Plod2 (procollagen lysine, 2-oxoglutarate 5-dioxygenase 2) - Rat Genome Database

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Advanced Search (OLGA)
Gene: Plod2 (procollagen lysine, 2-oxoglutarate 5-dioxygenase 2) Rattus norvegicus
Analyze
Symbol: Plod2
Name: procollagen lysine, 2-oxoglutarate 5-dioxygenase 2
RGD ID: 3353
Description: Predicted to enable procollagen-lysine 5-dioxygenase activity. Involved in cellular response to hormone stimulus and response to hypoxia. Predicted to be located in rough endoplasmic reticulum membrane. Predicted to be active in several cellular components, including Golgi apparatus; endoplasmic reticulum; and extracellular space. Biomarker of hypothyroidism. Orthologous to human PLOD2 (procollagen-lysine,2-oxoglutarate 5-dioxygenase 2); PARTICIPATES IN lysine degradation pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LH2; lysyl hydroxylase 2; Procollagen-lysine 2-oxoglutarate 5-dioxygenase (Lysine hydroxylase) 2; Procollagen-lysine, 2-oxoglutarate 5-dioxygenase (Lysine hydroxylase) 2; procollagen-lysine, 2-oxoglutarate 5-dioxygenase 2; procollagen-lysine,2-oxoglutarate 5-dioxygenase 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88101,964,318 - 102,047,022 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl8101,964,318 - 102,047,022 (+)EnsemblGRCr8
mRatBN7.2893,084,548 - 93,167,255 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl893,084,513 - 93,167,255 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx898,757,951 - 98,827,969 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0896,957,203 - 97,027,220 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0894,787,446 - 94,864,034 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0899,977,334 - 100,059,736 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl899,977,334 - 100,059,736 (+)Ensemblrn6Rnor6.0
Rnor_5.0899,543,695 - 99,545,578 (+)NCBIRnor_5.0Rnor_5.0rn5
Rnor_5.0899,462,925 - 99,529,696 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4897,525,279 - 97,623,152 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera892,602,361 - 92,678,608 (+)NCBICelera
RGSC_v3.1897,544,733 - 97,642,604 (+)NCBI
Cytogenetic Map8q31NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2-bromohexadecanoic acid  (ISO)
2-hydroxypropanoic acid  (ISO)
4,4'-diaminodiphenylmethane  (EXP,ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acrylamide  (ISO)
aflatoxin B1  (EXP,ISO)
aflatoxin M1  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
Azoxymethane  (ISO)
benzo[a]pyrene  (ISO)
beta-lapachone  (ISO)
beta-naphthoflavone  (EXP,ISO)
bexarotene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
butan-1-ol  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
cadmium sulfate  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chloropicrin  (ISO)
choline  (ISO)
ciglitazone  (EXP)
cisplatin  (ISO)
cobalt atom  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
curcumin  (ISO)
cyclosporin A  (ISO)
D-glucose  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diallyl trisulfide  (EXP)
dicrotophos  (ISO)
dimethyl sulfoxide  (EXP)
dimethylarsinic acid  (EXP)
dioxygen  (ISO)
disulfiram  (ISO)
dorsomorphin  (ISO)
doxifluridine  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
Enterolactone  (ISO)
entinostat  (ISO)
enzalutamide  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
folic acid  (ISO)
fonofos  (ISO)
fulvestrant  (ISO)
furan  (EXP)
gardiquimod  (ISO)
genistein  (EXP)
glucose  (ISO)
isoniazide  (ISO)
ivermectin  (ISO)
L-methionine  (ISO)
lead diacetate  (EXP,ISO)
medroxyprogesterone acetate  (ISO)
mercury dibromide  (ISO)
methimazole  (EXP)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
mifepristone  (ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (EXP)
nickel atom  (ISO)
Nivalenol  (ISO)
okadaic acid  (ISO)
oxaliplatin  (EXP)
ozone  (EXP,ISO)
panobinostat  (ISO)
paracetamol  (ISO)
paraquat  (EXP,ISO)
parathion  (ISO)
pentane-2,3-dione  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP)
phenylarsine oxide  (ISO)
phenylmercury acetate  (ISO)
phosgene  (ISO)
progesterone  (EXP)
protein kinase inhibitor  (ISO)
quercetin  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
rotenone  (EXP)
Salinomycin  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sulfadimethoxine  (EXP)
sunitinib  (ISO)
tamoxifen  (ISO)
Tanshinone I  (ISO)
temozolomide  (ISO)
terbufos  (ISO)
testosterone  (EXP)
testosterone enanthate  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP,ISO)
trichostatin A  (ISO)
triclosan  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
Tungsten carbide  (ISO)
valproic acid  (ISO)
vandetanib  (ISO)
vitamin E  (ISO)
vorinostat  (ISO)
Yessotoxin  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. PLOD2 regulated by transcription factor FOXA1 promotes metastasis in NSCLC. Du H, etal., Cell Death Dis. 2017 Oct 26;8(10):e3143. doi: 10.1038/cddis.2017.553.
