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Aliases for LRIF1 Gene

Aliases for LRIF1 Gene

  • Ligand Dependent Nuclear Receptor Interacting Factor 1 2 3 5
  • Receptor Interacting Factor 1 2 3
  • Receptor-Interacting Factor 1 3 4
  • C1orf103 3 4
  • RIF1 3 4
  • Chromosome 1 Open Reading Frame 103 2

External Ids for LRIF1 Gene

Previous HGNC Symbols for LRIF1 Gene

  • C1orf103

Previous GeneCards Identifiers for LRIF1 Gene

  • GC01M111491
  • GC01M110877

Summaries for LRIF1 Gene

GeneCards Summary for LRIF1 Gene

LRIF1 (Ligand Dependent Nuclear Receptor Interacting Factor 1) is a Protein Coding gene. Diseases associated with LRIF1 include facioscapulohumeral muscular dystrophy 1. GO annotations related to this gene include retinoic acid receptor binding.

UniProtKB/Swiss-Prot for LRIF1 Gene

  • Represses the ligand-induced transcriptional activity of retinoic acid receptor alpha (RARA). This repression may occur through direct recruitment of histone deacetylases.

Gene Wiki entry for LRIF1 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LRIF1 Gene

Genomics for LRIF1 Gene

Regulatory Elements for LRIF1 Gene

Enhancers for LRIF1 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around LRIF1 on UCSC Golden Path with GeneCards custom track

Promoters for LRIF1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around LRIF1 on UCSC Golden Path with GeneCards custom track

Genomic Location for LRIF1 Gene

Chromosome:
1
Start:
110,947,185 bp from pter
End:
110,964,197 bp from pter
Size:
17,013 bases
Orientation:
Minus strand

Genomic View for LRIF1 Gene

Genes around LRIF1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRIF1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRIF1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRIF1 Gene

Proteins for LRIF1 Gene

  • Protein details for LRIF1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5T3J3-LRIF1_HUMAN
    Recommended name:
    Ligand-dependent nuclear receptor-interacting factor 1
    Protein Accession:
    Q5T3J3
    Secondary Accessions:
    • Q86XS4
    • Q8N3B6
    • Q96HT4
    • Q9NUM5
    • Q9NV32

    Protein attributes for LRIF1 Gene

    Size:
    769 amino acids
    Molecular mass:
    84568 Da
    Quaternary structure:
    • Interacts with RARA.
    SequenceCaution:
    • Sequence=AAH08115.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAO43631.1; Type=Frameshift; Positions=23; Evidence={ECO:0000305}; Sequence=BAA92097.1; Type=Frameshift; Positions=667; Evidence={ECO:0000305};

    Alternative splice isoforms for LRIF1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LRIF1 Gene

Proteomics data for LRIF1 Gene at MOPED

Post-translational modifications for LRIF1 Gene

  • Ubiquitination at Lys 11, Lys 134, Lys 259, Lys 279, Lys 290, Lys 418, Lys 427, Lys 470, Lys 543, and Lys 578
  • Modification sites at PhosphoSitePlus

Other Protein References for LRIF1 Gene

No data available for DME Specific Peptides for LRIF1 Gene

Domains & Families for LRIF1 Gene

Protein Domains for LRIF1 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for LRIF1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q5T3J3

UniProtKB/Swiss-Prot:

LRIF1_HUMAN :
  • Belongs to the LRIF1 family.
Family:
  • Belongs to the LRIF1 family.
genes like me logo Genes that share domains with LRIF1: view

No data available for Gene Families for LRIF1 Gene

Function for LRIF1 Gene

Molecular function for LRIF1 Gene

UniProtKB/Swiss-Prot Function:
Represses the ligand-induced transcriptional activity of retinoic acid receptor alpha (RARA). This repression may occur through direct recruitment of histone deacetylases.
genes like me logo Genes that share phenotypes with LRIF1: view

Animal Model Products

CRISPR Products

miRNA for LRIF1 Gene

miRTarBase miRNAs that target LRIF1

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LRIF1 Gene

Localization for LRIF1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LRIF1 Gene

Nucleus matrix.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for LRIF1 Gene COMPARTMENTS Subcellular localization image for LRIF1 gene
Compartment Confidence
cytoskeleton 5
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for LRIF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
genes like me logo Genes that share ontologies with LRIF1: view

Pathways & Interactions for LRIF1 Gene

SuperPathways for LRIF1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LRIF1 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LRIF1 Gene

Drugs & Compounds for LRIF1 Gene

No Compound Related Data Available

Transcripts for LRIF1 Gene

Unigene Clusters for LRIF1 Gene

Ligand dependent nuclear receptor interacting factor 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for LRIF1 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3
SP1: -
SP2:

Relevant External Links for LRIF1 Gene

GeneLoc Exon Structure for
LRIF1
ECgene alternative splicing isoforms for
LRIF1

Expression for LRIF1 Gene

mRNA expression in normal human tissues for LRIF1 Gene

Protein differential expression in normal tissues from HIPED for LRIF1 Gene

This gene is overexpressed in Testis (19.9), Retina (13.0), Blymphocyte (11.8), Spinal cord (9.2), and CD8 Tcells (8.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for LRIF1 Gene



SOURCE GeneReport for Unigene cluster for LRIF1 Gene Hs.25245

mRNA Expression by UniProt/SwissProt for LRIF1 Gene

Q5T3J3-LRIF1_HUMAN
Tissue specificity: Widely expressed, with the highest expression levels in heart, liver and placenta.
genes like me logo Genes that share expression patterns with LRIF1: view

Protein tissue co-expression partners for LRIF1 Gene

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for LRIF1 Gene

Orthologs for LRIF1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for LRIF1 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia LRIF1 35
  • 91.05 (n)
  • 85.26 (a)
LRIF1 36
  • 85 (a)
OneToOne
dog
(Canis familiaris)
Mammalia LRIF1 35
  • 91.51 (n)
  • 86.74 (a)
LRIF1 36
  • 86 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Lrif1 35
  • 82.93 (n)
  • 70.78 (a)
Lrif1 16
Lrif1 36
  • 70 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia LRIF1 35
  • 99.83 (n)
  • 99.61 (a)
LRIF1 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lrif1 35
  • 82.39 (n)
  • 69.22 (a)
oppossum
(Monodelphis domestica)
Mammalia LRIF1 36
  • 51 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia LRIF1 36
  • 45 (a)
OneToOne
chicken
(Gallus gallus)
Aves LRIF1 35
  • 58.04 (n)
  • 42.94 (a)
LRIF1 36
  • 32 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia LRIF1 36
  • 29 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100492192 35
  • 52.28 (n)
  • 41.55 (a)
zebrafish
(Danio rerio)
Actinopterygii LRIF1 (1 of 2) 36
  • 18 (a)
OneToMany
LRIF1 (2 of 2) 36
  • 18 (a)
OneToMany
Species with no ortholog for LRIF1:
  • 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)

Evolution for LRIF1 Gene

ENSEMBL:
Gene Tree for LRIF1 (if available)
TreeFam:
Gene Tree for LRIF1 (if available)

Paralogs for LRIF1 Gene

No data available for Paralogs for LRIF1 Gene

Variants for LRIF1 Gene

Sequence variations from dbSNP and Humsavar for LRIF1 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs2232045 - 110,949,925(-) TCGAT(C/T)CCTTT reference, missense
rs2232047 - 110,948,346(-) CACAT(A/G)AAGAA reference, missense
rs2232041 - 110,951,572(-) CCATG(A/G)CCAAT intron-variant, reference, missense
rs1046260 -- 110,947,279(-) TTTTT(G/T)GGGAC utr-variant-3-prime
rs953232 -- 110,964,647(+) GCTGT(C/G)CATTG upstream-variant-2KB

Variation tolerance for LRIF1 Gene

Residual Variation Intolerance Score: 19.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.77; 78.97% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LRIF1 Gene

HapMap Linkage Disequilibrium report
LRIF1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for LRIF1 Gene

Disorders for LRIF1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for LRIF1 Gene - From: DISEASES

Disorder Aliases PubMed IDs
facioscapulohumeral muscular dystrophy 1
  • facioscapulohumeral muscular dystrophy
- elite association - COSMIC cancer census association via MalaCards
Search LRIF1 in MalaCards View complete list of genes associated with diseases

Relevant External Links for LRIF1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LRIF1
genes like me logo Genes that share disorders with LRIF1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LRIF1 Gene

Publications for LRIF1 Gene

  1. RIF-1, a novel nuclear receptor corepressor that associates with the nuclear matrix. (PMID: 17455211) Li H.J. … Mendelsohn M. (J. Cell. Biochem. 2007) 2 3 4 67
  2. Proximity biotinylation and affinity purification are complementary approaches for the interactome mapping of chromatin-associated protein complexes. (PMID: 25281560) Lambert J.P. … Gingras A.C. (J Proteomics 2015) 3
  3. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  4. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. (PMID: 26496610) Hein M.Y. … Mann M. (Cell 2015) 3
  5. A Dynamic Protein Interaction Landscape of the Human Centrosome-Cilium Interface. (PMID: 26638075) Gupta G.D. … Pelletier L. (Cell 2015) 3

Products for LRIF1 Gene

Sources for LRIF1 Gene

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