Human Gene SLITRK5 (ENST00000683689.1_2) from GENCODE V47lift37
  Description: SLIT and NTRK like family member 5, transcript variant 3 (from RefSeq NM_001384610.1)
Gencode Transcript: ENST00000683689.1_2
Gencode Gene: ENSG00000165300.8_6
Transcript (Including UTRs)
   Position: hg19 chr13:88,323,626-88,331,871 Size: 8,246 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg19 chr13:88,327,644-88,330,520 Size: 2,877 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr13:88,323,626-88,331,871)mRNA (may differ from genome)Protein (958 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SLIK5_HUMAN
DESCRIPTION: RecName: Full=SLIT and NTRK-like protein 5; AltName: Full=Leucine-rich repeat-containing protein 11; Flags: Precursor;
FUNCTION: Suppresses neurite outgrowth (By similarity).
SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein (Probable).
TISSUE SPECIFICITY: Expressed predominantly in the cerebral cortex of the brain but also at low levels in the spinal cord and medulla.
SIMILARITY: Belongs to the SLITRK family.
SIMILARITY: Contains 12 LRR (leucine-rich) repeats.
SIMILARITY: Contains 2 LRRCT domains.
SIMILARITY: Contains 1 LRRNT domain.
SEQUENCE CAUTION: Sequence=BAA74941.1; Type=Erroneous initiation;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: SLITRK5
Diseases sorted by gene-association score: obsessive-compulsive disorder (3)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
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+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -393.80847-0.465 Picture PostScript Text
3' UTR -339.701351-0.251 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000483 - Cys-rich_flank_reg_C
IPR001611 - Leu-rich_rpt
IPR003591 - Leu-rich_rpt_typical-subtyp
IPR000372 - LRR-contain_N

Pfam Domains:
PF00560 - Leucine Rich Repeat
PF13306 - BspA type Leucine rich repeat region (6 copies)
PF13855 - Leucine rich repeat

SCOP Domains:
52047 - RNI-like
52058 - L domain-like
52075 - Outer arm dynein light chain 1

ModBase Predicted Comparative 3D Structure on O94991
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0007268 chemical synaptic transmission
GO:0007409 axonogenesis
GO:0007625 grooming behavior
GO:0009410 response to xenobiotic stimulus
GO:0021756 striatum development
GO:0030534 adult behavior
GO:0043588 skin development
GO:0048813 dendrite morphogenesis
GO:0051965 positive regulation of synapse assembly
GO:0072358 cardiovascular system development

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0043235 receptor complex


-  Descriptions from all associated GenBank mRNAs
  AK024251 - Homo sapiens cDNA FLJ14189 fis, clone NT2RP2006184, highly similar to SLIT and NTRK-like protein 5 precursor.
BC098106 - Homo sapiens SLIT and NTRK-like family, member 5, mRNA (cDNA clone MGC:119722 IMAGE:40012375), complete cds.
BC098287 - Homo sapiens SLIT and NTRK-like family, member 5, mRNA (cDNA clone MGC:119724 IMAGE:40012379), complete cds.
BC103497 - Homo sapiens cDNA clone IMAGE:40012378, containing frame-shift errors.
BC103509 - Homo sapiens SLIT and NTRK-like family, member 5, mRNA (cDNA clone MGC:119725 IMAGE:40012381), complete cds.
AK299744 - Homo sapiens cDNA FLJ58374 complete cds, highly similar to SLIT and NTRK-like protein 5 precursor.
AB020725 - Homo sapiens KIAA0918 mRNA for KIAA0918 protein.
JD187224 - Sequence 168248 from Patent EP1572962.
JD328997 - Sequence 310021 from Patent EP1572962.
JD307668 - Sequence 288692 from Patent EP1572962.
JD560406 - Sequence 541430 from Patent EP1572962.
JD259888 - Sequence 240912 from Patent EP1572962.
JD498699 - Sequence 479723 from Patent EP1572962.
JD279019 - Sequence 260043 from Patent EP1572962.
JD261348 - Sequence 242372 from Patent EP1572962.
JD263137 - Sequence 244161 from Patent EP1572962.
JD390525 - Sequence 371549 from Patent EP1572962.
JD157236 - Sequence 138260 from Patent EP1572962.
JD099635 - Sequence 80659 from Patent EP1572962.
JD119703 - Sequence 100727 from Patent EP1572962.
JD089162 - Sequence 70186 from Patent EP1572962.
JD263183 - Sequence 244207 from Patent EP1572962.
JD402716 - Sequence 383740 from Patent EP1572962.
JD290306 - Sequence 271330 from Patent EP1572962.
JD525806 - Sequence 506830 from Patent EP1572962.
JD253964 - Sequence 234988 from Patent EP1572962.
JD090727 - Sequence 71751 from Patent EP1572962.
JD304349 - Sequence 285373 from Patent EP1572962.
JD069540 - Sequence 50564 from Patent EP1572962.
JD101092 - Sequence 82116 from Patent EP1572962.
JD250061 - Sequence 231085 from Patent EP1572962.
JD362634 - Sequence 343658 from Patent EP1572962.
JD375358 - Sequence 356382 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein O94991 (Reactome details) participates in the following event(s):

R-HSA-6797803 PTPRD binds SLITRK1-6
R-HSA-388844 Receptor-type tyrosine-protein phosphatases
R-HSA-6794362 Protein-protein interactions at synapses
R-HSA-112316 Neuronal System

-  Other Names for This Gene
  Alternate Gene Symbols: B3KNB8, B4DSH5, KIAA0918, LRRC11, NM_001384610, O94991, Q5VT81, SLIK5_HUMAN, uc330ltq.1, uc330ltq.2
UCSC ID: ENST00000683689.1_2
RefSeq Accession: NM_001384609.1
Protein: O94991 (aka SLIK5_HUMAN or SLK5_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.