Shmt1 (serine hydroxymethyltransferase 1 (soluble)) - Rat Genome Database

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Gene: Shmt1 (serine hydroxymethyltransferase 1 (soluble)) Mus musculus
Analyze
Symbol: Shmt1
Name: serine hydroxymethyltransferase 1 (soluble)
RGD ID: 1323771
MGI Page MGI
Description: Enables glycine hydroxymethyltransferase activity. Involved in dTMP biosynthetic process and tetrahydrofolate interconversion. Acts upstream of or within cellular response to leukemia inhibitory factor. Located in mitochondrion. Is active in nucleus. Is expressed in several structures, including alimentary system; brain ventricular layer; genitourinary system; liver and biliary system; and skin. Human ortholog(s) of this gene implicated in breast cancer. Orthologous to human SHMT1 (serine hydroxymethyltransferase 1).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: AI324848; AI385541; C81125; glycine hydroxymethyltransferase; mshm; mshmt; mshmt1; mshmt2; serine hydroxymethyltransferase, cytosolic; serine methylase; Shm; Shmt
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391160,679,723 - 60,702,062 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1160,678,930 - 60,702,544 (-)EnsemblGRCm39 Ensembl
GRCm381160,788,897 - 60,811,265 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1160,788,104 - 60,811,718 (-)EnsemblGRCm38mm10GRCm38
MGSCv371160,602,399 - 60,624,767 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361161,219,982 - 61,242,350 (-)NCBIMGSCv36mm8
MGSCv361160,605,092 - 60,627,460 (-)NCBIMGSCv36mm8
Cytogenetic Map11B2NCBI
cM Map1137.84NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(1->4)-beta-D-glucan  (EXP)
1,1-dichloroethene  (EXP)
1,2-dimethylhydrazine  (EXP)
17alpha-ethynylestradiol  (EXP)
2,3,7,8-tetrabromodibenzodioxine  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-hydroxypropanoic acid  (ISO)
3-chloropropane-1,2-diol  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-tert-Octylphenol  (EXP)
6-propyl-2-thiouracil  (ISO)
acetamide  (ISO)
acrolein  (ISO)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (EXP)
alpha-pinene  (ISO)
amitrole  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
atrazine  (ISO)
auramine O  (ISO)
azathioprine  (ISO)
benzatropine  (ISO)
benzo[a]pyrene  (EXP,ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
C60 fullerene  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
carbamazepine  (ISO)
carbon nanotube  (EXP)
chlorpyrifos  (EXP)
chromium(6+)  (EXP)
clofibrate  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
Cuprizon  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
dextran sulfate  (EXP)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP,ISO)
diclofenac  (ISO)
dioxygen  (EXP)
elemental selenium  (EXP)
endosulfan  (ISO)
Enterolactone  (ISO)
epoxiconazole  (EXP)
flutamide  (ISO)
folic acid  (ISO)
fumonisin B1  (EXP)
gentamycin  (ISO)
indometacin  (ISO)
isotretinoin  (ISO)
ivermectin  (ISO)
lidocaine  (ISO)
lipopolysaccharide  (ISO)
methidathion  (EXP)
methimazole  (ISO)
methotrexate  (ISO)
nefazodone  (ISO)
nickel atom  (ISO)
nitrofen  (ISO)
O-methyleugenol  (ISO)
ozone  (EXP,ISO)
p-tert-Amylphenol  (EXP)
paracetamol  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (EXP)
perfluorooctanoic acid  (EXP)
phenobarbital  (EXP)
pirinixic acid  (EXP)
potassium chromate  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (ISO)
pyridoxine  (ISO)
quercetin  (EXP)
rac-lactic acid  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
selenium atom  (EXP)
silicon dioxide  (EXP)
sodium arsenate  (EXP)
sodium arsenite  (ISO)
sodium fluoride  (EXP)
sulfadimethoxine  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
tetrachloromethane  (EXP,ISO)
thioacetamide  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (EXP)
triptonide  (EXP)
troglitazone  (EXP)
trovafloxacin  (EXP)
tungsten  (EXP)
urethane  (ISO)
valproic acid  (ISO)
vancomycin  (EXP)
vinclozolin  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

References

References - curated
# Reference Title Reference Citation
1. Polymorphism of cytosolic serine hydroxymethyltransferase, estrogen and breast cancer risk among Chinese women in Taiwan. Cheng CW, etal., Breast Cancer Res Treat. 2008 Sep;111(1):145-55. Epub 2007 Sep 22.
