Tyms (thymidylate synthetase) - Rat Genome Database

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Gene: Tyms (thymidylate synthetase) Rattus norvegicus
Analyze
Symbol: Tyms
Name: thymidylate synthetase
RGD ID: 3921
Description: Enables several functions, including folic acid binding activity; protein homodimerization activity; and thymidylate synthase activity. Involved in several processes, including nucleobase-containing small molecule metabolic process; response to steroid hormone; and response to vitamin. Located in mitochondrion and nucleolus. Used to study urinary bladder cancer. Biomarker of colorectal adenocarcinoma. Human ortholog(s) of this gene implicated in gastrointestinal system cancer (multiple); hematologic cancer (multiple); and rheumatoid arthritis. Orthologous to human TYMS (thymidylate synthetase); PARTICIPATES IN folate mediated one-carbon metabolic pathway; folate metabolic pathway; pyrimidine metabolic pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: MGC156654; thymidylate synthase; TS; TSase
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.29113,313,454 - 113,329,551 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl9113,313,452 - 113,329,536 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx9121,800,847 - 121,813,531 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.09126,929,987 - 126,942,671 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.09125,275,890 - 125,288,575 (-)NCBIRnor_WKY
Rnor_6.09121,918,875 - 121,931,564 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9121,918,947 - 121,931,564 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.09121,368,418 - 121,381,493 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.49112,604,912 - 112,617,706 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.19112,814,399 - 112,827,186 (-)NCBI
Celera9110,420,900 - 110,433,600 (-)NCBICelera
RH 3.4 Map9866.0RGD
Cytogenetic Map9q38NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-gambogic acid  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-naphthyl isothiocyanate  (EXP)
14-Deoxy-11,12-didehydroandrographolide  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3-dimethoxynaphthalene-1,4-dione  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-methylcholine  (ISO)
2-nitrofluorene  (EXP)
3,3'-diindolylmethane  (ISO)
3,7-dihydropurine-6-thione  (ISO)
3-chloropropane-1,2-diol  (EXP)
3-methylcholanthrene  (ISO)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (EXP)
4-hydroxyphenyl retinamide  (ISO)
5,6,7,8-tetrahydrofolic acid  (EXP)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (EXP,ISO)
5-formyltetrahydrofolic acid  (ISO)
5-iodo-2'-deoxyuridine  (ISO)
7,9-dihydro-1H-purine-2,6,8(3H)-trione  (ISO)
acetamide  (EXP)
acetylleucyl-leucyl-norleucinal  (ISO)
acrylamide  (ISO)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
antimony(0)  (ISO)
antimycin A  (ISO)
antirheumatic drug  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
atrazine  (ISO)
azathioprine  (ISO)
azoxystrobin  (ISO)
belinostat  (ISO)
benzatropine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-naphthoflavone  (EXP)
bicalutamide  (ISO)
Biflorin  (ISO)
bisphenol A  (EXP,ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
cadmium sulfate  (ISO)
caffeine  (EXP)
calcitriol  (ISO)
camptothecin  (ISO)
capecitabine  (ISO)
carboplatin  (ISO)
cefaloridine  (EXP)
chromium atom  (ISO)
Cinobufagin  (ISO)
cisplatin  (ISO)
cobalt dichloride  (EXP,ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
