Kdm3a (lysine demethylase 3A) - Rat Genome Database

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Gene: Kdm3a (lysine demethylase 3A) Rattus norvegicus
Analyze
Symbol: Kdm3a
Name: lysine demethylase 3A
RGD ID: 708351
Description: Predicted to enable several functions, including histone H3K9me/H3K9me2 demethylase activity; iron ion binding activity; and nuclear androgen receptor binding activity. Involved in male gonad development; positive regulation of gene expression; and response to hypoxia. Predicted to be located in cytoplasm; male germ cell nucleus; and nucleoplasm. Predicted to be part of chromatin and histone deacetylase complex. Human ortholog(s) of this gene implicated in cervical cancer and colon cancer. Orthologous to human KDM3A (lysine demethylase 3A); PARTICIPATES IN histone modification pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 3H-1,2-dithiole-3-thione; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: [histone H3]-dimethyl-L-lysine(9) demethylase 3A; jmjC domain-containing histone demethylation protein 2A; Jmjd1; Jmjd1a; jumonji domain containing 1; jumonji domain containing 1A; jumonji domain-containing protein 1A; LOC312440; lysine (K)-specific demethylase 3A; lysine-specific demethylase 3A; probable zinc finger protein; testis-specific gene A protein; zinc finger protein TSGA
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Candidate Gene For: Eae35
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84105,189,208 - 105,233,526 (-)NCBIGRCr8
mRatBN7.24103,630,907 - 103,675,073 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4103,630,908 - 103,675,073 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4109,015,136 - 109,059,356 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04104,790,259 - 104,834,479 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04103,400,828 - 103,444,990 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0499,503,160 - 99,547,315 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl499,503,176 - 99,546,905 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04164,282,422 - 164,326,579 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44104,866,501 - 104,911,355 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14105,110,981 - 105,155,233 (-)NCBI
Celera492,789,151 - 92,833,037 (-)NCBICelera
Cytogenetic Map4q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
6-propyl-2-thiouracil  (EXP)
acrolein  (ISO)
adefovir pivoxil  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
allethrin  (EXP)
amitrole  (EXP)
ammonium chloride  (EXP)
antimycin A  (ISO)
apigenin  (ISO)
aristolochic acid A  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
azoxystrobin  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
butanal  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
carbonyl sulfide  (EXP)
chloroacetaldehyde  (ISO)
cidofovir anhydrous  (ISO)
cisplatin  (ISO)
clodronic acid  (ISO)
cobalt dichloride  (EXP,ISO)
cocaine  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
cyhalothrin  (EXP)
cypermethrin  (EXP)
desferrioxamine B  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dicrotophos  (ISO)
dioxygen  (ISO)
doxorubicin  (ISO)
ethanol  (EXP,ISO)
fenpyroximate  (ISO)
fenvalerate  (EXP)
folic acid  (ISO)
folpet  (ISO)
FR900359  (ISO)
gallic acid  (ISO)
gentamycin  (EXP)
hydrogen peroxide  (ISO)
ifosfamide  (ISO)
iron atom  (ISO)
iron(0)  (ISO)
ketoconazole  (EXP)
L-ascorbic acid  (ISO)
leflunomide  (ISO)
menadione  (ISO)
methimazole  (EXP)
motexafin gadolinium  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
nickel atom  (ISO)
nickel dichloride  (EXP,ISO)
nickel sulfate  (ISO)
nitric oxide  (ISO)
ozone  (ISO)
paracetamol  (ISO)
phenobarbital  (ISO)
picoxystrobin  (ISO)
propiconazole  (EXP)
pyrethrins  (EXP)
pyrimidifen  (ISO)
quercetin  (ISO)
quercitrin  (ISO)
rotenone  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
sodium fluoride  (ISO)
sunitinib  (ISO)
tanespimycin  (ISO)
tebufenpyrad  (ISO)
tert-butyl hydroperoxide  (ISO)
thioacetamide  (EXP)
troglitazone  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vandetanib  (ISO)
vinclozolin  (EXP)
zinc acetate  (ISO)
zinc dichloride  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Systematic knockdown of epigenetic enzymes identifies a novel histone demethylase PHF8 overexpressed in prostate cancer with an impact on cell proliferation, migration and invasion. Bjorkman M, etal., Oncogene. 2012 Jul 19;31(29):3444-56. doi: 10.1038/onc.2011.512. Epub 2011 Nov 28.
