Hdac8 (histone deacetylase 8) - Rat Genome Database

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Gene: Hdac8 (histone deacetylase 8) Mus musculus
Analyze
Symbol: Hdac8
Name: histone deacetylase 8
RGD ID: 1558090
MGI Page MGI
Description: Predicted to have several functions, including chromatin binding activity; heat shock protein binding activity; and histone deacetylase activity. Predicted to be involved in several processes, including histone deacetylation; negative regulation of protein ubiquitination; and regulation of chromosome organization. Predicted to localize to histone deacetylase complex and plasma membrane. Is expressed in several structures, including 2-cell stage embryo; brain; embryo ectoderm; foregut; and retina. Human ortholog(s) of this gene implicated in Cornelia de Lange syndrome 5 and Wilson-Turner syndrome. Orthologous to human HDAC8 (histone deacetylase 8); PARTICIPATES IN histone modification pathway; INTERACTS WITH 1,2-dichloroethane; 3,3'-diindolylmethane; benzo[a]pyrene.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 2610007D20Rik; HD8
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X101,328,244 - 101,549,005 (-)NCBIGRCm39mm39
GRCm39 EnsemblX101,328,245 - 101,548,965 (-)Ensembl
GRCm38X102,284,638 - 102,505,381 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX102,284,639 - 102,505,359 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X99,479,979 - 99,700,487 (-)NCBIGRCm37mm9NCBIm37
MGSCv36X98,487,359 - 98,707,867 (-)NCBImm8
CeleraX89,195,856 - 89,416,063 (-)NCBICelera
Cytogenetic MapXDNCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:12477932   PMID:12711221   PMID:12850547   PMID:15367668   PMID:15489334   PMID:15537544   PMID:16141072   PMID:16141073   PMID:16602821  
PMID:16873063   PMID:17062627   PMID:18799693   PMID:18824292   PMID:19605684   PMID:20059953   PMID:20484414   PMID:20979029   PMID:21267068   PMID:21677750   PMID:21731673   PMID:21873635  
PMID:23506836   PMID:23698124   PMID:24808536   PMID:25011550   PMID:25451941   PMID:26200462   PMID:26383163   PMID:26859354   PMID:26912657   PMID:27638301   PMID:29084772   PMID:29218547  
PMID:29499194   PMID:30179675   PMID:32281211   PMID:32800293  


Genomics

Comparative Map Data
Hdac8
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X101,328,244 - 101,549,005 (-)NCBIGRCm39mm39
GRCm39 EnsemblX101,328,245 - 101,548,965 (-)Ensembl
GRCm38X102,284,638 - 102,505,381 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX102,284,639 - 102,505,359 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X99,479,979 - 99,700,487 (-)NCBIGRCm37mm9NCBIm37
MGSCv36X98,487,359 - 98,707,867 (-)NCBImm8
CeleraX89,195,856 - 89,416,063 (-)NCBICelera
Cytogenetic MapXDNCBI
HDAC8
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 EnsemblX72,329,516 - 72,573,101 (-)EnsemblGRCh38hg38GRCh38
GRCh38X72,329,516 - 72,573,099 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37X71,549,366 - 71,792,693 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X71,466,091 - 71,709,378 (-)NCBINCBI36hg18NCBI36
Build 34X71,332,387 - 71,575,674NCBI
CeleraX71,892,584 - 72,136,175 (-)NCBI
Cytogenetic MapXq13.1NCBI
HuRefX65,303,729 - 65,547,461 (-)NCBIHuRef
CHM1_1X71,442,370 - 71,685,931 (-)NCBICHM1_1
Hdac8
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X67,385,288 - 67,593,014 (-)NCBI
Rnor_6.0 EnsemblX72,163,777 - 72,370,044 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X72,163,777 - 72,370,058 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X73,694,610 - 73,698,948 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0X73,566,613 - 73,589,000 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X90,336,001 - 90,544,511 (-)NCBIRGSC3.4rn4RGSC3.4
CeleraX67,738,891 - 67,946,303 (-)NCBICelera
Cytogenetic MapXq22NCBI
Hdac8
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495547511,748,502 - 12,012,884 (-)NCBIChiLan1.0ChiLan1.0
HDAC8
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X71,649,178 - 71,894,896 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v0X61,565,790 - 61,811,588 (-)NCBIMhudiblu_PPA_v0panPan3
HDAC8
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X56,357,205 - 56,574,443 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX56,357,177 - 56,574,401 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX47,183,095 - 47,400,619 (-)NCBI
ROS_Cfam_1.0X57,411,265 - 57,628,877 (-)NCBI
UMICH_Zoey_3.1X55,325,722 - 55,544,604 (-)NCBI
UNSW_CanFamBas_1.0X56,723,145 - 56,940,470 (-)NCBI
UU_Cfam_GSD_1.0X56,571,889 - 56,789,465 (-)NCBI
Hdac8
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X45,327,793 - 45,554,498 (+)NCBI
SpeTri2.0NW_0049367621,425,337 - 1,652,058 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HDAC8
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1X58,210,182 - 58,450,681 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
HDAC8
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X62,154,374 - 62,393,149 (-)NCBI
Vero_WHO_p1.0NW_0236660654,003,868 - 4,261,439 (-)NCBI
Hdac8
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249032,620,571 - 2,852,247 (-)NCBI