cycloheximide  (ISO)
cyclosporin A  (ISO)
cytarabine  (ISO)
daunorubicin  (ISO)
DDT  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (ISO)
dichlorine  (EXP)
diethylstilbestrol  (EXP)
dioxygen  (ISO)
dipotassium bis[mu-tartrato(4-)]diantimonate(2-) trihydrate  (ISO)
DISTAMYCIN A  (ISO)
doxifluridine  (ISO)
doxorubicin  (ISO)
dTMP  (ISO)
dUMP  (ISO)
endosulfan  (EXP)
Enterolactone  (ISO)
enzyme inhibitor  (ISO)
erlotinib hydrochloride  (ISO)
ethyl methanesulfonate  (ISO)
etoposide  (ISO)
fipronil  (EXP)
floxuridine  (ISO)
flurbiprofen  (ISO)
folic acid  (EXP,ISO)
furan  (EXP)
gefitinib  (ISO)
genistein  (ISO)
gentamycin  (EXP)
geraniol  (ISO)
Heliotrine  (EXP)
ICI D1694  (ISO)
irinotecan  (ISO)
ivermectin  (ISO)
ketamine  (EXP)
lamivudine  (ISO)
lead(II) chloride  (ISO)
lidocaine  (EXP)
lipopolysaccharide  (ISO)
malathion  (ISO)
menadione  (ISO)
mercaptopurine  (ISO)
mercury atom  (ISO)
mercury(0)  (ISO)
methapyrilene  (EXP)
methcathinone  (ISO)
methotrexate  (EXP,ISO)
methoxyacetic acid  (EXP)
methyl methanesulfonate  (ISO)
methylmercury chloride  (EXP)
methylseleninic acid  (ISO)
mitomycin C  (ISO)
Monobutylphthalate  (EXP)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (EXP)
N-nitrosomorpholine  (EXP)
nickel atom  (ISO)
nickel dichloride  (EXP)
oxaliplatin  (EXP,ISO)
ozone  (EXP,ISO)
paclitaxel  (ISO)
palbociclib  (ISO)
paracetamol  (ISO)
pemetrexed  (ISO)
phenobarbital  (ISO)
phenolphthalein  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
phytoestrogen  (ISO)
piperonyl butoxide  (EXP)
pirinixic acid  (EXP,ISO)
potassium dichromate  (ISO)
prednisone  (ISO)
progesterone  (ISO)
purine-6-thiol  (ISO)
quercetin  (EXP,ISO)
quinazolines  (ISO)
quizartinib  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
senecionine  (EXP)
Senkirkine  (EXP)
silicon dioxide  (ISO)
simvastatin  (ISO)
sirolimus  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
sunitinib  (ISO)
tanespimycin  (ISO)
Tegafur  (ISO)
temozolomide  (ISO)
Temsirolimus  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
thymidine  (ISO)
titanium dioxide  (ISO)
toluene 2,4-diisocyanate  (ISO)
TOMUDEX  (EXP)
topotecan  (EXP)
trichostatin A  (ISO)
triclosan  (ISO)
trimellitic anhydride  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vincristine  (ISO)
vorinostat  (ISO)
wogonin  (ISO)
zidovudine  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (ISO,ISS)
cytosol  (IBA)
mitochondrial inner membrane  (ISO,ISS)
mitochondrial matrix  (ISO,ISS)
mitochondrion  (IBA,IDA,ISO)
nucleolus  (IDA)
nucleus  (ISO,ISS)

References

References - curated
# Reference Title Reference Citation
1. Circadian variation in intestinal dihydropyrimidine dehydrogenase (DPD) expression: a potential mechanism for benefits of 5FU chrono-chemotherapy. Abolmaali K, etal., Surgery. 2009 Aug;146(2):269-73.
2. Thymidylate synthetase and thymidine kinase activities in rat growing cartilage. Amano M Bull Tokyo Med Dent Univ. 1987 Mar;34(1):1-8.
3. Simultaneous measurement of one-carbon and polyglutamate derivatives of folic acid in rat liver using enzymatic interconversions of folates followed by ternary complex formation with thymidylate synthetase and 5-fluorodeoxyuridylic acid: standardization of the method. Carl GF and Smith ML, J Nutr. 1995 May;125(5):1245-57.
4. Antitumour effects of pure diastereoisomers of 5-formyltetrahydrofolate in hepatic transplants of a rodent colon carcinoma model. Carlsson G, etal., Biochem Pharmacol. 1995 Oct 26;50(9):1347-51.