2. Genetic polymorphisms in the one-carbon metabolism pathway and breast cancer risk: a population-based case-control study and meta-analyses. Lissowska J, etal., Int J Cancer. 2007 Jun 15;120(12):2696-703.
3. Affinity purification and characterization of serine hydroxymethyltransferases from rat liver. Masuda T, etal., J Biochem. 1987 Mar;101(3):643-52.
4. MGDs mouse GO annotations MGD data from the GO Consortium
5. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
6. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
7. Mouse MP Annotation Import Pipeline RGD automated import pipeline
8. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Proteomics success story. Towards early detection of breast and ovarian cancer: plasma proteomics as a tool to find novel markers. Souchelnytskyi S, etal., Proteomics. 2006 Sep;6 Suppl 2:65-8.
11. Trafficking of intracellular folates. Stover PJ and Field MS, Adv Nutr. 2011 Jul;2(4):325-31. doi: 10.3945/¿an.111.000596. Epub 2011 Jun 28.
12. Update and new concepts in vitamin responsive disorders of folate transport and metabolism. Watkins D and Rosenblatt DS, J Inherit Metab Dis. 2012 Jul;35(4):665-70. doi: 10.1007/s10545-011-9418-1. Epub 2011 Nov 23.
Additional References at PubMed
PMID:8863732   PMID:10049592   PMID:10349636   PMID:10725249   PMID:10922068   PMID:11042159   PMID:11063567   PMID:11076861   PMID:11217851   PMID:11544199   PMID:12226475   PMID:12466851  
PMID:12477932   PMID:12520002   PMID:12904583   PMID:14610273   PMID:14651853   PMID:14681479   PMID:16141072   PMID:16141073   PMID:17273973   PMID:18287559   PMID:18614015   PMID:18644786  
PMID:18799693   PMID:19513116   PMID:20439489   PMID:20977478   PMID:21226315   PMID:21267068   PMID:21346092   PMID:21406397   PMID:21677750   PMID:21873635   PMID:22057276   PMID:22438825  
PMID:23700346   PMID:24194600   PMID:25213861   PMID:27626380   PMID:32325033   PMID:34702858   PMID:35237793   PMID:36114006   PMID:37752684  


Genomics

Comparative Map Data
Shmt1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391160,679,723 - 60,702,062 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1160,678,930 - 60,702,544 (-)EnsemblGRCm39 Ensembl
GRCm381160,788,897 - 60,811,265 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1160,788,104 - 60,811,718 (-)EnsemblGRCm38mm10GRCm38
MGSCv371160,602,399 - 60,624,767 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361161,219,982 - 61,242,350 (-)NCBIMGSCv36mm8
MGSCv361160,605,092 - 60,627,460 (-)NCBIMGSCv36mm8
Cytogenetic Map11B2NCBI
cM Map1137.84NCBI
SHMT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381718,327,873 - 18,363,550 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1718,327,873 - 18,363,550 (-)EnsemblGRCh38hg38GRCh38
GRCh371718,231,187 - 18,266,864 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361718,171,912 - 18,207,581 (-)NCBINCBI36Build 36hg18NCBI36
Build 341718,171,912 - 18,207,581NCBI
Celera1719,172,258 - 19,207,893 (-)NCBICelera
Cytogenetic Map17p11.2NCBI
HuRef1717,984,719 - 18,020,240 (-)NCBIHuRef
CHM1_11718,239,946 - 18,275,839 (-)NCBICHM1_1
T2T-CHM13v2.01718,274,679 - 18,310,356 (-)NCBIT2T-CHM13v2.0
Shmt1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81045,968,959 - 45,990,341 (-)NCBIGRCr8
mRatBN7.21045,468,698 - 45,490,833 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1045,468,700 - 45,497,820 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1050,170,944 - 50,199,114 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01049,661,340 - 49,689,514 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01045,164,929 - 45,193,103 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01047,030,813 - 47,059,216 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1047,031,050 - 47,059,216 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01046,802,986 - 46,831,051 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41046,936,605 - 46,964,779 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11046,948,782 - 46,971,713 (-)NCBI
Celera1044,724,251 - 44,752,341 (-)NCBICelera
Cytogenetic Map10q22NCBI
