Uhrf1 ubiquitin-like, containing PHD and RING finger domains, 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Uhrf1provided by MGI
Official Full Name: ubiquitin-like, containing PHD and RING finger domains, 1provided by MGI
Primary source: MGI:MGI:1338889
See related: Ensembl:ENSMUSG00000001228 AllianceGenome:MGI:1338889
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: Np95; ICBP90; RNF106
Summary: Enables several functions, including hemi-methylated DNA-binding activity; histone binding activity; and ubiquitin protein ligase activity. Involved in maintenance of DNA methylation; negative regulation of transcription by RNA polymerase II; and protein ubiquitination. Located in heterochromatin; nuclear matrix; and replication fork. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; hindlimb phalanx; and sensory organ. Orthologous to human UHRF1 (ubiquitin like with PHD and ring finger domains 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in thymus adult (RPKM 54.8), liver E14 (RPKM 50.8) and 17 other tissues See more
Orthologs: human all
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Genomic context

Location:: 17 D; 17 29.26 cM

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	17	NC_000083.7 (56610405..56630486)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	17	NC_000083.6 (56303337..56323486)

Chromosome 17 - NC_000083.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

UHRF1 is a mediator of KRAS driven oncogenesis in lung adenocarcinoma.
Title: UHRF1 is a mediator of KRAS driven oncogenesis in lung adenocarcinoma.
UHRF1 is essential for proper cytoplasmic architecture and function of mouse oocytes and derived embryos.
Title: UHRF1 is essential for proper cytoplasmic architecture and function of mouse oocytes and derived embryos.
Liposomal UHRF1 siRNA shows lung fibrosis treatment potential through regulation of fibroblast activation.
Title: Liposomal UHRF1 siRNA shows lung fibrosis treatment potential through regulation of fibroblast activation.
Structural basis for the unique multifaceted interaction of DPPA3 with the UHRF1 PHD finger.
Title: Structural basis for the unique multifaceted interaction of DPPA3 with the UHRF1 PHD finger.
An shRNA kinase screen identifies regulators of UHRF1 stability and activity in mouse embryonic stem cells.
Title: An shRNA kinase screen identifies regulators of UHRF1 stability and activity in mouse embryonic stem cells.
UHRF1 interacts with snRNAs and regulates alternative splicing in mouse spermatogonial stem cells.
Title: UHRF1 interacts with snRNAs and regulates alternative splicing in mouse spermatogonial stem cells.
UHRF1 is indispensable for meiotic sex chromosome inactivation and interacts with the DNA damage response pathway in micedagger.
Title: UHRF1 is indispensable for meiotic sex chromosome inactivation and interacts with the DNA damage response pathway in mice†.
Epigenetic regulator UHRF1 orchestrates proinflammatory gene expression in rheumatoid arthritis in a suppressive manner.
Title: Epigenetic regulator UHRF1 orchestrates proinflammatory gene expression in rheumatoid arthritis in a suppressive manner.
UHRF1 establishes crosstalk between somatic and germ cells in male reproduction.
Title: UHRF1 establishes crosstalk between somatic and germ cells in male reproduction.
Nuclear UHRF1 is a gate-keeper of cellular AMPK activity and function.
Title: Nuclear UHRF1 is a gate-keeper of cellular AMPK activity and function.

Submit: New GeneRIF Correction See all GeneRIFs (65)

