GNMT (glycine N-methyltransferase) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: GNMT (glycine N-methyltransferase) Canis lupus familiaris
Analyze
Symbol: GNMT
Name: glycine N-methyltransferase
RGD ID: 12223780
Description: ENCODES a protein that exhibits folic acid binding (ortholog); glycine N-methyltransferase activity (ortholog); identical protein binding (ortholog); INVOLVED IN glycine metabolic process (ortholog); glycogen metabolic process (ortholog); methionine metabolic process (ortholog); PARTICIPATES IN dihydropyrimidine dehydrogenase deficiency pathway; dimethylglycine dehydrogenase deficiency pathway; folate mediated one-carbon metabolic pathway; ASSOCIATED WITH Chronic Hepatitis (ortholog); glycine N-methyltransferase deficiency (ortholog); hepatitis (ortholog); FOUND IN methyltransferase complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11211,500,363 - 11,503,075 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1211,500,392 - 11,503,481 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1211,527,380 - 11,530,090 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01211,981,562 - 11,984,272 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1211,981,589 - 11,984,224 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11211,509,980 - 11,512,694 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01211,594,281 - 11,596,795 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01211,688,299 - 11,691,025 (+)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
GNMT
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11211,500,363 - 11,503,075 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1211,500,392 - 11,503,481 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1211,527,380 - 11,530,090 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01211,981,562 - 11,984,272 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1211,981,589 - 11,984,224 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11211,509,980 - 11,512,694 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01211,594,281 - 11,596,795 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01211,688,299 - 11,691,025 (+)NCBIUU_Cfam_GSD_1.0
GNMT
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38642,960,754 - 42,963,880 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl642,960,754 - 42,963,880 (+)EnsemblGRCh38hg38GRCh38
GRCh37642,928,492 - 42,931,618 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36643,036,478 - 43,039,596 (+)NCBINCBI36Build 36hg18NCBI36
Build 34643,036,477 - 43,039,595NCBI
Celera644,480,758 - 44,483,869 (+)NCBICelera
Cytogenetic Map6p21.1NCBI
HuRef642,645,801 - 42,648,911 (+)NCBIHuRef
CHM1_1642,930,969 - 42,934,095 (+)NCBICHM1_1
T2T-CHM13v2.0642,789,900 - 42,793,018 (+)NCBIT2T-CHM13v2.0
Gnmt
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391747,036,590 - 47,040,091 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1747,036,590 - 47,040,094 (-)EnsemblGRCm39 Ensembl
GRCm381746,725,664 - 46,729,211 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1746,725,664 - 46,729,168 (-)EnsemblGRCm38mm10GRCm38
MGSCv371746,862,613 - 46,866,114 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361746,188,855 - 46,192,356 (-)NCBIMGSCv36mm8
Celera1750,161,350 - 50,164,841 (-)NCBICelera
Cytogenetic Map17CNCBI
cM Map1722.9NCBI
Gnmt
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8921,752,235 - 21,756,368 (+)NCBIGRCr8
mRatBN7.2914,254,675 - 14,258,028 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl914,254,675 - 14,258,434 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx922,837,543 - 22,840,774 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0927,901,607 - 27,904,956 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0926,200,917 - 26,204,148 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0916,565,274 - 16,568,626 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl916,565,225 - 16,568,627 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0915,471,889 - 15,475,241 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4910,127,092 - 10,130,444 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1910,124,413 - 10,127,766 (+)NCBI
Celera912,003,123 - 12,006,473 (+)NCBICelera
Cytogenetic Map9q12NCBI
Gnmt
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554378,944,047 - 8,946,642 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554378,944,288 - 8,946,642 (+)NCBIChiLan1.0ChiLan1.0
GNMT
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2557,453,015 - 57,462,242 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1653,326,193 - 53,342,571 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0642,550,631 - 42,554,385 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1643,846,560 - 43,849,679 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl643,846,560 - 43,849,679 (+)Ensemblpanpan1.1panPan2