2. 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.
3. Oxygen tension regulates the expression of a group of procollagen hydroxylases. Hofbauer KH, etal., Eur J Biochem 2003 Nov;270(22):4515-22.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
6. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Comprehensive gene review and curation RGD comprehensive gene curation
10. Differential expression of procollagen lysine 2-oxoglutarate 5-deoxygenase and matrix metalloproteinase isoforms in hypothyroid rat ovary and disintegration of extracellular matrix. Saha SK, etal., Endocrinology. 2005 Jul;146(7):2963-75. Epub 2005 Apr 7.
Additional References at PubMed
PMID:10934207   PMID:15174142   PMID:19199708   PMID:37670228   PMID:37981258  


Genomics

Comparative Map Data
Plod2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88101,964,318 - 102,047,022 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl8101,964,318 - 102,047,022 (+)EnsemblGRCr8
mRatBN7.2893,084,548 - 93,167,255 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl893,084,513 - 93,167,255 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx898,757,951 - 98,827,969 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0896,957,203 - 97,027,220 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0894,787,446 - 94,864,034 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0899,977,334 - 100,059,736 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl899,977,334 - 100,059,736 (+)Ensemblrn6Rnor6.0
Rnor_5.0899,543,695 - 99,545,578 (+)NCBIRnor_5.0Rnor_5.0rn5
Rnor_5.0899,462,925 - 99,529,696 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4897,525,279 - 97,623,152 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera892,602,361 - 92,678,608 (+)NCBICelera
RGSC_v3.1897,544,733 - 97,642,604 (+)NCBI
Cytogenetic Map8q31NCBI
PLOD2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383146,069,440 - 146,161,184 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3146,035,139 - 146,163,725 (-)Ensemblhg38GRCh38
GRCh373145,787,227 - 145,878,971 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363147,269,917 - 147,361,972 (-)NCBIBuild 36Build 36hg18NCBI36
Celera3144,204,566 - 144,296,620 (-)NCBICelera
Cytogenetic Map3q24NCBI
HuRef3143,164,166 - 143,256,088 (-)NCBIHuRef
CHM1_13145,750,160 - 145,842,267 (-)NCBICHM1_1
T2T-CHM13v2.03148,824,992 - 148,916,735 (-)NCBIT2T-CHM13v2.0
Plod2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39992,421,828 - 92,490,481 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl992,424,276 - 92,490,481 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38992,539,636 - 92,608,428 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl992,542,223 - 92,608,428 (+)Ensemblmm10GRCm38
MGSCv37992,437,061 - 92,503,266 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36992,346,223 - 92,412,195 (+)NCBIMGSCv36mm8
Celera992,126,694 - 92,192,758 (+)NCBICelera
Cytogenetic Map9E3.3NCBI
cM Map948.4NCBI
Plod2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495547411,392,163 - 11,475,508 (+)Ensembl
ChiLan1.0NW_00495547411,392,163 - 11,473,918 (+)NCBIChiLan1.0ChiLan1.0
PLOD2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22143,960,509 - 144,050,676 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13143,965,240 - 144,055,393 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03143,091,833 - 143,181,831 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13150,675,423 - 150,764,939 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3150,675,424 - 150,764,939 (-)EnsemblpanPan2panpan1.1
PLOD2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12341,290,183 - 41,382,917 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2341,290,567 - 41,382,807 (-)EnsemblcanFam3CanFam3.1
ROS_Cfam_1.02341,914,649 - 42,007,609 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2341,915,768 - 42,007,611 (-)EnsemblROS_Cfam_1.0 Ensembl
Plod2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560280,594,496 - 80,680,880 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365199,053,033 - 9,140,059 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365199,053,192 - 9,139,221 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PLOD2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1386,401,244 - 86,513,105 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11386,402,673 - 86,513,167 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21394,175,156 - 94,243,446 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PLOD2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11544,489,804 - 44,590,284 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1544,490,042 - 44,591,526 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604117,375,187 - 17,466,565 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Plod2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473022,944,184 - 23,034,231 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473022,944,710 - 23,034,200 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Plod2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1884,224,657 - 84,293,955 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Plod2
503 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:266
Count of miRNA genes:133
Interacting mature miRNAs:146
Transcripts:ENSRNOT00000041859, ENSRNOT00000056704
Prediction methods:Microtar, Miranda, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300177Cm2Cardiac mass QTL 23.65heart mass (VT:0007028)heart weight (CMO:0000017)863141536109261840Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)882352698127352698Rat
12879878Bw183Body weight QTL 1830.001body mass (VT:0001259)body weight (CMO:0000012)862848139107848139Rat
1549908Neudeg1Neurodegradation QTL 15.50nervous system integrity trait (VT:0010566)logarithm of the ratio of the lesioned side motor neuron count to contralateral side motor neuron count (CMO:0001986)858337123103337123Rat
12879879Cm99Cardiac mass QTL 990.001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)862848139107848139Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)849849908118871671Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)880768445125768445Rat
1331804Cm30Cardiac mass QTL 303.77443heart mass (VT:0007028)heart wet weight (CMO:0000069)862970527107970527Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)839106363103375781Rat
12879880Cm100Cardiac mass QTL 1000.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)862848139107848139Rat
12879881Cm101Cardiac mass QTL 1010.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)862848139107848139Rat
12879882Am8Aortic mass QTL 80.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)862848139107848139Rat
12879883Kidm65Kidney mass QTL 650.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)862848139107848139Rat
71120Niddm21Non-insulin dependent diabetes mellitus QTL 213.73blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)866992095111992095Rat
8693654Alc32Alcohol consumption QTL 3220.755drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)897492344116428905Rat
1358912Bw51Body weight QTL 512.95body mass (VT:0001259)body weight (CMO:0000012)860248093105248093Rat
634332Pia18Pristane induced arthritis QTL 184joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)884192326132782436Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)839106363103375781Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)879394435132782436Rat
1578755Pur5Proteinuria QTL 53.30.0001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)839106258103375958Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)898145073122898010Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)861019838121662124Rat
2293697Bmd39Bone mineral density QTL 39femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)862848139107848139Rat
