Slitrk4 MGI Mouse Gene Detail - MGI:2442509 - SLIT and NTRK-like family, member 4

Symbol

Slitrk4
Name

SLIT and NTRK-like family, member 4
Synonyms

D930039I09Rik

Feature Type

protein coding gene
IDs

MGI:2442509
NCBI Gene: 245446
Alliance

gene page
Transcription Start Sites

4 TSS

Sequence Map

ChrX:63308491-63320602 bp, - strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome X, 34.57 cM, cytoband A5
Mapping Data

2 experiments

SNPs within 2kb

205 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2442509	protein coding gene	ChrX:63308489-63320951 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0035766	protein coding gene	ChrX:59766653-59778786 (-)
A/J	MGP_AJ_G0035748	protein coding gene	ChrX:59961211-59973320 (-)
AKR/J	MGP_AKRJ_G0035668	protein coding gene	ChrX:61601863-61613928 (-)
BALB/cJ	MGP_BALBcJ_G0035735	protein coding gene	ChrX:59306670-59318801 (-)
C3H/HeJ	MGP_C3HHeJ_G0035438	protein coding gene	ChrX:60407037-60419142 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0036264	protein coding gene	ChrX:61564954-61577055 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0033116	protein coding gene	ChrX:59356412-59368511 (-)
CAST/EiJ	MGP_CASTEiJ_G0034730	protein coding gene	ChrX:45948819-45959239 (-)
CBA/J	MGP_CBAJ_G0035412	protein coding gene	ChrX:63283646-63296180 (-)
DBA/2J	MGP_DBA2J_G0035566	protein coding gene	ChrX:59547532-59557826 (-)
FVB/NJ	MGP_FVBNJ_G0035516	protein coding gene	ChrX:59040780-59053424 (-)
LP/J	MGP_LPJ_G0035654	protein coding gene	ChrX:60471901-60486756 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0035552	protein coding gene	ChrX:65068900-65076102 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0036280	protein coding gene	ChrX:59712565-59724687 (-)
PWK/PhJ	MGP_PWKPhJ_G0034426	protein coding gene	ChrX:44170876-44181318 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0034269	protein coding gene	ChrX:46892351-46905373 (-)
WSB/EiJ	MGP_WSBEiJ_G0034873	protein coding gene	ChrX:59169105-59181396 (-)

Human Ortholog

SLITRK4, SLIT and NTRK like family member 4

Vertebrate Orthologs

2

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

SLITRK4, SLIT and NTRK like family member 4
Links

HGNC:23502

NCBI Gene ID: 139065

neXtProt AC: NX_Q8IW52

UniProt: Q8IW52
Chr Location

Xq27.3; chrX:143622790-143636101 (-) GRCh38

MGI Vertebrate Homology

Slitrk4 stringent orthology
1 human;1 mouse;1 zebrafish
HCOP

vertebrate homology predictions: SLITRK4
Gene Tree

Slitrk4

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Phenotype Summary

14 phenotypes from 2 alleles in 2 genetic backgrounds
8 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

5
Endonuclease-mediated

1
Targeted

4
Incidental Mutations

APF , CvDC
Find Mice (IMSR)

9 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Hemizygous null male mice display enhanced fear memory acquisition, reduced social investigation, enhanced long-term potentiation, and abnormalities in interneurons in the amygdala.

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All GO Annotations

11
GO References

7

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

776
Tissues

61
cDNA Data

13
Literature Summary

6

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GENSAT

GEO

Expression Atlas
Other Vertebrate Links

Xenbase slitrk4

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All Sequences

51
RefSeq

8
UniProt

4
CCDS

CCDS30167.1

Ensembl

ENSMUSG00000046699 (Evidence)
NCBI Gene

245446

			Length	Strain/Species	Flank
genomic	ENSMUSG00000046699	Ensembl Gene Model \| MGI Sequence Detail	12112	C57BL/6J	± kb
transcript	ENSMUST00000114679	Ensembl \| MGI Sequence Detail	3513	Not Applicable
polypeptide	ENSMUSP00000110327	Ensembl \| MGI Sequence Detail	837	Not Applicable

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UniProt

4 Sequences
Protein Ontology

PR:000015240 SLIT and NTRK-like protein 4

(term hierarchy)
InterPro Domains

IPR000483 Cysteine-rich flanking region, C-terminal

IPR001611 Leucine-rich repeat

IPR032675 Leucine-rich repeat domain superfamily

IPR003591 Leucine-rich repeat, typical subtype

IPR043326 Slitrk family
GlyGen

Q810B8 5 sites, 3 N-linked glycans (3 sites), 1 O-linked glycan (1 site)

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All nucleic 15

cDNA 13

Other 2

Microarray probesets 4

Summaries

All 35

Developmental Gene Expression 6

Gene Ontology 7

Phenotypes 8
Earliest

J:80000 The FANTOM Consortium and The RIKEN Genome Exploration Research Group Phase I & II Team, Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Nature. 2002;420:563-573
Latest

J:348363 Matsumoto Y, et al., Slitrk4 is required for the development of inhibitory neurons in the fear memory circuit of the lateral amygdala. Front Mol Neurosci. 2024;17:1386924

TSS for Slitrk4:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr163504	ChrX:63320543-63320608 (-)	26 bp
Tssr163503	ChrX:63320520-63320536 (-)	74 bp
Tssr163502	ChrX:63319551-63319562 (-)	1,045 bp
Tssr163501	ChrX:63319535-63319544 (-)	1,062 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 11/12/2024 MGI 6.24