Aliases for SLFN13 Gene

Aliases for SLFN13 Gene

  • Schlafen Family Member 13 2 3 4 5
  • Schlafen-13 3 4
  • HSLFN13 3 4
  • EC 3.1.-.- 4
  • SLFN10 3

External Ids for SLFN13 Gene

Previous GeneCards Identifiers for SLFN13 Gene

  • GC17M030786
  • GC17M033762
  • GC17M029947

Summaries for SLFN13 Gene

GeneCards Summary for SLFN13 Gene

SLFN13 (Schlafen Family Member 13) is a Protein Coding gene. An important paralog of this gene is SLFN11.

UniProtKB/Swiss-Prot Summary for SLFN13 Gene

  • Endoribonuclease that cleaves tRNAs and rRNAs (PubMed:29563550). Cleaves tRNAs 11 nucleotides from the 3'-terminus at the acceptor stem (PubMed:29563550). Does not act on tRNA(Sec) (PubMed:29563550). Able to restrict HIV-1 virus replication; ability to inhibit HIV-1 replication is dependent on endoribonuclease activity (PubMed:29563550).

Additional gene information for SLFN13 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SLFN13 Gene

Genomics for SLFN13 Gene

GeneHancer (GH) Regulatory Elements for SLFN13 Gene

Promoters and enhancers for SLFN13 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SLFN13 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SLFN13 gene promoter:
  • AhR
  • C/EBPbeta
  • Gfi-1
  • HOXA9
  • HOXA9B
  • Lmo2
  • Meis-1
  • Meis-1b
  • RFX1
  • Roaz

Genomic Locations for SLFN13 Gene

Genomic Locations for SLFN13 Gene
chr17:35,435,096-35,449,008
(GRCh38/hg38)
Size:
13,913 bases
Orientation:
Minus strand
chr17:33,762,115-33,775,856
(GRCh37/hg19)
Size:
13,742 bases
Orientation:
Minus strand

Genomic View for SLFN13 Gene

Genes around SLFN13 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SLFN13 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SLFN13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SLFN13 Gene

Proteins for SLFN13 Gene

  • Protein details for SLFN13 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q68D06-SLN13_HUMAN
    Recommended name:
    Schlafen family member 13
    Protein Accession:
    Q68D06
    Secondary Accessions:
    • E1P645
    • Q658M1
    • Q6ZS51
    • Q96A81

    Protein attributes for SLFN13 Gene

    Size:
    897 amino acids
    Molecular mass:
    102045 Da
    Cofactor:
    Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AK127728; Type=Frameshift; Positions=261; Evidence={ECO:0000305};

    Alternative splice isoforms for SLFN13 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SLFN13 Gene

Post-translational modifications for SLFN13 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for SLFN13 Gene

Domains & Families for SLFN13 Gene

Gene Families for SLFN13 Gene

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

Protein Domains for SLFN13 Gene

Suggested Antigen Peptide Sequences for SLFN13 Gene

GenScript: Design optimal peptide antigens:
  • SLFN13 protein (B7ZVY5_HUMAN)
  • Schlafen family member 13 (SLN13_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q68D06

UniProtKB/Swiss-Prot:

SLN13_HUMAN :
  • Shows a pseudo-dimeric U-pillow-shaped architecture of the SLFN13 N'-domain that may clamp base-paired RNAs.
  • Belongs to the Schlafen family. Subgroup III subfamily.
Domain:
  • Shows a pseudo-dimeric U-pillow-shaped architecture of the SLFN13 N'-domain that may clamp base-paired RNAs.
Family:
  • Belongs to the Schlafen family. Subgroup III subfamily.
genes like me logo Genes that share domains with SLFN13: view

Function for SLFN13 Gene

Molecular function for SLFN13 Gene

UniProtKB/Swiss-Prot Function:
Endoribonuclease that cleaves tRNAs and rRNAs (PubMed:29563550). Cleaves tRNAs 11 nucleotides from the 3'-terminus at the acceptor stem (PubMed:29563550). Does not act on tRNA(Sec) (PubMed:29563550). Able to restrict HIV-1 virus replication; ability to inhibit HIV-1 replication is dependent on endoribonuclease activity (PubMed:29563550).

Enzyme Numbers (IUBMB) for SLFN13 Gene

Phenotypes From GWAS Catalog for SLFN13 Gene

Gene Ontology (GO) - Molecular Function for SLFN13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000049 tRNA binding IBA 21873635
GO:0000166 nucleotide binding IEA --
GO:0004518 nuclease activity IEA --
GO:0004519 endonuclease activity IEA --
GO:0004521 endoribonuclease activity IDA 29563550
genes like me logo Genes that share ontologies with SLFN13: view
genes like me logo Genes that share phenotypes with SLFN13: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SLFN13

Clone Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SLFN13 Gene

Localization for SLFN13 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SLFN13 Gene

Cytoplasm.