8662823Vetf5Vascular elastic tissue fragility QTL 51.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)863404444108404444Rat
1358896Bp262Blood pressure QTL 2622.89arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)835464071107982864Rat
1331837Bw23Body weight QTL 234.190.00007body mass (VT:0001259)body weight (CMO:0000012)855428416107963099Rat
1331838Niddm61Non-insulin dependent diabetes mellitus QTL 613.530.0004blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)862963099107963099Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)880768445125768445Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)870041301121080908Rat
1331769Rf39Renal function QTL 393.871urine output (VT:0003620)timed urine volume (CMO:0000260)850763951107970527Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)868690349119799881Rat
10450865Bw175Body weight QTL 1754.1total fat pad mass (VT:0015008)adipose tissue molecular composition measurement (CMO:0000484)884192326129192326Rat
1358907Cm40Cardiac mass QTL 401.89heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)835464071107982864Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)855428333127966348Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)839106363114525825Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)885348065130348065Rat
724540Uae8Urinary albumin excretion QTL 85urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)839106258103375958Rat
10402857Bp380Blood pressure QTL 3800.95arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)862848139107848139Rat
1358892Kidm26Kidney mass QTL 263.69kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)835464071107982864Rat
631664Hcar3Hepatocarcinoma resistance QTL 32.90.0005liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)862982864107982864Rat
2301402Bp316Blood pressure QTL 3160.005arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)862848139107848139Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)880768445125768445Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)880768445125768445Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)891340911131690273Rat

Markers in Region
RH130034  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2893,166,948 - 93,167,128 (+)MAPPERmRatBN7.2
Rnor_6.08100,059,430 - 100,059,609NCBIRnor6.0
Rnor_5.0899,545,272 - 99,545,451UniSTSRnor5.0
RGSC_v3.4897,622,846 - 97,623,025UniSTSRGSC3.4
Celera892,678,302 - 92,678,481UniSTS
RH 3.4 Map81039.6UniSTS
Cytogenetic Map8q31UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 162 91 90 59 91 59 6 355 191 11 141 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000041859   ⟹   ENSRNOP00000047828
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl8101,964,318 - 102,047,022 (+)Ensembl
mRatBN7.2 Ensembl893,084,513 - 93,167,251 (+)Ensembl
Rnor_6.0 Ensembl899,977,334 - 100,059,736 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000056704   ⟹   ENSRNOP00000053546
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl8101,964,318 - 102,047,022 (+)Ensembl
mRatBN7.2 Ensembl893,084,546 - 93,167,255 (+)Ensembl
Rnor_6.0 Ensembl899,977,334 - 100,059,736 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000085808   ⟹   ENSRNOP00000069407
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl899,977,334 - 100,059,728 (+)Ensembl
RefSeq Acc Id: NM_001142915   ⟹   NP_001136387
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88101,964,318 - 102,047,022 (+)NCBI
mRatBN7.2893,084,548 - 93,167,255 (+)NCBI
Rnor_6.0899,977,334 - 100,059,736 (+)NCBI
Rnor_5.0899,462,925 - 99,529,696 (+)NCBI
Rnor_5.0899,543,695 - 99,545,578 (+)NCBI
RGSC_v3.4897,525,279 - 97,623,152 (+)RGD
Celera892,602,361 - 92,678,608 (+)RGD
Sequence:
RefSeq Acc Id: NM_175869   ⟹   NP_787065
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88101,964,318 - 102,047,022 (+)NCBI
mRatBN7.2893,084,548 - 93,167,255 (+)NCBI
Rnor_6.0899,977,334 - 100,059,736 (+)NCBI
Rnor_5.0899,462,925 - 99,529,696 (+)NCBI
