Kdm2a (lysine demethylase 2A) - Rat Genome Database

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Gene: Kdm2a (lysine demethylase 2A) Rattus norvegicus
Analyze
Symbol: Kdm2a
Name: lysine demethylase 2A
RGD ID: 1309419
Description: Predicted to enable several functions, including histone H3K36 demethylase activity; unmethylated CpG binding activity; and zinc ion binding activity. Predicted to be involved in double-strand break repair via nonhomologous end joining; regulation of circadian rhythm; and regulation of gene expression. Predicted to act upstream of or within several processes, including epithelial tube morphogenesis; neuroepithelial cell differentiation; and regulation of gene expression. Predicted to be located in chromatin. Human ortholog(s) of this gene implicated in lung non-small cell carcinoma. Orthologous to human KDM2A (lysine demethylase 2A); PARTICIPATES IN DNA modification pathway; histone modification pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: F-box and leucine-rich repeat protein 11; Fbxl11; LOC361700; lysine (K)-specific demethylase 2A; lysine-specific demethylase 2A
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81211,041,859 - 211,125,749 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1211,041,885 - 211,084,479 (-)EnsemblGRCr8
mRatBN7.21201,612,427 - 201,682,359 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1201,612,453 - 201,680,787 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1209,964,511 - 210,033,280 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01217,057,845 - 217,126,197 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01209,748,863 - 209,817,220 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01219,566,130 - 219,642,294 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1219,566,156 - 219,640,294 (-)Ensemblrn6Rnor6.0
Rnor_5.01226,436,243 - 226,509,594 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41206,903,426 - 206,972,100 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1199,156,169 - 199,224,605 (-)NCBICelera
RGSC_v3.11207,057,263 - 207,125,981 (-)NCBI
Cytogenetic Map1q43NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2-dichloroethane  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
4,4'-sulfonyldiphenol  (ISO)
acrolein  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol A diglycidyl ether  (ISO)
bisphenol AF  (ISO)
bisphenol F  (ISO)
caffeine  (ISO)
CGP 52608  (ISO)
ciguatoxin CTX1B  (ISO)
cobalt dichloride  (ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
coumarin  (ISO)
cyclophosphamide  (EXP)
diarsenic trioxide  (ISO)
Dibutyl phosphate  (ISO)
dicrotophos  (ISO)
doxorubicin  (ISO)
ethanol  (ISO)
fenthion  (ISO)
flutamide  (EXP)
folic acid  (ISO)
FR900359  (ISO)
gentamycin  (EXP)
hydrogen peroxide  (ISO)
inulin  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
methidathion  (ISO)
N-acetyl-L-cysteine  (ISO)
ozone  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (ISO)
pirinixic acid  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
triptonide  (ISO)
triticonazole  (EXP)
troglitazone  (ISO)
tungsten  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
chromatin  (ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IEA)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Epigenetic switch at atp2a2 and myh7 gene promoters in pressure overload-induced heart failure. Angrisano T, etal., PLoS One. 2014 Sep 2;9(9):e106024. doi: 10.1371/journal.pone.0106024. eCollection 2014.
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. Transcriptional repression of histone deacetylase 3 by the histone demethylase KDM2A is coupled to tumorigenicity of lung cancer cells. Dhar SS, etal., J Biol Chem. 2014 Mar 14;289(11):7483-96. doi: 10.1074/jbc.M113.521625. Epub 2014 Jan 30.
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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
6. ZF-CxxC domain-containing proteins, CpG islands and the chromatin connection. Long HK, etal., Biochem Soc Trans. 2013 Jun;41(3):727-40. doi: 10.1042/BST20130028.
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. KDM2A promotes lung tumorigenesis by epigenetically enhancing ERK1/2 signaling. Wagner KW, etal., J Clin Invest. 2013 Dec 2;123(12):5231-46. doi: 10.1172/JCI68642. Epub 2013 Nov 8.
