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Aliases for SLITRK4 Gene

Aliases for SLITRK4 Gene

  • SLIT And NTRK Like Family Member 4 2 3 5
  • SLIT And NTRK-Like Family, Member 4 2

External Ids for SLITRK4 Gene

Previous GeneCards Identifiers for SLITRK4 Gene

  • GC0XM141409
  • GC0XM142441
  • GC0XM142543
  • GC0XM142715
  • GC0XM131814

Summaries for SLITRK4 Gene

Entrez Gene Summary for SLITRK4 Gene

  • This gene encodes a transmembrane protein belonging to the the SLITRK family. These family members include two N-terminal leucine-rich repeat domains similar to those found in the axonal growth-controlling protein SLIT, as well as C-terminal regions similar to neurotrophin receptors. Studies of an homologous protein in mouse suggest that this family member functions to suppress neurite outgrowth. Alternative splicing results in multiple transcript variants. [provided by RefSeq, May 2010]

GeneCards Summary for SLITRK4 Gene

SLITRK4 (SLIT And NTRK Like Family Member 4) is a Protein Coding gene. An important paralog of this gene is SLITRK5.

UniProtKB/Swiss-Prot for SLITRK4 Gene

  • Suppresses neurite outgrowth.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SLITRK4 Gene

Genomics for SLITRK4 Gene

Regulatory Elements for SLITRK4 Gene

Enhancers for SLITRK4 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH0XF143579 0.6 Ensembl ENCODE 26.6 +55.9 55892 1.7 FOS SLITRK4 MYCLP3 SPANXN3
GH0XF143635 0.4 ENCODE 8.7 +0.1 102 1.5 E2F1 SLITRK4 MYCLP3
GH0XF143632 0.5 ENCODE 0.8 +3.2 3238 0.1 PKNOX1 CREM ATF2 SLITRK4 MYCLP3
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SLITRK4 on UCSC Golden Path with GeneCards custom track

Promoters for SLITRK4 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001491974 1507 3600 E2F1 PKNOX1 CREM ATF2

Genomic Location for SLITRK4 Gene

Chromosome:
X
Start:
143,622,790 bp from pter
End:
143,636,107 bp from pter
Size:
13,318 bases
Orientation:
Minus strand

Genomic View for SLITRK4 Gene

Genes around SLITRK4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SLITRK4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SLITRK4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SLITRK4 Gene

Proteins for SLITRK4 Gene

  • Protein details for SLITRK4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8IW52-SLIK4_HUMAN
    Recommended name:
    SLIT and NTRK-like protein 4
    Protein Accession:
    Q8IW52
    Secondary Accessions:
    • Q5JXG3
    • Q8TCM8
    • Q96DL3

    Protein attributes for SLITRK4 Gene

    Size:
    837 amino acids
    Molecular mass:
    94331 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAB71535.1; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for SLITRK4 Gene

Post-translational modifications for SLITRK4 Gene

  • Glycosylation at Asn 81, Thr 307, and Asn 325
  • Modification sites at PhosphoSitePlus

Other Protein References for SLITRK4 Gene

Antibody Products

  • Abcam antibodies for SLITRK4

No data available for DME Specific Peptides for SLITRK4 Gene

Domains & Families for SLITRK4 Gene

Suggested Antigen Peptide Sequences for SLITRK4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8IW52

UniProtKB/Swiss-Prot:

SLIK4_HUMAN :
  • Contains 2 LRRCT domains.
  • Belongs to the SLITRK family.
  • Contains 12 LRR (leucine-rich) repeats.
Domain:
  • Contains 2 LRRCT domains.
  • Contains 1 LRRNT domain.
Family:
  • Belongs to the SLITRK family.
Similarity:
  • Contains 12 LRR (leucine-rich) repeats.
genes like me logo Genes that share domains with SLITRK4: view

No data available for Gene Families for SLITRK4 Gene

Function for SLITRK4 Gene

Molecular function for SLITRK4 Gene

UniProtKB/Swiss-Prot Function:
Suppresses neurite outgrowth.
genes like me logo Genes that share phenotypes with SLITRK4: view

Animal Models for SLITRK4 Gene

MGI Knock Outs for SLITRK4:

Animal Model Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SLITRK4 Gene

Localization for SLITRK4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SLITRK4 Gene

Membrane; Single-pass type I membrane protein.

