Ldha (lactate dehydrogenase A) - Rat Genome Database

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Gene: Ldha (lactate dehydrogenase A) Rattus norvegicus
Analyze
Symbol: Ldha
Name: lactate dehydrogenase A
RGD ID: 2996
Description: Exhibits several functions, including L-lactate dehydrogenase activity; NAD binding activity; and identical protein binding activity. Involved in several processes, including response to cAMP; response to estrogen; and response to glucose. Predicted to localize to cytosol and sperm fibrous sheath. Biomarker of hyperglycemia. Orthologous to human LDHA (lactate dehydrogenase A); PARTICIPATES IN hypoxia inducible factor pathway; cysteine and methionine metabolic pathway; gluconeogenesis pathway; INTERACTS WITH (+)-alpha-tocopherol; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: CDK1; L-lactate dehydrogenase A chain; lactate dehydrogenase A-like; LDH muscle subunit; LDH-A; LDH-M; Ldh1; LOC100364670
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2197,371,823 - 97,381,247 (+)NCBI
Rnor_6.0 Ensembl1102,900,286 - 102,909,707 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01102,900,288 - 102,909,713 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01103,975,209 - 103,984,638 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4197,403,077 - 97,412,547 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1197,481,187 - 97,490,658 (+)NCBI
Celera191,618,363 - 91,627,752 (+)NCBICelera
Cytogenetic Map1q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-alpha-tocopherol  (EXP)
(R,R)-tramadol  (ISO)
(Z)-3-butylidenephthalide  (ISO)
1,10-phenanthroline  (ISO)
1,4-benzoquinone  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP,ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-D  (EXP)
2,6-dinitrotoluene  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-bromopyruvic acid  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
acetamide  (EXP)
aconitine  (EXP)
acrylamide  (ISO)
aldehydo-D-glucose  (EXP,ISO)
all-trans-retinoic acid  (ISO)
alpha-naphthoflavone  (ISO)
AM-251  (EXP)
ammonium chloride  (EXP)
ammonium hexachloroplatinate  (ISO)
amphetamine  (EXP)
aristolochic acid  (ISO)
arsane  (EXP)
arsenic atom  (EXP)
arsenous acid  (ISO)
benzalkonium chloride  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bezafibrate  (EXP)
bis(2-chloroethyl) sulfide  (EXP)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
Brodifacoum  (EXP)
bucladesine  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
celecoxib  (ISO)
chloropicrin  (ISO)
chlorpyrifos  (ISO)
chromium(6+)  (ISO)
cis-caffeic acid  (EXP)
cisplatin  (ISO)
clofibrate  (EXP)
cobalt dichloride  (EXP,ISO)
cobalt(2+) sulfate  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
cyproconazole  (ISO)
D-glucose  (EXP,ISO)
DDT  (ISO)
dexamethasone  (ISO)
diallyl trisulfide  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
diclofenac  (EXP)
diethylstilbestrol  (EXP)
dihydroartemisinin  (ISO)
dihydrogen  (ISO)
dioxygen  (EXP,ISO)
diprotium  (ISO)
disodium selenite  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
enzyme inhibitor  (ISO)
epoxiconazole  (ISO)
ethanol  (EXP,ISO)
ethyl methanesulfonate  (ISO)
fluoranthene  (ISO)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (EXP,ISO)
furan  (EXP)
Fusaric acid  (ISO)
gallic acid  (EXP)
gamma-hexachlorocyclohexane  (ISO)
genistein  (EXP,ISO)
gentamycin  (EXP)
glucose  (EXP,ISO)
graphite  (ISO)
GW 4064  (ISO)
hexamethylene diisocyanate  (ISO)
indometacin  (ISO)
isoprenaline  (EXP)
lead diacetate  (EXP,ISO)
medroxyprogesterone acetate  (ISO)
menadione  (ISO)
methimazole  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
N-acetyl-L-cysteine  (EXP,ISO)
