Suv39h1 suppressor of variegation 3-9 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Suv39h1provided by MGI
Official Full Name: suppressor of variegation 3-9 1provided by MGI
Primary source: MGI:MGI:1099440
See related: Ensembl:ENSMUSG00000039231 AllianceGenome:MGI:1099440
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: mIS6; KMT1A; DXHXS7466e; H3-K9-HMTase 1
Summary: Enables RNA polymerase II transcription regulatory region sequence-specific DNA binding activity and histone H3K9me2 methyltransferase activity. Involved in circadian rhythm; negative regulation of DNA-templated transcription; and negative regulation of gene expression, epigenetic. Acts upstream of or within several processes, including blastocyst hatching; determination of adult lifespan; and regulation of bone mineralization. Located in heterochromatin and nucleus. Part of chromatin silencing complex. Is expressed in several structures, including alimentary system; early conceptus; genitourinary system; hemolymphoid system; and nervous system. Orthologous to human SUV39H1 (SUV39H1 histone lysine methyltransferase). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Ubiquitous expression in thymus adult (RPKM 16.1), CNS E11.5 (RPKM 15.8) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: X A1.1; X 3.64 cM

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	X	NC_000086.8 (7927401..7940994, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	X	NC_000086.7 (8061171..8074760, complement)

Chromosome X - NC_000086.8 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: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Suv39h-catalyzed H3K9me3 is critical for euchromatic genome organization and the maintenance of gene transcription.
Title: Suv39h-catalyzed H3K9me3 is critical for euchromatic genome organization and the maintenance of gene transcription.
HBV PreC interacts with SUV39H1 to induce viral replication by blocking the proteasomal degradation of viral polymerase.
Title: HBV PreC interacts with SUV39H1 to induce viral replication by blocking the proteasomal degradation of viral polymerase.
Histone methyltransferase Suv39h1 regulates hepatic stellate cell activation and is targetable in liver fibrosis.
Title: Histone methyltransferase Suv39h1 regulates hepatic stellate cell activation and is targetable in liver fibrosis.
Suv39h1 contributes to activation of hepatic stellate cells in non-alcoholic fatty liver disease by enabling anaerobic glycolysis.
Title: Suv39h1 contributes to activation of hepatic stellate cells in non-alcoholic fatty liver disease by enabling anaerobic glycolysis.
The Wnt-pathway corepressor TLE3 interacts with the histone methyltransferase KMT1A to inhibit differentiation in Rhabdomyosarcoma.
Title: The Wnt-pathway corepressor TLE3 interacts with the histone methyltransferase KMT1A to inhibit differentiation in Rhabdomyosarcoma.
Suv39h1 Silencing Recovers Memory Decline in Scopolamine-Induced Amnesic Mouse Model.
Title: Suv39h1 Silencing Recovers Memory Decline in Scopolamine-Induced Amnesic Mouse Model.
SUV39H1 Ablation Enhances Long-term CAR T Function in Solid Tumors.
Title: SUV39H1 Ablation Enhances Long-term CAR T Function in Solid Tumors.
Aging-related decrease of histone methyltransferase SUV39H1 in adipose-derived stem cells enhanced SASP.
Title: Aging-related decrease of histone methyltransferase SUV39H1 in adipose-derived stem cells enhanced SASP.
SUV39H1 Inhibits Angiogenesis in Limb Ischemia of Mice.
Title: SUV39H1 Inhibits Angiogenesis in Limb Ischemia of Mice.
OCT4 activates a Suv39h1-repressive antisense lncRNA to couple histone H3 Lysine 9 methylation to pluripotency.
Title: OCT4 activates a Suv39h1-repressive antisense lncRNA to couple histone H3 Lysine 9 methylation to pluripotency.

Submit: New GeneRIF Correction See all GeneRIFs (48)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Chemically induced (ENU) (1) 1 citation
Endonuclease-mediated (3) 1 citation
Targeted (3) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