Position Markers
px-12a4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38X102,365,864 - 102,366,133UniSTSGRCm38
MGSCv37X99,561,203 - 99,561,472UniSTSGRCm37
CeleraX89,277,044 - 89,277,313UniSTS
Cytogenetic MapXC3UniSTS
px-22f3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38X102,302,341 - 102,302,497UniSTSGRCm38
MGSCv37X99,497,680 - 99,497,836UniSTSGRCm37
CeleraX89,213,678 - 89,213,834UniSTS
Cytogenetic MapXC3UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357433Dbts2_mdiabetes 2 (mouse)Not determinedX7360056151324042Mouse
4141630Gct6_mgranulosa cell tumorigenesis 6 (mouse)Not determined48090244130864007Mouse
13824980Ferq1_mgenetic fertility QTL 1 (mouse)X55000000150000000Mouse
4141665Mhysq2_mmale hybrid sterility QTL 2 (mouse)Not determined72410246140302463Mouse
12879918Shm4_msperm head morphology 4 (mouse)X73028444103019114Mouse
1357500Mdmsc6_mmodifier of muscularity 6 (mouse)Not determinedX76263065110263152Mouse
1302054Gct4_mgranulosa cell tumorigenesis 4 (mouse)Not determinedX77080730103019114Mouse
11075102Modc2_mmodifier of Odc2 (mouse)X81146308115146453Mouse
4141803Lmr30_mleishmaniasis resistance 30 (mouse)Not determined86019000120019114Mouse
13208552Wght12_mweight 12 (mouse)X95000000151000000Mouse
13208556Lgth14_mbody length 14 (mouse)X95000000151000000Mouse

miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Mir93mmu-miR-93-5pOncomiRDBexternal_infoNANA22180714

Predicted Target Of
Summary Value
Count of predictions:754
Count of miRNA genes:491
Interacting mature miRNAs:576
Transcripts:ENSMUST00000087916, ENSMUST00000137785, ENSMUST00000148481, ENSMUST00000154024, ENSMUST00000154872
Prediction methods:Miranda, Pita, 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.