2. Histone lysine methylation dynamics: establishment, regulation, and biological impact. Black JC, etal., Mol Cell. 2012 Nov 30;48(4):491-507. doi: 10.1016/j.molcel.2012.11.006.
3. Upregulation of MiR-155 in nasopharyngeal carcinoma is partly driven by LMP1 and LMP2A and downregulates a negative prognostic marker JMJD1A. Du ZM, etal., PLoS One. 2011 Apr 26;6(4):e19137. doi: 10.1371/journal.pone.0019137.
4. 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.
5. Analysis of a murine male germ cell-specific transcript that encodes a putative zinc finger protein. Hoog C, etal., Mol Reprod Dev 1991 Nov;30(3):173-81.
6. Regulation of the histone demethylase JMJD1A by hypoxia-inducible factor 1 alpha enhances hypoxic gene expression and tumor growth. Krieg AJ, etal., Mol Cell Biol. 2010 Jan;30(1):344-53. doi: 10.1128/MCB.00444-09. Epub .
7. Histone demethylase JHDM2A is involved in male infertility and obesity. Okada Y, etal., J Androl. 2010 Jan-Feb;31(1):75-8. doi: 10.2164/jandrol.109.008052. Epub 2009 Oct 29.
8. Inhibition of histone demethylase JMJD1A improves anti-angiogenic therapy and reduces tumor-associated macrophages. Osawa T, etal., Cancer Res. 2013 May 15;73(10):3019-28. doi: 10.1158/0008-5472.CAN-12-3231. Epub 2013 Mar 14.
9. The histone demethylase KDM3A is a microRNA-22-regulated tumor promoter in Ewing Sarcoma. Parrish JK, etal., Oncogene. 2013 Dec 23. doi: 10.1038/onc.2013.541.
10. GOA pipeline RGD automated data pipeline
11. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
13. Comprehensive gene review and curation RGD comprehensive gene curation
14. Genetic alterations and changes in expression of histone demethylases in prostate cancer. Suikki HE, etal., Prostate. 2010 Jun 1;70(8):889-98. doi: 10.1002/pros.21123.
15. Role of Jhdm2a in regulating metabolic gene expression and obesity resistance. Tateishi K, etal., Nature. 2009 Apr 9;458(7239):757-61. doi: 10.1038/nature07777. Epub 2009 Feb 4.
16. Hypoxia upregulates the histone demethylase JMJD1A via HIF-1. Wellmann S, etal., Biochem Biophys Res Commun. 2008 Aug 8;372(4):892-7. doi: 10.1016/j.bbrc.2008.05.150. Epub 2008 Jun 4.
17. Role of the hypoxia-related gene, JMJD1A, in hepatocellular carcinoma: clinical impact on recurrence after hepatic resection. Yamada D, etal., Ann Surg Oncol. 2012 Jul;19 Suppl 3:S355-64. doi: 10.1245/s10434-011-1797-x. Epub 2011 May 24.
