Steroid receptor RNA activator (SRA, or SRA1; MIM 603819) is a complex RNA molecule containing multiple stable stem-loop structures that functions in coactivation of nuclear receptors. SLIRP interacts with stem-loop structure-7 of SRA (STR7) and modulates nuclear receptor transactivation (Hatchell et al., 2006 [PubMed 16762838]).[supplied by OMIM, Mar 2008] See more...

Aliases for SLIRP Gene

Aliases for SLIRP Gene

  • SRA Stem-Loop Interacting RNA Binding Protein 2 3 5
  • SRA Stem-Loop-Interacting RNA-Binding Protein, Mitochondrial 3 4
  • C14orf156 3 4
  • Chromosome 14 Open Reading Frame 156 2
  • PD04872 3
  • DC50 3

External Ids for SLIRP Gene

Previous HGNC Symbols for SLIRP Gene

  • C14orf156

Previous GeneCards Identifiers for SLIRP Gene

  • GC14P078175

Summaries for SLIRP Gene

Entrez Gene Summary for SLIRP Gene

  • Steroid receptor RNA activator (SRA, or SRA1; MIM 603819) is a complex RNA molecule containing multiple stable stem-loop structures that functions in coactivation of nuclear receptors. SLIRP interacts with stem-loop structure-7 of SRA (STR7) and modulates nuclear receptor transactivation (Hatchell et al., 2006 [PubMed 16762838]).[supplied by OMIM, Mar 2008]

GeneCards Summary for SLIRP Gene

SLIRP (SRA Stem-Loop Interacting RNA Binding Protein) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and nucleotide binding.

UniProtKB/Swiss-Prot Summary for SLIRP Gene

  • RNA-binding protein that acts as a nuclear receptor corepressor. Probably acts by binding the SRA RNA, and repressing the SRA-mediated nuclear receptor coactivation. Binds the STR7 loop of SRA RNA. Also able to repress glucocorticoid (GR), androgen (AR), thyroid (TR) and VDR-mediated transactivation.

Additional gene information for SLIRP Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SLIRP Gene

Genomics for SLIRP Gene

GeneHancer (GH) Regulatory Elements for SLIRP Gene

Promoters and enhancers for SLIRP Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH14J077706 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 756.7 +0.2 230 4.2 ZBTB40 CTCF SIX5 RBPJ POLR2A HDAC2 NR2F1 NR2F6 CREB1 HCFC1 ALKBH1 SLIRP NONHSAG015563.2 SNW1 RPL22P2 C14orf178 ZMYND19P1 VIPAS39 LINC02289 LINC02288
GH14J077663 Enhancer 0.7 FANTOM5 ENCODE 8.6 -44.4 -44368 0.9 MNT FOSL2 CTBP1 CEBPB PKNOX1 ESRRA ZFHX2 RFX5 FOS piR-40154-057 piR-52261-083 piR-49423-086 ADCK1 C14orf178 SLIRP SNW1 RPL21P10 lnc-SLIRP-2
GH14J077795 Enhancer 0.8 Ensembl ENCODE 6.5 +87.7 87721 2.4 NR2F6 HLF CEBPG ZNF384 CEBPA CEBPB JUN JUND MAX EP300 piR-40154-058 piR-52261-084 C14orf178 SLIRP ADCK1
GH14J077699 Enhancer 0.6 ENCODE 7.6 -8.4 -8418 0.2 ZNF217 MNT CTBP1 DPF2 CUX1 GATA3 ELF1 JUND RCOR1 FOXA1 SLIRP ZMYND19P1 lnc-SLIRP-1 lnc-SNW1-5 ALKBH1
GH14J077802 Enhancer 0.5 Ensembl 6.4 +95.8 95830 2.6 ZNF24 CTCF ZBTB48 RAD21 NFIC CEBPG CEBPB NRF1 ZFP91 C14orf178 RPL21P10 ADCK1 SLIRP ENSG00000199440
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SLIRP on UCSC Golden Path with GeneCards custom track

Genomic Locations for SLIRP Gene

Genomic Locations for SLIRP Gene
chr14:77,708,071-77,761,104
(GRCh38/hg38)
Size:
53,034 bases
Orientation:
Plus strand
chr14:78,174,414-78,227,447
(GRCh37/hg19)
Size:
53,034 bases
Orientation:
Plus strand