Additional References at PubMed
PMID:20417597   PMID:21187428   PMID:25463925   PMID:26037310   PMID:28262558   PMID:29276034   PMID:36723950  


Genomics

Comparative Map Data
Kdm2a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81211,041,859 - 211,125,749 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1211,041,885 - 211,084,479 (-)EnsemblGRCr8
mRatBN7.21201,612,427 - 201,682,359 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1201,612,453 - 201,680,787 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1209,964,511 - 210,033,280 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01217,057,845 - 217,126,197 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01209,748,863 - 209,817,220 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01219,566,130 - 219,642,294 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1219,566,156 - 219,640,294 (-)Ensemblrn6Rnor6.0
Rnor_5.01226,436,243 - 226,509,594 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41206,903,426 - 206,972,100 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1199,156,169 - 199,224,605 (-)NCBICelera
RGSC_v3.11207,057,263 - 207,125,981 (-)NCBI
Cytogenetic Map1q43NCBI
KDM2A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381167,119,263 - 67,258,082 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1167,119,263 - 67,258,082 (+)Ensemblhg38GRCh38
GRCh371166,886,734 - 67,025,553 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361166,644,074 - 66,781,717 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341166,644,073 - 66,781,717NCBI
Celera1164,216,493 - 64,358,014 (+)NCBICelera
Cytogenetic Map11q13.2NCBI
HuRef1163,214,819 - 63,354,668 (+)NCBIHuRef
CHM1_11166,769,756 - 66,908,574 (+)NCBICHM1_1
T2T-CHM13v2.01167,110,939 - 67,252,047 (+)NCBIT2T-CHM13v2.0
Kdm2a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39194,366,172 - 4,448,749 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl194,364,447 - 4,448,313 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38194,316,144 - 4,398,721 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl194,314,419 - 4,398,285 (-)Ensemblmm10GRCm38
MGSCv37194,316,144 - 4,397,077 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36194,317,806 - 4,398,266 (-)NCBIMGSCv36mm8
Celera194,187,040 - 4,267,780 (-)NCBICelera
Cytogenetic Map19ANCBI
cM Map194.01NCBI
Kdm2a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542218,200,758 - 18,308,163 (-)Ensembl
ChiLan1.0NW_00495542218,201,243 - 18,308,163 (-)NCBIChiLan1.0ChiLan1.0
KDM2A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2968,339,000 - 68,484,737 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11169,381,707 - 69,527,213 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01162,470,549 - 62,616,135 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11165,793,464 - 65,930,509 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1165,793,464 - 65,930,498 (+)EnsemblpanPan2panpan1.1
KDM2A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11850,178,511 - 50,294,097 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1850,181,024 - 50,291,127 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1848,788,733 - 48,940,137 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01851,127,518 - 51,280,575 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1851,127,518 - 51,241,565 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11850,313,570 - 50,464,719 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01849,888,074 - 50,039,414 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01850,682,691 - 50,834,402 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Kdm2a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049476,024,717 - 6,134,274 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365992,466,214 - 2,576,623 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365992,466,427 - 2,576,623 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KDM2A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl25,240,312 - 5,357,829 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.125,238,690 - 5,357,799 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.224,021,430 - 4,050,212 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Sscrofa10.224,143,872 - 4,182,749 (+)NCBISscrofa10.2Sscrofa10.2susScr3
KDM2A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.117,004,109 - 7,152,072 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl17,003,784 - 7,082,720 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666038104,292,429 - 104,442,261 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Kdm2a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476719,248,430 - 19,364,793 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462476719,247,009 - 19,365,520 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Kdm2a
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v123,259,066 - 3,328,896 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Kdm2a
427 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:413
Count of miRNA genes:218
Interacting mature miRNAs:287
Transcripts:ENSRNOT00000054850
Prediction methods:Miranda, 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
