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SLITRK2 SLIT and NTRK like family member 2 [ Homo sapiens (human) ]

Gene ID: 84631, updated on 18-Aug-2020

Summary

Official Symbol
SLITRK2provided by HGNC
Official Full Name
SLIT and NTRK like family member 2provided by HGNC
Primary source
HGNC:HGNC:13449
See related
Ensembl:ENSG00000185985 MIM:300561
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
Also known as
CXorf1; CXorf2; SLITL1; TMEM257
Summary
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]
Expression
Biased expression in brain (RPKM 6.9), spleen (RPKM 1.8) and 2 other tissues See more
Orthologs

Genomic context

See SLITRK2 in Genome Data Viewer
Location:
Xq27.3
Exon count:
5
Annotation release Status Assembly Chr Location
109.20200815 current GRCh38.p13 (GCF_000001405.39) X NC_000023.11 (145817829..145829856)
105 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (144899347..144907360)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene TRMT1 pseudogene 1 Neighboring gene UFM1 pseudogene 1 Neighboring gene uncharacterized LOC107985703 Neighboring gene microRNA 892c

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

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of SLITRK2 (CXorf1) by shRNA library screening inhibits HIV-1 replication in cultured Jurkat T-cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA1854, MGC129912, MGC129913, MGC142160, MGC142164, DKFZp547F175, DKFZp451E1911

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 ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of presynapse assembly IDA
Inferred from Direct Assay
more info
PubMed 
regulation of presynapse assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of synapse organization IDA
Inferred from Direct Assay
more info
PubMed 
regulation of synapse organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
synaptic membrane adhesion IDA
Inferred from Direct Assay
more info
PubMed 
synaptic membrane adhesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
GABA-ergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
GABA-ergic synapse IMP
Inferred from Mutant Phenotype
more info
PubMed 
glutamatergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
glutamatergic synapse IMP
Inferred from Mutant Phenotype
more info
PubMed 
integral component of postsynaptic 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 2
Names
slit and trk like gene 2
slit-like 1
transmembrane protein 257

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_016477.2 RefSeqGene

    Range
    5001..13014
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001144003.3NP_001137475.1  SLIT and NTRK-like protein 2 precursor

    See identical proteins and their annotated locations for NP_001137475.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. All 9 variants encode the same protein.
    Source sequence(s)
    AK289732, AL109653, BM669862, DA239165
    Consensus CDS
    CCDS14680.1
    UniProtKB/Swiss-Prot
    Q9H156
    Conserved Domains (7) summary
    smart00082
    Location:529579
    LRRCT; Leucine rich repeat C-terminal domain
    cd00116
    Location:82217
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00031
    Location:496509
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:6787
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:423466
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:399459
    LRR_8; Leucine rich repeat
    cl15307
    Location:216252
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
  2. NM_001144004.3NP_001137476.1  SLIT and NTRK-like protein 2 precursor

    See identical proteins and their annotated locations for NP_001137476.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. All 9 variants encode the same protein.
    Source sequence(s)
    AK289732, AL109653, BM669862, DA239165, DA412276
    Consensus CDS
    CCDS14680.1
    UniProtKB/Swiss-Prot
    Q9H156
    Conserved Domains (7) summary
    smart00082
    Location:529579
    LRRCT; Leucine rich repeat C-terminal domain
    cd00116
    Location:82217
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00031
    Location:496509
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:6787
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:423466
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:399459
    LRR_8; Leucine rich repeat
    cl15307
    Location:216252
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
  3. NM_001144005.3NP_001137477.1  SLIT and NTRK-like protein 2 precursor

    See identical proteins and their annotated locations for NP_001137477.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. All 9 variants encode the same protein.
    Source sequence(s)
    AK289732, AL109653, BM669862, DA234617, DA239165
    Consensus CDS
    CCDS14680.1
    UniProtKB/Swiss-Prot
    Q9H156
    Conserved Domains (7) summary
    smart00082
    Location:529579
    LRRCT; Leucine rich repeat C-terminal domain
    cd00116
    Location:82217
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00031
    Location:496509
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:6787
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:423466
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:399459
    LRR_8; Leucine rich repeat
    cl15307
    Location:216252
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
  4. NM_001144006.2NP_001137478.1  SLIT and NTRK-like protein 2 precursor

    See identical proteins and their annotated locations for NP_001137478.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR compared to variant 1. All 9 variants encode the same protein.
    Source sequence(s)
    AK096278, AK289732, AL109653, BC113011, BM669862
    Consensus CDS
    CCDS14680.1
    UniProtKB/Swiss-Prot
    Q9H156
    UniProtKB/TrEMBL
    B3KTY4
    Conserved Domains (7) summary
    smart00082
    Location:529579
    LRRCT; Leucine rich repeat C-terminal domain
    cd00116
    Location:82217
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00031
    Location:496509
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:6787
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:423466
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:399459
    LRR_8; Leucine rich repeat
    cl15307
    Location:216252
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
  5. NM_001144008.2NP_001137480.1  SLIT and NTRK-like protein 2 precursor

