XDH (xanthine dehydrogenase) - Rat Genome Database

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Gene: XDH (xanthine dehydrogenase) Sus scrofa
Analyze
Symbol: XDH
Name: xanthine dehydrogenase
RGD ID: 13914755
Description: ENCODES a protein that exhibits 2 iron, 2 sulfur cluster binding (ortholog); flavin adenine dinucleotide binding (ortholog); identical protein binding (ortholog); INVOLVED IN aging (ortholog); cellular response to interleukin-1 (ortholog); cellular response to tumor necrosis factor (ortholog); PARTICIPATES IN adenine phoshoribosyltransferase deficiency pathway; adenosine monophosphate deaminase deficiency pathway; adenylosuccinate lyase deficiency pathway; ASSOCIATED WITH acute kidney failure (ortholog); Acute Lung Injury (ortholog); Animal Mammary Neoplasms (ortholog); FOUND IN cytosol (ortholog); extracellular space (ortholog); peroxisome (ortholog); INTERACTS WITH 4-Hydroxy-TEMPO; carbon monoxide; hydrogen peroxide
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: xanthine dehydrogenase/oxidase; xanthine oxidase; XDH xanthine dehydrogenase; XO
RGD Orthologs
Human
Mouse
Rat
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 Ensembl3107,986,528 - 108,080,151 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.13107,987,060 - 108,052,043 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23114,732,427 - 114,796,636 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
acute kidney failure  (ISO)
Acute Lung Injury  (ISO)
Animal Mammary Neoplasms  (ISO)
Arterial Thrombosis  (ISO)
autistic disorder  (ISO)
Autoinflammation with Infantile Enterocolitis  (ISO)
Brain Injuries  (ISO)
Carbon Monoxide Poisoning  (ISO)
carcinoma  (ISO)
cardiomyopathy  (ISO)
cardiovascular system disease  (ISO)
carotid artery disease  (ISO)
cataract  (ISO)
cholestasis  (ISO)
chronic kidney disease  (ISO)
Colonic Neoplasms  (ISO)
congestive heart failure  (ISO)
Diabetic Cardiomyopathies  (ISO)
Diabetic Nephropathies  (ISO)
Dwarfism  (ISO)
Eczema  (ISO)
Experimental Arthritis  (ISO)
Experimental Diabetes Mellitus  (ISO)
Experimental Liver Neoplasms  (ISO)
Fetal Growth Retardation  (ISO)
gout  (ISO)
heart disease  (ISO)
hepatocellular carcinoma  (ISO)
hydronephrosis  (ISO)
Hyperoxaluria  (ISO)
Hyperoxic Lung Injury  (ISO)
hypertension  (ISO)
hyperuricemia  (ISO)
Hypotension  (ISO)
interstitial nephritis  (ISO)
Intestinal Reperfusion Injury  (ISO)
ischemia  (ISO)
kidney failure  (ISO)
Kidney Reperfusion Injury  (ISO)
Left Ventricular Hypertrophy  (ISO)
Lesch-Nyhan syndrome  (ISO)
Liver Reperfusion Injury  (ISO)
major depressive disorder  (ISO)
Mammary Neoplasms, Experimental  (ISO)
middle cerebral artery infarction  (ISO)
Multiple Organ Failure  (ISO)
muscular disease  (ISO)
Myocardial Reperfusion Injury  (ISO)
Nerve Degeneration  (ISO)
neutropenia  (ISO)
obesity  (ISO)
pancreatitis  (ISO)
peritonitis  (ISO)
Pneumoperitoneum  (ISO)
portal hypertension  (ISO)
protein-losing enteropathy  (ISO)
pulmonary embolism  (ISO)
Puromycin Aminonucleoside Nephrosis  (ISO)
renal fibrosis  (ISO)
Renal Ischemia  (ISO)
Reperfusion Injury  (ISO)
Retina Reperfusion Injury  (ISO)
Sepsis  (ISO)
Shock  (ISO)
Spinal Cord Injuries  (ISO)
Testis Reperfusion Injury  (ISO)
thrombocytopenia  (ISO)
Transplant Rejection  (ISO)
Urachal Cyst  (ISO)
urinary bladder cancer  (ISO)
Wounds, Penetrating  (ISO)
xanthinuria  (ISO)
Xanthinuria, Type I  (ISO)
Xanthinuria, Type II  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activation of cysteine-type endopeptidase activity involved in apoptotic process  (IEA)
adenosine catabolic process  (IEA)
aging  (ISO)
allantoin metabolic process  (IEA)
AMP catabolic process  (IEA)
cellular response to interleukin-1  (ISO)
cellular response to tumor necrosis factor  (ISO)
dAMP catabolic process  (IEA)
deoxyadenosine catabolic process  (IEA)
deoxyguanosine catabolic process  (IEA)
deoxyinosine catabolic process  (IEA)
dGMP catabolic process  (IEA)
GMP catabolic process  (IEA)
guanine catabolic process  (IEA)
hypoxanthine catabolic process  (IEA,ISO)
IMP catabolic process  (IEA)
inosine catabolic process  (IEA)
iron-sulfur cluster assembly  (IEA,ISO)
lactation  (IEA,ISO)
negative regulation of endothelial cell differentiation  (IEA)
negative regulation of endothelial cell proliferation  (IEA)
negative regulation of gene expression  (IEA)
negative regulation of protein kinase B signaling  (IEA)
negative regulation of protein phosphorylation  (IEA)
negative regulation of vascular endothelial growth factor signaling pathway  (IEA)
negative regulation of vasculogenesis  (IEA)
positive regulation of p38MAPK cascade  (IEA)
positive regulation of reactive oxygen species metabolic process  (IEA)
regulation of epithelial cell differentiation  (ISO)
response to aluminum ion  (ISO)
response to azide  (ISO)
response to carbon monoxide  (ISO)
response to heat  (ISO)
response to hydrogen peroxide  (ISO)
response to lipopolysaccharide  (ISO)
xanthine catabolic process  (IBA)

