Aliases for RNF169 Gene
Aliases for RNF169 Gene
External Ids for RNF169 Gene
- HGNC: 26961
- Entrez Gene: 254225
- Ensembl: ENSG00000166439
- UniProtKB: Q8NCN4
Previous GeneCards Identifiers for RNF169 Gene
- GC11P074138
- GC11P074459
- GC11P070756
Summaries for RNF169 Gene
GeneCards Summary for RNF169 Gene
RNF169 (Ring Finger Protein 169) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include ligase activity and nucleosome binding.
UniProtKB/Swiss-Prot for RNF169 Gene
-
Probable E3 ubiquitin-protein ligase that acts as a negative regulator of double-strand breaks (DSBs) repair following DNA damage. Recruited to DSB repair sites by recognizing and binding ubiquitin catalyzed by RNF168 and competes with TP53BP1 and BRCA1 for association with RNF168-modified chromatin, thereby acting as a negative regulator of DSBs repair. E3 ubiquitin-protein ligase activity is not required for regulation of DSBs repair.
Additional gene information for RNF169 Gene
No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RNF169 Gene
Genomics for RNF169 Gene
GeneHancer (GH) Regulatory Elements for RNF169 Gene
Promoters and enhancers for RNF169 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association
Download GeneHancer data dump
GeneHancers around RNF169 on UCSC Golden Path with GeneCards custom track
Regulatory Element Products
Genomic Locations for RNF169 Gene
Genomic Locations for RNF169 Gene
- chr11:74,748,855-74,842,413
- (GRCh38/hg38)
- Size:
- 93,559 bases
- Orientation:
- Plus strand
- chr11:74,459,913-74,553,458
- (GRCh37/hg19)
Genomic View for RNF169 Gene
Genes around RNF169 on UCSC Golden Path with GeneCards custom track
- Cytogenetic band:
-
- 11q13.4 by Ensembl
- 11q13.4 by Entrez Gene
- 11q13.4 by HGNC
RNF169 Gene in genomic location: bands according to
Ensembl, locations according to GeneLoc
(and/or Entrez Gene and/or Ensembl if different)
Genomic Neighborhood
• Exon Structure
• Gene Density
RefSeq DNA sequence for RNF169 Gene
Proteins for RNF169 Gene
-
Protein details for RNF169 Gene (UniProtKB/Swiss-Prot)
- Protein Symbol:
- Q8NCN4-RN169_HUMAN
- Recommended name:
- E3 ubiquitin-protein ligase RNF169
- Protein Accession:
- Q8NCN4
- Q6N015
Protein attributes for RNF169 Gene
- Size:
- 708 amino acids
- Molecular mass:
- 77194 Da
- Quaternary structure:
- No Data Available
- SequenceCaution:
-
- Sequence=BAC02700.1; Type=Erroneous initiation; Evidence={ECO:0000305};
Protein Expression for RNF169 Gene
Selected DME Specific Peptides for RNF169 Gene
- Q8NCN4:
-
- CDETAAA
- KLQQEEE
Post-translational modifications for RNF169 Gene
Other Protein References for RNF169 Gene
- ENSEMBL proteins:
- REFSEQ proteins:
Antibody Products
-
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-
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Domains & Families for RNF169 Gene
Gene Families for RNF169 Gene
- HGNC:
- Human Protein Atlas (HPA):
-
- Enzymes
- Predicted intracellular proteins
Protein Domains for RNF169 Gene
- InterPro:
- Blocks:
- ProtoNet:
Suggested Antigen Peptide Sequences for RNF169 Gene
- GenScript: Design optimal peptide antigens:
Graphical View of Domain Structure for InterPro Entry
Q8NCN4UniProtKB/Swiss-Prot:
RN169_HUMAN :- The MIU motif (motif interacting with ubiquitin) mediates the interaction with both Lys-48- and Lys-63-linked ubiquitin chains (PubMed:22733822 and PubMed:22492721). The UMI motif also mediates interaction with ubiquitin. The specificity for different types of ubiquitin is mediated by juxtaposition of ubiquitin-binding motifs (MIU and UMI motifs) with LR motifs (LRMs) (PubMed:22742833).
