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SLITRK1 Gene(Protein Coding)

SLIT And NTRK Like Family Member 1

GCID:
GC13M083877
GIFtS:
60
Genes Participants
UDN Logo

Aliases for SLITRK1 Gene

Aliases for SLITRK1 Gene

  • SLIT And NTRK Like Family Member 1 2 3 5
  • Leucine-Rich Repeat-Containing Protein 12 3 4
  • SLIT And NTRK-Like Family, Member 1 2 3
  • LRRC12 3 4
  • Leucine Rich Repeat Containing 12 2
  • Slit And Trk Like Gene 1 3
  • KIAA1910 4
  • TTM 3

External Ids for SLITRK1 Gene

Previous HGNC Symbols for SLITRK1 Gene

  • LRRC12

Previous GeneCards Identifiers for SLITRK1 Gene

  • GC13M082251
  • GC13M082249
  • GC13M083349
  • GC13M084451
  • GC13M065151

Summaries for SLITRK1 Gene

Entrez Gene Summary for SLITRK1 Gene

  • This gene encodes a member of the SLITRK protein family. Members of this family are integral membrane proteins that are characterized by two N-terminal leucine-rich repeat (LRR) domains and a C-terminal region that shares homology with trk neurotrophin receptors. However, the protein encoded by this gene lacks the region of homology to neurotrophin receptors. This protein is thought to be involved in neurite outgrowth. Mutations in this gene may be associated with Tourette syndrome. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2013]

GeneCards Summary for SLITRK1 Gene

SLITRK1 (SLIT And NTRK Like Family Member 1) is a Protein Coding gene. Diseases associated with SLITRK1 include Gilles De La Tourette Syndrome and Trichotillomania. An important paralog of this gene is SLITRK4.

UniProtKB/Swiss-Prot for SLITRK1 Gene

  • Enhances neuronal dendrite outgrowth.

Gene Wiki entry for SLITRK1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SLITRK1 Gene

Genomics for SLITRK1 Gene

Products:

  1. Regulatory Element

Regulatory Elements for SLITRK1 Gene

Enhancers for SLITRK1 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around SLITRK1 on UCSC Golden Path with GeneCards custom track

Transcription factor binding sites by QIAGEN in the SLITRK1 gene promoter:

Genomic Location for SLITRK1 Gene

Chromosome:
13
Start:
83,877,205 bp from pter
End:
83,882,393 bp from pter
Size:
5,189 bases
Orientation:
Minus strand

Genomic View for SLITRK1 Gene

Genes around SLITRK1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SLITRK1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SLITRK1 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for SLITRK1 Gene

Proteins for SLITRK1 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for SLITRK1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96PX8-SLIK1_HUMAN
    Recommended name:
    SLIT and NTRK-like protein 1
    Protein Accession:
    Q96PX8
    Secondary Accessions:
    • Q5U5I6
    • Q96SF9

    Protein attributes for SLITRK1 Gene

    Size:
    696 amino acids
    Molecular mass:
    77735 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAB67803.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SLITRK1 Gene

neXtProt entry for SLITRK1 Gene

Proteomics data for SLITRK1 Gene at MOPED

Protein Expression for SLITRK1 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for SLITRK1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SLITRK1 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

No data available for DME Specific Peptides for SLITRK1 Gene

Domains & Families for SLITRK1 Gene

Protein Domains for SLITRK1 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for SLITRK1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q96PX8

UniProtKB/Swiss-Prot:

SLIK1_HUMAN :
  • Contains 2 LRRCT domains.
  • Belongs to the SLITRK family.
  • Contains 12 LRR (leucine-rich) repeats.
Domain:
  • Contains 2 LRRCT domains.
  • Contains 2 LRRNT domains.
Family:
  • Belongs to the SLITRK family.
Similarity:
  • Contains 12 LRR (leucine-rich) repeats.
genes like me logo Genes that share domains with SLITRK1: view

No data available for Gene Families for SLITRK1 Gene

Function for SLITRK1 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line
  7. Flow Cytometry

Molecular function for SLITRK1 Gene

UniProtKB/Swiss-Prot Function:
Enhances neuronal dendrite outgrowth.