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001313742 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_027382 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006528275 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006528276 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011247671 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011247673 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_004940364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AK011332 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK034511 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK041965 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK131998 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL805925 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL805931 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL954850 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY066003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC061257 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX294654 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466564 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  LC616675 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  LC616676 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  LC616677 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  LC616678 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000087916   ⟹   ENSMUSP00000085226
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 EnsemblX102,284,639 - 102,505,359 (-)Ensembl
RefSeq Acc Id: ENSMUST00000137785
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 EnsemblX102,414,345 - 102,505,345 (-)Ensembl
RefSeq Acc Id: ENSMUST00000148481
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 EnsemblX102,407,602 - 102,505,146 (-)Ensembl
RefSeq Acc Id: ENSMUST00000154024
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 EnsemblX102,498,156 - 102,504,741 (-)Ensembl
RefSeq Acc Id: ENSMUST00000154872   ⟹   ENSMUSP00000138805
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 EnsemblX102,405,647 - 102,505,081 (-)Ensembl
RefSeq Acc Id: NM_001313742   ⟹   NP_001300671
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X101,451,208 - 101,548,764 (-)NCBI
GRCm38X102,407,602 - 102,505,158 (-)NCBI
Sequence:
RefSeq Acc Id: NM_027382   ⟹   NP_081658
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X101,328,244 - 101,548,764 (-)NCBI
GRCm38X102,284,638 - 102,505,158 (-)NCBI
MGSCv37X99,479,979 - 99,700,487 (-)RGD
CeleraX89,195,856 - 89,416,063 (-)RGD
cM MapX ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006528275   ⟹   XP_006528338
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X101,328,716 - 101,548,984 (-)NCBI
GRCm38X102,285,100 - 102,505,381 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006528276   ⟹   XP_006528339
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X101,328,244 - 101,548,984 (-)NCBI
GRCm38X102,284,638 - 102,505,381 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011247671   ⟹   XP_011245973
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X101,422,629 - 101,548,984 (-)NCBI
GRCm38X102,379,023 - 102,505,381 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011247673   ⟹   XP_011245975
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X101,535,227 - 101,548,976 (-)NCBI
GRCm38X102,491,621 - 102,505,381 (-)NCBI
Sequence:
RefSeq Acc Id: XR_004940364
RefSeq Status:
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X101,446,271 - 101,549,005 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_081658   ⟸   NM_027382
- Peptide Label: isoform 1
- UniProtKB: Q8VH37 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006528338   ⟸   XM_006528275
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006528339   ⟸   XM_006528276
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_011245973   ⟸   XM_011247671
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_011245975   ⟸   XM_011247673
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: NP_001300671   ⟸   NM_001313742
- Peptide Label: isoform 2
- UniProtKB: Q8VH37 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000085226   ⟸   ENSMUST00000087916
RefSeq Acc Id: ENSMUSP00000138805   ⟸   ENSMUST00000154872

Promoters
RGD ID:6845831
Promoter ID:MM_KWN:61378
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   MEF_B6,   Spleen
Transcripts:ENSMUST00000087916,   OTTMUST00000041673,   OTTMUST00000041674,   OTTMUST00000041675,   OTTMUST00000041676
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36X99,699,781 - 99,701,202 (-)MPROMDB
RGD ID:13681108
Promoter ID:EPDNEW_M24703
Type:initiation region
Name:Hdac8_1
Description:Mus musculus histone deacetylase 8 , transcript variant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38X102,505,146 - 102,505,206EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1917565 AgrOrtholog
Ensembl Genes ENSMUSG00000067567 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000085226 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000138805 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000087916 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000148481 ENTREZGENE
  ENSMUST00000154872 UniProtKB/TrEMBL
Gene3D-CATH 3.40.800.20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro His_deacetylse UniProtKB/Swiss-Prot
  His_deacetylse_1 UniProtKB/Swiss-Prot
  His_deacetylse_dom UniProtKB/Swiss-Prot
  His_deacetylse_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ureohydrolase_dom_sf UniProtKB/Swiss-Prot
KEGG Report mmu:70315 UniProtKB/Swiss-Prot
MGD MGI:1917565 ENTREZGENE
NCBI Gene 70315 ENTREZGENE
Pfam Hist_deacetyl UniProtKB/Swiss-Prot
PhenoGen Hdac8 PhenoGen
PIRSF His_deacetylse_1 UniProtKB/Swiss-Prot
PRINTS HDASUPER UniProtKB/Swiss-Prot
  HISDACETLASE UniProtKB/Swiss-Prot
Superfamily-SCOP SSF52768 UniProtKB/Swiss-Prot
UniProt HDAC8_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  S4R2V6_MOUSE UniProtKB/TrEMBL
UniProt Secondary Q3V270 UniProtKB/Swiss-Prot
  Q9D0K6 UniProtKB/Swiss-Prot