5. Thymidylate synthase protein and p53 mRNA form an in vivo ribonucleoprotein complex. Chu E, etal., Mol Cell Biol. 1999 Feb;19(2):1582-94.
6. Isolation and expression of rat thymidylate synthase cDNA: phylogenetic comparison with human and mouse thymidylate synthases. Ciesla J, etal., Biochim Biophys Acta 1995 Apr 4;1261(2):233-42.
7. In vitro and in vivo reversal of resistance to 5-fluorouracil in colorectal cancer cells with a novel stealth double-liposomal formulation. Fanciullino R, etal., Br J Cancer. 2007 Oct 8;97(7):919-26. Epub 2007 Sep 11.
8. Properties of phosphorylated thymidylate synthase. Fraczyk T, etal., Biochim Biophys Acta. 2015 Dec;1854(12):1922-34. doi: 10.1016/j.bbapap.2015.08.007. Epub 2015 Aug 24.
9. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
10. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
11. Relative activities of thymidylate synthetase and thymidine kinase in rat tissues. Herzfeld A and Raper SM, Cancer Res. 1980 Mar;40(3):744-50.
12. Preventive effects of polysaccharides extracted from human tubercle bacilli (specific substance of Maruyama) on colonic carcinogenesis in rats. Iida K, etal., Cancer Detect Prev. 1997;21(5):476-82.
13. Association of the TYMS 3G/3G genotype with poor response and GGH 354GG genotype with the bone marrow toxicity of the methotrexate in RA patients. Jekic B, etal., Eur J Clin Pharmacol. 2013 Mar;69(3):377-83. doi: 10.1007/s00228-012-1341-3. Epub 2012 Jul 5.
14. Germline TYMS genotype is highly predictive in patients with metastatic gastrointestinal malignancies receiving capecitabine-based chemotherapy. Joerger M, etal., Cancer Chemother Pharmacol. 2015 Apr;75(4):763-72. doi: 10.1007/s00280-015-2698-7. Epub 2015 Feb 13.
15. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
16. Association between polymorphisms of folate-metabolizing enzymes and hematological malignancies. Kim HN, etal., Leuk Res. 2009 Jan;33(1):82-7. doi: 10.1016/j.leukres.2008.07.026. Epub 2008 Sep 6.
17. Effect of folic acid on thymidylate synthase and thymidine kinase in regenerating rat liver after partial hepatectomy. Komatsu M and Tsukamoto I, Biochim Biophys Acta. 1998 Feb 2;1379(2):289-96.
18. Does macrophage-colony stimulating factor stimulate rat haematopoietic cells? Kudo H, etal., Oncol Rep. 2000 May-Jun;7(3):621-4.
19. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
20. Thymidylate synthetase of in vitro chemically and virally transformed rat cells. Langenbach Biochim Biophys Acta. 1976 Feb 13;422(2):295-301.
21. Polymorphisms of methylenetetrahydrofolate reductase (MTHFR), methionine synthase (MTR), methionine synthase reductase (MTRR), and thymidylate synthase (TYMS) in multiple myeloma risk. Lima CS, etal., Leuk Res. 2008 Mar;32(3):401-5. Epub 2007 Jul 25.
22. Response to chemotherapy and tandem autologous transplantation of multiple myeloma patients and GSTP1 and TYMS polymorphisms. Maggini V, etal., Leuk Res. 2008 Jan;32(1):49-53. Epub 2007 May 23.
23. Splenomegaly induced by recombinant human granulocyte-colony stimulating factor in rats. Nakayama T, etal., Life Sci. 2001 Aug 17;69(13):1521-9.
24. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
25. Retinoic acid repressed the expression of c-fos and c-jun and induced apoptosis in regenerating rat liver after partial hepatectomy. Ozeki A and Tsukamoto I, Biochim Biophys Acta. 1999 Jul 8;1450(3):308-19.
26. Thymidylate synthase gene polymorphism predicts response to capecitabine in advanced colorectal cancer. Park DJ, etal., Int J Colorectal Dis 2002 Jan;17(1):46-9.
