Hdac10 histone deacetylase 10 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Hdac10provided by RGD
Official Full Name: histone deacetylase 10provided by RGD
Primary source: RGD:1305874
See related: EnsemblRapid:ENSRNOG00000031915 AllianceGenome:RGD:1305874
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable histone deacetylase activity; histone deacetylase binding activity; and zinc ion binding activity. Involved in oligodendrocyte development. Predicted to be located in cytoplasm and nucleoplasm. Predicted to be part of histone deacetylase complex. Orthologous to human HDAC10 (histone deacetylase 10). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Muscle (RPKM 36.9), Thymus (RPKM 35.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q34

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (122078768..122084457, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (120199126..120205850, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (130102335..130109036, complement)

Chromosome 7 - NC_086025.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Histone Deacetylation 10 Alleviates Inflammation After Intracerebral Hemorrhage via the PTPN22/NLRP3 Pathway in Rats.
Title: Histone Deacetylation 10 Alleviates Inflammation After Intracerebral Hemorrhage via the PTPN22/NLRP3 Pathway in Rats.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH139917 (e-PCR)
- UniSTS:222001

AW548891 (e-PCR)
- UniSTS:180816

RH128844 (e-PCR)
- UniSTS:212152

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables acetylputrescine deacetylase activity	IEA Inferred from Electronic Annotation more info
enables acetylspermidine deacetylase activity	IEA Inferred from Electronic Annotation more info
enables deacetylase activity	IBA Inferred from Biological aspect of Ancestor more info
enables deacetylase activity	ISO Inferred from Sequence Orthology more info
enables deacetylase activity	ISS Inferred from Sequence or Structural Similarity more info
enables enzyme binding	ISO Inferred from Sequence Orthology more info
enables histone deacetylase activity	IEA Inferred from Electronic Annotation more info
enables histone deacetylase activity	ISO Inferred from Sequence Orthology more info
enables histone deacetylase binding	IEA Inferred from Electronic Annotation more info
enables histone deacetylase binding	ISO Inferred from Sequence Orthology more info
NOT enables protein lysine deacetylase activity	ISO Inferred from Sequence Orthology more info
enables protein lysine deacetylase activity	ISO Inferred from Sequence Orthology more info
NOT enables protein lysine deacetylase activity	ISS Inferred from Sequence or Structural Similarity more info
enables zinc ion binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in DNA repair	IEA Inferred from Electronic Annotation more info
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in epigenetic regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info
involved_in homologous recombination	IEA Inferred from Electronic Annotation more info
involved_in homologous recombination	ISO Inferred from Sequence Orthology more info
involved_in homologous recombination	ISS Inferred from Sequence or Structural Similarity more info
involved_in macroautophagy	IEA Inferred from Electronic Annotation more info
involved_in macroautophagy	ISO Inferred from Sequence Orthology more info
involved_in macroautophagy	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in oligodendrocyte development	IEP Inferred from Expression Pattern more info	PubMed
involved_in polyamine deacetylation	ISO Inferred from Sequence Orthology more info
involved_in polyamine deacetylation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of mismatch repair	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of mismatch repair	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mismatch repair	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in spermidine deacetylation	IEA Inferred from Electronic Annotation more info
involved_in spermidine deacetylation	ISO Inferred from Sequence Orthology more info
involved_in spermidine deacetylation	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
part_of histone deacetylase complex	IEA Inferred from Electronic Annotation more info
part_of histone deacetylase complex	ISO Inferred from Sequence Orthology more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: polyamine deacetylase HDAC10

Names: HD10

NP_001030172.1

EC 3.5.1.48

EC 3.5.1.62

NP_001401901.1

EC 3.5.1.48

EC 3.5.1.62

XP_006242281.1

EC 3.5.1.48

EC 3.5.1.62

XP_038935552.1

EC 3.5.1.48

EC 3.5.1.62

XP_038935553.1

EC 3.5.1.48

EC 3.5.1.62

XP_038935554.1

EC 3.5.1.48

EC 3.5.1.62

XP_038935555.1

EC 3.5.1.48

EC 3.5.1.62

XP_038935556.1

EC 3.5.1.48

EC 3.5.1.62

XP_038935557.1

EC 3.5.1.48

EC 3.5.1.62

XP_038935558.1

EC 3.5.1.48

EC 3.5.1.62

XP_038935559.1

EC 3.5.1.48

EC 3.5.1.62

XP_038935560.1

EC 3.5.1.48

EC 3.5.1.62

XP_038935561.1

EC 3.5.1.48

EC 3.5.1.62

XP_038935562.1

EC 3.5.1.48

EC 3.5.1.62

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001035000.2 → NP_001030172.1 polyamine deacetylase HDAC10 isoform 2

