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Aliases for SLITRK2 Gene

Aliases for SLITRK2 Gene

  • SLIT And NTRK Like Family Member 2 2 3 5
  • Transmembrane Protein 257 2 3
  • SLITL1 3 4
  • CXorf2 3 4
  • SLIT And NTRK-Like Family, Member 2 2
  • Chromosome X Open Reading Frame 1 2
  • SLIT And NTRK-Like Protein 2 3
  • Slit-Like 1 (Drosophila) 2
  • Slit And Trk Like Gene 2 3
  • Slit-Like 1 3
  • KIAA1854 4
  • TMEM257 3
  • CXorf1 3

External Ids for SLITRK2 Gene

Previous HGNC Symbols for SLITRK2 Gene

  • SLITL1
  • TMEM257
  • CXorf1

Previous GeneCards Identifiers for SLITRK2 Gene

  • GC0XP143567
  • GC0XP144604
  • GC0XP144707
  • GC0XP144900
  • GC0XP133868

Summaries for SLITRK2 Gene

Entrez Gene Summary for SLITRK2 Gene

  • This gene encodes an integral membrane protein that contains two N-terminal leucine-rich repeats domains and contains C-terminal regions similar to neurotrophin receptors. The encoded protein may play a role in modulating neurite activity. Alternatively spliced transcript variants encoding the same protein have been described.[provided by RefSeq, Feb 2010]

GeneCards Summary for SLITRK2 Gene

SLITRK2 (SLIT And NTRK Like Family Member 2) is a Protein Coding gene. Diseases associated with SLITRK2 include Reading Disorder and Specific Developmental Disorder. An important paralog of this gene is SLITRK5.

UniProtKB/Swiss-Prot for SLITRK2 Gene

  • It is involved in synaptogenesis and promotes excitatory synapse differentiation (PubMed:27273464, PubMed:27812321). Suppresses neurite outgrowth (By similarity).

Gene Wiki entry for SLITRK2 Gene

Additional gene information for SLITRK2 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SLITRK2 Gene

Genomics for SLITRK2 Gene

Regulatory Elements for SLITRK2 Gene

Enhancers for SLITRK2 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
GH0XH145848 0.3 FANTOM5 12.9 +30.7 30679 0 SLITRK2 ENSG00000221870 MIR892C
GH0XH145842 0.2 ENCODE 12.5 +25.4 25444 1 SLITRK2 ENSG00000221870 MIR892C
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SLITRK2 on UCSC Golden Path with GeneCards custom track

Genomic Location for SLITRK2 Gene

Chromosome:
X
Start:
145,817,829 bp from pter
End:
145,825,842 bp from pter
Size:
8,014 bases
Orientation:
Plus strand

Genomic View for SLITRK2 Gene

Genes around SLITRK2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SLITRK2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SLITRK2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SLITRK2 Gene

Proteins for SLITRK2 Gene

  • Protein details for SLITRK2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H156-SLIK2_HUMAN
    Recommended name:
    SLIT and NTRK-like protein 2
    Protein Accession:
    Q9H156
    Secondary Accessions:
    • A8K117
    • Q2KHN3
    • Q5JXB1
    • Q8NBC7
    • Q96JH3

    Protein attributes for SLITRK2 Gene

    Size:
    845 amino acids
    Molecular mass:
    95404 Da
    Quaternary structure:
    • Interacts with PTPRD; this interaction is PTPRD splicing-dependent and may induces pre-synaptic differentiation.
    SequenceCaution:
    • Sequence=BAB47483.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for SLITRK2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SLITRK2 Gene

Post-translational modifications for SLITRK2 Gene

  • Glycosylation at Asn84 and isoforms=2421
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for SLITRK2 Gene

Domains & Families for SLITRK2 Gene

Gene Families for SLITRK2 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins

Suggested Antigen Peptide Sequences for SLITRK2 Gene

Graphical View of Domain Structure for InterPro Entry

Q9H156

UniProtKB/Swiss-Prot:

SLIK2_HUMAN :
  • Belongs to the SLITRK family.
Family:
  • Belongs to the SLITRK family.
genes like me logo Genes that share domains with SLITRK2: view

Function for SLITRK2 Gene

Molecular function for SLITRK2 Gene

UniProtKB/Swiss-Prot Function:
It is involved in synaptogenesis and promotes excitatory synapse differentiation (PubMed:27273464, PubMed:27812321). Suppresses neurite outgrowth (By similarity).