27. Identification of new SNPs associated with severe toxicity to capecitabine. Pellicer M, etal., Pharmacol Res. 2017 Jun;120:133-137. doi: 10.1016/j.phrs.2017.03.021. Epub 2017 Mar 27.
28. Differentiation associated changes in thymidylate synthetase and thymidine kinase activities in intestinal cells. Peterson AM Cell Differ. 1976 Apr;5(1):37-43.
29. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
30. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
31. GOA pipeline RGD automated data pipeline
32. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
33. Additive effects of medroxyprogesterone acetate and 5-fluorouracil derivative on 7,12-dimethylbenzanthracene-induced rat mammary tumors. Sakamoto S, etal., Anticancer Drugs. 1998 Apr;9(4):351-7.
34. Synergistic effect of oral UFT in combination with cisplatin on DNA synthesis in rat hepatocarcinomas. Sakamoto S, etal., Anticancer Res. 1993 May-Jun;13(3):631-4.
35. Effects of 5-fluorouracil derivative UFT on thymidylate synthetase and thymidine kinase in rat colorectal tumors. Sakamoto S, etal., Anticancer Res. 1999 Jan-Feb;19(1A):245-50.
36. Correlation between histological differentiation and DNA-synthesizing enzymes in rat colorectal tumors induced with 1, 2-dimethylhydrazine. Sakamoto S, etal., Oncol Rep. 1999 Nov-Dec;6(6):1321-5.
37. Intracellular location of thymidylate synthase and its state of phosphorylation. Samsonoff WA, etal., J Biol Chem. 1997 May 16;272(20):13281-5.
38. Crystal structures of rat thymidylate synthase inhibited by Tomudex, a potent anticancer drug. Sotelo-Mundo RR, etal., Biochemistry 1999 Jan 19;38(3):1087-94.
39. 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.
40. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
41. 5-Fluorouracil incorporated into the tissue RNA of human and rat bladder carcinoma after administration of 1-(2-tetrahydrofuryl)-5-fluorouracil combined with uracil. Tsujimoto S, etal., Int J Clin Oncol. 2008 Apr;13(2):138-43. Epub 2008 May 8.
42. The effects of fluorouracil on thymidylate synthase and thymidine kinase in regenerating rat liver after partial hepatectomy. Tsukamoto I and Kojo S, Biochim Biophys Acta. 1991 May 24;1074(1):52-5.
43. Effect of glucocorticoid on liver regeneration after partial hepatectomy in the rat. Tsukamoto I and Kojo S, Gut. 1989 Mar;30(3):387-90.
44. Inhibition of thymidylate synthase and thymidine kinase by okadaic acid in regenerating rat liver after partial hepatectomy. Tsukamoto I, etal., Biochem Pharmacol. 1996 Sep 27;52(6):879-84.
45. A new immunoblotting assay for thymidylate synthetase and its application to the regulation of enzyme activity in regenerating rat liver. Tsukamoto I, etal., Biochim Biophys Acta. 1988 Feb 17;964(2):254-9.
46. 5-Fluorocytosine-mediated apoptosis and DNA damage in glioma cells engineered to express cytosine deaminase and their enhancement with interferon. Wang ZH, etal., J Neurooncol. 1998 Feb;36(3):219-29.
47. Protective effects of an antiulcer agent, ecabet sodium on colorectal carcinogenesis in rodents. Yarimizu T, etal., Oncol Rep. 1998 Sep-Oct;5(5):1103-7.
48. Ethanol represses thymidylate synthase and thymidine kinase at mRNA level in regenerating rat liver after partial hepatectomy. Yoshida Y, etal., Biochim Biophys Acta. 1997 Aug 29;1336(2):180-6.
49. Genetic polymorphisms in the methylenetetrahydrofolate reductase and thymidylate synthase genes and risk of hepatocellular carcinoma. Yuan JM, etal., Hepatology. 2007 Sep;46(3):749-58. doi: 10.1002/hep.21735.
