Jade2 jade family PHD finger 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Jade2provided by RGD
Official Full Name: jade family PHD finger 2provided by RGD
Primary source: RGD:1309152
See related: EnsemblRapid:ENSRNOG00000004956 AllianceGenome:RGD:1309152
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
Also known as: Phf15
Summary: Predicted to enable histone H4 acetyltransferase activity and ubiquitin protein ligase activity. Predicted to contribute to histone H3K14 acetyltransferase activity. Predicted to be involved in regulation of cell cycle and regulation of nucleobase-containing compound metabolic process. Predicted to act upstream of or within neuron projection extension; positive regulation of neurogenesis; and protein ubiquitination. Predicted to be located in nucleoplasm. Predicted to be part of histone acetyltransferase complex. Orthologous to human JADE2 (jade family PHD finger 2). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Adrenal (RPKM 66.3), Spleen (RPKM 52.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q22

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (36576187..36625129, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (36075239..36124210, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (37269132..37315638, complement)

Chromosome 10 - NC_086028.1 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: 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?

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
contributes_to histone H3K14 acetyltransferase activity	ISO Inferred from Sequence Orthology more info
enables histone H4K12 acetyltransferase activity	ISO Inferred from Sequence Orthology more info
NOT enables histone H4K16 acetyltransferase activity	ISO Inferred from Sequence Orthology more info
enables histone H4K5 acetyltransferase activity	ISO Inferred from Sequence Orthology more info
enables histone H4K8 acetyltransferase activity	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables ubiquitin protein ligase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within neuron projection extension	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of neurogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein autoubiquitination	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein polyubiquitination	ISO Inferred from Sequence Orthology 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 cell cycle	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of neurogenesis	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
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
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: E3 ubiquitin-protein ligase Jade-2

Names: PHD finger protein 15; protein Jade-2

NP_001100468.1

EC 2.3.2.27

XP_006246316.2

EC 2.3.2.27

XP_006246319.1

EC 2.3.2.27

XP_006246320.1

EC 2.3.2.27

XP_006246322.1

EC 2.3.2.27

XP_017452741.1

EC 2.3.2.27

XP_038941851.1

EC 2.3.2.27

XP_038941852.1

EC 2.3.2.27

XP_063125042.1

EC 2.3.2.27

XP_063125043.1

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_001106998.3 → NP_001100468.1 E3 ubiquitin-protein ligase Jade-2

See identical proteins and their annotated locations for NP_001100468.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000010

UniProtKB/TrEMBL

A6HE78, G3V9F5

Related

ENSRNOP00000099332.1, ENSRNOT00000165733.1

Conserved Domains (3) summary

PHA03247
Location:604 → 780

PHA03247; large tegument protein UL36; Provisional

COG5141
Location:137 → 506

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

cl22851
Location:254 → 364

PHD_SF; PHD finger superfamily

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_086028.1 Reference GRCr8

Range

36576187..36625129 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063268972.1 → XP_063125042.1 E3 ubiquitin-protein ligase Jade-2 isoform X2

UniProtKB/TrEMBL

A6HE78, G3V9F5
XM_006246254.5 → XP_006246316.2 E3 ubiquitin-protein ligase Jade-2 isoform X1

See identical proteins and their annotated locations for XP_006246316.2

Conserved Domains (4) summary

cd15680
Location:201 → 246

PHD_JADE2; PHD finger found in protein Jade-2 and similar proteins

pfam10513
Location:137 → 175

EPL1; Enhancer of polycomb-like

cl11396
Location:660 → 746

Patatin_and_cPLA2; Patatins and Phospholipases

cl22851
Location:254 → 364

PHD_SF; PHD finger superfamily
XM_006246257.5 → XP_006246319.1 E3 ubiquitin-protein ligase Jade-2 isoform X1

See identical proteins and their annotated locations for XP_006246319.1

Conserved Domains (4) summary

cd15680
Location:201 → 246

PHD_JADE2; PHD finger found in protein Jade-2 and similar proteins

pfam10513
Location:137 → 175

EPL1; Enhancer of polycomb-like

cl11396
Location:660 → 746

Patatin_and_cPLA2; Patatins and Phospholipases

cl22851
Location:254 → 364

PHD_SF; PHD finger superfamily
XM_017597252.3 → XP_017452741.1 E3 ubiquitin-protein ligase Jade-2 isoform X1

Related

ENSRNOP00000045638.4, ENSRNOT00000043343.5

Conserved Domains (4) summary

cd15680
Location:201 → 246

PHD_JADE2; PHD finger found in protein Jade-2 and similar proteins

pfam10513
Location:137 → 175

EPL1; Enhancer of polycomb-like

cl11396
Location:660 → 746

Patatin_and_cPLA2; Patatins and Phospholipases

cl22851
Location:254 → 364

PHD_SF; PHD finger superfamily
XM_039085924.2 → XP_038941852.1 E3 ubiquitin-protein ligase Jade-2 isoform X3

Conserved Domains (4) summary

PHA03247
Location:676 → 852

PHA03247; large tegument protein UL36; Provisional

COG5141
Location:209 → 578

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

pfam10513
Location:82 → 247

EPL1; Enhancer of polycomb-like

cl22851
Location:326 → 436

PHD_SF; PHD finger superfamily
XM_039085923.2 → XP_038941851.1 E3 ubiquitin-protein ligase Jade-2 isoform X2

UniProtKB/TrEMBL

A6HE78, G3V9F5

Conserved Domains (3) summary

PHA03247
Location:604 → 780

PHA03247; large tegument protein UL36; Provisional

COG5141
Location:137 → 506

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

cl22851
Location:254 → 364

PHD_SF; PHD finger superfamily
XM_006246258.5 → XP_006246320.1 E3 ubiquitin-protein ligase Jade-2 isoform X1

See identical proteins and their annotated locations for XP_006246320.1

Conserved Domains (4) summary

cd15680
Location:201 → 246

PHD_JADE2; PHD finger found in protein Jade-2 and similar proteins

pfam10513
Location:137 → 175

EPL1; Enhancer of polycomb-like

cl11396
Location:660 → 746

Patatin_and_cPLA2; Patatins and Phospholipases

cl22851
Location:254 → 364

PHD_SF; PHD finger superfamily
XM_063268973.1 → XP_063125043.1 E3 ubiquitin-protein ligase Jade-2 isoform X2

UniProtKB/TrEMBL

A6HE78, G3V9F5

Related

ENSRNOP00000103578.1, ENSRNOT00000171455.1
XM_006246260.5 → XP_006246322.1 E3 ubiquitin-protein ligase Jade-2 isoform X1

See identical proteins and their annotated locations for XP_006246322.1

Conserved Domains (4) summary

cd15680
Location:201 → 246

PHD_JADE2; PHD finger found in protein Jade-2 and similar proteins

pfam10513
Location:137 → 175

EPL1; Enhancer of polycomb-like

cl11396
Location:660 → 746

Patatin_and_cPLA2; Patatins and Phospholipases

cl22851
Location:254 → 364

PHD_SF; PHD finger superfamily