Additional References at PubMed
PMID:16603237   PMID:17599069   PMID:17938240   PMID:17943087   PMID:17991879   PMID:19946888   PMID:20439489   PMID:24312603   PMID:27807143   PMID:28135625   PMID:28262558   PMID:29286083  
PMID:31513837   PMID:33410908   PMID:35338235   PMID:36700466   PMID:38286256  


Genomics

Comparative Map Data
Kdm3a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84105,189,208 - 105,233,526 (-)NCBIGRCr8
mRatBN7.24103,630,907 - 103,675,073 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4103,630,908 - 103,675,073 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4109,015,136 - 109,059,356 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04104,790,259 - 104,834,479 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04103,400,828 - 103,444,990 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0499,503,160 - 99,547,315 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl499,503,176 - 99,546,905 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04164,282,422 - 164,326,579 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44104,866,501 - 104,911,355 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14105,110,981 - 105,155,233 (-)NCBI
Celera492,789,151 - 92,833,037 (-)NCBICelera
Cytogenetic Map4q32NCBI
KDM3A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38286,437,044 - 86,492,716 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl286,440,647 - 86,492,716 (+)EnsemblGRCh38hg38GRCh38
GRCh37286,668,494 - 86,719,839 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36286,521,865 - 86,573,350 (+)NCBINCBI36Build 36hg18NCBI36
Build 34286,580,100 - 86,631,497NCBI
Celera286,496,309 - 86,547,889 (+)NCBICelera
Cytogenetic Map2p11.2NCBI
HuRef286,565,835 - 86,617,601 (+)NCBIHuRef
CHM1_1286,598,317 - 86,649,908 (+)NCBICHM1_1
T2T-CHM13v2.0286,439,057 - 86,494,729 (+)NCBIT2T-CHM13v2.0
Kdm3a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39671,565,954 - 71,609,963 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl671,565,956 - 71,609,974 (-)EnsemblGRCm39 Ensembl
GRCm38671,588,970 - 71,632,990 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl671,588,972 - 71,632,990 (-)EnsemblGRCm38mm10GRCm38
MGSCv37671,538,966 - 71,582,899 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36671,518,550 - 71,562,078 (-)NCBIMGSCv36mm8
Celera673,672,792 - 73,716,729 (-)NCBICelera
Cytogenetic Map6C1NCBI
cM Map632.18NCBI
Kdm3a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554241,171,827 - 1,218,607 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554241,164,384 - 1,218,607 (-)NCBIChiLan1.0ChiLan1.0
KDM3A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21239,887,164 - 39,938,601 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A39,889,925 - 39,941,362 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A86,497,531 - 86,548,772 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A88,043,712 - 88,094,244 (+)NCBIpanpan1.1PanPan1.1panPan2
KDM3A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11738,690,962 - 38,744,507 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1738,690,979 - 38,743,739 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1738,374,227 - 38,430,299 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01739,421,459 - 39,477,555 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1739,423,705 - 39,477,460 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11738,587,497 - 38,643,573 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01738,623,889 - 38,679,943 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01738,971,898 - 39,027,987 (-)NCBIUU_Cfam_GSD_1.0
Kdm3a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629279,760,595 - 79,805,238 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367121,053,210 - 1,096,961 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367121,053,210 - 1,097,845 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KDM3A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl358,302,949 - 58,354,945 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1358,300,109 - 58,355,000 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2361,060,319 - 61,116,654 (-)NCBISscrofa10.2Sscrofa10.2susScr3
KDM3A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11420,668,215 - 20,721,854 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1420,668,821 - 20,720,759 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604591,765,741 - 91,830,044 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Kdm3a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474916,784,538 - 16,829,365 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474916,784,538 - 16,829,784 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Kdm3a
124 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:100
Count of miRNA genes:75
Interacting mature miRNAs:90
Transcripts:ENSRNOT00000045279
Prediction methods:Miranda, Rnahybrid, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45214602146446691Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)432583980114627242Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)438465774146803430Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)439524264116179656Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)444463720155883716Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)444463908148090542Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)444463908148090542Rat