50. Genetic polymorphisms in candidate genes predict increased toxicity with methotrexate therapy in Lebanese children with acute lymphoblastic leukemia. Zgheib NK, etal., Pharmacogenet Genomics. 2014 Aug;24(8):387-96. doi: 10.1097/FPC.0000000000000069.
Additional References at PubMed
PMID:1924359   PMID:8845352   PMID:11278511   PMID:12477932   PMID:15093541   PMID:16079077   PMID:21876188  


Genomics

Comparative Map Data
Tyms
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.29113,313,454 - 113,329,551 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl9113,313,452 - 113,329,536 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx9121,800,847 - 121,813,531 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.09126,929,987 - 126,942,671 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.09125,275,890 - 125,288,575 (-)NCBIRnor_WKY
Rnor_6.09121,918,875 - 121,931,564 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9121,918,947 - 121,931,564 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.09121,368,418 - 121,381,493 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.49112,604,912 - 112,617,706 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.19112,814,399 - 112,827,186 (-)NCBI
Celera9110,420,900 - 110,433,600 (-)NCBICelera
RH 3.4 Map9866.0RGD
Cytogenetic Map9q38NCBI
TYMS
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3818657,653 - 673,578 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl18657,653 - 673,578 (+)EnsemblGRCh38hg38GRCh38
GRCh3718657,653 - 673,578 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3618647,651 - 663,492 (+)NCBINCBI36Build 36hg18NCBI36
Build 3418647,650 - 663,492NCBI
Celera18532,413 - 547,810 (+)NCBICelera
Cytogenetic Map18p11.32NCBI
HuRef18617,665 - 633,936 (+)NCBIHuRef
CHM1_118656,968 - 672,692 (+)NCBICHM1_1
T2T-CHM13v2.018811,985 - 827,856 (+)NCBIT2T-CHM13v2.0
Tyms
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39530,243,544 - 30,279,261 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl530,263,200 - 30,278,615 (-)EnsemblGRCm39 Ensembl
GRCm38530,038,546 - 30,073,645 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl530,058,202 - 30,073,617 (-)EnsemblGRCm38mm10GRCm38
MGSCv37530,384,740 - 30,400,165 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36530,389,614 - 30,404,368 (-)NCBIMGSCv36mm8
Celera527,575,630 - 27,591,037 (-)NCBICelera
Cytogenetic Map5B1NCBI
cM Map515.81NCBI
Tyms
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554029,296,321 - 9,306,631 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554029,295,862 - 9,304,952 (-)NCBIChiLan1.0ChiLan1.0
TYMS
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11817,295,182 - 17,310,311 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1817,295,182 - 17,310,320 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01813,653,085 - 13,668,478 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
TYMS
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1767,487,927 - 67,497,747 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl767,487,927 - 67,497,747 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha766,941,464 - 66,951,243 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0767,553,912 - 67,563,695 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl767,553,912 - 67,563,695 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1767,230,668 - 67,240,435 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0767,242,107 - 67,251,886 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0767,544,017 - 67,553,794 (+)NCBIUU_Cfam_GSD_1.0
Tyms
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494463,774,083 - 63,783,067 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493655034,048 - 41,840 (-)EnsemblSpeTri2.0
SpeTri2.0NW_00493655033,797 - 42,233 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TYMS
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6105,642,381 - 105,660,578 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16105,642,730 - 105,660,279 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
TYMS
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11860,030,640 - 60,043,297 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1860,030,658 - 60,041,856 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605034,821,625 - 34,834,281 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tyms
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477011,138,652 - 11,149,600 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477011,138,673 - 11,149,600 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

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Variants in Tyms