- Belongs to the RNF169 family.
- Domain:
-
- The MIU motif (motif interacting with ubiquitin) mediates the interaction with both Lys-48- and Lys-63-linked ubiquitin chains (PubMed:22733822 and PubMed:22492721). The UMI motif also mediates interaction with ubiquitin. The specificity for different types of ubiquitin is mediated by juxtaposition of ubiquitin-binding motifs (MIU and UMI motifs) with LR motifs (LRMs) (PubMed:22742833).
- Family:
-
- Belongs to the RNF169 family.
Function for RNF169 Gene
Molecular function for RNF169 Gene
- UniProtKB/Swiss-Prot CatalyticActivity:
- S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine.
- UniProtKB/Swiss-Prot Function:
- Probable E3 ubiquitin-protein ligase that acts as a negative regulator of double-strand breaks (DSBs) repair following DNA damage. Recruited to DSB repair sites by recognizing and binding ubiquitin catalyzed by RNF168 and competes with TP53BP1 and BRCA1 for association with RNF168-modified chromatin, thereby acting as a negative regulator of DSBs repair. E3 ubiquitin-protein ligase activity is not required for regulation of DSBs repair.
Enzyme Numbers (IUBMB) for RNF169 Gene
Phenotypes From GWAS Catalog for RNF169 Gene
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0016740 | transferase activity | IEA | -- |
| GO:0031491 | nucleosome binding | IDA | 22742833 |
| GO:0046872 | metal ion binding | IEA | -- |
| GO:0070530 | K63-linked polyubiquitin modification-dependent protein binding | IDA | 22492721 |
Phenotypes for RNF169 Gene
- MGI mutant phenotypes for RNF169:
- inferred from 1 alleles
- GenomeRNAi human phenotypes for RNF169:
Animal Models for RNF169 Gene
- MGI Knock Outs for RNF169:
-
- Rnf169 tm1a(EUCOMM)Hmgu
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-
Santa Cruz Biotechnology (SCBT) CRISPR for RNF169
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miRNA for RNF169 Gene
- miRTarBase miRNAs that target RNF169
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- Search ViGene Biosciences for RNF169
Inhibitory RNA Products
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Clone Products
- VectorBuilder custom plasmid, inducible vectors for RNF169
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-
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- Mammalian expression: PiggyBac
- Mammalian Tet-on expression: plasmid
- Mammalian conditional (Cre-Lox): plasmid and PiggyBac
- Mammalian shRNA knockdown: lentiviral, adenoviral, AAV, and PiggyBac
- CRISPR: plasmid gRNA, lentiviral gRNA, and donor plasmid
- Bacterial expression: pET, pBAD, and pCS
- Yeast expression
- Addgene plasmids for RNF169
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-
Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more
Cell Line Products
-
Horizon Cell Lines for RNF169
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ViGene Biosciences adenoviral particle packaged cDNA for RNF169 gene
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No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for RNF169 Gene
Localization for RNF169 Gene
Subcellular locations from UniProtKB/Swiss-Prot for RNF169 Gene
- Nucleus, nucleoplasm. Note=Localizes to sites of double-strand breaks (DSBs) following DNA damage. Recruited to DSBs via recognition of RNF168-dependent ubiquitin products.
| Compartment | Confidence |
|---|---|
| nucleus | 5 |
| cytosol | 2 |
- Nuclear speckles (3)
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0005634 | nucleus | IDA | 22733822 |
| GO:0005654 | nucleoplasm | IEA,IDA | 22492721 |
| GO:0016607 | nuclear speck | IDA | -- |
| GO:0035861 | site of double-strand break | IDA | 22492721 |
Pathways & Interactions for RNF169 Gene
No Data Available
UniProtKB/Swiss-Prot Q8NCN4-RN169_HUMAN
- Pathway: Protein modification; protein ubiquitination.
Interacting Proteins for RNF169 Gene
Selected Interacting proteins:
Q8NCN4-RN169_HUMAN
ENSP00000299563
for RNF169 Gene via
IID
STRING
MINT
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0006974 | cellular response to DNA damage stimulus | IMP | 22492721 |
| GO:0016567 | protein ubiquitination | IEA | -- |
| GO:2000780 | negative regulation of double-strand break repair | IMP | 22492721 |
No data available for Pathways by source and SIGNOR curated interactions for RNF169 Gene
Transcripts for RNF169 Gene
mRNA/cDNA for RNF169 Gene
- (2) REFSEQ mRNAs :
- (2) Additional mRNA sequences :
- (120) Selected AceView cDNA sequences:
- (2) Ensembl transcripts including schematic representations, and UCSC links where relevant :
Unigene Clusters for RNF169 Gene
- Ring finger protein 169:
- Representative Sequences:
CRISPR Products
-
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Vectors and viruses for KO, Activation, Repression, and more
-
Santa Cruz Biotechnology (SCBT) CRISPR for RNF169
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miRNA Products
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Inhibitory RNA Products
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Clone Products
- VectorBuilder custom plasmid, inducible vectors for RNF169
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-
VectorBuilder Other custom vectors
- Mammalian expression: PiggyBac
- Mammalian Tet-on expression: plasmid
- Mammalian conditional (Cre-Lox): plasmid and PiggyBac
- Mammalian shRNA knockdown: lentiviral, adenoviral, AAV, and PiggyBac
- CRISPR: plasmid gRNA, lentiviral gRNA, and donor plasmid
- Bacterial expression: pET, pBAD, and pCS
- Yeast expression
- Addgene plasmids for RNF169
- Applied Biological Materials Clones for RNF169
-
Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more
Expression for RNF169 Gene
This gene is overexpressed in Peripheral blood mononuclear cells (16.6), NK cells (14.0), Blymphocyte (11.8), and CD8 Tcells (11.2).
Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for RNF169 Gene
- Elite partner
NURSA nuclear receptor signaling pathways regulating expression of RNF169 Gene:
RNF169SOURCE GeneReport for Unigene cluster for RNF169 Gene:
Hs.745050Evidence on tissue expression from TISSUES for RNF169 Gene
- Liver(4.2)
- Nervous system(4.2)
Primer Products
-
OriGene qPCR primer pairs for RNF169
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Gene Expression Assay Products
No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for RNF169 Gene
Orthologs for RNF169 Gene
This gene was present in the common ancestor of chordates.
| Organism | Taxonomy | Gene | Similarity | Type | Details |
|---|---|---|---|---|---|
| chimpanzee (Pan troglodytes) |
Mammalia | RNF169 33 34 |
|
||
| cow (Bos Taurus) |
Mammalia | RNF169 33 34 |
|
||
| dog (Canis familiaris) |
Mammalia | RNF169 33 34 |
|
||
| rat (Rattus norvegicus) |
Mammalia | Rnf169 33 |
|
||
| mouse (Mus musculus) |
Mammalia | Rnf169 16 34 33 |
|
||
| platypus (Ornithorhynchus anatinus) |
Mammalia | RNF169 34 |
|
OneToOne | |
| oppossum (Monodelphis domestica) |
Mammalia | RNF169 34 |
|
OneToOne | |
| chicken (Gallus gallus) |
Aves | RNF169 33 34 |
|
||
| lizard (Anolis carolinensis) |
Reptilia | RNF169 34 |
|
OneToOne | |
| tropical clawed frog (Silurana tropicalis) |
Amphibia | LOC100493580 33 |
|
||
| zebrafish (Danio rerio) |
Actinopterygii | rnf169 34 33 |
|
OneToOne |
- Species where no ortholog for RNF169 was found in the sources mined by GeneCards:
-