Phenotypes for SLITRK1 Gene

MGI mutant phenotypes for SLITRK1:
inferred from 2 alleles
genes like me logo Genes that share phenotypes with SLITRK1: view

Human Phenotype Ontology for SLITRK1 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for SLITRK1 Gene

MGI Knock Outs for SLITRK1:

Animal Model Products

  • Taconic Biosciences Mouse Models for SLITRK1

CRISPR Products

miRNA for SLITRK1 Gene

miRTarBase miRNAs that target SLITRK1

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Transcription Factor Targets and HOMER Transcription for SLITRK1 Gene

Localization for SLITRK1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SLITRK1 Gene

Membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SLITRK1 Gene COMPARTMENTS Subcellular localization image for SLITRK1 gene
Compartment Confidence
plasma membrane 3
endoplasmic reticulum 1
extracellular 1

No data available for Gene Ontology (GO) - Cellular Components for SLITRK1 Gene

Pathways & Interactions for SLITRK1 Gene

SuperPathways for SLITRK1 Gene

PathCards logoMore details on SuperPathways for SLITRK1
No Data Available

Interacting Proteins for SLITRK1 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.ENSP00000366288%0d%0a9606.ENSP00000300161%0d%0a
Selected Interacting proteins: Q96PX8-SLIK1_HUMAN ENSP00000366288 for SLITRK1 Gene via MINT STRING I2D

Gene Ontology (GO) - Biological Process for SLITRK1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007399 nervous system development IEA --
GO:0007409 axonogenesis IEA,IBA --
GO:0042592 homeostatic process IEA --
GO:0051965 positive regulation of synapse assembly IEA --
genes like me logo Genes that share ontologies with SLITRK1: view

No data available for Pathways by source and SIGNOR curated interactions for SLITRK1 Gene

Drugs & Compounds for SLITRK1 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for SLITRK1 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone
  5. Flow Cytometry

mRNA/cDNA for SLITRK1 Gene

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

Unigene Clusters for SLITRK1 Gene

SLIT and NTRK-like family, member 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SLITRK1 Gene

No ASD Table

Relevant External Links for SLITRK1 Gene

GeneLoc Exon Structure for
SLITRK1
ECgene alternative splicing isoforms for
SLITRK1

Expression for SLITRK1 Gene

Products:

  1. Primer

mRNA expression in normal human tissues for SLITRK1 Gene

mRNA expression in normal human tissues for SLITRK1 Gene
mRNA expression by BioGPS for SLITRK1 GenemRNA expression by GTEx for SLITRK1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SLITRK1 Gene

This gene is overexpressed in Brain - Frontal Cortex (BA9) (x8.8), Brain - Anterior cingulate cortex (BA24) (x7.8), Brain - Cortex (x7.5), Brain - Hippocampus (x5.0), and Brain - Amygdala (x4.9).

Protein differential expression in normal tissues from HIPED for SLITRK1 Gene

This gene is overexpressed in Cerebrospinal fluid (32.2), Serum (12.7), Lung (11.9), and Kidney (8.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for SLITRK1 Gene



SOURCE GeneReport for Unigene cluster for SLITRK1 Gene Hs.415478

mRNA Expression by UniProt/SwissProt for SLITRK1 Gene

Q96PX8-SLIK1_HUMAN
Tissue specificity: Expressed predominantly in the frontal lobe of the cerebral cortex of the brain. Also expressed in some astrocytic brain tumors such as astrocytomas, oligodendrogliomas, glioblastomas, gangliogliomas and primitive neuroectodermal tumors.
genes like me logo Genes that share expression patterns with SLITRK1: view

Primer Products

No data available for Protein tissue co-expression partners for SLITRK1 Gene

Orthologs for SLITRK1 Gene

This gene was present in the common ancestor of animals.

Orthologs for SLITRK1 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
 Mammalia SLITRK1 35
  • 95.45 (n)
  • 99.14 (a)
SLITRK1 36
  • 99 (a)
 OneToOne
dog
(Canis familiaris)
 Mammalia SLITRK1 35
  • 94.92 (n)
  • 99.28 (a)
SLITRK1 36
  • 99 (a)
 OneToOne
mouse
(Mus musculus)
 Mammalia Slitrk1 35
  • 92.91 (n)
  • 97.56 (a)
Slitrk1 16
Slitrk1 36
  • 98 (a)
 OneToOne
chimpanzee
(Pan troglodytes)
 Mammalia SLITRK1 35
  • 99.81 (n)
  • 99.86 (a)
SLITRK1 36
  • 100 (a)
 OneToOne
rat
(Rattus norvegicus)
 Mammalia Slitrk1 35
  • 92.53 (n)
  • 97.41 (a)
oppossum
(Monodelphis domestica)
 Mammalia SLITRK1 36
  • 92 (a)
 OneToOne
platypus
(Ornithorhynchus anatinus)
 Mammalia -- 36
  • 2 (a)
 ManyToMany
-- 36
  • 1 (a)
 ManyToMany
chicken
(Gallus gallus)
 Aves SLITRK1 35
  • 81.36 (n)
  • 89.31 (a)
SLITRK1 36
  • 89 (a)
 OneToOne
lizard
(Anolis carolinensis)
 Reptilia SLITRK1 36
  • 85 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia slitrk1 35
  • 74.92 (n)
  • 83.88 (a)
zebrafish
(Danio rerio)
 Actinopterygii LOC558743 35
  • 69 (n)
  • 72.59 (a)
SLITRK1 36
  • 71 (a)
 OneToOne
fruit fly
(Drosophila melanogaster)
 Insecta sli 36
  • 10 (a)
 OneToMany
worm
(Caenorhabditis elegans)
 Secernentea slt-1 36
  • 10 (a)
 OneToMany
sea squirt
(Ciona savignyi)
 Ascidiacea -- 36
  • 16 (a)
 OneToMany
Species with no ortholog for SLITRK1:
  • 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)
  • 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 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)