Rnor_5.0899,543,695 - 99,545,578 (+)NCBI
RGSC_v3.4897,525,279 - 97,623,152 (+)RGD
Celera892,602,361 - 92,678,608 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001136387 (Get FASTA)   NCBI Sequence Viewer  
  NP_787065 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAD23629 (Get FASTA)   NCBI Sequence Viewer  
  CAD23630 (Get FASTA)   NCBI Sequence Viewer  
  EDL77532 (Get FASTA)   NCBI Sequence Viewer  
  EDL77533 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000047828
  ENSRNOP00000053546
GenBank Protein Q811A3 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_787065   ⟸   NM_175869
- Peptide Label: isoform 1 precursor
- UniProtKB: Q811A4 (UniProtKB/Swiss-Prot),   Q811A3 (UniProtKB/Swiss-Prot),   A6I244 (UniProtKB/TrEMBL),   D3ZQR7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001136387   ⟸   NM_001142915
- Peptide Label: isoform 2 precursor
- UniProtKB: Q811A4 (UniProtKB/Swiss-Prot),   Q811A3 (UniProtKB/Swiss-Prot),   A6I245 (UniProtKB/TrEMBL),   G3V9I0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000047828   ⟸   ENSRNOT00000041859
Ensembl Acc Id: ENSRNOP00000053546   ⟸   ENSRNOT00000056704
Ensembl Acc Id: ENSRNOP00000069407   ⟸   ENSRNOT00000085808
Protein Domains
Fe2OG dioxygenase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q811A3-F1-model_v2 AlphaFold Q811A3 1-737 view protein structure

Transcriptome

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

Promoters
RGD ID:13696182
Promoter ID:EPDNEW_R6707
Type:multiple initiation site
Name:Plod2_1
Description:procollagen lysine, 2-oxoglutarate 5-dioxygenase 2
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_6.0899,977,336 - 99,977,396EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3353 AgrOrtholog
BioCyc Gene G2FUF-29544 BioCyc
Ensembl Genes ENSRNOG00000030183 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000041859 ENTREZGENE
  ENSRNOT00000056704 ENTREZGENE
Gene3D-CATH q2cbj1_9rhob like domain UniProtKB/Swiss-Prot
  Spore Coat Polysaccharide Biosynthesis Protein SpsA, Chain A UniProtKB/Swiss-Prot
InterPro Collagen_mod_GT25 UniProtKB/Swiss-Prot
  IPNS-like_FE2OG_OXY UniProtKB/Swiss-Prot
  Nucleotide-diphossugar_trans UniProtKB/Swiss-Prot
  Oxoglu/Fe-dep_dioxygenase UniProtKB/Swiss-Prot
  Pro_4_hyd_alph UniProtKB/Swiss-Prot
  Procol_lys_dOase UniProtKB/Swiss-Prot
NCBI Gene Plod2 ENTREZGENE
PANTHER PROCOLLAGEN-LYSINE,2-OXOGLUTARATE 5-DIOXYGENASE 2 UniProtKB/Swiss-Prot
  PROCOLLAGEN-LYSINE,2-OXOGLUTARATE 5-DIOXYGENASE/GLYCOSYLTRANSFERASE 25 FAMILY MEMBER UniProtKB/Swiss-Prot
Pfam 2OG-FeII_Oxy UniProtKB/Swiss-Prot
  GT_PLOD UniProtKB/Swiss-Prot
PhenoGen Plod2 PhenoGen
PROSITE FE2OG_OXY UniProtKB/Swiss-Prot
  LYS_HYDROXYLASE UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000030183 RatGTEx
SMART P4Hc UniProtKB/Swiss-Prot
Superfamily-SCOP SSF53448 UniProtKB/Swiss-Prot
UniProt A6I244 ENTREZGENE, UniProtKB/TrEMBL
  A6I245 ENTREZGENE, UniProtKB/TrEMBL
  D3ZQR7 ENTREZGENE, UniProtKB/TrEMBL
  G3V9I0 ENTREZGENE, UniProtKB/TrEMBL
  PLOD2_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q811A4 ENTREZGENE
UniProt Secondary Q811A4 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-11-06 Plod2  procollagen lysine, 2-oxoglutarate 5-dioxygenase 2    Procollagen-lysine, 2-oxoglutarate 5-dioxygenase (Lysine hydroxylase) 2  Name updated 625702 APPROVED
2002-06-10 Plod2  Procollagen-lysine, 2-oxoglutarate 5-dioxygenase (Lysine hydroxylase) 2      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression mRNA is highly induced in a time-dependent manner by hypoxia in vascular smooth muscle cell line A7r5 1303932
gene_function indispensible for collagen fiber formation 1303932
gene_homology human homologue PLOD2 is an important enzyme in fibrotic processes 1303933
gene_transcript expression during hypoxia may be regulated by hypoxia-inducible transcription factor 1 (HIF-1), a binding site of which is located in the promoter region 1303932