See identical proteins and their annotated locations for NP_001030172.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000007

UniProtKB/Swiss-Prot

Q569C4

UniProtKB/TrEMBL

A0A8I6AHE1

Related

ENSRNOP00000052717.3, ENSRNOT00000055865.5

Conserved Domains (1) summary

cl17011
Location:18 → 302

Arginase_HDAC; Arginase-like and histone-like hydrolases
NM_001414972.1 → NP_001401901.1 polyamine deacetylase HDAC10 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000007

UniProtKB/TrEMBL

A0A8I6A775, A0A8I6AHE1, A6K7J6

Related

ENSRNOP00000088972.1, ENSRNOT00000118109.2

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086025.1 Reference GRCr8

Range

122078768..122084457 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039079625.2 → XP_038935553.1 polyamine deacetylase HDAC10 isoform X3

UniProtKB/TrEMBL

A0A8I6AHE1

Conserved Domains (1) summary

cl17011
Location:18 → 302

Arginase_HDAC; Arginase-like and histone-like hydrolases
XM_006242219.4 → XP_006242281.1 polyamine deacetylase HDAC10 isoform X1

UniProtKB/TrEMBL

A0A8I6AHE1

Related

ENSRNOP00000108360.1, ENSRNOT00000143059.1

Conserved Domains (1) summary

cl17011
Location:18 → 354

Arginase_HDAC; Arginase-like and histone-like hydrolases
XM_039079624.2 → XP_038935552.1 polyamine deacetylase HDAC10 isoform X2

UniProtKB/TrEMBL

A0A8I6AHE1

Related

ENSRNOP00000099349.1, ENSRNOT00000134094.1

Conserved Domains (1) summary

cl17011
Location:18 → 322

Arginase_HDAC; Arginase-like and histone-like hydrolases
XM_039079627.2 → XP_038935555.1 polyamine deacetylase HDAC10 isoform X4

Conserved Domains (1) summary

cl17011
Location:6 → 171

Arginase_HDAC; Arginase-like and histone-like hydrolases
XM_039079628.2 → XP_038935556.1 polyamine deacetylase HDAC10 isoform X5

Conserved Domains (1) summary

cl17011
Location:129 → 147

Arginase_HDAC; Arginase-like and histone-like hydrolases
XM_039079631.2 → XP_038935559.1 polyamine deacetylase HDAC10 isoform X6

Conserved Domains (1) summary

cl17011
Location:104 → 122

Arginase_HDAC; Arginase-like and histone-like hydrolases
XM_039079626.2 → XP_038935554.1 polyamine deacetylase HDAC10 isoform X4

Conserved Domains (1) summary

cl17011
Location:6 → 171

Arginase_HDAC; Arginase-like and histone-like hydrolases
XM_039079630.2 → XP_038935558.1 polyamine deacetylase HDAC10 isoform X6

Conserved Domains (1) summary

cl17011
Location:104 → 122

Arginase_HDAC; Arginase-like and histone-like hydrolases
XM_039079629.2 → XP_038935557.1 polyamine deacetylase HDAC10 isoform X6

Conserved Domains (1) summary

cl17011
Location:104 → 122

Arginase_HDAC; Arginase-like and histone-like hydrolases
XM_039079632.2 → XP_038935560.1 polyamine deacetylase HDAC10 isoform X7

Conserved Domains (1) summary

cl17011
Location:1 → 80

Arginase_HDAC; Arginase-like and histone-like hydrolases
XM_039079633.2 → XP_038935561.1 polyamine deacetylase HDAC10 isoform X8

Conserved Domains (1) summary

cl17011
Location:18 → 354

Arginase_HDAC; Arginase-like and histone-like hydrolases
XM_039079634.2 → XP_038935562.1 polyamine deacetylase HDAC10 isoform X9

Conserved Domains (1) summary

cl17011
Location:18 → 302

Arginase_HDAC; Arginase-like and histone-like hydrolases