Cellular Component
cytosol  (IEA,ISO)
extracellular space  (IBA,ISO)
peroxisome  (IEA,ISO)
sarcoplasmic reticulum  (IEA)

References
Additional References at PubMed
PMID:14681463   PMID:16284087   PMID:17145712   PMID:24040113  


Genomics

Comparative Map Data
XDH
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl3107,986,528 - 108,080,151 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.13107,987,060 - 108,052,043 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23114,732,427 - 114,796,636 (+)NCBISscrofa10.2Sscrofa10.2susScr3
XDH
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl231,334,321 - 31,414,742 (-)EnsemblGRCh38hg38GRCh38
GRCh38231,334,320 - 31,414,777 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37231,557,187 - 31,637,608 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36231,410,692 - 31,491,115 (-)NCBINCBI36hg18NCBI36
Build 34231,470,146 - 31,549,264NCBI
Celera231,399,873 - 31,481,045 (-)NCBI
Cytogenetic Map2p23.1NCBI
HuRef231,294,906 - 31,375,846 (-)NCBIHuRef
CHM1_1231,487,808 - 31,568,252 (-)NCBICHM1_1
Xdh
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391774,190,890 - 74,257,369 (-)NCBIGRCm39mm39
GRCm39 Ensembl1774,190,890 - 74,257,191 (-)Ensembl
GRCm381773,883,895 - 73,950,397 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1773,883,895 - 73,950,196 (-)EnsemblGRCm38mm10GRCm38
MGSCv371774,233,248 - 74,299,522 (-)NCBIGRCm37mm9NCBIm37
MGSCv361773,788,790 - 73,855,081 (-)NCBImm8
Celera1778,175,030 - 78,239,710 (-)NCBICelera
Cytogenetic Map17E2NCBI
cM Map1745.25NCBI
Xdh
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2621,530,463 - 21,592,172 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl621,530,113 - 21,592,268 (+)Ensembl
Rnor_6.0625,149,570 - 25,211,273 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl625,149,235 - 25,211,494 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0634,996,983 - 35,059,195 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4621,417,685 - 21,590,015 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1621,420,637 - 21,592,968 (+)NCBI
Celera621,081,179 - 21,143,279 (+)NCBICelera
Cytogenetic Map6q13-q14NCBI
XDH
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12A31,425,183 - 31,504,455 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A31,425,183 - 31,504,455 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02A31,356,011 - 31,435,111 (-)NCBIMhudiblu_PPA_v0panPan3
XDH
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11724,900,708 - 24,960,748 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1724,901,447 - 24,971,935 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1724,694,965 - 24,754,929 (-)NCBI
ROS_Cfam_1.01725,464,496 - 25,524,534 (-)NCBI
UMICH_Zoey_3.11724,767,742 - 24,827,816 (-)NCBI
UNSW_CanFamBas_1.01724,830,189 - 24,890,224 (-)NCBI
UU_Cfam_GSD_1.01724,929,639 - 24,989,647 (-)NCBI
Xdh
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629269,015,034 - 69,076,787 (-)NCBI
SpeTri2.0NW_0049364931,762,814 - 1,824,501 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
XDH
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11476,084,693 - 76,162,840 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1476,085,368 - 76,163,936 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604535,902,856 - 35,979,384 (-)NCBIVero_WHO_p1.0
Xdh
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473813,116,317 - 13,180,935 (-)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 nervous system reproductive system respiratory system
High
Medium 1 1 1 3
Low 1 1 4
Below cutoff 1 2 1 8 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000009326   ⟹   ENSSSCP00000009088
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl3107,987,139 - 108,080,151 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000045303   ⟹   ENSSSCP00000046424
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl3107,986,528 - 108,080,151 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000076436   ⟹   ENSSSCP00000070607
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl3107,998,106 - 108,053,365 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000087369   ⟹   ENSSSCP00000060872
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl3108,002,940 - 108,053,365 (+)Ensembl
RefSeq Acc Id: NM_001285974   ⟹   NP_001272903
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.13107,987,196 - 108,051,441 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021085675   ⟹   XP_020941334
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.13107,987,060 - 108,052,043 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001272903 (Get FASTA)   NCBI Sequence Viewer  
  XP_020941334 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AEW10559 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_020941334   ⟸   XM_021085675
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: NP_001272903   ⟸   NM_001285974
- UniProtKB: R4HZ39 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000009088   ⟸   ENSSSCT00000009326
RefSeq Acc Id: ENSSSCP00000046424   ⟸   ENSSSCT00000045303
RefSeq Acc Id: ENSSSCP00000070607   ⟸   ENSSSCT00000076436
RefSeq Acc Id: ENSSSCP00000060872   ⟸   ENSSSCT00000087369
Protein Domains
2Fe-2S ferredoxin-type   FAD-binding PCMH-type