1578778Pur4Proteinuria QTL 43.30.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1160111531262090437Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1160573753266453731Rat
1357335Bw39Body weight QTL 393.3body mass (VT:0001259)body weight (CMO:0000012)1207243873252243873Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1186658830266453731Rat
2293674Bss39Bone structure and strength QTL 397.10.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)1210980612255980612Rat
1354653Despr9Despair related QTL 90.00019locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1177339686222339686Rat
2293673Bss27Bone structure and strength QTL 2718.630.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)1181059071226059071Rat
2293677Bss41Bone structure and strength QTL 419.380.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1181059071226059071Rat
1549830Bss1Bone structure and strength QTL 14.8femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1182039247227039247Rat
70163Bw20Body weight QTL 205.1body mass (VT:0001259)body weight (CMO:0000012)1183564652228564652Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1205233991267096252Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1186658830266453731Rat
1600396Niddm68Non-insulin dependent diabetes mellitus QTL 684.970.0003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1205233991267096252Rat
1600397Edcs4Endometrial carcinoma susceptibility QTL 42.2uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)1176288899270518180Rat
631838Niddm36Non-insulin dependent diabetes mellitus QTL 360.01insulin secretion trait (VT:0003564)calculated pancreatic islet insulin release measurement (CMO:0001217)1193964073238964073Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1162548015270518180Rat
2293689Bss47Bone structure and strength QTL 477.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)1181059071226059071Rat
152025235Bw194Body weight QTL 1944.86body mass (VT:0001259)1132966869252856240Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1205233991267096252Rat
2293694Bss38Bone structure and strength QTL 387.050.0001femur strength trait (VT:0010010)femur stiffness (CMO:0001674)1210980612255980612Rat
61341Bp26Blood pressure QTL 26arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1139442053223964440Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1152919152268496042Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1160111531262090437Rat
2293693Bss22Bone structure and strength QTL 2233.520.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1181059071226059071Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)199645382221502378Rat
2300161Bmd43Bone mineral density QTL 438.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1181059071226059071Rat
1300145Rf7Renal function QTL 72.96urine creatinine amount (VT:0010540)urine creatinine level (CMO:0000125)1194575422239575422Rat
61347Bp197Blood pressure QTL 1974.2arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)1168063662213063662Rat
8655655Arrd2Age-related retinal degeneration QTL 27.79retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1193400541238400541Rat
1358898Bp255Blood pressure QTL 2553.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1200449456256003563Rat
631214Bw61Body weight QTL613.40.0001intramuscular adipose amount (VT:0010044)intramuscular fat area (CMO:0001162)1182535316227535316Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1146080545243492863Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1103779152223964440Rat
731175Uae20Urinary albumin excretion QTL 203.50.0018urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1207163993269633915Rat
2300175Bmd40Bone mineral density QTL 4015.40.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)1210980612255980612Rat
2300174Bmd42Bone mineral density QTL 428.40.0001lumbar vertebra mineral mass (VT:0010511)bone mineral density (CMO:0001226)1181059071226059071Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1153679879232414077Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1160573753266453731Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1160574007235238518Rat
2293654Bss30Bone structure and strength QTL 3032.650.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1181059071226059071Rat
2293655Bss36Bone structure and strength QTL 3610.660.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1210980612255980612Rat
1298084Thym4Thymus enlargement QTL 410.68thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1207243873252243873Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1160111426262090599Rat
2300187Bmd41Bone mineral density QTL 418.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1181059071226059071Rat
2314011Gluco56Glucose level QTL 56blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1209203273254203273Rat
8552891Epfw5Epididymal fat weight QTL 54.4epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1202543537247543537Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1154961463266453731Rat
1358292Cm37Cardiac mass QTL 376.28e-07heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1205674651250674651Rat