15 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:172
Count of miRNA genes:134
Interacting mature miRNAs:147
Transcripts:ENSRNOT00000056243
Prediction methods:Microtar, Miranda, Rnahybrid
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat

Markers in Region
RH94514  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera9110,420,954 - 110,421,052UniSTS
RH 3.4 Map9866.0UniSTS
Cytogenetic Map9q38UniSTS


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 renal system reproductive system respiratory system appendage
High
Medium 3 34 48 32 19 32 1 1 69 34 35 11 1
Low 9 9 9 9 7 10 5 1 6 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000056243   ⟹   ENSRNOP00000053086
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl9113,313,452 - 113,329,481 (-)Ensembl
Rnor_6.0 Ensembl9121,918,947 - 121,931,564 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000093931   ⟹   ENSRNOP00000084093
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl9113,315,276 - 113,329,536 (-)Ensembl
RefSeq Acc Id: NM_019179   ⟹   NP_062052
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29113,316,779 - 113,329,478 (-)NCBI
Rnor_6.09121,918,875 - 121,931,564 (-)NCBI
Rnor_5.09121,368,418 - 121,381,493 (-)NCBI
RGSC_v3.49112,604,912 - 112,617,706 (-)RGD
Celera9110,420,900 - 110,433,600 (-)RGD
Sequence:
RefSeq Acc Id: XM_008767421   ⟹   XP_008765643
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29113,313,454 - 113,328,322 (-)NCBI
Rnor_6.09121,919,276 - 121,930,981 (-)NCBI
Sequence:
RefSeq Acc Id: XR_005488858
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29113,313,454 - 113,329,551 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_062052   ⟸   NM_019179
- UniProtKB: A0JN23 (UniProtKB/Swiss-Prot),   P45352 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008765643   ⟸   XM_008767421
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000053086   ⟸   ENSRNOT00000056243
RefSeq Acc Id: ENSRNOP00000084093   ⟸   ENSRNOT00000093931
Protein Domains
Thymidylat_synt

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P45352-F1-model_v2 AlphaFold P45352 1-307 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13696918
Promoter ID:EPDNEW_R7443
Type:initiation region
Name:Tyms_1
Description:thymidylate synthetase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.09121,931,588 - 121,931,648EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3921 AgrOrtholog
BioCyc Gene G2FUF-26304 BioCyc
BioCyc Pathway 1CMET2-PWY [folate transformations III (E. coli)] BioCyc
  PWY-7184 [pyrimidine deoxyribonucleotides de novo biosynthesis I] BioCyc
  PWY-7199 [pyrimidine deoxyribonucleosides salvage] BioCyc
  PWY-7210 [pyrimidine deoxyribonucleotides biosynthesis from CTP] BioCyc
  PWY66-385 [dTMP de novo biosynthesis (mitochondrial)] BioCyc
Ensembl Genes ENSRNOG00000037225 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000053086 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000084093.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000056243 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000093931.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.572.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:8362547 IMAGE-MGC_LOAD
InterPro Thymidate_synth/dCMP_Mease UniProtKB/Swiss-Prot
  Thymidate_synth/dCMP_Mease UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Thymidate_synth/dCMP_Mease_dom UniProtKB/TrEMBL
  Thymidate_synth/dCMP_Mease_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Thymidylate_synthase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Thymidylate_synthase_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29261 UniProtKB/Swiss-Prot
MGC_CLONE MGC:156654 IMAGE-MGC_LOAD
NCBI Gene 29261 ENTREZGENE
PANTHER PTHR11548 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Thymidylat_synt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB TYMS RGD
PhenoGen Tyms PhenoGen
PRINTS THYMDSNTHASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE THYMIDYLATE_SYNTHASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF55831 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC239473
TIGRFAMs thym_sym UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6G9V7_RAT UniProtKB/TrEMBL
  A0JN23 ENTREZGENE
  P45352 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary A0JN23 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-10-23 Tyms  thymidylate synthetase  Tyms  thymidylate synthase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Tyms  thymidylate synthase      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_protein 307 amino acids; 35 kDa 70045