    See identical proteins and their annotated locations for NP_001137480.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) differs in the 5' UTR compared to variant 1. All 9 variants encode the same protein.
    Source sequence(s)
    AK096278, AK289732, AL109653, BM669862, DA184412
    Consensus CDS
    CCDS14680.1
    UniProtKB/Swiss-Prot
    Q9H156
    UniProtKB/TrEMBL
    B3KTY4
    Related
    ENSP00000359521.1, ENST00000370490.1
    Conserved Domains (7) summary
    smart00082
    Location:529579
    LRRCT; Leucine rich repeat C-terminal domain
    cd00116
    Location:82217
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00031
    Location:496509
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:6787
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:423466
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:399459
    LRR_8; Leucine rich repeat
    cl15307
    Location:216252
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
  6. NM_001144009.2NP_001137481.1  SLIT and NTRK-like protein 2 precursor

    See identical proteins and their annotated locations for NP_001137481.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (8) differs in the 5' UTR compared to variant 1. All 9 variants encode the same protein.
    Source sequence(s)
    AK096278, AK289732, AL109653, BM669862, DA496247
    Consensus CDS
    CCDS14680.1
    UniProtKB/Swiss-Prot
    Q9H156
    UniProtKB/TrEMBL
    B3KTY4
    Conserved Domains (7) summary
    smart00082
    Location:529579
    LRRCT; Leucine rich repeat C-terminal domain
    cd00116
    Location:82217
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00031
    Location:496509
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:6787
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:423466
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:399459
    LRR_8; Leucine rich repeat
    cl15307
    Location:216252
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
  7. NM_001144010.2NP_001137482.1  SLIT and NTRK-like protein 2 precursor

    See identical proteins and their annotated locations for NP_001137482.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (9) differs in the 5' UTR compared to variant 1. All 9 variants encode the same protein.
    Source sequence(s)
    AK096278, AK289732, AL109653, BM669862, DA332123
    Consensus CDS
    CCDS14680.1
    UniProtKB/Swiss-Prot
    Q9H156
    UniProtKB/TrEMBL
    B3KTY4
    Conserved Domains (7) summary
    smart00082
    Location:529579
    LRRCT; Leucine rich repeat C-terminal domain
    cd00116
    Location:82217
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00031
    Location:496509
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:6787
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:423466
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:399459
    LRR_8; Leucine rich repeat
    cl15307
    Location:216252
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
  8. NM_032539.5NP_115928.1  SLIT and NTRK-like protein 2 precursor

    See identical proteins and their annotated locations for NP_115928.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. All 9 variants encode the same protein.
    Source sequence(s)
    AK096278, AK289732, AL109653, BM669862, DA239165
    Consensus CDS
    CCDS14680.1
    UniProtKB/Swiss-Prot
    Q9H156
    UniProtKB/TrEMBL
    B3KTY4
    Related
    ENSP00000334374.5, ENST00000335565.5
    Conserved Domains (7) summary
    smart00082
    Location:529579
    LRRCT; Leucine rich repeat C-terminal domain
    cd00116
    Location:82217
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00031
    Location:496509
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:6787
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:423466
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:399459
    LRR_8; Leucine rich repeat
    cl15307
    Location:216252
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

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
    145817829..145829856
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005262343.3XP_005262400.1  SLIT and NTRK-like protein 2 isoform X1

    See identical proteins and their annotated locations for XP_005262400.1

    UniProtKB/Swiss-Prot
    Q9H156
    Conserved Domains (7) summary
    smart00082
    Location:529579
    LRRCT; Leucine rich repeat C-terminal domain
    cd00116
    Location:82217
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00031
    Location:496509
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:6787
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:423466
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:399459
    LRR_8; Leucine rich repeat
    cl15307
    Location:216252
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
  2. XM_005262342.3XP_005262399.1  SLIT and NTRK-like protein 2 isoform X1

    See identical proteins and their annotated locations for XP_005262399.1

    UniProtKB/Swiss-Prot
    Q9H156
    Conserved Domains (7) summary
    smart00082
    Location:529579
    LRRCT; Leucine rich repeat C-terminal domain
    cd00116
    Location:82217
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00031
    Location:496509
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:6787
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:423466
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:399459
    LRR_8; Leucine rich repeat
    cl15307
    Location:216252
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
  3. XM_005262344.3XP_005262401.1  SLIT and NTRK-like protein 2 isoform X1

    See identical proteins and their annotated locations for XP_005262401.1

    UniProtKB/Swiss-Prot
    Q9H156
    Conserved Domains (7) summary
    smart00082
    Location:529579
    LRRCT; Leucine rich repeat C-terminal domain
    cd00116
    Location:82217
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00031
    Location:496509
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:6787
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:423466
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:399459
    LRR_8; Leucine rich repeat
    cl15307
    Location:216252
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
  4. XM_005262345.3XP_005262402.1  SLIT and NTRK-like protein 2 isoform X1

    See identical proteins and their annotated locations for XP_005262402.1

    UniProtKB/Swiss-Prot
    Q9H156
    Conserved Domains (7) summary
    smart00082
    Location:529579
    LRRCT; Leucine rich repeat C-terminal domain
    cd00116
    Location:82217
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00031
    Location:496509
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:6787
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:423466
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:399459
    LRR_8; Leucine rich repeat
    cl15307
    Location:216252
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001144007.1: Suppressed sequence

    Description
    NM_001144007.1: This RefSeq was permanently suppressed because it appears to be partial and is redundant to another public RefSeq.
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