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Aliases for SLITRK3 Gene

Aliases for SLITRK3 Gene

  • SLIT And NTRK-Like Family, Member 3 2 3
  • KIAA0848 4 6

External Ids for SLITRK3 Gene

Previous GeneCards Identifiers for SLITRK3 Gene

  • GC03M166225
  • GC03M166387
  • GC03M164904
  • GC03M162274

Summaries for SLITRK3 Gene

Entrez Gene Summary for SLITRK3 Gene

  • Members of the SLITRK family, such as SLITRK3, are integral membrane proteins with 2 N-terminal leucine-rich repeat (LRR) domains similar to those of SLIT proteins (see SLIT1; MIM 603742). Most SLITRKs, including SLITRK3, also have C-terminal regions that share homology with neurotrophin receptors (see NTRK1; MIM 191315). SLITRKs are expressed predominantly in neural tissues and have neurite-modulating activity (Aruga et al., 2003 [PubMed 14557068]).[supplied by OMIM, Mar 2008]

GeneCards Summary for SLITRK3 Gene

SLITRK3 (SLIT And NTRK-Like Family, Member 3) is a Protein Coding gene. An important paralog of this gene is LRRC38.

UniProtKB/Swiss-Prot for SLITRK3 Gene

  • Suppresses neurite outgrowth.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SLITRK3 Gene

Genomics for SLITRK3 Gene

Regulatory Elements for SLITRK3 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for SLITRK3 Gene

Start:
165,184,222 bp from pter
End:
165,197,109 bp from pter
Size:
12,888 bases
Orientation:
Minus strand

Genomic View for SLITRK3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SLITRK3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SLITRK3 Gene

Proteins for SLITRK3 Gene

  • Protein details for SLITRK3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O94933-SLIK3_HUMAN
    Recommended name:
    SLIT and NTRK-like protein 3
    Protein Accession:
    O94933
    Secondary Accessions:
    • Q1RMY6

    Protein attributes for SLITRK3 Gene

    Size:
    977 amino acids
    Molecular mass:
    108934 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAA74871.2; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for SLITRK3 Gene

Proteomics data for SLITRK3 Gene at MOPED

Post-translational modifications for SLITRK3 Gene

  • Glycosylation at Asn68 and Asn596
  • Modification sites at PhosphoSitePlus

Other Protein References for SLITRK3 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • Santa Cruz Biotechnology (SCBT) Antibodies for SLITRK3

No data available for DME Specific Peptides for SLITRK3 Gene

Domains for SLITRK3 Gene

Suggested Antigen Peptide Sequences for SLITRK3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O94933

UniProtKB/Swiss-Prot:

SLIK3_HUMAN :
  • O94933
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 SLITRK3: view

No data available for Gene Families for SLITRK3 Gene

Function for SLITRK3 Gene

Molecular function for SLITRK3 Gene

UniProtKB/Swiss-Prot Function: Suppresses neurite outgrowth.

Gene Ontology (GO) - Molecular Function for SLITRK3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding --
genes like me logo Genes that share ontologies with SLITRK3: view

Phenotypes for SLITRK3 Gene

GenomeRNAi human phenotypes for SLITRK3:
genes like me logo Genes that share phenotypes with SLITRK3: view

Animal Model Products

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SLITRK3

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for SLITRK3 Gene

Localization for SLITRK3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SLITRK3 Gene

Membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SLITRK3 Gene COMPARTMENTS Subcellular localization image for SLITRK3 gene
Compartment Confidence
plasma membrane 3
endoplasmic reticulum 1
extracellular 1
mitochondrion 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for SLITRK3 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 SLITRK3: view

Pathways for SLITRK3 Gene

SuperPathways for SLITRK3 Gene

No Data Available

Interacting Proteins for SLITRK3 Gene

STRING Interaction Network Preview (showing 2 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.ENSP00000241274%0d%0a9606.ENSP00000356234%0d%0a9606.ENSP00000264606%0d%0a
Selected Interacting proteins: ENSP00000241274 O94933-SLIK3_HUMAN for SLITRK3 Gene via STRING I2D

Gene Ontology (GO) - Biological Process for SLITRK3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007409 axonogenesis IEA --
genes like me logo Genes that share ontologies with SLITRK3: view

No data available for Pathways by source for SLITRK3 Gene

Transcripts for SLITRK3 Gene

mRNA/cDNA for SLITRK3 Gene

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

Unigene Clusters for SLITRK3 Gene

SLIT and NTRK-like family, member 3:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SLITRK3

Primer Products

  • OriGene qSTAR qPCR primer pairs in human,mouse,rat for SLITRK3

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SLITRK3 Gene

No ASD Table

Relevant External Links for SLITRK3 Gene

GeneLoc Exon Structure for
SLITRK3
ECgene alternative splicing isoforms for
SLITRK3

Expression for SLITRK3 Gene

mRNA expression in normal human tissues for SLITRK3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SLITRK3 Gene

This gene is overexpressed in Fallopian Tube (5.6).