Evolution for SLITRK1 Gene

ENSEMBL:
Gene Tree for SLITRK1 (if available)
TreeFam:
Gene Tree for SLITRK1 (if available)

Paralogs for SLITRK1 Gene

Paralogs for SLITRK1 Gene

(6) SIMAP similar genes for SLITRK1 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with SLITRK1: view

Variants for SLITRK1 Gene

Sequence variations from dbSNP and Humsavar for SLITRK1 Gene

SNP ID Clin Chr 13 pos Sequence Context AA Info Type
rs7491932 - 83,879,854(+) CATCA(G/T)CACTT reference, missense
rs3164 -- 83,877,374(+) ATATT(A/T)AAAAA utr-variant-3-prime
rs1046202 -- 83,877,375(-) TTTTT(A/T)TAATA utr-variant-3-prime
rs3737193 -- 83,878,283(+) CCATT(A/G)TAAAA utr-variant-3-prime
rs7987469 -- 83,878,032(+) AAAGT(C/T)Tgagc utr-variant-3-prime

Variation tolerance for SLITRK1 Gene

Residual Variation Intolerance Score: 15.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.22; 24.41% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SLITRK1 Gene

Human Gene Mutation Database (HGMD)
SLITRK1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for SLITRK1 Gene

Disorders for SLITRK1 Gene

MalaCards: The human disease database

(10) MalaCards diseases for SLITRK1 Gene - From: OMIM, ClinVar, GeneTests, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
gilles de la tourette syndrome
  • tourette syndrome
trichotillomania
  • hair-pulling syndrome
obsessive-compulsive disorder
  • obsessive-compulsive disorder, protection against
impulse control disorder
  • disruptive, impulse control, and conduct disorders
stereotypic movement disorder
  • stereotyped repetitive movements nos
- elite association - COSMIC cancer census association via MalaCards

UniProtKB/Swiss-Prot

SLIK1_HUMAN
  • Gilles de la Tourette syndrome (GTS) [MIM:137580]: Neurologic disorder manifested particularly by motor and vocal tics and associated with behavioral abnormalities. {ECO:0000269 PubMed:16224024}. Note=The disease may be caused by mutations affecting the gene represented in this entry.
  • Trichotillomania (TTM) [MIM:613229]: A neuropsychiatric disorder characterized by chronic, repetitive, or compulsive hair pulling resulting in noticeable hair loss. Affected individuals may develop physical complications and often have overlapping psychological disorders, such as Gilles de la Tourette syndrome or obsessive-compulsive disorder. {ECO:0000269 PubMed:16224024}. Note=The disease may be caused by mutations affecting the gene represented in this entry.

Relevant External Links for SLITRK1

Genetic Association Database (GAD)
SLITRK1
Human Genome Epidemiology (HuGE) Navigator
SLITRK1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SLITRK1
genes like me logo Genes that share disorders with SLITRK1: view

No data available for Genatlas for SLITRK1 Gene

Publications for SLITRK1 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 67
  2. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark H.F. … Gray A.M. (Genome Res. 2003) 2 3
  3. Genome-wide association study combining pathway analysis for typical sporadic amyotrophic lateral sclerosis in Chinese Han populations. (PMID: 24529757) Xie T. … Xu R. (Neurobiol. Aging 2014) 3
  4. A genome-wide search for quantitative trait loci affecting the cortical surface area and thickness of Heschl's gyrus. (PMID: 25130324) Cai D.C. … Hagoort P. (Genes Brain Behav. 2014) 3
  5. Genome-wide association study of irritable vs. elated mania suggests genetic differences between clinical subtypes of bipolar disorder. (PMID: 23326512) Greenwood T.A. … Kelsoe J.R. (PLoS ONE 2013) 3

Products for SLITRK1 Gene

Sources for SLITRK1 Gene

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