Variation

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Alleles

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

Gene trapped (2)
Targeted (5) 1 citation
Chemically induced (ENU) (1) 1 citation
Endonuclease-mediated (1)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables hemi-methylated DNA-binding	IDA Inferred from Direct Assay more info	PubMed
enables hemi-methylated DNA-binding	ISO Inferred from Sequence Orthology more info
enables histone H3 ubiquitin ligase activity	IDA Inferred from Direct Assay more info	PubMed
enables histone binding	IDA Inferred from Direct Assay more info	PubMed
enables histone binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables methyl-CpG binding	ISO Inferred from Sequence Orthology more info
enables methylated histone binding	IDA Inferred from Direct Assay more info	PubMed
enables methylated histone binding	ISO Inferred from Sequence Orthology more info
enables nucleic acid binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transferase activity	IEA Inferred from Electronic Annotation more info
enables ubiquitin protein ligase activity	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin protein ligase activity	IDA Inferred from Direct Assay more info	PubMed
enables ubiquitin protein ligase activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin-protein transferase activity	ISO Inferred from Sequence Orthology more info
enables zinc ion binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA damage response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within DNA repair	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cell cycle	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within chromatin organization	IEA Inferred from Electronic Annotation more info
involved_in heterochromatin formation	ISO Inferred from Sequence Orthology more info
involved_in mitotic spindle assembly	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of gene expression via chromosomal CpG island methylation	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of gene expression via chromosomal CpG island methylation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of gene expression via chromosomal CpG island methylation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein metabolic process	ISO Inferred from Sequence Orthology more info
involved_in protein autoubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein ubiquitination	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of epithelial cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of chromatin	IDA Inferred from Direct Assay more info	PubMed
part_of chromatin	ISO Inferred from Sequence Orthology more info
located_in cytosol	TAS Traceable Author Statement more info
part_of euchromatin	ISO Inferred from Sequence Orthology more info
part_of heterochromatin	IDA Inferred from Direct Assay more info	PubMed
part_of heterochromatin	ISO Inferred from Sequence Orthology more info
located_in nuclear matrix	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	TAS Traceable Author Statement more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	TAS Traceable Author Statement more info	PubMed
located_in replication fork	IDA Inferred from Direct Assay more info	PubMed
located_in replication fork	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: E3 ubiquitin-protein ligase UHRF1

Names: RING-type E3 ubiquitin transferase UHRF1; mUhrf1; nuclear protein 95; nuclear zinc finger protein Np95; ubiquitin-like PHD and RING finger domain-containing protein 1; ubiquitin-like-containing PHD and RING finger domains protein 1

NP_001104548.1

EC 2.3.2.27

NP_001104549.1

EC 2.3.2.27

NP_001104550.1

EC 2.3.2.27

NP_001400286.1

EC 2.3.2.27

NP_001400287.1

EC 2.3.2.27

NP_001400288.1

EC 2.3.2.27

NP_001400289.1

EC 2.3.2.27

NP_035061.3

EC 2.3.2.27

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_001111078.2 → NP_001104548.1 E3 ubiquitin-protein ligase UHRF1 isoform A

See identical proteins and their annotated locations for NP_001104548.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode isoform (A).

Source sequence(s)

AC026385

Consensus CDS

CCDS28903.1

UniProtKB/Swiss-Prot

Q3U9D7, Q3U9P2, Q3UI74, Q3UIE6, Q3ULF2, Q3ULQ0, Q8C6F1, Q8VDF2, Q8VIA1, Q9Z1H6

Related

ENSMUSP00000108662.3, ENSMUST00000113039.9

Conserved Domains (6) summary

cd01797
Location:1 → 78

NIRF_N; amino-terminal ubiquitin-like domain of Np95 and NIRF

smart00213
Location:3 → 74

UBQ; Ubiquitin homologues

cd00162
Location:713 → 755

RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

cd15525
Location:322 → 368

PHD_UHRF1_2; PHD finger found in ubiquitin-like PHD and RING finger domain-containing protein UHRF1 and UHRF2

pfam02182
Location:422 → 588

SAD_SRA; SAD/SRA domain

pfam12148
Location:129 → 281

TTD; Tandem tudor domain within UHRF1
NM_001111079.2 → NP_001104549.1 E3 ubiquitin-protein ligase UHRF1 isoform B

See identical proteins and their annotated locations for NP_001104549.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) uses an alternate in-frame splice site in the coding region, compared to variant 1, resulting in a shorter protein (isoform B). Variants 3 and 4 encode isoform B.