Shmt1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495547810,978,139 - 11,001,202 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495547810,972,791 - 11,001,535 (+)NCBIChiLan1.0ChiLan1.0
SHMT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21952,905,330 - 52,940,088 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11757,616,479 - 57,650,574 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01732,870,949 - 32,905,690 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11737,849,206 - 37,884,220 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1737,849,206 - 37,884,220 (+)Ensemblpanpan1.1panPan2
SHMT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1541,221,531 - 41,248,653 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl541,221,562 - 41,253,166 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha541,361,842 - 41,388,892 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0541,329,062 - 41,356,290 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl541,329,080 - 41,356,907 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1541,296,632 - 41,323,803 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0541,244,262 - 41,272,073 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0541,435,940 - 41,463,042 (+)NCBIUU_Cfam_GSD_1.0
Shmt1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560260,989,489 - 61,018,689 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367411,849,609 - 1,877,727 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367411,849,239 - 1,877,724 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SHMT1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1260,416,463 - 60,435,450 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11260,414,421 - 60,435,451 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SHMT1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11617,371,704 - 17,408,499 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660593,494,856 - 3,535,333 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Shmt1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248493,114,876 - 3,146,248 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248493,108,875 - 3,146,669 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Shmt1
719 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:2994
Count of miRNA genes:876
Interacting mature miRNAs:1189
Transcripts:ENSMUST00000018744, ENSMUST00000124227, ENSMUST00000135081, ENSMUST00000172659, ENSMUST00000172804, ENSMUST00000173260, ENSMUST00000173698, ENSMUST00000174093, ENSMUST00000174174, ENSMUST00000174214, ENSMUST00000174719
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4141582Lgaq1_mlate growth adjusted QTL 1 (mouse)Not determined1226863768500330Mouse
1301896Tria1_mT-cell receptor induced activation 1 (mouse)Not determined113661356570613855Mouse
1301830Ssta4_msusceptibility to Salmonella typhimurium antigens 4 (mouse)Not determined115007819184078411Mouse
1300905Scc6_mcolon tumor susceptibility 6 (mouse)Not determined11688027789019734Mouse
1559002Lmrq4_mLeishmania major resistance QTL 4 (mouse)Not determined111226863769684947Mouse
1302186Blmpf2_mbleomycin-induced pulmonary fibrosis 2 (mouse)Not determined115406567067078411Mouse
1300664Etohcta9_methanol conditioned taste aversion 9 (mouse)Not determined115775466091754758Mouse
4141966Tailq1_mtail length QTL 1 (mouse)Not determined1226863768500330Mouse
1357878Mastr_mmodifier of astrocytoma (mouse)Not determined114570858189818733Mouse
4141830Pregq1_mpregnancy QTL 1 (mouse)Not determined115412675283733652Mouse
4141982Skts-fp2_mskin tumor susceptibility in FVB and PWK 2 (mouse)Not determined5871926685066529Mouse
4142109W10q2_mweight 10 weeks QTL 2 (mouse)Not determined1226863768500330Mouse
1357851Scfq3_msubcutaneous fat pad weight QTL 3 (mouse)Not determined111226863768500330Mouse
1301328Mol4_mmodifier of LPS-response 4 (mouse)Not determined113628257783481356Mouse
1301426Desp2_mdespair 2 (mouse)Not determined112870858162708700Mouse
13208569Bmiq10_mbody mass index QTL 10 (mouse)113589082784890826Mouse
1301788Lbw8_mlupus NZB x NZW 8 (mouse)Not determined113650328770509492Mouse
1357844Si5lq5_mserum IGFBP-5 level QTL 5 (mouse)Not determined112816587362165976Mouse
