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

Gene ID: 26050, updated on 3-Nov-2024

Summary

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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
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Genomic context

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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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Association study of the SLITRK5 gene and Tourette syndrome. Zhang K, et al. Psychiatr Genet, 2015 Feb. PMID 25426764
  2. Rare Synaptogenesis-Impairing Mutations in SLITRK5 Are Associated with Obsessive Compulsive Disorder. Song M, et al. PLoS One, 2017. PMID 28085938, Free PMC Article
  3. The Role of SliTrk5 in Central Nervous System. Liu Y, et al. Biomed Res Int, 2022. PMID 35872846, Free PMC Article
  4. SLITRK5 is a negative regulator of hedgehog signaling in osteoblasts. Sun J, et al. Nat Commun, 2021 Jul 29. PMID 34326333, Free PMC Article
  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 (38) 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

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

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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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

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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)

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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

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