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Cmtr1 Gene Detail
Summary
  • Symbol
    Cmtr1
  • Name
    cap methyltransferase 1
  • Synonyms
    1300018I05Rik, Ftsjd2
  • Feature Type
    protein coding gene
  • IDs
    MGI:1921407
    NCBI Gene: 74157
  • Alliance
    genome feature page
  • Transcription Start Sites
    7 TSS
Location &
Maps
more
  • Sequence Map
    Chr17:29879569-29924953 bp, + strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 17, 15.43 cM
  • Mapping Data
    2 experiments
Strain
Comparison
more
  • SNPs within 2kb
    998 from dbSNP Build 142
  • Strain Annotations
    27
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_1921407
 protein coding gene Chr17:29879569-29924953 (+)
129S1/SvImJ ENSMUSG00200053690
 protein coding gene Chr17:25554858-25564599 (+)
129S1/SvImJ ENSMUSGG00200055010
 protein coding gene Chr17:25537451-25550415 (+)
A/J ENSMUSG00195051506
 protein coding gene Chr17:26376188-26385929 (+)
A/J ENSMUSGG00195055534
 protein coding gene Chr17:26358770-26371745 (+)
AKR/J ENSMUSG00220049501
 protein coding gene Chr17:25423865-25433606 (+)
AKR/J ENSMUSGG00220054953
 protein coding gene Chr17:25406447-25419422 (+)
BALB/cJ ENSMUSGG00180055616
 protein coding gene Chr17:25840017-25852981 (+)
BALB/cJ ENSMUSG00180041632
 protein coding gene Chr17:25857424-25867164 (+)
C3H/HeJ ENSMUSG00175049971
 protein coding gene Chr17:25412084-25421824 (+)
C3H/HeJ ENSMUSGG00175055215
 protein coding gene Chr17:25394667-25407641 (+)
C57BL/6NJ ENSMUSGG00215055844
 protein coding gene Chr17:25398267-25411242 (+)
C57BL/6NJ ENSMUSG00215051542
 protein coding gene Chr17:25415686-25425423 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0021350
 protein coding gene Chr17:25534093-25579755 (+)
CAST/EiJ no annotation
CBA/J ENSMUSGG00210055156
 protein coding gene Chr17:25233123-25246098 (+)
CBA/J ENSMUSG00210050698
 protein coding gene Chr17:25250541-25260281 (+)
DBA/2J ENSMUSG00185039647
 protein coding gene Chr17:27461021-27470761 (+)
DBA/2J ENSMUSGG00185057971
 protein coding gene Chr17:27443614-27456578 (+)
FVB/NJ ENSMUSGG00205054694
 protein coding gene Chr17:25711668-25724643 (+)
FVB/NJ ENSMUSG00205052239
 protein coding gene Chr17:25729086-25738819 (+)
JF1/MsJ no annotation
LP/J ENSMUSG00230055058
 protein coding gene Chr17:28980589-28990329 (+)
LP/J ENSMUSGG00230055917
 protein coding gene Chr17:28963182-28976146 (+)
NOD/ShiLtJ ENSMUSGG00190055146
 protein coding gene Chr17:25348958-25361959 (+)
NOD/ShiLtJ ENSMUSG00190047953
 protein coding gene Chr17:25366405-25376109 (+)
NZO/HlLtJ ENSMUSGG00225055752
 protein coding gene Chr17:30942039-30955015 (+)
NZO/HlLtJ ENSMUSG00225051505
 protein coding gene Chr17:30959458-30969201 (+)
PWK/PhJ no annotation
SPRET/EiJ ENSMSPG00010049422
 protein coding gene Chr17:26108966-26150946 (+)
WSB/EiJ no annotation



Homology
more
  • Human Ortholog
    CMTR1, cap methyltransferase 1
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    CMTR1, cap methyltransferase 1
  • Synonyms
    FTSJD2, hMTr1, KIAA0082, MTr1
  • Links
    NCBI Gene ID: 23070
    UniProt: Q8N1G2

  • Chr Location
    6p21.2; chr6:37423985-37482827 (+)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    6 phenotypes from 3 alleles in 3 genetic backgrounds
    13 phenotype references
Phenotype Overview

adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
integument
immune system
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
neoplasm
vision/eye

Click cells to view annotations.
Homozygous knockout is early embryonic lethal. Conditional homozygous KO in neurons leads to reduced neocortex size and neurite dysmorphology.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    26
  • GO References
    9
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell differentiation
cell population proliferation
cellular component organization
DNA-templated transcription
establishment of localization
homeostatic process
immune system process
lipid metabolic process
programmed cell death
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
membraneless organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
protein-containing complex
synapse
vacuole
Click cells to view annotations.
Expression
less
Expression Overview

early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
    638
  • Tissues
    37
  • cDNA Data
    26
  • Literature Summary
    4
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 74157 NCBI Gene Model | MGI Sequence Detail 45385 C57BL/6J ±  kb
    transcript NM_028791 RefSeq | MGI Sequence Detail 6396 C57BL/6  
    polypeptide Q9DBC3 UniProt | EBI | MGI Sequence Detail 837 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    • UniProt
      10 Sequences
    • Protein Ontology
      PR:000030419 cap-specific mRNA (nucleoside-2'-O-)-methyltransferase 1
      (term hierarchy)
    • EC
      2.1.1.57
    • InterPro Domains
      IPR000467 G-patch domain
      IPR050851 mRNA Cap 2'-O-Ribose Methyltransferase
      IPR002877 Ribosomal RNA methyltransferase, FtsJ domain
      IPR025816 RrmJ-type ribose 2-O-methyltransferase domain
      IPR029063 S-adenosyl-L-methionine-dependent methyltransferase superfamily
      IPR001202 WW domain
    • GlyGen
      Q9DBC3 2 sites, 1 N-linked glycan (1 site), 1 O-linked glycan (1 site)
    Molecular
    Reagents
    less
    • All nucleic 28
      cDNA 26
      Primer pair 2

      Microarray probesets 6
    Other
    Accession IDs
    less
    MGI:2146866
    References
    more
    • Summaries
      All 47
      Developmental Gene Expression 4
      Gene Ontology 9
      Phenotypes 13
    • Earliest
      J:65060 Kawai J, et al., Functional annotation of a full-length mouse cDNA collection. Nature. 2001 Feb 8;409(6821):685-90
    • Latest
      J:374033 Azeem S, et al., CMTR1-catalyzed 2'-O-methylation promotes NMDA receptor signaling, long-term potentiation and memory. Prog Neurobiol. 2025 Aug;251:102802
    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
    Citing These Resources
    Funding Information
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    Send questions and comments to User Support.     		last database update
    09/08/2026
    MGI 6.24     		The Jackson Laboratory