1301988Bmd11_mbone mineral density 11 (mouse)Not determined114631940780319522Mouse
27226798Scvln18_msacral vertebrae length 2, 16 week (mouse)11325000060690826Mouse
26884446Sklq10_mskull length QTL 10, 10 week (mouse)11325000062890826Mouse
26884453Sklq16_mskull length QTL 16, 16 week (mouse)11325000072690826Mouse
26884401Huml4_mhumerus length 4, 10 week (mouse)111155000068490826Mouse
27226762Feml21_mfemur length 21, 16 week (mouse)111175000065990826Mouse
13524848Ppiq7_mprepulse inhibition QTL 7 (mouse)112856914762569147Mouse
10766457Nwa3_mNew Zealand White autoimmunity 3 (mouse)113801611572016209Mouse
1300774Pgia7_mproteoglycan induced arthritis 7 (mouse)Not determined115339058887390737Mouse
4141875Etax9_methanol induced ataxia 9 (mouse)Not determined5528498572209927Mouse
4142121Tmc1m2_mTmc1 modifier 2 (mouse)Not determined1156864027114157957Mouse
4141853Skmw17_mskeletal muscle weight 17 (mouse)Not determined113708094171081064Mouse
4141367Inf1_macute ozone induced inflammation (mouse)Not determined44630038113058009Mouse
1302021Nidd1n_mnon-insulin-dependent diabetes mellitus 1 in NSY (mouse)Not determined114516587379978324Mouse
27226738Metcl11_mmetatarsal-calcaneal length 11, 10 week (mouse)11885000061390826Mouse
1357437Epfq4_mepididymal fat pad weight QTL 4 (mouse)Not determined111226863768500330Mouse
13208559Wght10_mweight 10 (mouse)11395000088890826Mouse
4142216Lgq1_mlate growth QTL 1 (mouse)Not determined1226863768500330Mouse
1357720Kidpq1_mkidney weight percentage QTL 1 (mouse)Not determined111226863768500330Mouse
39128214Lwq20_mliver weight QTL 20 (mouse)1112268637118022724Mouse
10412246Dfs2_mdental fluorosis suseptibility 2 (mouse)Not determined112180736495881231Mouse
1300765Bbaa4_mB.burgdorferi-associated arthritis 4 (mouse)Not determined114618516780185262Mouse
4142148Ckdbp2_mchronic kidney disease blood pressure locus 2 (mouse)Not determined115408094165103841Mouse
10053687Eae6_msusceptibility to experimental allergic encephalomyelitis 6 (mouse)Not determined111778196668500330Mouse
4141127W3q4_mweight 3 weeks QTL 4 (mouse)Not determined1226863768500330Mouse
4142308W6q3_mweight 6 weeks QTL 3 (mouse)Not determined111226863768500330Mouse
4141894Nidd6k_mNidd6 on KK-A (mouse)Not determined1912420496897826Mouse
4141084Spqq1_msperm quality QTL 1 (mouse)Not determined5406567063319522Mouse
13208558Lgth12_mbody length 12 (mouse)11395000094890826Mouse
11532698Sluc36a_msusceptibility to lung cancer 36a (mouse)114225661776256730Mouse
4142300Ctrq3_mC. trachomatis resistance QTL 3 (mouse)Not determined114463003876854757Mouse
13524840Ppiq9a_mprepulse inhibition QTL 9a (mouse)115249438586494385Mouse
10053682Eae45_mexperimental allergic encephalomyelitis susceptibility 45 (mouse)Not determined115849055574754758Mouse
1357640Orq2_movulation rate QTL 2 (mouse)Not determined111226863768500330Mouse
1558945Orgwq8_morgan weight QTL 8 (mouse)Not determined111705617567078411Mouse
11522752Cocia18_mcocaine-induced activity, QTL 18 (mouse)113100820965008209Mouse
11059563Lmr31_mleishmaniasis resistance 31 (mouse)113210057766100694Mouse
11532697Sluc36_msusceptibility to lung cancer 36 (mouse)115925661769482699Mouse
4141470Egq4_mearly growth QTL 4 (mouse)Not determined1226863768500330Mouse
11532699Sluc36b_msusceptibility to lung cancer 36b (mouse)114225661776256730Mouse
1357782Char8_mP. chabaudi malaria resistance QTL 8 (mouse)Not determined113557861669684987Mouse
1300924Ity2_mimmunity to S. typhimurium 2 (mouse)Not determined15850803087695238Mouse

Markers in Region
RH127015  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381160,789,000 - 60,789,237UniSTSGRCm38
MGSCv371160,602,502 - 60,602,739UniSTSGRCm37
Cytogenetic Map11B2UniSTS
AI385541  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381160,789,153 - 60,789,302UniSTSGRCm38
MGSCv371160,602,655 - 60,602,804UniSTSGRCm37
Cytogenetic Map11B2UniSTS
Whitehead/MRC_RH11799.62UniSTS
AI324848  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381160,789,024 - 60,789,302UniSTSGRCm38
MGSCv371160,602,526 - 60,602,804UniSTSGRCm37
Cytogenetic Map11B2UniSTS
Whitehead/MRC_RH11801.27UniSTS
UniSTS:224581  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381160,797,266 - 60,797,341UniSTSGRCm38
MGSCv371160,610,768 - 60,610,843UniSTSGRCm37
Cytogenetic Map11B2UniSTS
Shmt1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map11B2UniSTS
cM Map1137.84UniSTS


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001425410 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001425411 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001425412 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001425413 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001425414 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_009171 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF237702 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AI385541 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK010439 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK132342 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL596215 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BQ832130 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BQ942592 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CF159149 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH467490 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X94478 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X94479 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSMUST00000018744   ⟹   ENSMUSP00000018744
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1160,678,930 - 60,702,091 (-)Ensembl
GRCm38.p6 Ensembl1160,788,104 - 60,811,265 (-)Ensembl
RefSeq Acc Id: ENSMUST00000124227
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1160,683,775 - 60,688,679 (-)Ensembl
GRCm38.p6 Ensembl1160,792,949 - 60,797,853 (-)Ensembl
RefSeq Acc Id: ENSMUST00000135081
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1160,680,422 - 60,683,999 (-)Ensembl
GRCm38.p6 Ensembl1160,789,596 - 60,793,173 (-)Ensembl
RefSeq Acc Id: ENSMUST00000172659
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1160,695,171 - 60,702,544 (-)Ensembl
GRCm38.p6 Ensembl1160,804,345 - 60,811,718 (-)Ensembl
RefSeq Acc Id: ENSMUST00000172804
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1160,680,074 - 60,685,823 (-)Ensembl
GRCm38.p6 Ensembl1160,789,248 - 60,794,997 (-)Ensembl
RefSeq Acc Id: ENSMUST00000173260
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1160,688,071 - 60,701,917 (-)Ensembl
GRCm38.p6 Ensembl1160,797,245 - 60,811,091 (-)Ensembl
RefSeq Acc Id: ENSMUST00000173698
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1160,689,478 - 60,693,496 (-)Ensembl
GRCm38.p6 Ensembl1160,798,652 - 60,802,670 (-)Ensembl
RefSeq Acc Id: ENSMUST00000174093
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1160,679,727 - 60,690,229 (-)Ensembl
GRCm38.p6 Ensembl1160,788,901 - 60,799,403 (-)Ensembl
RefSeq Acc Id: ENSMUST00000174174   ⟹   ENSMUSP00000134703
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1160,679,970 - 60,697,847 (-)Ensembl
GRCm38.p6 Ensembl1160,789,144 - 60,807,021 (-)Ensembl
RefSeq Acc Id: ENSMUST00000174214   ⟹   ENSMUSP00000134269
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1160,679,970 - 60,697,847 (-)Ensembl
GRCm38.p6 Ensembl1160,789,144 - 60,807,021 (-)Ensembl
RefSeq Acc Id: ENSMUST00000174719   ⟹   ENSMUSP00000134318
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1160,679,970 - 60,697,847 (-)Ensembl
GRCm38.p6 Ensembl1160,789,144 - 60,807,021 (-)Ensembl
RefSeq Acc Id: NM_001425410   ⟹   NP_001412339
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391160,679,723 - 60,699,678 (-)NCBI
RefSeq Acc Id: NM_001425411   ⟹   NP_001412340
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391160,679,723 - 60,702,062 (-)NCBI
RefSeq Acc Id: NM_001425412   ⟹   NP_001412341
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391160,679,723 - 60,702,062 (-)NCBI
RefSeq Acc Id: NM_001425413   ⟹   NP_001412342
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391160,679,723 - 60,702,062 (-)NCBI
RefSeq Acc Id: NM_001425414   ⟹   NP_001412343
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391160,679,723 - 60,702,062 (-)NCBI
RefSeq Acc Id: NM_009171   ⟹   NP_033197
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391160,679,723 - 60,702,062 (-)NCBI
GRCm381160,788,897 - 60,811,265 (-)NCBI
MGSCv371160,602,399 - 60,624,767 (-)RGD
cM Map11 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_033197   ⟸   NM_009171
- Peptide Label: isoform 1
- UniProtKB: Q64508 (UniProtKB/Swiss-Prot),   Q8R0X9 (UniProtKB/Swiss-Prot),   P50431 (UniProtKB/Swiss-Prot),   Q9CWR5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000134318   ⟸   ENSMUST00000174719
RefSeq Acc Id: ENSMUSP00000134703   ⟸   ENSMUST00000174174
RefSeq Acc Id: ENSMUSP00000134269   ⟸   ENSMUST00000174214
RefSeq Acc Id: ENSMUSP00000018744   ⟸   ENSMUST00000018744
RefSeq Acc Id: NP_001412343   ⟸   NM_001425414
- Peptide Label: isoform 4
RefSeq Acc Id: NP_001412340   ⟸   NM_001425411
- Peptide Label: isoform 2
- UniProtKB: G3UZ26 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001412341   ⟸   NM_001425412
- Peptide Label: isoform 3
- UniProtKB: Q9CWR5 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001412342   ⟸   NM_001425413
- Peptide Label: isoform 3
- UniProtKB: Q9CWR5 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001412339   ⟸   NM_001425410
- Peptide Label: isoform 1
- UniProtKB: Q8R0X9 (UniProtKB/Swiss-Prot),   Q64508 (UniProtKB/Swiss-Prot),   P50431 (UniProtKB/Swiss-Prot),   Q9CWR5 (UniProtKB/TrEMBL)
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P50431-F1-model_v2 AlphaFold P50431 1-478 view protein structure

Promoters
RGD ID:6822093
Promoter ID:MM_KWN:7742
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_4Hour,   Liver
Transcripts:OTTMUST00000017726
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361160,606,296 - 60,607,432 (-)MPROMDB
RGD ID:6822094
Promoter ID:MM_KWN:7744
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Kidney,   Liver
Transcripts:OTTMUST00000017727
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361160,610,981 - 60,611,932 (-)MPROMDB
RGD ID:6822092
Promoter ID:MM_KWN:7745
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   ES_Cell,   Liver
Transcripts:OTTMUST00000017725,   UC007JGP.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361160,624,374 - 60,624,874 (-)MPROMDB
RGD ID:8674898
Promoter ID:EPDNEW_M15480
Type:initiation region
Name:Shmt1_1
Description:Mus musculus serine hydroxymethyltransferase 1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381160,811,188 - 60,811,248EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:98299 AgrOrtholog
Ensembl Genes ENSMUSG00000020534 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000018744 ENTREZGENE
  ENSMUST00000018744.15 UniProtKB/Swiss-Prot
  ENSMUST00000174174.8 UniProtKB/TrEMBL
  ENSMUST00000174214.2 UniProtKB/TrEMBL
  ENSMUST00000174719.8 UniProtKB/TrEMBL
Gene3D-CATH 3.40.640.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.90.1150.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro PyrdxlP-dep_Trfase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PyrdxlP-dep_Trfase_dom1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PyrdxlP-dep_Trfase_major UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ser_HO-MeTrfase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ser_HO-MeTrfase_PLP_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SHMT-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:20425 UniProtKB/Swiss-Prot
MGD MGI:98299 ENTREZGENE
NCBI Gene 20425 ENTREZGENE
PANTHER PTHR11680 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SERINE HYDROXYMETHYLTRANSFERASE, CYTOSOLIC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam SHMT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB SHMT1 RGD
PhenoGen Shmt1 PhenoGen
PIRSF SHMT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE SHMT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF53383 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt G3UYY1_MOUSE UniProtKB/TrEMBL
  G3UZ26 ENTREZGENE, UniProtKB/TrEMBL
  G3UZZ9_MOUSE UniProtKB/TrEMBL
  GLYC_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  Q64508 ENTREZGENE
  Q8R0X9 ENTREZGENE
  Q9CWR5 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary Q64508 UniProtKB/Swiss-Prot
  Q8R0X9 UniProtKB/Swiss-Prot