U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    SLITRK5 SLIT and NTRK like family member 5 [ Homo sapiens (human) ]

    Gene ID: 26050, updated on 28-Oct-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    SLITRK5provided by HGNC
    Official Full Name
    SLIT and NTRK like family member 5provided by HGNC
    Primary source
    HGNC:HGNC:20295
    See related
    Ensembl:ENSG00000165300 MIM:609680; AllianceGenome:HGNC:20295
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    LRRC11; bA364G4.2
    Summary
    Members of the SLITRK family, such as SLITRK5, 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 SLITRK5, 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]
    Expression
    Biased expression in brain (RPKM 5.9), thyroid (RPKM 2.1) and 4 other tissues See more
    Orthologs
    mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See SLITRK5 in Genome Data Viewer
    Location:
    13q31.2
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (87671371..87679616)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (86874975..86899840)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (88323626..88331871)

    Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene MIR4500 host gene Neighboring gene formin-like protein 5 Neighboring gene NADH-ubiquinone oxidoreductase chain 5-like Neighboring gene microRNA 4500 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr13:88323353-88323854 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr13:88326279-88327478 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:88328791-88329333 Neighboring gene uncharacterized LOC112268106 Neighboring gene nudix hydrolase 21 pseudogene 1

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. The Role of SliTrk5 in Central Nervous System. Liu Y, et al. Biomed Res Int, 2022. PMID 35872846, Free PMC Article
    2. Association study of the SLITRK5 gene and Tourette syndrome. Zhang K, et al. Psychiatr Genet, 2015 Feb. PMID 25426764
    3. Rare Synaptogenesis-Impairing Mutations in SLITRK5 Are Associated with Obsessive Compulsive Disorder. Song M, et al. PLoS One, 2017. PMID 28085938, Free PMC Article
    4. Upregulation of SLITRK5 in patients with epilepsy and in a rat model. Liu Y, et al. Synapse, 2023 Jul. PMID 36811190
    5. MUC21 controls melanoma progression via regulating SLITRK5 and hedgehog signaling pathway. Liu X, et al. Cell Biol Int, 2022 Sep. PMID 35579188

    See all (37) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Upregulation of SLITRK5 in patients with epilepsy and in a rat model.
      Title: Upregulation of SLITRK5 in patients with epilepsy and in a rat model.
    2. MUC21 controls melanoma progression via regulating SLITRK5 and hedgehog signaling pathway.
      Title: MUC21 controls melanoma progression via regulating SLITRK5 and hedgehog signaling pathway.
    3. The Role of SliTrk5 in Central Nervous System.
      Title: The Role of SliTrk5 in Central Nervous System.
    4. SLITRK5 is a negative regulator of hedgehog signaling in osteoblasts.
      Title: SLITRK5 is a negative regulator of hedgehog signaling in osteoblasts.
    5. Mutation in SLITRK5 gene is Associated with Obsessive Compulsive Disorder
      Title: Rare Synaptogenesis-Impairing Mutations in SLITRK5 Are Associated with Obsessive Compulsive Disorder.
    6. This study did not find any evidence supporting the association of Tourette syndrome and SLITRK5.
      Title: Association study of the SLITRK5 gene and Tourette syndrome.
    Submit: New GeneRIF Correction

    Phenotypes

    Go to the top of the page Help

    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

    Go to the top of the page Help

    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • FLJ58374, KIAA0918

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in adult behavior IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in axonogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in chemical synaptic transmission IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in circulatory system development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in dendrite morphogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in grooming behavior IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of synapse assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of presynapse assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of trans-synaptic signaling by BDNF, modulating synaptic transmission IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in response to xenobiotic stimulus IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in skin development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in striatum development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in synaptic membrane adhesion IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in synaptic membrane adhesion IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in glutamatergic synapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
    		  
    located_in postsynaptic density membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of receptor complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    SLIT and NTRK-like protein 5
    Names
    leucine rich repeat containing 11
    leucine-rich repeat-containing protein 11
    slit and trk like gene 5

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001384609.1 → NP_001371538.1  SLIT and NTRK-like protein 5 precursor

      Status: VALIDATED

      Source sequence(s)
      AL603883
      Consensus CDS
      CCDS9465.1
      UniProtKB/Swiss-Prot
      B3KNB8, B4DSH5, O94991, Q5VT81
      UniProtKB/TrEMBL
      Q4QQH1
      Related
      ENSP00000508338.1, ENST00000683689.1
      Conserved Domains (6) summary
      COG4886
      Location:72 → 319
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:435 → 458
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:62 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:129 → 189
      LRR_8; Leucine rich repeat
      cd21340
      Location:391 → 563
      PPP1R42; protein phosphatase 1 regulatory subunit 42
      cl15307
      Location:563 → 599
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

    2. NM_001384610.1 → NP_001371539.1  SLIT and NTRK-like protein 5 precursor

      Status: VALIDATED

      Source sequence(s)
      AL603883
      Consensus CDS
      CCDS9465.1
      UniProtKB/Swiss-Prot
      B3KNB8, B4DSH5, O94991, Q5VT81
      UniProtKB/TrEMBL
      Q4QQH1
      Conserved Domains (6) summary
      COG4886
      Location:72 → 319
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:435 → 458
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:62 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:129 → 189
      LRR_8; Leucine rich repeat
      cd21340
      Location:391 → 563
      PPP1R42; protein phosphatase 1 regulatory subunit 42
      cl15307
      Location:563 → 599
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

    3. NM_015567.2 → NP_056382.1  SLIT and NTRK-like protein 5 precursor

      See identical proteins and their annotated locations for NP_056382.1

      Status: VALIDATED

      Source sequence(s)
      AB020725, AK024251, AL603883, AW449813
      Consensus CDS
      CCDS9465.1
      UniProtKB/Swiss-Prot
      B3KNB8, B4DSH5, O94991, Q5VT81
      UniProtKB/TrEMBL
      Q4QQH1
      Related
      ENSP00000366283.2, ENST00000325089.7
      Conserved Domains (6) summary
      COG4886
      Location:72 → 319
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:435 → 458
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:62 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:129 → 189
      LRR_8; Leucine rich repeat
      cd21340
      Location:391 → 563
      PPP1R42; protein phosphatase 1 regulatory subunit 42
      cl15307
      Location:563 → 599
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000013.11 Reference GRCh38.p14 Primary Assembly

      Range
      87671371..87679616
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060937.1 Alternate T2T-CHM13v2.0

      Range
      86874975..86899840
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054374417.1 → XP_054230392.1  SLIT and NTRK-like protein 5 isoform X1

      UniProtKB/Swiss-Prot
      B3KNB8, B4DSH5, O94991, Q5VT81

    2. XM_054374420.1 → XP_054230395.1  SLIT and NTRK-like protein 5 isoform X1

      UniProtKB/Swiss-Prot
      B3KNB8, B4DSH5, O94991, Q5VT81

    3. XM_054374421.1 → XP_054230396.1  SLIT and NTRK-like protein 5 isoform X1

      UniProtKB/Swiss-Prot
      B3KNB8, B4DSH5, O94991, Q5VT81

    4. XM_054374418.1 → XP_054230393.1  SLIT and NTRK-like protein 5 isoform X1

      UniProtKB/Swiss-Prot
      B3KNB8, B4DSH5, O94991, Q5VT81

    5. XM_054374419.1 → XP_054230394.1  SLIT and NTRK-like protein 5 isoform X1

      UniProtKB/Swiss-Prot
      B3KNB8, B4DSH5, O94991, Q5VT81
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O94991.2 GenPept UniProtKB/Swiss-Prot:O94991

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous