Kdm8 (lysine demethylase 8) - Rat Genome Database

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Gene: Kdm8 (lysine demethylase 8) Ictidomys tridecemlineatus
Analyze
Symbol: Kdm8
Name: lysine demethylase 8
RGD ID: 12487540
Description: ENCODES a protein that exhibits aminopeptidase activity (inferred); chromatin binding (inferred); endopeptidase activity (inferred); INVOLVED IN fibroblast proliferation (ortholog); in utero embryonic development (ortholog); regulation of signal transduction by p53 class mediator (ortholog); PARTICIPATES IN histone modification pathway; ASSOCIATED WITH breast cancer (ortholog); Coffin-Siris syndrome (ortholog); genetic disease (ortholog); FOUND IN cytosol (inferred); nucleoplasm (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: bifunctional peptidase and arginyl-hydroxylase JMJD5; lysine demethylase 8, transcript variant X1; lysine demethylase 8, transcript variant X2; lysine demethylase 8, transcript variant X3; lysine-specific demethylase 8
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344122,834,703 - 122,855,523 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493650110,933,671 - 10,951,707 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493650110,932,541 - 10,955,772 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
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
cytosol  (IEA)
nucleoplasm  (IEA)
nucleus  (IEA)

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


Genomics

Comparative Map Data
Kdm8
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344122,834,703 - 122,855,523 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493650110,933,671 - 10,951,707 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493650110,932,541 - 10,955,772 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KDM8
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381627,203,526 - 27,221,768 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1627,203,508 - 27,221,768 (+)EnsemblGRCh38hg38GRCh38
GRCh371627,214,847 - 27,233,089 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361627,122,317 - 27,140,544 (+)NCBINCBI36Build 36hg18NCBI36
Celera1625,993,442 - 26,011,724 (+)NCBICelera
Cytogenetic Map16p12.1NCBI
HuRef1625,303,702 - 25,321,984 (+)NCBIHuRef
CHM1_11628,226,511 - 28,244,793 (+)NCBICHM1_1
T2T-CHM13v2.01627,482,139 - 27,500,381 (+)NCBIT2T-CHM13v2.0
Kdm8
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397125,043,788 - 125,062,823 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl7125,043,848 - 125,061,441 (+)EnsemblGRCm39 Ensembl
GRCm387125,444,620 - 125,463,651 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7125,444,676 - 125,462,269 (+)EnsemblGRCm38mm10GRCm38
MGSCv377132,588,190 - 132,605,773 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv367125,235,824 - 125,253,407 (+)NCBIMGSCv36mm8
Celera7125,303,361 - 125,320,954 (+)NCBICelera
Cytogenetic Map7F3NCBI
cM Map768.85NCBI
Kdm8
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81189,444,527 - 189,459,507 (+)NCBIGRCr8
mRatBN7.21180,013,969 - 180,028,829 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1180,020,656 - 180,028,841 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1188,350,526 - 188,365,400 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01195,536,557 - 195,551,431 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01188,219,849 - 188,234,719 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01196,838,460 - 196,854,192 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1196,839,321 - 196,854,180 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01203,825,823 - 203,840,790 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41184,510,173 - 184,525,036 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11184,666,742 - 184,674,917 (+)NCBI
Celera1177,684,363 - 177,699,127 (+)NCBICelera
Cytogenetic Map1q36NCBI
Kdm8
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554935,437,090 - 5,462,294 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554935,437,344 - 5,462,849 (+)NCBIChiLan1.0ChiLan1.0
KDM8
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21828,602,178 - 28,620,254 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11633,142,252 - 33,160,327 (+)NCBINHGRI_mPanPan1
PanPan1.11627,577,230 - 27,595,164 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1627,577,230 - 27,595,164 (+)Ensemblpanpan1.1panPan2
KDM8
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1619,366,813 - 19,390,082 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl619,366,331 - 19,380,257 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha620,948,051 - 20,971,318 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0619,509,426 - 19,532,710 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl619,509,438 - 19,532,685 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1619,307,285 - 19,330,551 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0619,220,623 - 19,244,109 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0619,567,219 - 19,590,503 (-)NCBIUU_Cfam_GSD_1.0
KDM8
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl319,653,402 - 19,676,148 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1319,653,396 - 19,676,207 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2319,871,955 - 19,945,912 (-)NCBISscrofa10.2Sscrofa10.2susScr3
KDM8
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1524,907,345 - 24,927,028 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl524,907,657 - 24,928,995 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660684,770,483 - 4,789,136 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Kdm8
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478211,884,631 - 11,903,947 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478211,884,847 - 11,903,944 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSSTOT00000023396   ⟹   ENSSTOP00000022768
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_00493650110,941,057 - 10,951,640 (+)Ensembl
RefSeq Acc Id: ENSSTOT00000032363   ⟹   ENSSTOP00000027867
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_00493650110,933,671 - 10,951,707 (+)Ensembl
RefSeq Acc Id: XM_005323771   ⟹   XP_005323828
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024409344122,835,497 - 122,855,523 (+)NCBI
SpeTri2.0NW_00493650110,932,541 - 10,955,772 (+)NCBI
Sequence:
RefSeq Acc Id: XR_005730299
Type: NON-CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024409344122,834,703 - 122,853,632 (+)NCBI
Protein Sequences
Protein RefSeqs XP_005323828 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000022768.2
  ENSSTOP00000027867.1
GenBank Protein KAG3259534 (Get FASTA)   NCBI Sequence Viewer  
  KAG3259535 (Get FASTA)   NCBI Sequence Viewer  
  KAG3259536 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_005323828   ⟸   XM_005323771
- UniProtKB: I3NEH1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSTOP00000027867   ⟸   ENSSTOT00000032363
RefSeq Acc Id: ENSSTOP00000022768   ⟸   ENSSTOT00000023396
Protein Domains
Cupin-like   JmjC


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000023025 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000023396.2 UniProtKB/TrEMBL
  ENSSTOT00000032363.1 UniProtKB/TrEMBL
Gene3D-CATH Cupin UniProtKB/TrEMBL
InterPro Cupin_8 UniProtKB/TrEMBL
  JmjC_dom UniProtKB/TrEMBL
NCBI Gene Kdm8 ENTREZGENE
PANTHER BIFUNCTIONAL PEPTIDASE AND (3S)-LYSYL HYDROXYLASE JMJD7-RELATED UniProtKB/TrEMBL
  HYPOXIA-INDUCIBLE FACTOR 1 ALPHA INHIBITOR-RELATED UniProtKB/TrEMBL
Pfam Cupin_8 UniProtKB/TrEMBL
PROSITE JMJC UniProtKB/TrEMBL
SMART JmjC UniProtKB/TrEMBL
Superfamily-SCOP Clavaminate synthase-like UniProtKB/TrEMBL
UniProt A0A287D2W4_ICTTR UniProtKB/TrEMBL
  I3NEH1 ENTREZGENE, UniProtKB/TrEMBL