N-ethyl-N-nitrosourea  (ISO)
N-methyl-4-phenylpyridinium  (EXP,ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosomorpholine  (EXP)
NAD zwitterion  (EXP)
NAD(+)  (EXP)
naringin  (EXP)
nickel atom  (ISO)
nickel dichloride  (EXP,ISO)
nickel subsulfide  (ISO)
niclosamide  (ISO)
Nonidet P-40  (ISO)
Nonylphenol  (EXP)
oxamic acid  (ISO)
ozone  (EXP)
paclitaxel  (EXP,ISO)
paracetamol  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (EXP,ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (EXP)
procarbazine  (ISO)
progesterone  (EXP,ISO)
propiconazole  (ISO)
Propiverine  (EXP)
prostaglandin A1  (ISO)
prostaglandin E2  (ISO)
quercetin  (EXP,ISO)
reactive oxygen species  (ISO)
rotenone  (EXP)
Salinomycin  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (EXP,ISO)
sodium fluoride  (EXP,ISO)
sulindac sulfide  (ISO)
sunitinib  (ISO)
tamoxifen  (EXP,ISO)
tanespimycin  (ISO)
tapentadol  (ISO)
Tesaglitazar  (EXP)
thimerosal  (ISO)
thioacetamide  (ISO)
toxaphene  (EXP)
tramadol  (ISO)
trans-caffeic acid  (EXP)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triptonide  (ISO)
tungsten  (ISO)
tunicamycin  (ISO)
uranium atom  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vitamin E  (EXP)
Yessotoxin  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
1. Beebee TJ and Carty DS, Biochem J. 1982 Aug 1;205(2):313-20.
2. Beebee TJ and Carty DS, Biochim Biophys Acta. 1983 May 25;757(2):209-18.
3. Deindl E, etal., Physiol Res. 2003;52(2):147-57.
4. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. GOA data from the GO Consortium
6. Hong EJ, etal., Reprod Biol Endocrinol. 2006 Sep 29;4:49.
7. Huang D and Jungmann RA, Mol Cell Endocrinol. 1995 Feb 27;108(1-2):87-94.
8. Jonas JC, etal., J Biol Chem. 2001 Sep 21;276(38):35375-81. Epub 2001 Jul 16.
9. Jovanovic S, etal., J Mol Biol. 2007 Aug 10;371(2):349-61. Epub 2007 Jun 2.
10. Jungmann RA, etal., J Biol Chem. 1983 Apr 25;258(8):5312-8.
11. KEGG
12. Laybutt DR, etal., J Biol Chem. 2003 Jan 31;278(5):2997-3005. Epub 2002 Nov 15.
13. Lewis BC, etal., Cancer Res. 2000 Nov 1;60(21):6178-83.
14. Lopez IP, etal., Biochem Biophys Res Commun. 2004 May 21;318(1):234-9.
15. Matrisian LM, etal., Nucleic Acids Res 1985 Feb 11;13(3):711-26.
16. NCBI rat LocusLink and RefSeq merged data July 26, 2002
17. OMIM Disease Annotation Pipeline
18. Onishi Y, etal., Biochem Biophys Res Commun. 2005 Oct 28;336(3):799-806.
19. Peters CE, etal., Anesthesiology. 2001 Feb;94(2):313-21.
20. Pipeline to import KEGG annotations from KEGG into RGD
21. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
22. RGD automated data pipeline
23. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
24. RGD automated import pipeline for gene-chemical interactions
25. Shim H, etal., Proc Natl Acad Sci U S A. 1998 Feb 17;95(4):1511-6.
26. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
27. Tan WL, etal., Cancer Biol Ther. 2011 Mar 15;11(6):599-608. Epub 2011 Mar 15.
28. Tylicki A, etal., Horm Metab Res. 2007 Apr;39(4):268-72.
Additional References at PubMed
PMID:1996957   PMID:2991914   PMID:3796661   PMID:7323947   PMID:8224816   PMID:9125149   PMID:10322635   PMID:11276087   PMID:11487543   PMID:11980919   PMID:14760703   PMID:15489334  
PMID:15878851   PMID:16687649   PMID:18534967   PMID:18614015   PMID:19056867   PMID:19946888   PMID:20458337   PMID:21630459   PMID:21988832   PMID:22082260   PMID:22871113   PMID:22926577  
PMID:23376485   PMID:23533145   PMID:24086675   PMID:24625528   PMID:24835193   PMID:25468996   PMID:25502805   PMID:26316108   PMID:27654895   PMID:27988334   PMID:28495754   PMID:28818664  
PMID:28894025   PMID:29476059   PMID:29867124   PMID:30171160   PMID:31515488   PMID:32321555  


