Kdm3a (lysine demethylase 3A) - Rat Genome Database

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Gene: Kdm3a (lysine demethylase 3A) Heterocephalus glaber
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Symbol: Kdm3a
Name: lysine demethylase 3A
RGD ID: 18930840
Description: ENCODES a protein that exhibits chromatin binding (inferred); chromatin DNA binding (inferred); dioxygenase activity (inferred); INVOLVED IN male gonad development (ortholog); positive regulation of gene expression (ortholog); response to hypoxia (ortholog); PARTICIPATES IN histone modification pathway; ASSOCIATED WITH cervical cancer (ortholog); colon cancer (ortholog); Ewing sarcoma (ortholog); FOUND IN chromatin (inferred); cytoplasm (inferred); histone deacetylase complex (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: lysine-specific demethylase 3A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
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
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
(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
(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


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSHGLT00000011469   ⟹   ENSHGLP00000011342
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462474916,784,538 - 16,829,365 (-)Ensembl
RefSeq Acc Id: XM_004844576   ⟹   XP_004844633
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474916,784,538 - 16,829,380 (-)NCBI
RefSeq Acc Id: XM_021258197   ⟹   XP_021113856
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474916,784,538 - 16,829,784 (-)NCBI
Protein Sequences
Protein RefSeqs XP_004844633 (Get FASTA)   NCBI Sequence Viewer  
  XP_021113856 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000011342
GenBank Protein JAO01487 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_021113856   ⟸   XM_021258197
- UniProtKB: A0A0P6JX54 (UniProtKB/TrEMBL),   G5AQ12 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_004844633   ⟸   XM_004844576
- UniProtKB: A0A0P6JX54 (UniProtKB/TrEMBL),   G5AQ12 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000011342   ⟸   ENSHGLT00000011469


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000008133 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSHGLT00000011469 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH Cupin UniProtKB/TrEMBL
InterPro DUF7030 UniProtKB/TrEMBL
  JHDM2-like UniProtKB/TrEMBL
  JmjC_dom UniProtKB/TrEMBL
  KDM3AB_Tudor UniProtKB/TrEMBL
  PWWP_KDM3B UniProtKB/TrEMBL
KEGG Report hgl:101723328 UniProtKB/TrEMBL
NCBI Gene Kdm3a ENTREZGENE
PANTHER LYSINE-SPECIFIC DEMETHYLASE 3A UniProtKB/TrEMBL
  PTHR12549 UniProtKB/TrEMBL
Pfam DUF7030 UniProtKB/TrEMBL
  JmjC UniProtKB/TrEMBL
  KDM3B_Tudor UniProtKB/TrEMBL
  PWWP_KDM3B UniProtKB/TrEMBL
PROSITE JMJC UniProtKB/TrEMBL
SMART JmjC UniProtKB/TrEMBL
Superfamily-SCOP Clavaminate synthase-like UniProtKB/TrEMBL
UniProt A0A0P6JX54 ENTREZGENE, UniProtKB/TrEMBL
  G5AQ12 ENTREZGENE, UniProtKB/TrEMBL