PLOD3 (procollagen-lysine,2-oxoglutarate 5-dioxygenase 3) - Rat Genome Database

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Gene: PLOD3 (procollagen-lysine,2-oxoglutarate 5-dioxygenase 3) Sus scrofa
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Symbol: PLOD3
Name: procollagen-lysine,2-oxoglutarate 5-dioxygenase 3
RGD ID: 13896021
Description: ENCODES a protein that exhibits dioxygenase activity (inferred); iron ion binding (inferred); L-ascorbic acid binding (inferred); INVOLVED IN basement membrane assembly (ortholog); cellular response to hormone stimulus (ortholog); collagen fibril organization (ortholog); ASSOCIATED WITH Bone Fragility with Contractures, Arterial Rupture, and Deafness (ortholog); hypothyroidism (ortholog); Plasminogen Activator Inhibitor-1 Deficiency (ortholog); FOUND IN collagen-containing extracellular matrix (inferred); endoplasmic reticulum (inferred); endoplasmic reticulum membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl38,911,787 - 8,919,516 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.138,911,787 - 8,919,525 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Genomics

Comparative Map Data
PLOD3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl38,911,787 - 8,919,516 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.138,911,787 - 8,919,525 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PLOD3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387101,205,984 - 101,217,581 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl7101,205,977 - 101,218,420 (-)EnsemblGRCh38hg38GRCh38
GRCh377100,849,265 - 100,860,862 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 367100,635,978 - 100,647,731 (-)NCBINCBI36hg18NCBI36
Build 347100,442,700 - 100,454,303NCBI
Celera795,858,417 - 95,870,169 (-)NCBI
Cytogenetic Map7q22.1NCBI
HuRef795,442,117 - 95,454,228 (-)NCBIHuRef
CHM1_17100,779,662 - 100,791,414 (-)NCBICHM1_1
T2T-CHM13v2.07102,529,447 - 102,541,043 (-)NCBI
CRA_TCAGchr7v27100,207,645 - 100,219,398 (-)NCBI
Plod3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395137,015,873 - 137,025,500 (+)NCBIGRCm39mm39
GRCm39 Ensembl5137,015,873 - 137,025,502 (+)Ensembl
GRCm385136,987,019 - 136,996,646 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5136,987,019 - 136,996,648 (+)EnsemblGRCm38mm10GRCm38
MGSCv375137,462,889 - 137,472,516 (+)NCBIGRCm37mm9NCBIm37
MGSCv365137,271,649 - 137,281,166 (+)NCBImm8
Celera5134,003,006 - 134,012,645 (+)NCBICelera
Cytogenetic Map5G2NCBI
cM Map576.09NCBI
Plod3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21219,676,384 - 19,686,945 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1219,676,386 - 19,686,960 (-)Ensembl
Rnor_6.01222,716,421 - 22,726,982 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1222,716,423 - 22,726,982 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01224,728,205 - 24,738,766 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41220,856,527 - 20,867,088 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11220,846,399 - 20,856,690 (+)NCBI
Celera1221,452,299 - 21,462,860 (-)NCBICelera
Cytogenetic Map12q12NCBI
Plod3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545616,082,437 - 16,093,389 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545616,082,424 - 16,090,773 (+)NCBIChiLan1.0ChiLan1.0
PLOD3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.17106,587,858 - 106,599,605 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7106,587,858 - 106,599,605 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0793,347,335 - 93,358,921 (-)NCBIMhudiblu_PPA_v0panPan3
PLOD3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.168,664,135 - 8,671,637 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl68,664,358 - 8,671,620 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha610,361,502 - 10,368,957 (+)NCBI
ROS_Cfam_1.068,483,656 - 8,491,120 (+)NCBI
ROS_Cfam_1.0 Ensembl68,483,333 - 8,491,117 (+)Ensembl
UMICH_Zoey_3.168,443,884 - 8,451,311 (+)NCBI
UNSW_CanFamBas_1.068,414,481 - 8,421,939 (+)NCBI
UU_Cfam_GSD_1.068,579,093 - 8,586,540 (+)NCBI
Plod3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344132,939,235 - 132,946,261 (+)NCBI
SpeTri2.0NW_0049365431,090,268 - 1,097,170 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PLOD3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12811,962,394 - 11,974,206 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2811,962,286 - 11,975,228 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660704,378,287 - 4,390,520 (-)NCBIVero_WHO_p1.0
Plod3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474016,074,141 - 16,082,223 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462474016,074,027 - 16,082,139 (+)NCBIHetGla_female_1.0hetGla2


