Slitrk5 SLIT and NTRK-like family, member 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Slitrk5provided by RGD
Official Full Name: SLIT and NTRK-like family, member 5provided by RGD
Primary source: RGD:1310957
See related: EnsemblRapid:ENSRNOG00000009649 AllianceGenome:RGD:1310957
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to be involved in several processes, including positive regulation of synapse assembly; regulation of trans-synaptic signaling by BDNF, modulating synaptic transmission; and synaptic membrane adhesion. Predicted to act upstream of or within several processes, including adult behavior; grooming behavior; and nervous system development. Is active in glutamatergic synapse. Orthologous to human SLITRK5 (SLIT and NTRK like family member 5). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Restricted expression toward (RPKM 15.6) See more
Orthologs: human mouse all
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Genomic context

Location:: 15q23

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	15	NC_086033.1 (95261397..95270465)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	15	NC_051350.1 (88848123..88858809)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	15	NC_005114.4 (96817907..96826760)

Chromosome 15 - NC_086033.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Process	Evidence Code	Pubs
acts_upstream_of_or_within adult behavior	ISO Inferred from Sequence Orthology more info
involved_in axonogenesis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within axonogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within chemical synaptic transmission	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within circulatory system development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within dendrite morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within grooming behavior	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
involved_in regulation of trans-synaptic signaling by BDNF, modulating synaptic transmission	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to xenobiotic stimulus	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within skin development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within striatum development	ISO Inferred from Sequence Orthology more info
involved_in synaptic membrane adhesion	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IMP Inferred from Mutant Phenotype more info	PubMed
is_active_in postsynaptic density membrane	ISO Inferred from Sequence Orthology more info
part_of receptor complex	ISO Inferred from Sequence Orthology more info
is_active_in synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in synapse	IMP Inferred from Mutant Phenotype more info	PubMed

General protein information

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Preferred Names: SLIT and NTRK-like protein 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_001107284.2 → NP_001100754.1 SLIT and NTRK-like protein 5 isoform 1 precursor

See identical proteins and their annotated locations for NP_001100754.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000015

UniProtKB/TrEMBL

A6HUD7, M0R9U3

Conserved Domains (5) summary

smart00082
Location:235 → 273

LRRCT; Leucine rich repeat C-terminal domain

sd00033
Location:62 → 79

LRR_RI; leucine-rich repeat [structural motif]

pfam12799
Location:458 → 498

LRR_4; Leucine Rich repeats (2 copies)

pfam13855
Location:129 → 189

LRR_8; Leucine rich repeat

cl15307
Location:563 → 599

TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
NM_001431531.1 → NP_001418460.1 SLIT and NTRK-like protein 5 isoform 1 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000015

UniProtKB/TrEMBL

A6HUD7, M0R9U3
NM_001431532.1 → NP_001418461.1 SLIT and NTRK-like protein 5 isoform 1 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000015

UniProtKB/TrEMBL

A6HUD7, M0R9U3
NM_001431533.1 → NP_001418462.1 SLIT and NTRK-like protein 5 isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000015

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086033.1 Reference GRCr8

Range

95261397..95270465

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063274343.1 → XP_063130413.1 SLIT and NTRK-like protein 5 isoform X1
XM_006252445.5 → XP_006252507.1 SLIT and NTRK-like protein 5 isoform X2

Related

ENSRNOP00000066274.1, ENSRNOT00000012785.7

Conserved Domains (5) summary

smart00082
Location:235 → 273

LRRCT; Leucine rich repeat C-terminal domain

sd00033
Location:62 → 79

LRR_RI; leucine-rich repeat [structural motif]

pfam12799
Location:458 → 498

LRR_4; Leucine Rich repeats (2 copies)

pfam13855
Location:129 → 189

LRR_8; Leucine rich repeat

cl15307
Location:563 → 599

TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
XM_006252446.5 → XP_006252508.1 SLIT and NTRK-like protein 5 isoform X2

Related

ENSRNOP00000104303.1, ENSRNOT00000137337.1

Conserved Domains (5) summary

smart00082
Location:235 → 273

LRRCT; Leucine rich repeat C-terminal domain

sd00033
Location:62 → 79

LRR_RI; leucine-rich repeat [structural motif]

pfam12799
Location:458 → 498

LRR_4; Leucine Rich repeats (2 copies)

pfam13855
Location:129 → 189

LRR_8; Leucine rich repeat

cl15307
Location:563 → 599

TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
XM_006252447.5 → XP_006252509.1 SLIT and NTRK-like protein 5 isoform X2

Related

ENSRNOP00000104477.1, ENSRNOT00000174032.1

Conserved Domains (5) summary

smart00082
Location:235 → 273

LRRCT; Leucine rich repeat C-terminal domain

sd00033
Location:62 → 79

LRR_RI; leucine-rich repeat [structural motif]

pfam12799
Location:458 → 498

LRR_4; Leucine Rich repeats (2 copies)

pfam13855
Location:129 → 189

LRR_8; Leucine rich repeat

cl15307
Location:563 → 599

TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain