA (adenine(43)-N6)-methyltransferase activity (GO:0120048)U6 snRNA 3'-end binding (GO:0030629)cytoplasm (GO:0005737)cytoplasm (GO:0005737)mRNA catabolic process (GO:0006402)mRNA catabolic process (GO:0006402)mRNA destabilization (GO:0061157)mRNA destabilization (GO:0061157)mRNA m(6)A methyltransferase activity (GO:0001734)mRNA m(6)A methyltransferase activity (GO:0001734)mRNA processing (GO:0006397)mRNA processing (GO:0006397)methyltransferase activity (GO:0008168)negative regulation of 3'-UTR-mediated mRNA stabilization (GO:1905869)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)positive regulation of mRNA catabolic process (GO:0061014)post-transcriptional regulation of gene expression (GO:0010608)post-transcriptional regulation of gene expression (GO:0010608)rRNA base methylation (GO:0070475)regulation of mRNA splicing, via spliceosome (GO:0048024)regulation of mRNA stability (GO:0043488)snRNA (adenine-N6)-methylation (GO:0120049)
Expression (TPM)
METTL16 — as a Regulated Gene

TFs regulating METTL16 0 TFs

Transcription factors with Perturb-seq knockdown data for METTL16. The Binding column indicates whether any binding evidence exists for this TF–gene pair (ChIP-seq or motif footprint peaks). The Mean coef is the average Perturb-seq regression coefficient across active gRNAs (positive = METTL16 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

Data: Effect:
TF Mean coef Binding Outlier TF→Gene link

Elements linked to METTL16

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of METTL16, linked by TSS proximity or chromatin conformation (Multiome / HiCAR). Each element overlaps at least one TF ChIP-seq binding site — the TFs column shows how many distinct TFs bind that element.

Accessibility Element Dist. to TSS Link type TFs
chr17:2,302,778–2,304,288 208.1 kb Distal (>10kb) Multiome 770
chr17:2,336,166–2,337,712 175.4 kb Distal (>10kb) Multiome 896
chr17:2,392,290–2,394,855 119.0 kb Distal (>10kb) Multiome 788
chr17:2,396,361–2,397,494 114.9 kb Distal (>10kb) Multiome 546
chr17:2,398,260–2,402,837 112.2 kb Distal (>10kb) Multiome 1128
chr17:2,511,517–2,512,317 79 bp At TSS Multiome 698
chr17:2,592,971–2,594,792 81.8 kb Distal (>10kb) Multiome 853
chr17:2,691,692–2,692,319 180.1 kb Distal (>10kb) Multiome 66
chr17:2,710,909–2,712,254 200.0 kb Distal (>10kb) Multiome 864
chr17:2,716,507–2,717,103 204.9 kb Distal (>10kb) Multiome 112
chr17:2,723,482–2,725,106 212.1 kb Distal (>10kb) Multiome 477
chr17:2,749,134–2,750,125 238.0 kb Distal (>10kb) Multiome 859
chr17:2,755,248–2,756,668 243.7 kb Distal (>10kb) Multiome 347
chr17:2,776,093–2,777,278 264.9 kb Distal (>10kb) Multiome 372
chr17:2,786,083–2,786,614 274.6 kb Distal (>10kb) Multiome 526

Genome Browser

Genomic view of the METTL16 locus showing ATAC-seq accessibility and RNA-seq expression across the ESC → DE time course, together with TF binding peaks and element-to-TSS loop connections.

chr17:2,292,778 – 2,796,614
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq
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