Integrated Proteomics: protein expression from ProteomicsDB and MOPED for SLITRK3 Gene

SOURCE GeneReport for Unigene cluster for SLITRK3 Gene Hs.101745

mRNA Expression by UniProt/SwissProt for SLITRK3 Gene

O94933-SLIK3_HUMAN
Tissue specificity: Expressed in the occipital lobe of the cerebral cortex of the brain. Expressed at higher levels in some astrocytic brain tumors such as astrocytomas, oligodendrogliomas, glioblastomas, gangliogliomas and primitive neuroectodermal tumors.
genes like me logo Genes that share expressions with SLITRK3: view

In Situ Assay Products

Orthologs for SLITRK3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SLITRK3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SLITRK3 35
  • 99.66 (n)
  • 99.8 (a)
SLITRK3 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SLITRK3 35
  • 92.94 (n)
  • 97.54 (a)
SLITRK3 36
  • 97 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SLITRK3 35
  • 93.42 (n)
  • 98.46 (a)
SLITRK3 36
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Slitrk3 35
  • 88.95 (n)
  • 96.42 (a)
Slitrk3 16
Slitrk3 36
  • 96 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SLITRK3 36
  • 94 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SLITRK3 36
  • 88 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Slitrk3 35
  • 89.08 (n)
  • 96.21 (a)
chicken
(Gallus gallus)
Aves SLITRK3 35
  • 78.8 (n)
  • 89.53 (a)
SLITRK3 36
  • 90 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SLITRK3 36
  • 87 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia slitrk3 35
  • 75.74 (n)
  • 85.42 (a)
Str.16425 35
zebrafish
(Danio rerio)
Actinopterygii LOC100334261 35
  • 71.31 (n)
  • 79.49 (a)
SLITRK3 (2 of 2) 36
  • 78 (a)
OneToMany
slitrk3b 36
  • 67 (a)
OneToMany
Species with no ortholog for SLITRK3:
  • 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 SLITRK3 Gene

ENSEMBL:
Gene Tree for SLITRK3 (if available)
TreeFam:
Gene Tree for SLITRK3 (if available)

Paralogs for SLITRK3 Gene

Selected SIMAP similar genes for SLITRK3 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with SLITRK3: view

Variants for SLITRK3 Gene

Sequence variations from dbSNP and Humsavar for SLITRK3 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type MAF
rs2083388 -- 165,184,949(-) ATATC(A/G)AATCA utr-variant-3-prime
rs2311800 -- 165,190,966(+) TTGAA(A/G)TGACA intron-variant
rs3071496 -- 165,187,250(+) tgtgt(A/G)tgtAC utr-variant-3-prime
rs3729576 -- 165,192,215(-) AATGT(G/T)AAGAT intron-variant
rs3752730 -- 165,196,464(-) GTTCA(G/T)CAGTC intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for SLITRK3 Gene

Variant ID Type Subtype PubMed ID
nsv428426 CNV Loss 18775914

Relevant External Links for SLITRK3 Gene

HapMap Linkage Disequilibrium report
SLITRK3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SLITRK3 Gene

Disorders for SLITRK3 Gene

(1) University of Copenhagen DISEASES for SLITRK3 Gene

Relevant External Links for SLITRK3

Genetic Association Database (GAD)
SLITRK3
Human Genome Epidemiology (HuGE) Navigator
SLITRK3
genes like me logo Genes that share disorders with SLITRK3: view

No data available for UniProtKB/Swiss-Prot for SLITRK3 Gene

Publications for SLITRK3 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. Prediction of the coding sequences of unidentified human genes. XII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10048485) Nagase T. … Ohara O. (DNA Res. 1998) 2 3 4
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3
  4. Identification and characterization of Slitrk, a novel neuronal transmembrane protein family controlling neurite outgrowth. (PMID: 14550773) Aruga J. … Mikoshiba K. (Mol. Cell. Neurosci. 2003) 3
  5. The PcG protein hPc2 interacts with the N-terminus of histone demethylase JARID1B and acts as a transcriptional co-repressor. (PMID: 19336002) Zhou W. … Zhang L. (BMB Rep 2009) 3

Products for SLITRK3 Gene

Sources for SLITRK3 Gene

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