Source sequence(s)

AC026385

Consensus CDS

CCDS50151.1

UniProtKB/Swiss-Prot

Q8VDF2

Related

ENSMUSP00000108661.2, ENSMUST00000113038.8

Conserved Domains (6) summary

cd01797
Location:1 → 78

NIRF_N; amino-terminal ubiquitin-like domain of Np95 and NIRF

smart00213
Location:3 → 74

UBQ; Ubiquitin homologues

cd00162
Location:705 → 747

RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

cd15525
Location:314 → 360

PHD_UHRF1_2; PHD finger found in ubiquitin-like PHD and RING finger domain-containing protein UHRF1 and UHRF2

pfam02182
Location:414 → 580

SAD_SRA; SAD/SRA domain

pfam12148
Location:129 → 281

TTD; Tandem tudor domain within UHRF1
NM_001111080.2 → NP_001104550.1 E3 ubiquitin-protein ligase UHRF1 isoform B

See identical proteins and their annotated locations for NP_001104550.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) uses an alternate in-frame splice site in the coding region and differs in the 5' UTR, compared to variant 1, resulting in a shorter protein (isoform B). Variants 3 and 4 encode isoform B.

Source sequence(s)

AC026385

Consensus CDS

CCDS50151.1

UniProtKB/Swiss-Prot

Q8VDF2

Related

ENSMUSP00000108658.2, ENSMUST00000113035.8

Conserved Domains (6) summary

cd01797
Location:1 → 78

NIRF_N; amino-terminal ubiquitin-like domain of Np95 and NIRF

smart00213
Location:3 → 74

UBQ; Ubiquitin homologues

cd00162
Location:705 → 747

RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

cd15525
Location:314 → 360

PHD_UHRF1_2; PHD finger found in ubiquitin-like PHD and RING finger domain-containing protein UHRF1 and UHRF2

pfam02182
Location:414 → 580

SAD_SRA; SAD/SRA domain

pfam12148
Location:129 → 281

TTD; Tandem tudor domain within UHRF1
NM_001413357.1 → NP_001400286.1 E3 ubiquitin-protein ligase UHRF1 isoform C

Status: VALIDATED

Source sequence(s)

AC026385
NM_001413358.1 → NP_001400287.1 E3 ubiquitin-protein ligase UHRF1 isoform D

Status: VALIDATED

Source sequence(s)

AC026385
NM_001413359.1 → NP_001400288.1 E3 ubiquitin-protein ligase UHRF1 isoform E

Status: VALIDATED

Source sequence(s)

AC026385
NM_001413360.1 → NP_001400289.1 E3 ubiquitin-protein ligase UHRF1 isoform D

Status: VALIDATED

Source sequence(s)

AC026385
NM_010931.4 → NP_035061.3 E3 ubiquitin-protein ligase UHRF1 isoform A

See identical proteins and their annotated locations for NP_035061.3

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (A). Variants 1 and 2 encode isoform (A).

Source sequence(s)

AC026385

Consensus CDS

CCDS28903.1

UniProtKB/Swiss-Prot

Q3U9D7, Q3U9P2, Q3UI74, Q3UIE6, Q3ULF2, Q3ULQ0, Q8C6F1, Q8VDF2, Q8VIA1, Q9Z1H6

Related

ENSMUSP00000001258.9, ENSMUST00000001258.15

Conserved Domains (6) summary

cd01797
Location:1 → 78

NIRF_N; amino-terminal ubiquitin-like domain of Np95 and NIRF

smart00213
Location:3 → 74

UBQ; Ubiquitin homologues

cd00162
Location:713 → 755

RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

cd15525
Location:322 → 368

PHD_UHRF1_2; PHD finger found in ubiquitin-like PHD and RING finger domain-containing protein UHRF1 and UHRF2

pfam02182
Location:422 → 588

SAD_SRA; SAD/SRA domain

pfam12148
Location:129 → 281

TTD; Tandem tudor domain within UHRF1