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 and male germ cell nucleus. Predicted to be part of histone deacetylase complex. Predicted to be active in chromatin. 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
Black Rat
Alliance Orthologs
More Info more info ...
Candidate Gene For: Eae35
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84105,189,208 - 105,233,526 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4105,189,208 - 105,233,370 (-)EnsemblGRCr8
mRatBN7.24103,630,907 - 103,675,073 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4103,630,908 - 103,675,073 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx4109,015,136 - 109,059,356 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04104,790,259 - 104,834,479 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04103,400,828 - 103,444,990 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0499,503,160 - 99,547,315 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl499,503,176 - 99,546,905 (-)Ensemblrn6Rnor6.0
Rnor_5.04164,282,422 - 164,326,579 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.44104,866,501 - 104,911,355 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera492,789,151 - 92,833,037 (-)NCBICelera
RGSC_v3.14105,110,981 - 105,155,233 (-)NCBI
Cytogenetic Map4q32NCBI
JBrowse:




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)
Bufotalin  (ISO)
butanal  (ISO)
cadmium atom  (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)
Dibutyl phosphate  (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)
GSK-J4  (ISO)
hydrogen peroxide  (ISO)
ifosfamide  (ISO)
iron atom  (ISO)
iron(0)  (ISO)
ketoconazole  (EXP)
L-ascorbic acid  (ISO)
lead diacetate  (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  (EXP,ISO)
sodium dichromate  (ISO)
sodium fluoride  (ISO)
sunitinib  (ISO)
tanespimycin  (ISO)
tebufenpyrad  (ISO)
tert-butyl hydroperoxide  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
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
chromatin  (IBA)
cytoplasm  (IEA,ISO)
histone deacetylase complex  (IBA,IEA)
nucleoplasm  (IEA,ISO)
nucleus  (IEA,ISO)

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 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4105,189,208 - 105,233,370 (-)EnsemblGRCr8
mRatBN7.24103,630,907 - 103,675,073 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4103,630,908 - 103,675,073 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx4109,015,136 - 109,059,356 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04104,790,259 - 104,834,479 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04103,400,828 - 103,444,990 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0499,503,160 - 99,547,315 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl499,503,176 - 99,546,905 (-)Ensemblrn6Rnor6.0
Rnor_5.04164,282,422 - 164,326,579 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.44104,866,501 - 104,911,355 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera492,789,151 - 92,833,037 (-)NCBICelera
RGSC_v3.14105,110,981 - 105,155,233 (-)NCBI
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 (+)Ensemblhg38GRCh38
GRCh37286,668,494 - 86,719,839 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36286,521,865 - 86,573,350 (+)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm38671,588,970 - 71,632,990 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl671,588,972 - 71,632,990 (-)Ensemblmm10GRCm38
MGSCv37671,538,966 - 71,582,899 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
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 (-)Ensembl
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 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1738,374,227 - 38,430,299 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01739,421,459 - 39,477,555 (-)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (-)EnsemblSpeTri2.0 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 (-)EnsemblsusScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474916,784,538 - 16,829,784 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Kdm3a
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1674,623,993 - 74,667,991 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Kdm3a
250 total Variants
miRNA Target Status (No longer updated)

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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631689Scl4Serum cholesterol level QTL 41.90.008blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)496731383141731383Rat
1582232Gluco25Glucose level QTL 253.60.0023blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)486583980149763391Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)439431983123203361Rat
1578655Bmd11Bone mineral density QTL 1111femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)492406430137406430Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)427730518170099664Rat
1357342Bw40Body weight QTL 400.001body mass (VT:0001259)body weight (CMO:0000012)474233320119233320Rat
631556Bp135Blood pressure QTL 1350.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)480212111119233320Rat
61330Eau1Experimental allergic uveoretinitis QTL 10.0003uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)426234499134199155Rat
70167Bw22Body weight QTL 223.1body mass (VT:0001259)body weight (CMO:0000012)474233320119233320Rat
1549839Bw52Body weight QTL 520.0001body mass (VT:0001259)body weight gain (CMO:0000420)471647492116647492Rat
70177Xhs1X-ray hypersensitivity QTL 125.1intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)482944895154403548Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)427862204126119996Rat
61476Aia3Adjuvant induced arthritis QTL 33.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)475939858140508796Rat
1641919Alc22Alcohol consumption QTL 220.0005drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)465060960127749483Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)445429897149763204Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)451085655113588029Rat
1578670Bss14Bone structure and strength QTL 1416.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)488883695133883695Rat
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)469036742114036742Rat
70201Gcr1Gastric cancer resistance QTL 12.7stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)4103834277148834277Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)440490442117737312Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)457613339151163960Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)412212457182430611Rat
1578662Bss15Bone structure and strength QTL 1519.6femur width (VT:1000666)femoral neck width (CMO:0001695)488883695133883695Rat
6478684Anxrr30Anxiety related response QTL 300.00087defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
2306547Iddm38Insulin dependent diabetes mellitus QTL 38blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)468353567113353567Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)460916264184426481Rat
2306545Iddm39Insulin dependent diabetes mellitus QTL 39blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)478687630123687630Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)494638356168870820Rat
6478772Anxrr49Anxiety related response QTL 490.15488defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
631646Stl4Serum triglyceride level QTL 46.50.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)474169813134199155Rat
634334Xhs3X-ray hypersensitivity QTL 310intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)486058928131411333Rat
61406Scwia1Streptococcal cell wall induced arthritis QTL 12.3joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)475939858140508796Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)445429897149763204Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45889999148002343Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264174095838Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)4100752691179366077Rat
631662Hcar2Hepatocarcinoma resistance QTL 23.10.0003liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)484349032129349032Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)445429709157555683Rat
631651Bp124Blood pressure QTL 1243arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)464209744109209744Rat
61418Pia5Pristane induced arthritis QTL 54.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)463245026129846354Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264184426481Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)486709649168870974Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)457664252127749483Rat
2306899Bp338Blood pressure QTL 3380.071arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)482336765127336765Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)465495851159259805Rat
6478743Anxrr40Anxiety related response QTL 400.83076defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
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)486583980131583980Rat
61434Cia3Collagen induced arthritis QTL 34.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)463224393108224393Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)433538597116185060Rat

Markers in Region
AU046560  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr84105,193,597 - 105,193,749 (+)Marker Load Pipeline
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
GRCr84105,193,552 - 105,193,822 (+)Marker Load Pipeline
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

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 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000045279   ⟹   ENSRNOP00000041218
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4105,189,208 - 105,233,370 (-)Ensembl
mRatBN7.2 Ensembl4103,630,908 - 103,675,073 (-)Ensembl
Rnor_6.0 Ensembl499,503,176 - 99,546,488 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000077447   ⟹   ENSRNOP00000072073
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4105,189,786 - 105,224,573 (-)Ensembl
mRatBN7.2 Ensembl4103,631,485 - 103,666,274 (-)Ensembl
Rnor_6.0 Ensembl499,503,640 - 99,546,905 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000130688   ⟹   ENSRNOP00000110251
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4105,189,208 - 105,232,436 (-)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:
Ensembl Acc Id: ENSRNOP00000041218   ⟸   ENSRNOT00000045279
Ensembl 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)
Ensembl Acc Id: ENSRNOP00000110251   ⟸   ENSRNOT00000130688
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
Ensembl Transcript ENSRNOT00000045279 ENTREZGENE
  ENSRNOT00000130688 ENTREZGENE
Gene3D-CATH Cupin UniProtKB/Swiss-Prot
InterPro JHDM2-like UniProtKB/Swiss-Prot
  JmjC_dom UniProtKB/Swiss-Prot
  KDM3AB_Tudor UniProtKB/Swiss-Prot
  PWWP_KDM3B UniProtKB/Swiss-Prot
KEGG Report rno:312440 UniProtKB/Swiss-Prot
NCBI Gene 312440 ENTREZGENE
PANTHER LYSINE-SPECIFIC DEMETHYLASE 3A UniProtKB/Swiss-Prot
  PTHR12549 UniProtKB/Swiss-Prot
Pfam JmjC UniProtKB/Swiss-Prot
  KDM3B_Tudor UniProtKB/Swiss-Prot
  PWWP_KDM3B UniProtKB/Swiss-Prot
PhenoGen Kdm3a PhenoGen
PROSITE JMJC UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000007814 RatGTEx
SMART JmjC UniProtKB/Swiss-Prot
Superfamily-SCOP Clavaminate synthase-like UniProtKB/Swiss-Prot
UniProt A0A0G2K220 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0M4Q3_RAT 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