Jade1 jade family PHD finger 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Jade1provided by MGI
Official Full Name: jade family PHD finger 1provided by MGI
Primary source: MGI:MGI:1925835
See related: Ensembl:ENSMUSG00000025764 AllianceGenome:MGI:1925835
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: Phf17; mKIAA1807; D530048A03Rik
Summary: Predicted to enable transcription coactivator activity. Predicted to contribute to histone acetyltransferase activity. Predicted to be involved in several processes, including negative regulation of canonical Wnt signaling pathway; regulation of cell growth; and regulation of nucleobase-containing compound metabolic process. Predicted to act upstream of or within negative regulation of G1/S transition of mitotic cell cycle. Predicted to be located in several cellular components, including microtubule organizing center; nuclear speck; and plasma membrane. Predicted to be part of histone acetyltransferase complex. Is expressed in several structures, including early conceptus; embryo ectoderm; genitourinary system; head somite; and primitive streak. Orthologous to human JADE1 (jade family PHD finger 1). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Ubiquitous expression in placenta adult (RPKM 17.9), bladder adult (RPKM 5.1) and 27 other tissues See more
Orthologs: human all
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Genomic context

Location:: 3 B; 3 19.88 cM

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	3	NC_000069.7 (41510169..41571299)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	3	NC_000069.6 (41555734..41616864)

Chromosome 3 - NC_000069.7 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?

JADE1 is dispensable for the brain development in mice.
Title: JADE1 is dispensable for the brain development in mice.
Interactome analyses revealed that the Jade-1S mutant unable to be phosphorylated by CK1alpha has an increased binding affinity to proteins involved in chromatin remodelling, histone deacetylation, transcriptional repression, and ribosome biogenesis.
Title: Jade-1S phosphorylation induced by CK1α contributes to cell cycle progression.
lncRNA-JADE is a key functional link that connects the DDR to histone H4 acetylation, and that dysregulation of lncRNA-JADE may contribute to breast tumorigenesis.
Title: A novel non-coding RNA lncRNA-JADE connects DNA damage signalling to histone H4 acetylation.
exhibits a regulated expression during embryogenesis and localizes to the nucleus and/or cytoplasm of different cell types
Title: Identification of Jade1, a gene encoding a PHD zinc finger protein, in a gene trap mutagenesis screen for genes involved in anteroposterior axis development.

Submit: New GeneRIF Correction

Variation

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Alleles

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

Endonuclease-mediated (3) 1 citation
Gene trapped (1) 1 citation
Targeted (2)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Phf17 (e-PCR), detects polymorphism
- UniSTS:507398

Phf17 (e-PCR), detects polymorphism
- UniSTS:507399

AU041499 (e-PCR)
- UniSTS:159107

NoName (e-PCR)
- UniSTS:224901

PMC262661P1 (e-PCR)
- UniSTS:272320

AW534015 (e-PCR)
- UniSTS:260563

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
contributes_to histone H3K14 acetyltransferase activity	ISO Inferred from Sequence Orthology more info
contributes_to histone H3K14 acetyltransferase activity	ISS Inferred from Sequence or Structural Similarity more info
contributes_to histone H4K12 acetyltransferase activity	ISO Inferred from Sequence Orthology more info
contributes_to histone H4K12 acetyltransferase activity	ISS Inferred from Sequence or Structural Similarity more info
NOT contributes_to histone H4K16 acetyltransferase activity	ISS Inferred from Sequence or Structural Similarity more info
contributes_to histone H4K5 acetyltransferase activity	ISO Inferred from Sequence Orthology more info
contributes_to histone H4K5 acetyltransferase activity	ISS Inferred from Sequence or Structural Similarity more info
contributes_to histone H4K8 acetyltransferase activity	ISO Inferred from Sequence Orthology more info
contributes_to histone H4K8 acetyltransferase activity	ISS Inferred from Sequence or Structural Similarity more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables transcription coactivator activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of G1/S transition of mitotic cell cycle	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of canonical Wnt signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of DNA biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA replication	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell cycle	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell growth	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in centrosome	IEA Inferred from Electronic Annotation more info
located_in centrosome	ISO Inferred from Sequence Orthology more info
located_in ciliary basal body	IEA Inferred from Electronic Annotation more info
located_in ciliary basal body	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
part_of histone acetyltransferase complex	IBA Inferred from Biological aspect of Ancestor more info
part_of histone acetyltransferase complex	ISO Inferred from Sequence Orthology more info
part_of histone acetyltransferase complex	ISS Inferred from Sequence or Structural Similarity more info
located_in nuclear speck	IEA Inferred from Electronic Annotation more info
located_in nuclear speck	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: protein Jade-1