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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 1 1 1 1 2
Low 9 4 2 4 2 22 2 3 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000030873   ⟹   ENSSSCP00000020951
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl38,911,787 - 8,919,516 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000082785   ⟹   ENSSSCP00000062914
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl38,911,787 - 8,919,516 (-)Ensembl
RefSeq Acc Id: XM_021086260   ⟹   XP_020941919
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.138,911,787 - 8,918,873 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021086261   ⟹   XP_020941920
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.138,911,787 - 8,919,525 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_020941919 (Get FASTA)   NCBI Sequence Viewer  
  XP_020941920 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_020941920   ⟸   XM_021086261
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_020941919   ⟸   XM_021086260
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSSSCP00000020951   ⟸   ENSSSCT00000030873
RefSeq Acc Id: ENSSSCP00000062914   ⟸   ENSSSCT00000082785
Protein Domains
Fe2OG dioxygenase


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000028879 Ensembl, UniProtKB/TrEMBL
  ENSSSCG00005035999 UniProtKB/TrEMBL
  ENSSSCG00030068895 UniProtKB/TrEMBL
  ENSSSCG00035016566 UniProtKB/TrEMBL
  ENSSSCG00040012020 UniProtKB/TrEMBL
  ENSSSCG00045021113 UniProtKB/TrEMBL
  ENSSSCG00050041204 UniProtKB/TrEMBL
  ENSSSCG00055000486 UniProtKB/TrEMBL
  ENSSSCG00065078094 UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000020951.3 UniProtKB/TrEMBL
  ENSSSCP00000062914.1 UniProtKB/TrEMBL
  ENSSSCP00005035833.1 UniProtKB/TrEMBL
  ENSSSCP00005035846.1 UniProtKB/TrEMBL
  ENSSSCP00005035884.1 UniProtKB/TrEMBL
  ENSSSCP00030044477.1 UniProtKB/TrEMBL
  ENSSSCP00035007653.1 UniProtKB/TrEMBL
  ENSSSCP00035007660.1 UniProtKB/TrEMBL
  ENSSSCP00040006226.1 UniProtKB/TrEMBL
  ENSSSCP00040006249.1 UniProtKB/TrEMBL
  ENSSSCP00045025072.1 UniProtKB/TrEMBL
  ENSSSCP00045025277.1 UniProtKB/TrEMBL
  ENSSSCP00050023717.1 UniProtKB/TrEMBL
  ENSSSCP00050023721.1 UniProtKB/TrEMBL
  ENSSSCP00055000619.1 UniProtKB/TrEMBL
  ENSSSCP00055000628.1 UniProtKB/TrEMBL
  ENSSSCP00055000638.1 UniProtKB/TrEMBL
  ENSSSCP00065048276.1 UniProtKB/TrEMBL
  ENSSSCP00065048299.1 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000030873.3 UniProtKB/TrEMBL
  ENSSSCT00000082785.1 UniProtKB/TrEMBL
  ENSSSCT00005058071.1 UniProtKB/TrEMBL
  ENSSSCT00005058092.1 UniProtKB/TrEMBL
  ENSSSCT00005058136.1 UniProtKB/TrEMBL
  ENSSSCT00030096466.1 UniProtKB/TrEMBL
  ENSSSCT00035021187.1 UniProtKB/TrEMBL
  ENSSSCT00035021198.1 UniProtKB/TrEMBL
  ENSSSCT00040015793.1 UniProtKB/TrEMBL
  ENSSSCT00040015849.1 UniProtKB/TrEMBL
  ENSSSCT00045036054.1 UniProtKB/TrEMBL
  ENSSSCT00045036339.1 UniProtKB/TrEMBL
  ENSSSCT00050055855.1 UniProtKB/TrEMBL
  ENSSSCT00050055862.1 UniProtKB/TrEMBL
  ENSSSCT00055000873.1 UniProtKB/TrEMBL
  ENSSSCT00055000882.1 UniProtKB/TrEMBL
  ENSSSCT00055000893.1 UniProtKB/TrEMBL
  ENSSSCT00065108117.1 UniProtKB/TrEMBL
  ENSSSCT00065108159.1 UniProtKB/TrEMBL
InterPro 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 PLOD3 ENTREZGENE
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 A0A5G2QE34_PIG UniProtKB/TrEMBL
  A0A8D0K2Z4_PIG UniProtKB/TrEMBL
  A0A8D1K1H1_PIG UniProtKB/TrEMBL
  A0A8D1P4F3_PIG UniProtKB/TrEMBL
  I3LA84_PIG UniProtKB/TrEMBL
VGNC ID VGNC:91568 ENTREZGENE