DXS7466E (e-PCR)
- UniSTS:99329

AI852103 (e-PCR)
- UniSTS:164662

Suv39h1 (e-PCR), detects polymorphism
- UniSTS:516677

Suv39h1 (e-PCR), detects polymorphism
- UniSTS:186754

RH125373 (e-PCR)
- UniSTS:162195

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables S-adenosylmethionine-dependent methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables histone H3K9 methyltransferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables histone H3K9 methyltransferase activity	IDA Inferred from Direct Assay more info	PubMed
enables histone H3K9 methyltransferase activity	IGI Inferred from Genetic Interaction more info	PubMed
enables histone H3K9 methyltransferase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables histone H3K9 methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables histone H3K9 trimethyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone H3K9 trimethyltransferase activity	ISO Inferred from Sequence Orthology more info
enables histone H3K9me2 methyltransferase activity	IGI Inferred from Genetic Interaction more info	PubMed
enables histone H3K9me2 methyltransferase activity	ISO Inferred from Sequence Orthology more info	PubMed
enables histone methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein methyltransferase activity	TAS Traceable Author Statement more info	PubMed
enables transcription cis-regulatory region binding	IDA Inferred from Direct Assay more info	PubMed
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA damage response	ISO Inferred from Sequence Orthology more info	PubMed
acts_upstream_of_or_within blastocyst hatching	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in cellular response to glucose starvation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to hypoxia	ISO Inferred from Sequence Orthology more info	PubMed
acts_upstream_of_or_within chromosome organization	TAS Traceable Author Statement more info	PubMed
involved_in circadian rhythm	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within determination of adult lifespan	IGI Inferred from Genetic Interaction more info	PubMed
involved_in energy homeostasis	ISO Inferred from Sequence Orthology more info
involved_in epigenetic programming in the zygotic pronuclei	ISO Inferred from Sequence Orthology more info
involved_in heterochromatin formation	TAS Traceable Author Statement more info	PubMed
involved_in methylation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell cycle	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of gene expression, epigenetic	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info	PubMed
involved_in rDNA heterochromatin formation	ISO Inferred from Sequence Orthology more info
involved_in rRNA processing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of DNA repair	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of bone mineralization	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of cellular senescence	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of multicellular organism growth	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of transcription by glucose	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of chromatin silencing complex	IDA Inferred from Direct Assay more info	PubMed
part_of chromatin silencing complex	ISO Inferred from Sequence Orthology more info
located_in chromosome, centromeric region	IEA Inferred from Electronic Annotation more info
part_of eNoSc complex	ISO Inferred from Sequence Orthology more info
located_in heterochromatin	IDA Inferred from Direct Assay more info	PubMed
located_in heterochromatin	ISO Inferred from Sequence Orthology more info
located_in heterochromatin	TAS Traceable Author Statement more info	PubMed
located_in nuclear lamina	IEA Inferred from Electronic Annotation more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
is_active_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in rDNA heterochromatin	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: histone-lysine N-methyltransferase SUV39H1

Names: Suv39h histone methyltransferase; histone H3-K9 methyltransferase 1; position-effect variegation 3-9 homolog; su(var)3-9 homolog 1; suppressor of variegation 3-9 homolog 1

NP_001277645.1

EC 2.1.1.355

NP_001345166.1

EC 2.1.1.355

NP_035644.1

EC 2.1.1.355

XP_006527637.1

EC 2.1.1.355

XP_011245754.1

EC 2.1.1.355

XP_030107150.1

EC 2.1.1.355

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_001290716.3 → NP_001277645.1 histone-lysine N-methyltransferase SUV39H1 isoform 2

See identical proteins and their annotated locations for NP_001277645.1

Status: VALIDATED

Source sequence(s)

AL663032

Consensus CDS

CCDS72337.1

UniProtKB/TrEMBL

A2AC19

Related

ENSMUSP00000111300.2, ENSMUST00000115637.8

Conserved Domains (3) summary

smart00468
Location:133 → 228

PreSET; N-terminal to some SET domains

smart00317
Location:244 → 367

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

pfam00385
Location:45 → 92

Chromo; Chromo (CHRromatin Organization MOdifier) domain
NM_001358237.2 → NP_001345166.1 histone-lysine N-methyltransferase SUV39H1 isoform 3

Status: VALIDATED

Source sequence(s)

AL663032
NM_011514.3 → NP_035644.1 histone-lysine N-methyltransferase SUV39H1 isoform 1

See identical proteins and their annotated locations for NP_035644.1

Status: VALIDATED

Source sequence(s)

AL663032

Consensus CDS

CCDS40846.1

UniProtKB/Swiss-Prot

O54864, Q3TEW2, Q3UT51, Q8C2L3, Q9JLC7, Q9JLP8

Related

ENSMUSP00000111301.4, ENSMUST00000115638.10

Conserved Domains (3) summary

smart00468
Location:132 → 227

PreSET; N-terminal to some SET domains

smart00317
Location:243 → 366

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

pfam00385
Location:44 → 91

Chromo; Chromo (CHRromatin Organization MOdifier) domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000086.8 Reference GRCm39 C57BL/6J

Range

7927401..7940994 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_030251290.1 → XP_030107150.1 histone-lysine N-methyltransferase SUV39H1 isoform X3

Conserved Domains (2) summary

cd18639
Location:43 → 91

CD_SUV39H1_like; chromodomain of histone methyltransferase SUV39H1, and similar proteins

cd10525
Location:158 → 415

SET_SUV39H1; SET domain (including pre-SET and post-SET domains) found in suppressor of variegation 3-9 homolog 1 (SUV39H1) and similar proteins
XM_006527574.5 → XP_006527637.1 histone-lysine N-methyltransferase SUV39H1 isoform X2

Conserved Domains (2) summary

cd18639
Location:43 → 91

CD_SUV39H1_like; chromodomain of histone methyltransferase SUV39H1, and similar proteins

cl40432
Location:158 → 371

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily
XM_011247452.4 → XP_011245754.1 histone-lysine N-methyltransferase SUV39H1 isoform X1

Conserved Domains (2) summary

cd18639
Location:44 → 92

CD_SUV39H1_like; chromodomain of histone methyltransferase SUV39H1, and similar proteins

cl40432
Location:159 → 372

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily