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SLITRK4 SLIT and NTRK like family member 4 [ Homo sapiens (human) ]

Gene ID: 139065, updated on 18-Aug-2020

Summary

Official Symbol
SLITRK4provided by HGNC
Official Full Name
SLIT and NTRK like family member 4provided by HGNC
Primary source
HGNC:HGNC:23502
See related
Ensembl:ENSG00000179542 MIM:300562
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This gene encodes a transmembrane protein belonging to the the SLITRK family. These family members include two N-terminal leucine-rich repeat domains similar to those found in the axonal growth-controlling protein SLIT, as well as C-terminal regions similar to neurotrophin receptors. Studies of an homologous protein in mouse suggest that this family member functions to suppress neurite outgrowth. Alternative splicing results in multiple transcript variants. [provided by RefSeq, May 2010]
Expression
Biased expression in adrenal (RPKM 4.6), brain (RPKM 4.3) and 9 other tissues See more
Orthologs

Genomic context

See SLITRK4 in Genome Data Viewer
Location:
Xq27.3
Exon count:
6
Annotation release Status Assembly Chr Location
109.20200815 current GRCh38.p13 (GCF_000001405.39) X NC_000023.11 (143622790..143636101, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (142710595..142723926, complement)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene SPANX family member N3 Neighboring gene MYCL pseudogene 3 Neighboring gene heterogeneous nuclear ribonucleoprotein H1 pseudogene 2 Neighboring gene SPANX family member N2

Genomic regions, transcripts, and products

Expression

  • Project title: 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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • DKFZp547M2010

Gene Ontology Provided by GOA

Process Evidence Code Pubs
axonogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of synapse assembly IEA
Inferred from Electronic Annotation
more info
 
regulation of presynapse assembly IEA
Inferred from Electronic Annotation
more info
 
regulation of synapse organization IDA
Inferred from Direct Assay
more info
PubMed 
regulation of synapse organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
glutamatergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
glutamatergic synapse IMP
Inferred from Mutant Phenotype
more info
PubMed 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
SLIT and NTRK-like protein 4
Names
slit and trk like gene 4

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_021344.2 RefSeqGene

    Range
    6021..18322
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001184749.3NP_001171678.1  SLIT and NTRK-like protein 4 precursor

    See identical proteins and their annotated locations for NP_001171678.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2 and 3 encode the same protein.
    Source sequence(s)
    AC239921
    Consensus CDS
    CCDS14679.1
    UniProtKB/Swiss-Prot
    Q8IW52
    Related
    ENSP00000349400.1, ENST00000356928.2
    Conserved Domains (4) summary
    TIGR00864
    Location:502563
    PCC; polycystin cation channel protein
    smart00082
    Location:213253
    LRRCT; Leucine rich repeat C-terminal domain
    sd00033
    Location:109132
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:402461
    LRR_8; Leucine rich repeat
  2. NM_001184750.2NP_001171679.1  SLIT and NTRK-like protein 4 precursor

    See identical proteins and their annotated locations for NP_001171679.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1, 2 and 3 encode the same protein.
    Source sequence(s)
    AC239921
    Consensus CDS
    CCDS14679.1
    UniProtKB/Swiss-Prot
    Q8IW52
    Related
    ENSP00000469205.1, ENST00000596188.2
    Conserved Domains (4) summary
    TIGR00864
    Location:502563
    PCC; polycystin cation channel protein
    smart00082
    Location:213253
    LRRCT; Leucine rich repeat C-terminal domain
    sd00033
    Location:109132
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:402461
    LRR_8; Leucine rich repeat
  3. NM_173078.5NP_775101.1  SLIT and NTRK-like protein 4 precursor

    See identical proteins and their annotated locations for NP_775101.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1, 2 and 3 encode the same protein.
    Source sequence(s)
    AC239921
    Consensus CDS
    CCDS14679.1
    UniProtKB/Swiss-Prot
    Q8IW52
    Related
    ENSP00000336627.4, ENST00000338017.8
    Conserved Domains (4) summary
    TIGR00864
    Location:502563
    PCC; polycystin cation channel protein
    smart00082
    Location:213253
    LRRCT; Leucine rich repeat C-terminal domain
    sd00033
    Location:109132
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:402461
    LRR_8; Leucine rich repeat

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20200815

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p13 Primary Assembly

    Range
    143622790..143636101 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011531265.2XP_011529567.1  SLIT and NTRK-like protein 4 isoform X1

    See identical proteins and their annotated locations for XP_011529567.1

    UniProtKB/Swiss-Prot
    Q8IW52
    Conserved Domains (4) summary
    TIGR00864
    Location:502563
    PCC; polycystin cation channel protein
    smart00082
    Location:213253
    LRRCT; Leucine rich repeat C-terminal domain
    sd00033
    Location:109132
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:402461
    LRR_8; Leucine rich repeat
  2. XM_005262365.4XP_005262422.1  SLIT and NTRK-like protein 4 isoform X1

    See identical proteins and their annotated locations for XP_005262422.1

    UniProtKB/Swiss-Prot
    Q8IW52
    Conserved Domains (4) summary
    TIGR00864
    Location:502563
    PCC; polycystin cation channel protein
    smart00082
    Location:213253
    LRRCT; Leucine rich repeat C-terminal domain
    sd00033
    Location:109132
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:402461
    LRR_8; Leucine rich repeat
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