Slitrk5 SLIT and NTRK-like family, member 5 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Slitrk5provided by MGI
Official Full Name: SLIT and NTRK-like family, member 5provided by MGI
Primary source: MGI:MGI:2679448
See related: Ensembl:ENSMUSG00000033214 AllianceGenome:MGI:2679448
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: 2610019D03Rik
Summary: Acts upstream of or within several processes, including grooming behavior; neuron projection morphogenesis; and positive regulation of synapse assembly. Predicted to be integral component of membrane. Predicted to be part of receptor complex. Is expressed in gut; nervous system; neural retina; and olfactory epithelium. Orthologous to human SLITRK5 (SLIT and NTRK like family member 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in frontal lobe adult (RPKM 6.2), CNS E18 (RPKM 6.1) and 6 other tissues See more
Orthologs: human all
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Genomic context

Location:: 14 E4; 14 57.86 cM

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	14	NC_000080.7 (111912547..111920576)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	14	NC_000080.6 (111675115..111683144)

Chromosome 14 - NC_000080.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

SLITRK5 is a negative regulator of hedgehog signaling in osteoblasts.
Title: SLITRK5 is a negative regulator of hedgehog signaling in osteoblasts.
Opposite Control of Excitatory and Inhibitory Synapse Formation by Slitrk2 and Slitrk5 on Dopamine Neurons Modulates Hyperactivity Behavior.
Title: Opposite Control of Excitatory and Inhibitory Synapse Formation by Slitrk2 and Slitrk5 on Dopamine Neurons Modulates Hyperactivity Behavior.
Slitrk5 modulates brain-derived neurotrophic factor (BDNF)-dependent biological responses through direct interaction with TrkB receptors. Under basal conditions, Slitrk5 interacts with a transsynaptic binding partner, protein tyrosine phosphatase delta.
Title: Slitrk5 Mediates BDNF-Dependent TrkB Receptor Trafficking and Signaling.
Slitrk5 deficiency impairs corticostriatal circuitry and leads to obsessive-compulsive behaviors in mice.
Title: Slitrk5 deficiency impairs corticostriatal circuitry and leads to obsessive-compulsive-like behaviors in mice.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (3)
Targeted (1) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables molecular_function	ND No biological Data available more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within adult behavior	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in axonogenesis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within axonogenesis	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within chemical synaptic transmission	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within circulatory system development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within dendrite morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within grooming behavior	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of synapse assembly	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive regulation of synapse assembly	IDA Inferred from Direct Assay more info	PubMed
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	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of trans-synaptic signaling by BDNF, modulating synaptic transmission	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within response to xenobiotic stimulus	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within skin development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within striatum development	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in membrane	ISS Inferred from Sequence or Structural Similarity more info	PubMed
is_active_in postsynaptic density membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic density membrane	NAS Non-traceable Author Statement more info	PubMed
part_of receptor complex	ISO Inferred from Sequence Orthology more info	PubMed

General protein information

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Preferred Names: SLIT and NTRK-like protein 5

Names: 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)

NM_001378768.1 → NP_001365697.1 SLIT and NTRK-like protein 5 isoform 2

Status: VALIDATED

Source sequence(s)

AC102368

Conserved Domains (5) summary

COG4886
Location:97 → 344

LRR; Leucine-rich repeat (LRR) protein [Transcription]

sd00033
Location:87 → 104

LRR_RI; leucine-rich repeat [structural motif]

pfam13855
Location:154 → 214

LRR_8; Leucine rich repeat

cd21340
Location:416 → 588

PPP1R42; protein phosphatase 1 regulatory subunit 42

cl15307
Location:588 → 624

TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
NM_001378769.1 → NP_001365698.1 SLIT and NTRK-like protein 5 isoform 1 precursor

Status: VALIDATED

Source sequence(s)

AC102368

UniProtKB/Swiss-Prot

Q810B7, Q9CT21

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
NM_001378770.1 → NP_001365699.1 SLIT and NTRK-like protein 5 isoform 1 precursor

Status: VALIDATED

Source sequence(s)

AC102368

UniProtKB/Swiss-Prot

Q810B7, Q9CT21

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
NM_198865.1 → NP_942565.1 SLIT and NTRK-like protein 5 isoform 1 precursor

See identical proteins and their annotated locations for NP_942565.1

Status: VALIDATED

Source sequence(s)

AK173062, BC065107, BQ769394, BY274593, BY728649, CB526109

Consensus CDS

CCDS27328.1

UniProtKB/Swiss-Prot

Q810B7, Q9CT21

Related

ENSMUSP00000041499.8, ENSMUST00000042767.9

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_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000080.7 Reference GRCm39 C57BL/6J

Range

111912547..111920576

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GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_029273.2: Suppressed sequence

Description

NM_029273.2: This RefSeq was permanently suppressed because currently there is not sufficient data to support this transcript.