- A. gosspyii yeast (Ashbya gossypii)
- Actinobacteria (Mycobacterium tuberculosis)
- African clawed frog (Xenopus laevis)
- African malaria mosquito (Anopheles gambiae)
- Alicante grape (Vitis vinifera)
- alpha proteobacteria (Wolbachia pipientis)
- amoeba (Dictyostelium discoideum)
- Archea (Pyrococcus horikoshii)
- baker's yeast (Saccharomyces cerevisiae)
- barley (Hordeum vulgare)
- beta proteobacteria (Neisseria meningitidis)
- bread mold (Neurospora crassa)
- Chromalveolata (Phytophthora infestans)
- common water flea (Daphnia pulex)
- corn (Zea mays)
- E. coli (Escherichia coli)
- filamentous fungi (Aspergillus nidulans)
- Firmicute bacteria (Streptococcus pneumoniae)
- fission yeast (Schizosaccharomyces pombe)
- fruit fly (Drosophila melanogaster)
- green algae (Chlamydomonas reinhardtii)
- honey bee (Apis mellifera)
- K. lactis yeast (Kluyveromyces lactis)
- loblloly pine (Pinus taeda)
- malaria parasite (Plasmodium falciparum)
- medicago trunc (Medicago Truncatula)
- moss (Physcomitrella patens)
- orangutan (Pongo pygmaeus)
- pig (Sus scrofa)
- rainbow trout (Oncorhynchus mykiss)
- rice (Oryza sativa)
- rice blast fungus (Magnaporthe grisea)
- schistosome parasite (Schistosoma mansoni)
- sea anemone (Nematostella vectensis)
- sea squirt (Ciona intestinalis)
- sea squirt (Ciona savignyi)
- sea urchin (Strongylocentrotus purpuratus)
- sorghum (Sorghum bicolor)
- soybean (Glycine max)
- stem rust fungus (Puccinia graminis)
- sugarcane (Saccharum officinarum)
- thale cress (Arabidopsis thaliana)
- tomato (Lycopersicon esculentum)
- toxoplasmosis (Toxoplasma gondii)
- Trichoplax (Trichoplax adhaerens)
- wheat (Triticum aestivum)
- worm (Caenorhabditis elegans)
Paralogs for RNF169 Gene
No data available for Paralogs for RNF169 Gene
Variants for RNF169 Gene
| SNP ID | Clin | Chr 11 pos | Variation | AA Info | Type |
|---|---|---|---|---|---|
| rs1000006257 | -- | 74,783,961(+) | T/C | intron_variant | |
| rs1000015915 | -- | 74,816,958(+) | C/G | intron_variant | |
| rs1000020455 | -- | 74,797,228(+) | G/A/T | intron_variant | |
| rs1000021411 | -- | 74,749,498(+) | G/T | intron_variant | |
| rs1000072903 | -- | 74,797,519(+) | A/G | intron_variant |
| Variant ID | Type | Subtype | PubMed ID |
|---|---|---|---|
| dgv209e214 | CNV | gain | 21293372 |
| dgv5e197 | CNV | deletion | 19546169 |
| dgv676n106 | CNV | deletion | 24896259 |
| esv2305041 | CNV | deletion | 18987734 |
| esv2484083 | CNV | deletion | 19546169 |
| esv2669092 | CNV | deletion | 23128226 |
| esv2744779 | CNV | deletion | 23290073 |
| esv2759837 | CNV | gain | 17122850 |
| esv34979 | CNV | gain | 17911159 |
| esv3548008 | CNV | deletion | 23714750 |
| esv3626846 | CNV | gain | 21293372 |
| nsv1122644 | CNV | deletion | 24896259 |
| nsv1124643 | CNV | duplication | 24896259 |
| nsv1127209 | CNV | deletion | 24896259 |
| nsv38718 | CNV | deletion | 16902084 |
| nsv825994 | CNV | gain | 20364138 |
| nsv8839 | CNV | gain | 18304495 |
| nsv957195 | CNV | deletion | 24416366 |
Residual Variation Intolerance Score:
22.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score:
3.76;
57.88% of all genes are more intolerant (likely to be disease-causing)
Additional Variant Information for RNF169 Gene
- SNPedia medical, phenotypic, and genealogical associations of SNPs for
- RNF169
SNP Genotyping and Copy Number Assay Products
No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RNF169 Gene
Disorders for RNF169 Gene
Additional Disease Information for RNF169
No disorders were found for RNF169 Gene.