Genomics

Comparative Map Data
Ldha
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2197,371,823 - 97,381,247 (+)NCBI
Rnor_6.0 Ensembl1102,900,286 - 102,909,707 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01102,900,288 - 102,909,713 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01103,975,209 - 103,984,638 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4197,403,077 - 97,412,547 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1197,481,187 - 97,490,658 (+)NCBI
Celera191,618,363 - 91,627,752 (+)NCBICelera
Cytogenetic Map1q22NCBI
LDHA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1118,394,560 - 18,408,425 (+)EnsemblGRCh38hg38GRCh38
GRCh381118,394,563 - 18,408,425 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371118,416,110 - 18,429,972 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361118,372,687 - 18,385,969 (+)NCBINCBI36hg18NCBI36
Build 341118,372,686 - 18,385,969NCBI
Celera1118,550,876 - 18,564,695 (+)NCBI
Cytogenetic Map11p15.1NCBI
HuRef1118,101,143 - 18,114,981 (+)NCBIHuRef
CHM1_11118,415,425 - 18,429,229 (+)NCBICHM1_1
Ldha
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39746,491,698 - 46,505,051 (+)NCBIGRCm39mm39
GRCm39 Ensembl746,490,899 - 46,505,051 (+)Ensembl
GRCm38746,842,274 - 46,855,627 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl746,841,475 - 46,855,627 (+)EnsemblGRCm38mm10GRCm38
MGSCv37754,101,174 - 54,110,997 (+)NCBIGRCm37mm9NCBIm37
MGSCv36746,715,255 - 46,723,668 (+)NCBImm8
Celera742,325,754 - 42,335,573 (+)NCBICelera
Cytogenetic Map7B3NCBI
cM Map730.6NCBI
Ldha
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495541433,087,745 - 33,100,846 (+)NCBIChiLan1.0ChiLan1.0
LDHA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11118,115,250 - 18,128,400 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1118,115,250 - 18,128,400 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01118,432,347 - 18,445,694 (+)NCBIMhudiblu_PPA_v0panPan3
LDHA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12140,829,844 - 40,840,947 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2140,309,124 - 40,320,220 (+)NCBI
ROS_Cfam_1.02141,953,737 - 41,963,155 (+)NCBI
UMICH_Zoey_3.12140,945,678 - 40,956,764 (+)NCBI
UNSW_CanFamBas_1.02141,134,448 - 41,145,537 (+)NCBI
UU_Cfam_GSD_1.02141,511,954 - 41,523,047 (+)NCBI
Ldha
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494744,832,627 - 44,845,986 (-)NCBI
SpeTri2.0NW_004936528866,607 - 879,977 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LDHA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl240,812,453 - 40,826,715 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1240,814,163 - 40,827,284 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2243,896,319 - 43,909,457 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LDHA
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1146,525,090 - 46,542,587 (-)NCBI
Vero_WHO_p1.0NW_023666038143,887,277 - 143,900,854 (-)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15655769122614963Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)123406428108057505Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)125951907130917265Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134993530173445086Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)135377692217372257Rat
2313051Bss57Bone structure and strength QTL 573.70.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)143579208126240667Rat
2313059Bss55Bone structure and strength QTL 553.20.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143579208126240667Rat
2313072Bss53Bone structure and strength QTL 534.30.0001tibia length (VT:0004357)tibia length (CMO:0000450)143579208126240667Rat
2313078Bss54Bone structure and strength QTL 543.50.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)143579208126240667Rat
2313094Bss58Bone structure and strength QTL 583.70.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143579208126240667Rat
2313098Bmd70Bone mineral density QTL 703.60.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)143579208126240667Rat
2313099Bss56Bone structure and strength QTL 562.40.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143579208126240667Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)149147799156446783Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149578577169852184Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149578693217054291Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)157761301104391981Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)158209327103209327Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)158354072161711996Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)164588516125875986Rat
1300121Hrtrt1Heart rate QTL 13.7heart pumping trait (VT:2000009)heart rate (CMO:0000002)166113339122614963Rat
1549903Bp267Blood pressure QTL 267arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)179134941113593716Rat
7411712Strs4Sensitivity to stroke QTL 48.7cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)179689548124689548Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)182788437239853971Rat
10054135Gmadr2Adrenal mass QTL 21.970.0129adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)183502376128502376Rat
2313083Bmd74Bone mineral density QTL 7440.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)183656882126240667Rat
61344Bp29Blood pressure QTL 297.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)185779320130779320Rat
1582234Gluco18Glucose level QTL 183.40.0003blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)185917265130917265Rat
4889494Scort2Serum corticosterone level QTL 24.2blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)186776571131776571Rat
2300324Fetw1Fetal weight QTL 112.10.005fetal growth trait (VT:0004201)fetal body weight (CMO:0002080)188634585106002500Rat
724529Cm16Cardiac mass QTL 162.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)190804143161321256Rat
738022Anxrr13Anxiety related response QTL 134.60.00039locomotor behavior trait (VT:0001392)number of 20 x 20 cm floor squares crossed into, out of or within a discrete space in an experimental apparatus (CMO:0001514)191093646136093646Rat
724521Uae1Urinary albumin excretion QTL 13.80.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)194201400184846632Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)194201400197187904Rat
1302788Scl19Serum cholesterol QTL 194.60.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)194225372130917265Rat
1300153Bp171Blood pressure QTL 1713.37arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)194364073153076991Rat
724567Tcas6Tongue tumor susceptibility QTL 66.85tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)195304961156446783Rat
1331800Scl25Serum cholesterol level QTL 253.013blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)199983293127203999Rat
1331793Bp200Blood pressure QTL 2003.71601arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)199983293188289386Rat
1331751Bp199Blood pressure QTL 1993.60022arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)199983293198656062Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)199983293216213510Rat
70209Niddm23Non-insulin dependent diabetes mellitus QTL 232.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)199983293216325819Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1100131562236763528Rat
2293142Bp314Blood pressure QTL 314arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1100354344145354344Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:224
Count of miRNA genes:168
Interacting mature miRNAs:185
Transcripts:ENSRNOT00000017468, ENSRNOT00000074013
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.


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 8 19 13 13 3 4
Medium 3 35 44 28 19 28 8 8 70 35 41 11 8
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_017025 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006229232 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097411 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC099150 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC060587 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC084698 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC168737 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214632 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214854 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216623 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222202 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222273 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000033 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M54926 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X01964 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X89821 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000017468   ⟹   ENSRNOP00000017468
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1102,900,286 - 102,909,707 (+)Ensembl
RefSeq Acc Id: NM_017025   ⟹   NP_058721
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2197,371,823 - 97,381,242 (+)NCBI
Rnor_6.01102,900,288 - 102,909,707 (+)NCBI
Rnor_5.01103,975,209 - 103,984,638 (+)NCBI
RGSC_v3.4197,403,077 - 97,412,547 (+)RGD
Celera191,618,363 - 91,627,752 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006229232   ⟹   XP_006229294
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2197,373,143 - 97,381,247 (+)NCBI
Rnor_6.01102,901,586 - 102,909,713 (+)NCBI
Rnor_5.01103,975,209 - 103,984,638 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039097411   ⟹   XP_038953339
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2197,371,824 - 97,381,247 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_058721   ⟸   NM_017025
- UniProtKB: P04642 (UniProtKB/Swiss-Prot),   B5DEN4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006229294   ⟸   XM_006229232
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000017468   ⟸   ENSRNOT00000017468
RefSeq Acc Id: XP_038953339   ⟸   XM_039097411
- Peptide Label: isoform X2
Protein Domains
Ldh_1_C   Ldh_1_N

Transcriptome

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

Promoters
RGD ID:13690068
Promoter ID:EPDNEW_R592
Type:multiple initiation site
Name:Ldha_1
Description:lactate dehydrogenase A
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_6.01102,900,288 - 102,900,348EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
1 97404951 97404952 T C snv LCR/2Mco (UMich), HCR/2Mco (UMich)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2996 AgrOrtholog
Ensembl Genes ENSRNOG00000013009 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000017468 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000017468 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.90.110.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6919582 IMAGE-MGC_LOAD
  IMAGE:7122339 IMAGE-MGC_LOAD
InterPro L-lactate/malate_DH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  L-lactate_DH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  L-lactate_DH_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Lactate/malate_DH_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Lactate/malate_DH_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Lactate_DH/Glyco_Ohase_4_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NAD(P)-bd_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24533 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:105462 IMAGE-MGC_LOAD
  MGC:72944 IMAGE-MGC_LOAD
NCBI Gene 24533 ENTREZGENE
Pfam Ldh_1_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ldh_1_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ldha PhenoGen
PIRSF Lac_mal_DH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS LLDHDRGNASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE L_LDH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF51735 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF56327 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs L-LDH-NAD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt B5DEN4 ENTREZGENE, UniProtKB/TrEMBL
  LDHA_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-03-29 Ldha  lactate dehydrogenase A  LOC100364670  lactate dehydrogenase A-like  Data Merged 737654 PROVISIONAL
2010-05-05 LOC100364670  lactate dehydrogenase A-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2002-11-06 Ldha  lactate dehydrogenase A    Lactate dehydrogenase A  Name updated 625702 APPROVED
2002-06-10 Ldha  Lactate dehydrogenase A      Symbol and Name status set to approved 70586 APPROVED