Phenotypes for SLITRK2 Gene

genes like me logo Genes that share phenotypes with SLITRK2: view

Animal Model Products

CRISPR Products

miRNA for SLITRK2 Gene

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for SLITRK2
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SLITRK2 Gene

Localization for SLITRK2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SLITRK2 Gene

Membrane; Single-pass type I membrane protein. Cell membrane.

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 SLITRK2 gene
Compartment Confidence
plasma membrane 5
peroxisome 1
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for SLITRK2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SLITRK2: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SLITRK2 Gene

Pathways & Interactions for SLITRK2 Gene

SuperPathways for SLITRK2 Gene

No Data Available

Interacting Proteins for SLITRK2 Gene

STRING Interaction Network Preview (showing 5 interactants - click image to see 25)
http://version10.5.string-db.org/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000359521%0d%0a9606.ENSP00000349932%0d%0a9606.ENSP00000348812%0d%0a9606.ENSP00000353030%0d%0a9606.ENSP00000418112%0d%0a9606.ENSP00000377047%0d%0a
Selected Interacting proteins: ENSP00000359521 Q9H156-SLIK2_HUMAN for SLITRK2 Gene via STRING IID

Gene Ontology (GO) - Biological Process for SLITRK2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007409 axonogenesis IEA,IBA --
GO:0051965 positive regulation of synapse assembly IEA,ISS --
genes like me logo Genes that share ontologies with SLITRK2: view

No data available for Pathways by source and SIGNOR curated interactions for SLITRK2 Gene

Drugs & Compounds for SLITRK2 Gene

No Compound Related Data Available

Transcripts for SLITRK2 Gene

Unigene Clusters for SLITRK2 Gene

SLIT and NTRK-like family, member 2:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for SLITRK2
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for SLITRK2 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b · 3c · 3d ^ 4a · 4b · 4c ^ 5a · 5b · 5c · 5d · 5e · 5f
SP1: - -
SP2: - - - - - -
SP3: - - - -
SP4: - - -
SP5: -
SP6: - - -

Relevant External Links for SLITRK2 Gene

GeneLoc Exon Structure for
SLITRK2
ECgene alternative splicing isoforms for
SLITRK2

Expression for SLITRK2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SLITRK2 Gene

mRNA differential expression in normal tissues according to GTEx for SLITRK2 Gene

This gene is overexpressed in Brain - Nucleus accumbens (basal ganglia) (x4.8), Brain - Caudate (basal ganglia) (x4.4), and Brain - Amygdala (x4.0).

Protein differential expression in normal tissues from HIPED for SLITRK2 Gene

This gene is overexpressed in Bone (62.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SLITRK2 Gene



Protein tissue co-expression partners for SLITRK2 Gene

NURSA nuclear receptor signaling pathways regulating expression of SLITRK2 Gene:

SLITRK2

SOURCE GeneReport for Unigene cluster for SLITRK2 Gene:

Hs.320368

mRNA Expression by UniProt/SwissProt for SLITRK2 Gene:

Q9H156-SLIK2_HUMAN
Tissue specificity: Expressed predominantly in the cerebral cortex of the brain but also at low levels in the spinal cord and medulla. Also expressed in some astrocytic brain tumors such as astrocytomas, oligodendrogliomas, glioblastomas, gangliogliomas and primitive neuroectodermal tumors.

