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Aliases for SLITRK4 Gene

Aliases for SLITRK4 Gene

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

External Ids for SLITRK4 Gene

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 SLITRK3.

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

Genomic Location for SLITRK4 Gene

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

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SLITRK4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SLITRK4 Gene

Regulatory Elements 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

Proteomics data for SLITRK4 Gene at MOPED

Post-translational modifications for SLITRK4 Gene

  • Modification sites at PhosphoSitePlus
  • Glycosylation at Asn81, Thr301, Thr306, Thr307, and Asn325

Other Protein References for SLITRK4 Gene

No data available for DME Specific Peptides for SLITRK4 Gene

Domains for SLITRK4 Gene

UniProtKB/Swiss-Prot:

SLIK4_HUMAN
Domain:
  • Contains 2 LRRCT domains.:
    • Q8IW52
  • Contains 1 LRRNT domain.:
    • Q8IW52
Family:
  • Belongs to the SLITRK family.:
    • Q8IW52
Similarity:
  • Contains 12 LRR (leucine-rich) repeats.:
    • Q8IW52
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.

Gene Ontology (GO) - Molecular Function for SLITRK4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding --
genes like me logo Genes that share ontologies with SLITRK4: view

Phenotypes for SLITRK4 Gene

GenomeRNAi human phenotypes for SLITRK4:
genes like me logo Genes that share phenotypes with SLITRK4: view

miRNA for SLITRK4 Gene

miRTarBase miRNAs that target SLITRK4

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting 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
Jensen Localization Image for SLITRK4 Gene COMPARTMENTS Subcellular localization image for SLITRK4 gene
Compartment Confidence
plasma membrane 3
endoplasmic reticulum 2
extracellular 2
peroxisome 1

Gene Ontology (GO) - Cellular Components for SLITRK4 Gene

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

Pathways 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 for SLITRK4 Gene via STRING

Symbol External ID(s) Details
UBC

Gene Ontology (GO) - Biological Process for SLITRK4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007409 axonogenesis IEA --
genes like me logo Genes that share ontologies with SLITRK4: view

No data available for Pathways by source for SLITRK4 Gene

Transcripts for SLITRK4 Gene

mRNA/cDNA for SLITRK4 Gene

(5) REFSEQ mRNAs :
(5) Additional mRNA sequences :
(14) Selected AceView cDNA sequences:
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for SLITRK4 Gene

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

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 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 (4.9), Brain - Frontal Cortex (BA9) (4.5), Muscle - Skeletal (4.4), Adrenal Gland (4.3), and Brain - Cerebellum (4.2).

Integrated Proteomics: protein expression from ProteomicsDB and MOPED for SLITRK4 Gene

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 expressions with SLITRK4: view

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 36
  • 98.02 (n)
  • 97.63 (a)
SLITRK4 37
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SLITRK4 36
  • 90.71 (n)
  • 97.49 (a)
SLITRK4 37
  • 97 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SLITRK4 36
  • 91.84 (n)
  • 97.73 (a)
SLITRK4 37
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Slitrk4 36
  • 90.96 (n)
  • 97.25 (a)
Slitrk4 16
Slitrk4 37
  • 97 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SLITRK4 37
  • 89 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SLITRK4 37
  • 90 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Slitrk4 36
  • 91.35 (n)
  • 97.49 (a)
chicken
(Gallus gallus)
Aves SLITRK4 36
  • 81.24 (n)
  • 91.04 (a)
SLITRK4 37
  • 91 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SLITRK4 37
  • 89 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia slitrk4 36
  • 75.52 (n)
  • 85.41 (a)
zebrafish
(Danio rerio)
Actinopterygii slitrk4 36
  • 68.96 (n)
  • 73.91 (a)
SLITRK4 37
  • 74 (a)
OneToOne
Species with no ortholog for SLITRK4:
  • 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

Selected 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 MAF
rs761700 -- 143,637,426(-) GCAAT(A/G)TGGAG upstream-variant-2KB
rs761701 -- 143,636,636(-) CTGCT(A/C)CCCTC upstream-variant-2KB
rs993478 -- 143,624,134(-) AATAC(A/G)GTGGG utr-variant-3-prime
rs1005350 -- 143,634,794(+) TGTGC(C/G)TGCGT intron-variant, upstream-variant-2KB
rs2144339 -- 143,622,474(-) TTTTT(C/T)TTTTC downstream-variant-500B

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

Relevant External Links for SLITRK4 Gene

HapMap Linkage Disequilibrium report
SLITRK4
Locus Specific Mutation Databases (LSDB)
SLITRK4

Disorders for SLITRK4 Gene

(1) University of Copenhagen DISEASES for SLITRK4 Gene

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

No data available for UniProtKB/Swiss-Prot 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 23
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  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
  4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K. … Sugano S. (Genome Res. 2006) 3
  5. A transcriptional profile of the decidua in preeclampsia. (PMID: 20934677) LA … Austgulen R. (Am. J. Obstet. Gynecol. 2011) 3

Products for SLITRK4 Gene

Sources for SLITRK4 Gene

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