Genomic View for SLIRP Gene

Genes around SLIRP on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for SLIRP Gene

Proteins for SLIRP Gene

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

    Protein Symbol:
    Q9GZT3-SLIRP_HUMAN
    Recommended name:
    SRA stem-loop-interacting RNA-binding protein, mitochondrial
    Protein Accession:
    Q9GZT3
    Secondary Accessions:
    • J3KMY7

    Protein attributes for SLIRP Gene

    Size:
    109 amino acids
    Molecular mass:
    12349 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for SLIRP Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SLIRP Gene

Post-translational modifications for SLIRP Gene

  • Ubiquitination at Lys36 and Lys88
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for SLIRP Gene

Domains & Families for SLIRP Gene

Gene Families for SLIRP Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for SLIRP Gene

GenScript: Design optimal peptide antigens:
  • SRA stem-loop-interacting RNA-binding protein, mitochondrial (SLIRP_HUMAN)
genes like me logo Genes that share domains with SLIRP: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for SLIRP Gene

Function for SLIRP Gene

Molecular function for SLIRP Gene

UniProtKB/Swiss-Prot Function:
RNA-binding protein that acts as a nuclear receptor corepressor. Probably acts by binding the SRA RNA, and repressing the SRA-mediated nuclear receptor coactivation. Binds the STR7 loop of SRA RNA. Also able to repress glucocorticoid (GR), androgen (AR), thyroid (TR) and VDR-mediated transactivation.

Gene Ontology (GO) - Molecular Function for SLIRP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding IEA,IBA 21873635
GO:0005515 protein binding IPI 22045337
genes like me logo Genes that share ontologies with SLIRP: view
genes like me logo Genes that share phenotypes with SLIRP: view

Animal Models for SLIRP Gene

MGI Knock Outs for SLIRP:

Animal Model Products

CRISPR Products

miRNA for SLIRP Gene

miRTarBase miRNAs that target SLIRP

Clone Products

  • Addgene plasmids for SLIRP

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SLIRP Gene

Localization for SLIRP Gene

Subcellular locations from UniProtKB/Swiss-Prot for SLIRP Gene

Mitochondrion. Nucleus. Note=Predominantly mitochondrial. Some fraction is nuclear. In the nucleus, it is recruited to nuclear receptor target promoters.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SLIRP gene
Compartment Confidence
mitochondrion 5
nucleus 3
peroxisome 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for SLIRP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001669 acrosomal vesicle IEA --
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
GO:0005739 mitochondrion IDA --
GO:0036126 sperm flagellum IEA --
genes like me logo Genes that share ontologies with SLIRP: view

Pathways & Interactions for SLIRP Gene

PathCards logo

SuperPathways for SLIRP Gene

No Data Available

Gene Ontology (GO) - Biological Process for SLIRP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000961 negative regulation of mitochondrial RNA catabolic process IBA 21873635
GO:0007286 spermatid development IEA --
GO:0007338 single fertilization IEA --
GO:0030317 flagellated sperm motility IEA --
GO:0070584 mitochondrion morphogenesis IBA 21873635
genes like me logo Genes that share ontologies with SLIRP: view

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

Drugs & Compounds for SLIRP Gene

No Compound Related Data Available

Transcripts for SLIRP Gene

CRISPR Products

Clone Products

  • Addgene plasmids for SLIRP

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

No ASD Table

Relevant External Links for SLIRP Gene

GeneLoc Exon Structure for
SLIRP
ECgene alternative splicing isoforms for
SLIRP

Expression for SLIRP Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SLIRP Gene

Protein differential expression in normal tissues from HIPED for SLIRP Gene

This gene is overexpressed in Bone (26.2) and Nasal epithelium (8.7).

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



Protein tissue co-expression partners for SLIRP Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SLIRP Gene:

SLIRP

SOURCE GeneReport for Unigene cluster for SLIRP Gene:

Hs.655105

mRNA Expression by UniProt/SwissProt for SLIRP Gene:

Q9GZT3-SLIRP_HUMAN
Tissue specificity: Ubiquitously expressed, with highest level in heart, liver, skeletal muscle and testis.