Names: Jade1 PHD finger protein; PHD finger protein 17; jade family PHD finger protein 1

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_001130184.1 → NP_001123656.1 protein Jade-1

See identical proteins and their annotated locations for NP_001123656.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. All four variants encode the same protein.

Source sequence(s)

AV515494, BN000281, BY060282

Consensus CDS

CCDS17331.1

UniProtKB/Swiss-Prot

Q6IE84, Q6ZPI0, Q8C7S6, Q8CFM2, Q8R362

Related

ENSMUSP00000026865.9, ENSMUST00000026865.15

Conserved Domains (2) summary

COG5141
Location:100 → 528

COG5141; PHD zinc finger-containing protein [General function prediction only]

cd15671
Location:259 → 369

ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins
NM_001130185.1 → NP_001123657.1 protein Jade-1

See identical proteins and their annotated locations for NP_001123657.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. All four variants encode the same protein.

Source sequence(s)

AV515494, BN000281, BY146568

Consensus CDS

CCDS17331.1

UniProtKB/Swiss-Prot

Q6IE84, Q6ZPI0, Q8C7S6, Q8CFM2, Q8R362

Related

ENSMUSP00000127113.2, ENSMUST00000170711.8

Conserved Domains (2) summary

COG5141
Location:100 → 528

COG5141; PHD zinc finger-containing protein [General function prediction only]

cd15671
Location:259 → 369

ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins
NM_001130186.1 → NP_001123658.1 protein Jade-1

See identical proteins and their annotated locations for NP_001123658.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. All four variants encode the same protein.

Source sequence(s)

AV515494, BN000281, CD563805

Consensus CDS

CCDS17331.1

UniProtKB/Swiss-Prot

Q6IE84, Q6ZPI0, Q8C7S6, Q8CFM2, Q8R362

Related

ENSMUSP00000131441.2, ENSMUST00000168086.7

Conserved Domains (2) summary

COG5141
Location:100 → 528

COG5141; PHD zinc finger-containing protein [General function prediction only]

cd15671
Location:259 → 369

ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins
NM_172303.4 → NP_758507.3 protein Jade-1

See identical proteins and their annotated locations for NP_758507.3

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript. All four variants encode the same protein.

Source sequence(s)

AV515494, BN000281, CJ060622

Consensus CDS

CCDS17331.1

UniProtKB/Swiss-Prot

Q6IE84, Q6ZPI0, Q8C7S6, Q8CFM2, Q8R362

Related

ENSMUSP00000128152.2, ENSMUST00000163764.8

Conserved Domains (2) summary

COG5141
Location:100 → 528

COG5141; PHD zinc finger-containing protein [General function prediction only]

cd15671
Location:259 → 369

ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins

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_000069.7 Reference GRCm39 C57BL/6J

Range

41510169..41571299

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_030252630.1 → XP_030108490.1 protein Jade-1 isoform X1

UniProtKB/Swiss-Prot

Q6IE84, Q6ZPI0, Q8C7S6, Q8CFM2, Q8R362

Conserved Domains (2) summary

COG5141
Location:100 → 528

COG5141; PHD zinc finger-containing protein [General function prediction only]

cd15671
Location:259 → 369

ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins
XM_030252631.2 → XP_030108491.1 protein Jade-1 isoform X1

UniProtKB/Swiss-Prot

Q6IE84, Q6ZPI0, Q8C7S6, Q8CFM2, Q8R362

Conserved Domains (2) summary

COG5141
Location:100 → 528

COG5141; PHD zinc finger-containing protein [General function prediction only]

cd15671
Location:259 → 369

ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins
XM_006500784.4 → XP_006500847.1 protein Jade-1 isoform X2

Conserved Domains (2) summary

COG5141
Location:115 → 543

COG5141; PHD zinc finger-containing protein [General function prediction only]

cd15671
Location:274 → 384

ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins