PLOD2 (procollagen-lysine,2-oxoglutarate 5-dioxygenase 2) - Rat Genome Database

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Gene: PLOD2 (procollagen-lysine,2-oxoglutarate 5-dioxygenase 2) Canis lupus familiaris
Analyze
Symbol: PLOD2
Name: procollagen-lysine,2-oxoglutarate 5-dioxygenase 2
RGD ID: 12319922
Description: ENCODES a protein that exhibits procollagen glucosyltransferase activity (ortholog); INVOLVED IN cellular response to hormone stimulus (ortholog); peptidyl-lysine hydroxylation (ortholog); protein O-linked glycosylation (ortholog); ASSOCIATED WITH Bone Neoplasms (ortholog); Bruck syndrome (ortholog); Bruck Syndrome 2 (ortholog); FOUND IN endoplasmic reticulum (inferred); endoplasmic reticulum membrane (inferred); membrane (inferred); INTERACTS WITH bisphenol A
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
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 (-)EnsemblCanFam3.1canFam3CanFam3.1
ROS_Cfam_1.02341,914,649 - 42,007,609 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2341,915,768 - 42,007,611 (-)EnsemblROS_Cfam_1.0 Ensembl
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
bisphenol A  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Genomics

Comparative Map Data
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 (-)EnsemblCanFam3.1canFam3CanFam3.1
ROS_Cfam_1.02341,914,649 - 42,007,609 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2341,915,768 - 42,007,611 (-)EnsemblROS_Cfam_1.0 Ensembl
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 (-)EnsemblGRCh38hg38GRCh38
GRCh373145,787,227 - 145,878,971 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363147,269,917 - 147,361,972 (-)NCBINCBI36Build 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 Ensembl
GRCm38992,539,636 - 92,608,428 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl992,542,223 - 92,608,428 (+)EnsemblGRCm38mm10GRCm38
MGSCv37992,437,061 - 92,503,266 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36992,346,223 - 92,412,195 (+)NCBIMGSCv36mm8
Celera992,126,694 - 92,192,758 (+)NCBICelera
Cytogenetic Map9E3.3NCBI
cM Map948.4NCBI
Plod2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88101,964,318 - 102,047,022 (+)NCBIGRCr8
mRatBN7.2893,084,548 - 93,167,255 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl893,084,513 - 93,167,255 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx898,757,951 - 98,827,969 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0896,957,203 - 97,027,220 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0894,787,446 - 94,864,034 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0899,977,334 - 100,059,736 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl899,977,334 - 100,059,736 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0899,462,925 - 99,529,696 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0899,543,695 - 99,545,578 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4897,525,279 - 97,623,152 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1897,544,733 - 97,642,604 (+)NCBI
Celera892,602,361 - 92,678,608 (+)NCBICelera
Cytogenetic Map8q31NCBI
Plod2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495547411,392,163 - 11,475,508 (+)EnsemblChiLan1.0
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 (-)Ensemblpanpan1.1panPan2
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 (+)EnsemblSpeTri2.0SpeTri2.0 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 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473022,944,710 - 23,034,200 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in PLOD2
964 total Variants

Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
6 5 5 23 22 16 6 6 6 6 33 22 12 14 10

Sequence


Ensembl Acc Id: ENSCAFT00000012961   ⟹   ENSCAFP00000011995
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2341,290,567 - 41,382,807 (-)Ensembl
Ensembl Acc Id: ENSCAFT00000063167   ⟹   ENSCAFP00000043292
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2341,290,567 - 41,382,807 (-)Ensembl
Ensembl Acc Id: ENSCAFT00000070613   ⟹   ENSCAFP00000062728
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2341,290,567 - 41,382,807 (-)Ensembl
Ensembl Acc Id: ENSCAFT00000083083   ⟹   ENSCAFP00000064614
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2341,290,567 - 41,382,807 (-)Ensembl
Ensembl Acc Id: ENSCAFT00845036374   ⟹   ENSCAFP00845028472
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2341,915,768 - 42,007,611 (-)Ensembl
Ensembl Acc Id: ENSCAFT00845036565   ⟹   ENSCAFP00845028613
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2341,915,768 - 42,007,611 (-)Ensembl
Ensembl Acc Id: ENSCAFT00845036735   ⟹   ENSCAFP00845028759
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2341,915,768 - 42,007,611 (-)Ensembl
RefSeq Acc Id: XM_038432589   ⟹   XP_038288517
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.02341,914,649 - 42,007,609 (-)NCBI
RefSeq Acc Id: XM_038432590   ⟹   XP_038288518
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.02341,914,649 - 42,007,609 (-)NCBI
Ensembl Acc Id: ENSCAFP00000062728   ⟸   ENSCAFT00000070613
Ensembl Acc Id: ENSCAFP00000043292   ⟸   ENSCAFT00000063167
Ensembl Acc Id: ENSCAFP00000064614   ⟸   ENSCAFT00000083083
Ensembl Acc Id: ENSCAFP00000011995   ⟸   ENSCAFT00000012961
RefSeq Acc Id: XP_038288518   ⟸   XM_038432590
- Peptide Label: isoform X2
- UniProtKB: A0A8C0MSK9 (UniProtKB/TrEMBL),   A0A8I3P8T8 (UniProtKB/TrEMBL),   A0A8I3PE41 (UniProtKB/TrEMBL),   A0A8P0TEE6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038288517   ⟸   XM_038432589
- Peptide Label: isoform X1
- UniProtKB: A0A8C0QGQ1 (UniProtKB/TrEMBL),   A0A8I3PAF7 (UniProtKB/TrEMBL),   A0A8I3PE41 (UniProtKB/TrEMBL),   A0A8P0TEE6 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSCAFP00845028613   ⟸   ENSCAFT00845036565
Ensembl Acc Id: ENSCAFP00845028759   ⟸   ENSCAFT00845036735
Ensembl Acc Id: ENSCAFP00845028472   ⟸   ENSCAFT00845036374
Protein Domains
Fe2OG dioxygenase

Promoters
RGD ID:13687474
Promoter ID:EPDNEW_C5542
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/)
Alternative Promoters:null; see alsoEPDNEW_C5543  
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.12341,382,996 - 41,383,056EPDNEW
RGD ID:13687475
Promoter ID:EPDNEW_C5543
Type:single initiation site
Name:PLOD2_2
Description:procollagen-lysine,2-oxoglutarate 5-dioxygenase 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_C5542  
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.12341,383,129 - 41,383,189EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000008101 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030006629 UniProtKB/TrEMBL
  ENSCAFG00040007879 UniProtKB/TrEMBL
  ENSCAFG00845020429 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000012961.5 UniProtKB/TrEMBL
  ENSCAFT00000063167.2 UniProtKB/TrEMBL
  ENSCAFT00000070613.2 UniProtKB/TrEMBL
  ENSCAFT00030012511.1 UniProtKB/TrEMBL
  ENSCAFT00030012616.1 UniProtKB/TrEMBL
  ENSCAFT00040014942.1 UniProtKB/TrEMBL
  ENSCAFT00040015021.1 UniProtKB/TrEMBL
  ENSCAFT00845036374 ENTREZGENE
  ENSCAFT00845036374.1 UniProtKB/TrEMBL
  ENSCAFT00845036565 ENTREZGENE
  ENSCAFT00845036565.1 UniProtKB/TrEMBL
  ENSCAFT00845036735.1 UniProtKB/TrEMBL
Gene3D-CATH q2cbj1_9rhob like domain UniProtKB/TrEMBL
InterPro Collagen_mod_GT25 UniProtKB/TrEMBL
  IPNS-like_FE2OG_OXY UniProtKB/TrEMBL
  Nucleotide-diphossugar_trans UniProtKB/TrEMBL
  Oxoglu/Fe-dep_dioxygenase UniProtKB/TrEMBL
  Pro_4_hyd_alph UniProtKB/TrEMBL
  Procol_lys_dOase UniProtKB/TrEMBL
NCBI Gene PLOD2 ENTREZGENE
PANTHER PROCOLLAGEN-LYSINE,2-OXOGLUTARATE 5-DIOXYGENASE 2 UniProtKB/TrEMBL
  PROCOLLAGEN-LYSINE,2-OXOGLUTARATE 5-DIOXYGENASE/GLYCOSYLTRANSFERASE 25 FAMILY MEMBER UniProtKB/TrEMBL
Pfam 2OG-FeII_Oxy UniProtKB/TrEMBL
PROSITE FE2OG_OXY UniProtKB/TrEMBL
  LYS_HYDROXYLASE UniProtKB/TrEMBL
SMART P4Hc UniProtKB/TrEMBL
Superfamily-SCOP SSF53448 UniProtKB/TrEMBL
UniProt A0A8C0MSK9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0QGQ1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3P8T8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3PAF7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3PE41 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0TEE6 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:44702 ENTREZGENE