No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RNF169 Gene
Publications for RNF169 Gene
- Characterization of size-fractionated cDNA libraries generated by the in vitro recombination-assisted method. (PMID: 12056414) Ohara O … Koseki H (DNA research : an international journal for rapid publication of reports on genes and genomes 2002) 2 3 4 58
- Human RNF169 is a negative regulator of the ubiquitin-dependent response to DNA double-strand breaks. (PMID: 22492721) Poulsen M … Mailand N (The Journal of cell biology 2012) 3 4 58
- Ring finger protein RNF169 antagonizes the ubiquitin-dependent signaling cascade at sites of DNA damage. (PMID: 22733822) Chen J … Huen MS (The Journal of biological chemistry 2012) 3 4 58
- Tandem protein interaction modules organize the ubiquitin-dependent response to DNA double-strand breaks. (PMID: 22742833) Panier S … Durocher D (Molecular cell 2012) 3 4 58
- Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
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- Mammalian expression: PiggyBac
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- Mammalian conditional (Cre-Lox): plasmid and PiggyBac
- Mammalian shRNA knockdown: lentiviral, adenoviral, AAV, and PiggyBac
- CRISPR: plasmid gRNA, lentiviral gRNA, and donor plasmid
- Bacterial expression: pET, pBAD, and pCS
- Yeast expression
- Addgene plasmids for RNF169
- antibodies-online: Search results for 26 available RNF169 Antibodies ranked by validation data
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Sources for RNF169 Gene
- (1) GeneCards
- (2) HGNC
- (3) EntrezGene
- (4) Swiss-Prot
- (5) Ensembl
- (6) OMIM
- (7) GeneLoc
- (8) Gene Wiki
- (9) UCSC
- (10) PhosphoSitePlus
- (11) GO
- (12) TrEMBL
- (13) InterPro
- (14) ProtoNet
- (15) Blocks
- (16) MGI
- (17) IUBMB
- (18) KEGG
- (19) MINT
- (20) STRING
- (21) IntAct
- (22) Novoseek
- (23) PharmGKB
- (24) DrugBank
- (25) HMDB
- (26) UniGene
- (27) AceView
- (28) ASD
- (29) ECgene
- (30) GeneAnnot
- (31) CGAP SAGE
- (32) SOURCE
- (33) HomoloGene
- (34) PanEnsembl
- (35) euGenes
- (36) SGD
- (37) FlyBase
- (38) WormBase
- (39) Pseudogene
- (40) DGV
- (41) dbSNP
- (42) GenAtlas
- (43) HGMD
- (44) GAD
- (45) BGMUT
- (46) HuGE
- (47) Atlas
- (48) Cell Signaling Technology
- (49) GenBank
- (50) H-invDB
- (51) HORDE
- (52) HUGE
- (53) IMGT
- (54) Leiden
- (55) miRBase
- (56) DME
- (57) OriGene
- (58) PubMed
- (59) R&D Systems
- (60) TGDB
- (61) Tocris
- (62) Abcam
- (63) Novus Biologicals
- (64) ProSpec
- (65) Sino Biological
- (66) GenScript
- (67) Qiagen
- (68) Cloud-Clone Corp.
- (69) OCA
- (70) Proteopedia
- (71) MOPED
- (72) neXtProt
- (73) Reactome
- (74) GeneGo (Thomson Reuters)
- (75) fRNAdb
- (76) DISEASES
- (77) SIMAP
- (78) GenomeRNAi
- (79) LifeMap
- (80) miRTarBase
- (81) MalaCards
- (82) Invitrogen
- (83) BitterDB
- (84) Vector BioLabs
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