Evidence on tissue expression from TISSUES for SLIRP Gene

  • Muscle(4.5)
  • Liver(4.4)
  • Spleen(4.4)
  • Lymph node(4.3)
  • Blood(4.2)
  • Heart(2.8)
  • Nervous system(2.5)
  • Stomach(2.4)
  • Kidney(2.3)
genes like me logo Genes that share expression patterns with SLIRP: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for SLIRP Gene

Orthologs for SLIRP Gene

This gene was present in the common ancestor of animals.

Orthologs for SLIRP Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SLIRP 33 32
  • 99.69 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Slirp 17 33 32
  • 82.25 (n)
rat
(Rattus norvegicus)
Mammalia Slirp 32
  • 82.25 (n)
dog
(Canis familiaris)
Mammalia SLIRP 33 32
  • 82.11 (n)
OneToOne
cow
(Bos Taurus)
Mammalia SLIRP 33 32
  • 81.35 (n)
OneToMany
-- 33
  • 44 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia SLIRP 33
  • 65 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SLIRP 33
  • 51 (a)
OneToOne
chicken
(Gallus gallus)
Aves SLIRP 32
  • 60.95 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia slirp 32
  • 63.89 (n)
zebrafish
(Danio rerio)
Actinopterygii si:ch73-276n11.1 32
  • 67.12 (n)
SLIRP 33
  • 46 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG33714 33
  • 31 (a)
OneToMany
CG8021 33
  • 29 (a)
OneToMany
Species where no ortholog for SLIRP 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)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • 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 SLIRP Gene

ENSEMBL:
Gene Tree for SLIRP (if available)
TreeFam:
Gene Tree for SLIRP (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SLIRP: view image

Paralogs for SLIRP Gene

(9) SIMAP similar genes for SLIRP Gene using alignment to 8 proteins:

  • SLIRP_HUMAN
  • G3V2S9_HUMAN
  • G3V4X6_HUMAN
  • H0YJ07_HUMAN
  • H0YJ40_HUMAN
  • H0YJI1_HUMAN
  • H0YJU7_HUMAN
  • H0YJW7_HUMAN

Pseudogenes.org Pseudogenes for SLIRP Gene

genes like me logo Genes that share paralogs with SLIRP: view

No data available for Paralogs for SLIRP Gene

Variants for SLIRP Gene

Sequence variations from dbSNP and Humsavar for SLIRP Gene

SNP ID Clin Chr 14 pos Variation AA Info Type
rs1000391583 -- 77,714,761(+) GAGGAG/GAG intron_variant
rs1000915167 -- 77,716,451(+) C/G intron_variant
rs1001067737 -- 77,708,835(+) G/A intron_variant
rs1001499283 -- 77,710,952(+) A/T intron_variant
rs1002513221 -- 77,716,510(+) G/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SLIRP Gene

Variant ID Type Subtype PubMed ID
esv2759998 CNV gain 17122850
esv34940 CNV gain 17911159
esv3635010 CNV gain 21293372
nsv520021 CNV gain 19592680
nsv521287 CNV gain 19592680

Variation tolerance for SLIRP Gene

Residual Variation Intolerance Score: 80.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.73; 32.92% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SLIRP Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SLIRP

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SLIRP Gene

Disorders for SLIRP Gene

Additional Disease Information for SLIRP

No disorders were found for SLIRP Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SLIRP Gene

Publications for SLIRP Gene

  1. SLIRP, a small SRA binding protein, is a nuclear receptor corepressor. (PMID: 16762838) Hatchell EC … Leedman PJ (Molecular cell 2006) 2 3 4 56
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 56
  3. Quantitative mapping of RNA-mediated nuclear estrogen receptor β interactome in human breast cancer cells. (PMID: 29509190) Giurato G … Tarallo R (Scientific data 2018) 3 56
  4. VIRMA mediates preferential m6A mRNA methylation in 3'UTR and near stop codon and associates with alternative polyadenylation. (PMID: 29507755) Yue Y … Liu J (Cell discovery 2018) 3 56
  5. An AP-MS- and BioID-compatible MAC-tag enables comprehensive mapping of protein interactions and subcellular localizations. (PMID: 29568061) Liu X … Varjosalo M (Nature communications 2018) 3 56

Products for SLIRP Gene

Sources for SLIRP Gene