Gnmt
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494646,995,031 - 46,998,424 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647616,957,270 - 16,965,346 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647616,961,734 - 16,965,487 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GNMT
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl738,038,358 - 38,041,217 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1738,038,359 - 38,041,218 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2743,486,726 - 43,489,585 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GNMT
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11729,196,142 - 29,199,728 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1729,196,321 - 29,198,947 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604443,019,849 - 43,022,686 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in GNMT
29 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 8 6 6 3 2
Low 4 1 14 3 3 10 8 10 1
Below cutoff 1 4 3 6 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000002727   ⟹   ENSCAFP00000002533
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1211,500,392 - 11,503,481 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845012288   ⟹   ENSCAFP00845009605
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1211,981,589 - 11,984,224 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845012328   ⟹   ENSCAFP00845009637
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1211,981,589 - 11,984,059 (+)Ensembl
RefSeq Acc Id: XM_038491843   ⟹   XP_038347771
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11211,509,980 - 11,512,694 (+)NCBI
RefSeq Acc Id: XM_038554100   ⟹   XP_038410028
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01211,688,299 - 11,691,025 (+)NCBI
RefSeq Acc Id: XM_038617961   ⟹   XP_038473889
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01211,594,281 - 11,596,795 (+)NCBI
RefSeq Acc Id: XM_038683560   ⟹   XP_038539488
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01211,981,562 - 11,984,272 (+)NCBI
RefSeq Acc Id: XM_532140   ⟹   XP_532140
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11211,500,363 - 11,503,075 (+)NCBI
Dog10K_Boxer_Tasha1211,527,380 - 11,530,090 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_532140   ⟸   XM_532140
- UniProtKB: A0A8C0RZP0 (UniProtKB/TrEMBL),   A0A8C0QYY7 (UniProtKB/TrEMBL),   A0A8I3RV36 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000002533   ⟸   ENSCAFT00000002727
RefSeq Acc Id: XP_038347771   ⟸   XM_038491843
RefSeq Acc Id: XP_038473889   ⟸   XM_038617961
RefSeq Acc Id: XP_038539488   ⟸   XM_038683560
- UniProtKB: A0A8C0RZP0 (UniProtKB/TrEMBL),   A0A8C0QYY7 (UniProtKB/TrEMBL),   A0A8I3RV36 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038410028   ⟸   XM_038554100
- UniProtKB: A0A8C0QYY7 (UniProtKB/TrEMBL),   A0A8C0RZP0 (UniProtKB/TrEMBL),   A0A8I3RV36 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845009605   ⟸   ENSCAFT00845012288
RefSeq Acc Id: ENSCAFP00845009637   ⟸   ENSCAFT00845012328
Protein Domains
Methyltransferase

Promoters
RGD ID:13685429
Promoter ID:EPDNEW_C3497
Type:single initiation site
Name:GNMT_1
Description:glycine N-methyltransferase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11211,500,387 - 11,500,447EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000001741 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030014275 UniProtKB/TrEMBL
  ENSCAFG00040006879 UniProtKB/TrEMBL
  ENSCAFG00845006923 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000002727.5 UniProtKB/TrEMBL
  ENSCAFT00000108639.1 UniProtKB/TrEMBL
  ENSCAFT00030026405.1 UniProtKB/TrEMBL
  ENSCAFT00040012789.1 UniProtKB/TrEMBL
  ENSCAFT00845012288.1 UniProtKB/TrEMBL
  ENSCAFT00845012328 ENTREZGENE
  ENSCAFT00845012328.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.150 UniProtKB/TrEMBL
  Glycine N-methyltransferase, chain A, domain 1 UniProtKB/TrEMBL
InterPro Gly/Sar_N_MeTrfase UniProtKB/TrEMBL
  Methyltransf_25 UniProtKB/TrEMBL
  SAM-dependent_MTases UniProtKB/TrEMBL
KEGG Report cfa:474905 UniProtKB/TrEMBL
NCBI Gene GNMT ENTREZGENE
PANTHER GLYCINE N-METHYLTRANSFERASE UniProtKB/TrEMBL
  PTHR16458 UniProtKB/TrEMBL
Pfam Methyltransf_25 UniProtKB/TrEMBL
PIRSF Gly_N-mtase UniProtKB/TrEMBL
PROSITE SAM_GNMT UniProtKB/TrEMBL
Superfamily-SCOP SSF53335 UniProtKB/TrEMBL
UniProt A0A8C0QYY7 ENTREZGENE
  A0A8C0RZP0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3N1A5_CANLF UniProtKB/TrEMBL
  A0A8I3RV36 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0TQ83_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:41329 ENTREZGENE