61376Bp42Blood pressure QTL 4223.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1207243873252243873Rat
634313Niddm43Non-insulin dependent diabetes mellitus QTL 43blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1208479811269633915Rat
634312Bp143Blood pressure QTL 14330.0002arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1203300512229359342Rat
1358294Bw37Body weight QTL 3750.000011body mass (VT:0001259)body weight (CMO:0000012)1180739993225739993Rat
724559Pancm1Pancreatic morphology QTL 17.1islet of Langerhans morphology trait (VT:0005215)pancreatic islet damage composite score (CMO:0001156)1191190115223964326Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1172718770228180370Rat
10059600Bp378Blood pressure QTL 3783.080.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1186298393231298393Rat
2312564Glom18Glomerulus QTL 182.40.003kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1194786607262083703Rat
634321Hc1Hypercalciuria QTL 12.91urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1188241285250779312Rat
2292218Kidm35Kidney mass QTL 35kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1208798288253798288Rat
724562Rends1Renal damage susceptibility QTL 10.05kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)1139442053223964440Rat
1300168Bp170Blood pressure QTL 1702.76arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1192995199237995199Rat
61403Niddm4Non-insulin dependent diabetes mellitus QTL 4blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1201464383246464383Rat
2292222Bp307Blood pressure QTL 3073.060.0014arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1186298393231298393Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1186298393231298393Rat
1641926Teswt2Testicular weight QTL 22.82testis mass (VT:1000644)both testes wet weight (CMO:0000175)1203675682248675682Rat
631658Cm7Cardiac mass QTL 75.320.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)1205674651250674651Rat
1600380Niddm70Non-insulin dependent diabetes mellitus QTL 703.10.0008blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1185979875230979875Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1160573753266453731Rat
1582206Kidm33Kidney mass QTL 336.9kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1197807365233480676Rat
2293700Bmd27Bone mineral density QTL 276.60.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1210980612255980612Rat
2293701Bmd34Bone mineral density QTL 348.30.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)1210980612255980612Rat
8655855Arrd3Age-related retinal degeneration QTL 33.07lens clarity trait (VT:0001304)cataract incidence/prevalence measurement (CMO:0001585)1193400541238400541Rat
634338Hcar4Hepatocarcinoma resistance QTL 44.6liver integrity trait (VT:0010547)liver tumorous lesion number to liver area ratio (CMO:0001210)1202851915223964440Rat
6480783Insul19Insulin level QTL 194.33blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1203300512213659238Rat
6903303Scl34Serum cholesterol QTL 342.50.0033blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)1173363824227535316Rat
1600374Mcs17Mammary carcinoma susceptibility QTL 173mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1207099883252099883Rat
1600363Hc6Hypercalciuria QTL 62.7urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1210980612255980612Rat
2293083Iddm25Insulin dependent diabetes mellitus QTL 254.18blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1191260175236260175Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1111949780228180370Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1185857683270518180Rat
2325727Pia41Pristane induced arthritis QTL 41joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1188241285233241285Rat
7394701Uae46Urinary albumin excretion QTL 463.60.0056urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1210980612255980612Rat

Markers in Region
RH129222  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21201,612,485 - 201,612,672 (+)MAPPERmRatBN7.2
Rnor_6.01219,566,189 - 219,566,375NCBIRnor6.0
Rnor_5.01226,436,302 - 226,436,488UniSTSRnor5.0
RGSC_v3.41206,903,483 - 206,903,669UniSTSRGSC3.4
Celera1199,156,226 - 199,156,412UniSTS
RH 3.4 Map11559.0UniSTS
Cytogenetic Map1q42UniSTS
AW536790  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21201,612,636 - 201,612,743 (+)MAPPERmRatBN7.2
Rnor_6.01219,566,340 - 219,566,446NCBIRnor6.0
Rnor_5.01226,436,453 - 226,436,559UniSTSRnor5.0
RGSC_v3.41206,903,634 - 206,903,740UniSTSRGSC3.4
Celera1199,156,377 - 199,156,483UniSTS
Cytogenetic Map1q42UniSTS
BF390516  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21201,637,567 - 201,637,749 (+)MAPPERmRatBN7.2
Rnor_6.01219,591,270 - 219,591,451NCBIRnor6.0
Rnor_5.01226,461,383 - 226,461,564UniSTSRnor5.0
RGSC_v3.41206,928,565 - 206,928,746UniSTSRGSC3.4
Celera1199,181,307 - 199,181,488UniSTS
RH 3.4 Map11558.4UniSTS
Cytogenetic Map1q42UniSTS
UniSTS:224510  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21201,614,169 - 201,614,339 (+)MAPPERmRatBN7.2
Rnor_6.01219,567,873 - 219,568,042NCBIRnor6.0
Rnor_5.01226,437,986 - 226,438,155UniSTSRnor5.0