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 SLITRK4 gene
Compartment Confidence
plasma membrane 5
extracellular 2
endoplasmic reticulum 2
peroxisome 1

Gene Ontology (GO) - Cellular Components for SLITRK4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SLITRK4: view

Pathways & Interactions for SLITRK4 Gene

SuperPathways for SLITRK4 Gene

No Data Available

Interacting Proteins for SLITRK4 Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000336627%0d%0a9606.ENSP00000344818%0d%0a
Selected Interacting proteins: ENSP00000336627 Q8IW52-SLIK4_HUMAN for SLITRK4 Gene via STRING IID

Gene Ontology (GO) - Biological Process for SLITRK4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007409 axonogenesis IBA --
GO:0051965 positive regulation of synapse assembly IEA --
genes like me logo Genes that share ontologies with SLITRK4: view

No data available for Pathways by source and SIGNOR curated interactions for SLITRK4 Gene

Transcripts for SLITRK4 Gene

mRNA/cDNA for SLITRK4 Gene

Unigene Clusters for SLITRK4 Gene

SLIT and NTRK-like family, member 4:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SLITRK4 Gene

No ASD Table

Relevant External Links for SLITRK4 Gene

GeneLoc Exon Structure for
SLITRK4
ECgene alternative splicing isoforms for
SLITRK4

Expression for SLITRK4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SLITRK4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SLITRK4 Gene

This gene is overexpressed in Brain - Cerebellar Hemisphere (x4.9), Brain - Frontal Cortex (BA9) (x4.5), Muscle - Skeletal (x4.4), Adrenal Gland (x4.3), and Brain - Cerebellum (x4.2).

Protein differential expression in normal tissues from HIPED for SLITRK4 Gene

This gene is overexpressed in Plasma (22.7), Heart (13.5), Peripheral blood mononuclear cells (11.8), and Adrenal (10.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for SLITRK4 Gene



Protein tissue co-expression partners for SLITRK4 Gene

NURSA nuclear receptor signaling pathways regulating expression of SLITRK4 Gene:

SLITRK4

SOURCE GeneReport for Unigene cluster for SLITRK4 Gene:

Hs.272284

mRNA Expression by UniProt/SwissProt for SLITRK4 Gene:

Q8IW52-SLIK4_HUMAN
Tissue specificity: Expressed in the cerebral cortex of the brain and at higher levels in some astrocytic brain tumors such as astrocytomas, glioblastomas and primitive neuroectodermal tumors.
genes like me logo Genes that share expression patterns with SLITRK4: view

Primer Products

Orthologs for SLITRK4 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SLITRK4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SLITRK4 34 35
  • 98.02 (n)
dog
(Canis familiaris)
Mammalia SLITRK4 34 35
  • 91.84 (n)
rat
(Rattus norvegicus)
Mammalia Slitrk4 34
  • 91.35 (n)
mouse
(Mus musculus)
Mammalia Slitrk4 34 16 35
  • 90.96 (n)
cow
(Bos Taurus)
Mammalia SLITRK4 34 35
  • 90.71 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia SLITRK4 35
  • 90 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SLITRK4 35
  • 89 (a)
OneToOne
chicken
(Gallus gallus)
Aves SLITRK4 34 35
  • 81.24 (n)
lizard
(Anolis carolinensis)
Reptilia SLITRK4 35
  • 89 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia slitrk4 34
  • 75.52 (n)
zebrafish
(Danio rerio)
Actinopterygii SLITRK4 35
  • 74 (a)
OneToOne
slitrk4 34
  • 68.96 (n)
Species where no ortholog for SLITRK4 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)

Evolution for SLITRK4 Gene

ENSEMBL:
Gene Tree for SLITRK4 (if available)
TreeFam:
Gene Tree for SLITRK4 (if available)

Paralogs for SLITRK4 Gene

Paralogs for SLITRK4 Gene

(7) SIMAP similar genes for SLITRK4 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with SLITRK4: view

Variants for SLITRK4 Gene

Sequence variations from dbSNP and Humsavar for SLITRK4 Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type
rs143575705 A colorectal cancer sample 143,630,493(+) TTCAA(C/T)GACAC reference, missense
rs111267838 -- 143,633,275(+) GGGCA(A/G)GAGAC intron-variant
rs111405150 -- 143,634,768(+) CTCTG(-/TC/TCTC)GTCTC intron-variant, upstream-variant-2KB
rs111735492 -- 143,629,261(+) GACAG(A/G)GGCAC reference, synonymous-codon
rs111824876 -- 143,626,573(+) GCTTC(-/T)TTTTT utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for SLITRK4 Gene

Variant ID Type Subtype PubMed ID
esv2740547 CNV deletion 23290073
dgv1403e199 CNV deletion 23128226

Variation tolerance for SLITRK4 Gene

Residual Variation Intolerance Score: 7.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.02; 20.84% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SLITRK4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SLITRK4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SLITRK4 Gene

Disorders for SLITRK4 Gene

Relevant External Links for SLITRK4

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SLITRK4

No disorders were found for SLITRK4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SLITRK4 Gene

Publications for SLITRK4 Gene

  1. Human SLITRK family genes: genomic organization and expression profiling in normal brain and brain tumor tissue. (PMID: 14557068) Aruga J. … Mikoshiba K. (Gene 2003) 2 3 4 22 64
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  4. Protein interaction discovery using parallel analysis of translated ORFs (PLATO). (PMID: 23503679) Zhu J. … Elledge S.J. (Nat. Biotechnol. 2013) 3 64
  5. A transcriptional profile of the decidua in preeclampsia. (PMID: 20934677) LA … Austgulen R. (Am. J. Obstet. Gynecol. 2011) 3 64

Products for SLITRK4 Gene

Sources for SLITRK4 Gene

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