A pyrimidine that is a derivative of cytosine, having a methyl group at the 5-position.

Chemical properties

Chemical formula Net charge Average mass
C5H7N3O 0 125.12860

Recommended notation

Name 5-methylcytosine
Abbreviation 5mC
Symbol m
Complement guanine:5-methylcytosine
Symbol 1


4-amino-5-methylpyrimidin-2(1H)-one Cc1c[nH]c(=O)nc1N
  • 4-amino-5-methyl-2(1h)-pyrimidinone
  • 4-amino-5-methyl-2-pyrimidinol

Mapping techniques

Method Method detail Resolution Enrichment or limitation References
BS-seq chemical conversion single-base
HELP assay restriction endonuclease low microarray probes
MBD-seq affinity-based low
MRE-seq affinity-based low
Maxam–Gilbert sequencing single-base
MeDIP-seq affinity-based low
Methyl-MAPS affinity-based low
Methyl-seq restriction endonuclease low
MethylCap-seq affinity-based low salt gradient stratification
MspJI recognition restriction endonuclease low specific fragments
PBAT chemical conversion single-base
RRBS chemical conversion single-base methylation-insensitive restriction digestion
SMRT direct detection single-base target sequences
SMRT-BS chemical conversion single-base target sequences
TAmC-seq chemical tagging high
Tn5mC-seq chemical conversion single-base
coBS-seq chemical conversion single-base
dye-terminator Sanger sequencing direct detection single-base
fluorescence microscopy direct detection low target sequences
nanopore direct detection single-base target sequences
oxBS-seq chemical conversion single-base


Origin Function Functional detail Organisms References
natural epigenetic mark
  • Bos taurus
  • Chlamydomonas reinhardtii
  • Desulfovibrio desulfuricans
  • Drosophila melanogaster
  • Escherichia coli
  • Homo sapiens
  • Locusta migratoria
  • Mus musculus
  • Ovis aries