2312567Glom19Glomerulus QTL 191.90.006kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)445456990146803430Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)450119848146803430Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)456647873149491524Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)456698790126192555Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)459948935154902892Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
1578657Bss12Bone structure and strength QTL 128.9femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)460220938105220938Rat
1578658Bss13Bone structure and strength QTL 138femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)460220938105220938Rat
2300179Bmd50Bone mineral density QTL 505.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)460928534105928534Rat
1549839Bw52Body weight QTL 520.0001body mass (VT:0001259)body weight gain (CMO:0000420)461697658115089733Rat
61418Pia5Pristane induced arthritis QTL 54.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)462277855128289560Rat
6478743Anxrr40Anxiety related response QTL 400.83076defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)462753847107753847Rat
6478772Anxrr49Anxiety related response QTL 490.15488defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)462753847107753847Rat
6478684Anxrr30Anxiety related response QTL 300.00087defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)462753847107753847Rat
631651Bp124Blood pressure QTL 1243arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)462879517107879517Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)462933508114921294Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)462933508114921294Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)462933508114921294Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)percent change in mean arterial blood pressure (CMO:0002035)462933508114921294Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)percent change in systolic blood pressure (CMO:0000747)462933508114921294Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)absolute change in pulse pressure (CMO:0001882)462933508114921294Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)462933508114921294Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)464528739157573521Rat
61330Eau1Experimental allergic uveoretinitis QTL 10.0003uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)470362013132642728Rat
634344Hcar7Hepatocarcinoma resistance QTL 77.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)470808386115808386Rat
634344Hcar7Hepatocarcinoma resistance QTL 77.8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)470808386115808386Rat
631646Stl4Serum triglyceride level QTL 46.50.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)473169846132642728Rat
724522Bp146Blood pressure QTL 1462.20.0021arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)473630210118630210Rat
2302051Pia28Pristane induced arthritis QTL 285.30.001blood autoantibody amount (VT:0003725)serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)473630210118630210Rat
70167Bw22Body weight QTL 223.1body mass (VT:0001259)body weight (CMO:0000012)476647384117676292Rat
1357342Bw40Body weight QTL 400.001body mass (VT:0001259)body weight (CMO:0000012)476647384117676292Rat
631662Hcar2Hepatocarcinoma resistance QTL 23.10.0003liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)478878504123878504Rat
631556Bp135Blood pressure QTL 1350.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)478881294117676292Rat
738015Pia9Pristane induced arthritis QTL 94.50.048joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)480694870125694870Rat
2306899Bp338Blood pressure QTL 3380.071arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)481006124120102625Rat
1641919Alc22Alcohol consumption QTL 220.0005drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)481192555126192555Rat
70177Xhs1X-ray hypersensitivity QTL 125.1intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)482798864152731274Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)483428419177635233Rat
634334Xhs3X-ray hypersensitivity QTL 310intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)484728680129854654Rat
1582232Gluco25Glucose level QTL 253.60.0023blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)485253748148090731Rat
12798523Anxrr56Anxiety related response QTL 562.830.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)485253748150276390Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)485379421167139601Rat
61476Aia3Adjuvant induced arthritis QTL 33.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)486730991131730991Rat
1578662Bss15Bone structure and strength QTL 1519.6femur width (VT:1000666)femoral neck width (CMO:0001695)487327165132327165Rat
1578670Bss14Bone structure and strength QTL 1416.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)487327165132327165Rat
1578655Bmd11Bone mineral density QTL 1111femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)490850165135850165Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)493308457167139447Rat
631689Scl4Serum cholesterol level QTL 41.90.008blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)495174120140174120Rat
8662350Eae35Experimental allergic encephalomyelitis QTL 356.2blood tumor necrosis factor amount (VT:0008552)inflammatory exudate tumor necrosis factor level (CMO:0001435)4100834579103761084Rat
61434Cia3Collagen induced arthritis QTL 34.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4103194656148194656Rat
2317588Eae27Experimental allergic encephalomyelitis QTL 27nervous system integrity trait (VT:0010566)percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)4103194805112478794Rat

Markers in Region
AU046560  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24103,635,296 - 103,635,448 (+)MAPPERmRatBN7.2
Rnor_6.0499,507,550 - 99,507,701NCBIRnor6.0
Rnor_5.04164,286,812 - 164,286,963UniSTSRnor5.0
RGSC_v3.44104,870,875 - 104,871,026UniSTSRGSC3.4
Celera492,793,525 - 92,793,676UniSTS
Cytogenetic Map4q33UniSTS
RH141531  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24103,638,292 - 103,638,501 (+)MAPPERmRatBN7.2
Rnor_6.0499,510,546 - 99,510,754NCBIRnor6.0
Rnor_5.04164,289,808 - 164,290,016UniSTSRnor5.0
RGSC_v3.44104,873,871 - 104,874,079UniSTSRGSC3.4
Celera492,796,521 - 92,796,729UniSTS
RH 3.4 Map4631.6UniSTS
Cytogenetic Map4q33UniSTS
AU049619  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24103,635,251 - 103,635,521 (+)MAPPERmRatBN7.2
Rnor_6.0499,507,505 - 99,507,774NCBIRnor6.0
Rnor_5.04164,286,767 - 164,287,036UniSTSRnor5.0
RGSC_v3.44104,870,830 - 104,871,099UniSTSRGSC3.4
Celera492,793,480 - 92,793,749UniSTS
Cytogenetic Map4q33UniSTS


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
Medium 3 35 48 32 19 32 6 7 74 35 41 11 6
Low 8 9 9 9 2 4 2
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000045279   ⟹   ENSRNOP00000041218
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4103,630,908 - 103,675,073 (-)Ensembl
Rnor_6.0 Ensembl499,503,176 - 99,546,488 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000077447   ⟹   ENSRNOP00000072073
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4103,631,485 - 103,666,274 (-)Ensembl
Rnor_6.0 Ensembl499,503,640 - 99,546,905 (-)Ensembl
RefSeq Acc Id: NM_001389240   ⟹   NP_001376169
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84105,189,208 - 105,233,370 (-)NCBI
mRatBN7.24103,630,907 - 103,675,073 (-)NCBI
RefSeq Acc Id: NM_175764   ⟹   NP_786940
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84105,189,219 - 105,233,111 (-)NCBI
mRatBN7.24103,630,918 - 103,674,814 (-)NCBI
Rnor_6.0499,503,176 - 99,547,063 (-)NCBI
Rnor_5.04164,282,422 - 164,326,579 (-)NCBI
RGSC_v3.44104,866,501 - 104,911,355 (-)RGD
Celera492,789,151 - 92,833,037 (-)RGD
Sequence:
RefSeq Acc Id: XM_006236637   ⟹   XP_006236699
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84105,189,219 - 105,233,526 (-)NCBI
mRatBN7.24103,630,907 - 103,675,062 (-)NCBI
Rnor_6.0499,503,171 - 99,547,277 (-)NCBI
Rnor_5.04164,282,422 - 164,326,579 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039107568   ⟹   XP_038963496
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84105,189,219 - 105,220,382 (-)NCBI
mRatBN7.24103,630,907 - 103,662,089 (-)NCBI
RefSeq Acc Id: NP_786940   ⟸   NM_175764
- Peptide Label: isoform 2
- UniProtKB: A0A0G2K220 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006236699   ⟸   XM_006236637
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K220 (UniProtKB/TrEMBL),   D3ZLJ9 (UniProtKB/TrEMBL),   A6IA85 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000041218   ⟸   ENSRNOT00000045279
RefSeq Acc Id: ENSRNOP00000072073   ⟸   ENSRNOT00000077447
RefSeq Acc Id: NP_001376169   ⟸   NM_001389240
- Peptide Label: isoform 1
- UniProtKB: D3ZLJ9 (UniProtKB/TrEMBL),   A6IA85 (UniProtKB/TrEMBL),   A0A0G2K220 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038963496   ⟸   XM_039107568
- Peptide Label: isoform X2
- UniProtKB: A0A0G2K220 (UniProtKB/TrEMBL)
Protein Domains
JmjC

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q63679-F1-model_v2 AlphaFold Q63679 1-1214 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:708351 AgrOrtholog
BioCyc Gene G2FUF-44179 BioCyc
Ensembl Genes ENSRNOG00000007814 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000045279 ENTREZGENE
  ENSRNOT00000045279.6 UniProtKB/TrEMBL
  ENSRNOT00000077447 ENTREZGENE
  ENSRNOT00000077447.2 UniProtKB/TrEMBL
Gene3D-CATH Cupin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro JHDM2-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  JmjC_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:312440 UniProtKB/Swiss-Prot
NCBI Gene 312440 ENTREZGENE
PANTHER LYSINE-SPECIFIC DEMETHYLASE 3A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR12549 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam JmjC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Kdm3a PhenoGen
PROSITE JMJC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000007814 RatGTEx
SMART JmjC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Clavaminate synthase-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K220 ENTREZGENE, UniProtKB/TrEMBL
  A6IA85 ENTREZGENE, UniProtKB/TrEMBL
  D3ZLJ9 ENTREZGENE, UniProtKB/TrEMBL
  KDM3A_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-17 Kdm3a  lysine demethylase 3A  Kdm3a  lysine (K)-specific demethylase 3A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-05-06 Kdm3a  lysine (K)-specific demethylase 3A  Jmjd1a  jumonji domain containing 1A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Jmjd1a  jumonji domain containing 1A  Jmjd1  jumonji domain containing 1  Symbol and Name updated 1299863 APPROVED
2004-02-11 Jmjd1  jumonji domain containing 1  LOC312440  probable zinc finger protein  Symbol and Name updated to reflect Human and Mouse nomenclature 625702 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed exclusively in male germ cells 1299385