Evidence on tissue expression from TISSUES for SLITRK2 Gene

  • Nervous system(3.2)
genes like me logo Genes that share expression patterns with SLITRK2: view

Primer Products

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for SLITRK2 Gene

Orthologs for SLITRK2 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SLITRK2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SLITRK2 33
  • 99.52 (n)
dog
(Canis familiaris)
Mammalia SLITRK2 33 34
  • 91.24 (n)
mouse
(Mus musculus)
Mammalia Slitrk2 33 16 34
  • 90.77 (n)
rat
(Rattus norvegicus)
Mammalia Slitrk2 33
  • 90.65 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia SLITRK2 34
  • 90 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SLITRK2 33 34
  • 88.98 (n)
chicken
(Gallus gallus)
Aves SLITRK2 33 34
  • 77.63 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia slitrk2 33
  • 74.6 (n)
zebrafish
(Danio rerio)
Actinopterygii slitrk2 33 34
  • 68.61 (n)
Species where no ortholog for SLITRK2 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • 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 SLITRK2 Gene

ENSEMBL:
Gene Tree for SLITRK2 (if available)
TreeFam:
Gene Tree for SLITRK2 (if available)

Paralogs for SLITRK2 Gene

Paralogs for SLITRK2 Gene

(8) SIMAP similar genes for SLITRK2 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with SLITRK2: view

Variants for SLITRK2 Gene

Sequence variations from dbSNP and Humsavar for SLITRK2 Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type
rs1001861008 -- 145,824,828(+) AAAAC(C/T)GTTTT reference, synonymous-codon
rs1001870773 -- 145,825,243(+) CTACA(A/G)TGCAT utr-variant-3-prime
rs1002479083 -- 145,816,303(+) ACACT(A/G)CCCAC upstream-variant-2KB
rs1002869356 -- 145,826,960(+) GTGTG(C/T)ATATA upstream-variant-2KB, utr-variant-3-prime
rs1003076670 -- 145,818,554(+) GTTTA(C/G)AAGAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SLITRK2 Gene

Variant ID Type Subtype PubMed ID
nsv1075337 CNV deletion 25765185

Variation tolerance for SLITRK2 Gene

Residual Variation Intolerance Score: 2.96% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.81; 66.95% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SLITRK2 Gene

Human Gene Mutation Database (HGMD)
SLITRK2
SNPedia medical, phenotypic, and genealogical associations of SNPs for
SLITRK2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SLITRK2 Gene

Disorders for SLITRK2 Gene

MalaCards: The human disease database

(4) MalaCards diseases for SLITRK2 Gene - From: HGMD and DISEASES

Disorder Aliases PubMed IDs
reading disorder
  • dyslexia
specific developmental disorder
learning disability
  • academic skill disorder
disease of mental health
  • mental health
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for SLITRK2

Genetic Association Database (GAD)
SLITRK2
Human Genome Epidemiology (HuGE) Navigator
SLITRK2
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SLITRK2
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SLITRK2
genes like me logo Genes that share disorders with SLITRK2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SLITRK2 Gene

Publications for SLITRK2 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 60
  2. Prediction of the coding sequences of unidentified human genes. XX. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 11347906) Nagase T … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 2001) 2 3 4 60
  3. Systematic resequencing of X-chromosome synaptic genes in autism spectrum disorder and schizophrenia. (PMID: 20479760) Piton A … Rouleau GA (Molecular psychiatry 2011) 3 4 60
  4. Genome-wide association study of bipolar disorder in European American and African American individuals. (PMID: 19488044) Smith EN … Kelsoe JR (Molecular psychiatry 2009) 3 45 60
  5. The DNA sequence of the human X chromosome. (PMID: 15772651) Ross MT … Bentley DR (Nature 2005) 3 4 60

Products for SLITRK2 Gene

Sources for SLITRK2 Gene

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