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000008522 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00070008275 UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000009088 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000046424 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000060872 UniProtKB/TrEMBL
  ENSSSCP00000070607 UniProtKB/TrEMBL
  ENSSSCP00070013417 UniProtKB/TrEMBL
  ENSSSCP00070013429 UniProtKB/TrEMBL
  ENSSSCP00070013455 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000009326 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000045303 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000076436 UniProtKB/TrEMBL
  ENSSSCT00000087369 UniProtKB/TrEMBL
  ENSSSCT00070016209 UniProtKB/TrEMBL
  ENSSSCT00070016222 UniProtKB/TrEMBL
  ENSSSCT00070016249 UniProtKB/TrEMBL
Gene3D-CATH 3.10.20.30 UniProtKB/TrEMBL
  3.30.43.10 UniProtKB/TrEMBL
  3.30.465.10 UniProtKB/TrEMBL
InterPro 2Fe-2S-bd UniProtKB/TrEMBL
  2Fe-2S-bd_dom_sf UniProtKB/TrEMBL
  2Fe-2S_ferredoxin-like_sf UniProtKB/TrEMBL
  2Fe-2S_ferredoxin-type UniProtKB/TrEMBL
  2Fe2S_fd_BS UniProtKB/TrEMBL
  Ald_Oxase/Xan_DH_a/b UniProtKB/TrEMBL
  Ald_Oxase/Xan_DH_a/b_sf UniProtKB/TrEMBL
  Ald_Oxase/xanthine_DH UniProtKB/TrEMBL
  AldOxase/xan_DH_Mopterin-bd UniProtKB/TrEMBL
  AldOxase/xan_DH_Mopterin-bd_sf UniProtKB/TrEMBL
  Beta-grasp_dom_sf UniProtKB/TrEMBL
  CO_DH_flav_C UniProtKB/TrEMBL
  CO_DH_flav_C_dom_sf UniProtKB/TrEMBL
  FAD-bd_PCMH UniProtKB/TrEMBL
  FAD-bd_PCMH-like_sf UniProtKB/TrEMBL
  FAD-bd_PCMH_sub1 UniProtKB/TrEMBL
  FAD-bd_PCMH_sub2 UniProtKB/TrEMBL
  Mopterin_DH_FAD-bd UniProtKB/TrEMBL
  OxRdtase_Mopterin_BS UniProtKB/TrEMBL
  Xanthine_DH_ssu UniProtKB/TrEMBL
KEGG Report ssc:100515259 UniProtKB/TrEMBL
NCBI Gene XDH ENTREZGENE
Pfam Ald_Xan_dh_C UniProtKB/TrEMBL
  Ald_Xan_dh_C2 UniProtKB/TrEMBL
  CO_deh_flav_C UniProtKB/TrEMBL
  FAD_binding_5 UniProtKB/TrEMBL
  Fer2 UniProtKB/TrEMBL
  Fer2_2 UniProtKB/TrEMBL
PIRSF Xanthine_DH UniProtKB/TrEMBL
PROSITE 2FE2S_FER_1 UniProtKB/TrEMBL
  2FE2S_FER_2 UniProtKB/TrEMBL
  FAD_PCMH UniProtKB/TrEMBL
  MOLYBDOPTERIN_EUK UniProtKB/TrEMBL
SMART Ald_Xan_dh_C UniProtKB/TrEMBL
  CO_deh_flav_C UniProtKB/TrEMBL
Superfamily-SCOP SSF47741 UniProtKB/TrEMBL
  SSF54292 UniProtKB/TrEMBL
  SSF54665 UniProtKB/TrEMBL
  SSF55447 UniProtKB/TrEMBL
  SSF56003 UniProtKB/TrEMBL
  SSF56176 UniProtKB/TrEMBL
TIGRFAMs xanthine_xdhA UniProtKB/TrEMBL
UniProt A0A287AQU3_PIG UniProtKB/TrEMBL
  A0A4X1TB92_PIG UniProtKB/TrEMBL
  A0A4X1TDP3_PIG UniProtKB/TrEMBL
  A0A4X1TFA1_PIG UniProtKB/TrEMBL
  A0A5G2QBL2_PIG UniProtKB/TrEMBL
  A0A5G2R0H1_PIG UniProtKB/TrEMBL
  F1S3Y7_PIG UniProtKB/TrEMBL
  R4HZ39 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:94995 ENTREZGENE