RGSC_v3.41206,905,167 - 206,905,336UniSTSRGSC3.4
Celera1199,157,910 - 199,158,079UniSTS
Cytogenetic Map1q42UniSTS


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: ENSRNOT00000054850   ⟹   ENSRNOP00000051732
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1201,612,453 - 201,680,787 (-)Ensembl
Rnor_6.0 Ensembl1219,566,156 - 219,640,294 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000098321   ⟹   ENSRNOP00000097302
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1211,041,885 - 211,084,479 (-)Ensembl
mRatBN7.2 Ensembl1201,612,453 - 201,655,048 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000113561   ⟹   ENSRNOP00000096348
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1201,675,826 - 201,678,968 (-)Ensembl
RefSeq Acc Id: NM_001108515   ⟹   NP_001101985
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81211,041,861 - 211,110,215 (-)NCBI
mRatBN7.21201,612,429 - 201,680,787 (-)NCBI
Rnor_6.01219,566,132 - 219,640,294 (-)NCBI
Rnor_5.01226,436,243 - 226,509,594 (-)NCBI
RGSC_v3.41206,903,426 - 206,972,100 (-)RGD
Celera1199,156,169 - 199,224,605 (-)RGD
Sequence:
RefSeq Acc Id: XM_039083854   ⟹   XP_038939782
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81211,041,859 - 211,059,221 (-)NCBI
mRatBN7.21201,612,427 - 201,629,792 (-)NCBI
RefSeq Acc Id: XM_063268221   ⟹   XP_063124291
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81211,041,859 - 211,125,749 (-)NCBI
RefSeq Acc Id: XM_063268222   ⟹   XP_063124292
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81211,041,859 - 211,110,878 (-)NCBI
RefSeq Acc Id: XM_063268223   ⟹   XP_063124293
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81211,041,859 - 211,116,765 (-)NCBI
RefSeq Acc Id: NP_001101985   ⟸   NM_001108515
- UniProtKB: D3ZTJ7 (UniProtKB/TrEMBL),   A6HYX1 (UniProtKB/TrEMBL),   A0A8I6ARD6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000051732   ⟸   ENSRNOT00000054850
RefSeq Acc Id: XP_038939782   ⟸   XM_039083854
- Peptide Label: isoform X2
Ensembl Acc Id: ENSRNOP00000096348   ⟸   ENSRNOT00000113561
Ensembl Acc Id: ENSRNOP00000097302   ⟸   ENSRNOT00000098321
RefSeq Acc Id: XP_063124291   ⟸   XM_063268221
- Peptide Label: isoform X1
- UniProtKB: A6HYX1 (UniProtKB/TrEMBL),   D3ZTJ7 (UniProtKB/TrEMBL),   A0A8I6ARD6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063124293   ⟸   XM_063268223
- Peptide Label: isoform X1
- UniProtKB: A6HYX1 (UniProtKB/TrEMBL),   D3ZTJ7 (UniProtKB/TrEMBL),   A0A8I6ARD6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063124292   ⟸   XM_063268222
- Peptide Label: isoform X1
- UniProtKB: A6HYX1 (UniProtKB/TrEMBL),   D3ZTJ7 (UniProtKB/TrEMBL),   A0A8I6ARD6 (UniProtKB/TrEMBL)
Protein Domains
CXXC-type   JmjC   PHD-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZTJ7-F1-model_v2 AlphaFold D3ZTJ7 1-1161 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:1309419 AgrOrtholog
BioCyc Gene G2FUF-56756 BioCyc
Ensembl Genes ENSRNOG00000019145 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000082023 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000098321 ENTREZGENE
  ENSRNOT00000098321.2 UniProtKB/TrEMBL
  ENSRNOT00000113561.2 UniProtKB/TrEMBL
Gene3D-CATH 1.20.58.1360 UniProtKB/TrEMBL
  3.30.40.10 UniProtKB/TrEMBL
  3.80.10.10 UniProtKB/TrEMBL
  6.10.280.250 UniProtKB/TrEMBL
  Cupin UniProtKB/TrEMBL
InterPro F-box_dom_cyclin-like UniProtKB/TrEMBL
  JHD UniProtKB/TrEMBL
  JHDM1_Histone_Demethylase UniProtKB/TrEMBL
  L_dom-like UniProtKB/TrEMBL
  Leu-rich_rpt_Cys-con_subtyp UniProtKB/TrEMBL
  TF_JmjC_AAH UniProtKB/TrEMBL
  Zinc_finger_PHD-type_CS UniProtKB/TrEMBL
  Znf_CXXC UniProtKB/TrEMBL
  Znf_FYVE_PHD UniProtKB/TrEMBL
  Znf_PHD UniProtKB/TrEMBL
  Znf_PHD-finger UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
KEGG Report rno:361700 UniProtKB/TrEMBL
NCBI Gene 361700 ENTREZGENE
PANTHER PHD/F-BOX CONTAINING PROTEIN UniProtKB/TrEMBL
Pfam F-box-like UniProtKB/TrEMBL
  JHD UniProtKB/TrEMBL
  PHD_4 UniProtKB/TrEMBL
  zf-CXXC UniProtKB/TrEMBL
PhenoGen Kdm2a PhenoGen
PROSITE JMJC UniProtKB/TrEMBL
  ZF_CXXC UniProtKB/TrEMBL
  ZF_PHD_1 UniProtKB/TrEMBL
  ZF_PHD_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000019145 RatGTEx
  ENSRNOG00000082023 RatGTEx
SMART JmjC UniProtKB/TrEMBL
  LRR_CC UniProtKB/TrEMBL
  PHD UniProtKB/TrEMBL
Superfamily-SCOP Clavaminate synthase-like UniProtKB/TrEMBL
  RNI-like UniProtKB/TrEMBL
  SSF57903 UniProtKB/TrEMBL
UniProt A0A8I6ARD6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6GLJ9_RAT UniProtKB/TrEMBL
  A6HYX1 ENTREZGENE, UniProtKB/TrEMBL
  D3ZTJ7 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-17 Kdm2a  lysine demethylase 2A  Kdm2a  lysine (K)-specific demethylase 2A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-04-20 Kdm2a  lysine (K)-specific demethylase 2A  Fbxl11  F-box and leucine-rich repeat protein 11  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Fbxl11  F-box and leucine-rich repeat protein 11   Fbxl11_predicted  F-box and leucine-rich repeat protein 11 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Fbxl11_predicted  F-box and leucine-rich repeat protein 11 (predicted)      Symbol and Name status set to approved 70820 APPROVED