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 SLFN13 gene
Compartment Confidence
nucleus 2
cytosol 2
plasma membrane 1
mitochondrion 1
endoplasmic reticulum 0

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytokinetic bridge (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SLFN13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IDA --
GO:0005737 cytoplasm IDA,IEA 29563550
genes like me logo Genes that share ontologies with SLFN13: view

Pathways & Interactions for SLFN13 Gene

PathCards logo

SuperPathways for SLFN13 Gene

No Data Available

Interacting Proteins for SLFN13 Gene

Gene Ontology (GO) - Biological Process for SLFN13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016075 rRNA catabolic process IDA 29563550
GO:0016078 tRNA catabolic process IDA 29563550
GO:0051607 defense response to virus IBA 21873635
GO:0090305 nucleic acid phosphodiester bond hydrolysis IEA --
GO:0090502 RNA phosphodiester bond hydrolysis, endonucleolytic IEA --
genes like me logo Genes that share ontologies with SLFN13: view

No data available for Pathways by source and SIGNOR curated interactions for SLFN13 Gene

Drugs & Compounds for SLFN13 Gene

No Compound Related Data Available

Transcripts for SLFN13 Gene

mRNA/cDNA for SLFN13 Gene

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SLFN13

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SLFN13 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b · 6c · 6d · 6e ^ 7a · 7b · 7c ^ 8a · 8b ^ 9a · 9b · 9c
SP1: - - - - - - - - -
SP2: - - - - - - - - - -
SP3: - -
SP4: - -
SP5: - - - - - -
SP6: - - -
SP7: - -
SP8: -
SP9:

Relevant External Links for SLFN13 Gene

GeneLoc Exon Structure for
SLFN13
ECgene alternative splicing isoforms for
SLFN13

Expression for SLFN13 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SLFN13 Gene

mRNA differential expression in normal tissues according to GTEx for SLFN13 Gene

This gene is overexpressed in Whole Blood (x4.2) and Minor Salivary Gland (x4.0).

Protein differential expression in normal tissues from HIPED for SLFN13 Gene

This gene is overexpressed in Adipocyte (51.6), Platelet (8.7), and Heart (8.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for SLFN13 Gene



Protein tissue co-expression partners for SLFN13 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SLFN13 Gene:

SLFN13

SOURCE GeneReport for Unigene cluster for SLFN13 Gene:

Hs.462833

Evidence on tissue expression from TISSUES for SLFN13 Gene

  • Stomach(4.2)
genes like me logo Genes that share expression patterns with SLFN13: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SLFN13 Gene

Orthologs for SLFN13 Gene

This gene was present in the common ancestor of mammals.

Orthologs for SLFN13 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SLFN13 33 32
  • 99.22 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Slfn9 17 33 32
  • 72.65 (n)
Slfn8 33
  • 61 (a)
ManyToMany
rat
(Rattus norvegicus)
Mammalia Slfn13 32
  • 71.26 (n)
cow
(Bos Taurus)
Mammalia -- 33
  • 66 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia -- 33
  • 53 (a)
OneToMany
Species where no ortholog for SLFN13 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)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • dog (Canis familiaris)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for SLFN13 Gene

ENSEMBL:
Gene Tree for SLFN13 (if available)
TreeFam:
Gene Tree for SLFN13 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SLFN13: view image

Paralogs for SLFN13 Gene

Paralogs for SLFN13 Gene

(6) SIMAP similar genes for SLFN13 Gene using alignment to 6 proteins:

  • SLN13_HUMAN
  • B7ZVY5_HUMAN
  • E9PKT7_HUMAN
  • E9PM29_HUMAN
  • E9PMV5_HUMAN
  • K7EPV8_HUMAN
genes like me logo Genes that share paralogs with SLFN13: view

Variants for SLFN13 Gene

Sequence variations from dbSNP and Humsavar for SLFN13 Gene

SNP ID Clin Chr 17 pos Variation AA Info Type
rs1000028843 -- 35,434,724(-) G/A downstream_transcript_variant
rs1000064066 -- 35,446,935(-) G/A 5_prime_UTR_variant, intron_variant
rs1000181605 -- 35,452,026(-) G/A upstream_transcript_variant
rs1000368026 -- 35,446,582(-) T/C 5_prime_UTR_variant, intron_variant
rs1000390998 -- 35,452,640(-) C/T upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for SLFN13 Gene

Variant ID Type Subtype PubMed ID
dgv3142n100 CNV loss 25217958
dgv365n27 CNV loss 19166990
dgv5532n54 CNV loss 21841781
dgv570e214 CNV loss 21293372
dgv571e214 CNV gain 21293372
dgv907e212 CNV loss 25503493
esv2715869 CNV deletion 23290073
esv2762399 CNV loss 21179565
esv3892997 CNV gain+loss 25118596
esv3892999 CNV loss 25118596
nsv457728 CNV gain 19166990
nsv515566 CNV gain+loss 19592680
nsv574741 CNV loss 21841781
nsv574743 CNV loss 21841781
nsv574749 CNV gain+loss 21841781
nsv962312 CNV duplication 23825009

Variation tolerance for SLFN13 Gene

Residual Variation Intolerance Score: 96.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.13; 84.63% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SLFN13 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SLFN13

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SLFN13 Gene

Disorders for SLFN13 Gene

Additional Disease Information for SLFN13

No disorders were found for SLFN13 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SLFN13 Gene

Publications for SLFN13 Gene

  1. Structure of Schlafen13 reveals a new class of tRNA/rRNA- targeting RNase engaged in translational control. (PMID: 29563550) Yang JY … Gao S (Nature communications 2018) 3 4 56
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 56
  3. Schlafen, a new family of growth regulatory genes that affect thymocyte development. (PMID: 9846487) Schwarz DA … Hedrick SM (Immunity 1998) 2 3 56
  4. USP7 Cooperates with NOTCH1 to Drive the Oncogenic Transcriptional Program in T-Cell Leukemia. (PMID: 30224337) Jin Q … Ntziachristos P (Clinical cancer research : an official journal of the American Association for Cancer Research 2019) 3 56
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. (PMID: 21873635) Gaudet P … Thomas PD (Briefings in bioinformatics 2011) 3 56

Products for SLFN13 Gene

Sources for SLFN13 Gene