Igsf3 MGI Mouse Gene Detail - MGI:1926158 - immunoglobulin superfamily, member 3

Symbol

Igsf3
Name

immunoglobulin superfamily, member 3
Synonyms

1700016K10Rik, 2810035F16Rik, 4833439O17Rik, mKIAA0466

Feature Type

protein coding gene
IDs

MGI:1926158
NCBI Gene: 78908
Alliance

gene page
Transcription Start Sites

7 TSS
Candidate for QTL

1 QTL

Sequence Map

Chr3:101284399-101370375 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 3, 44.30 cM
Mapping Data

4 experiments

SNPs within 2kb

2391 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1926158	protein coding gene	Chr3:101284306-101370375 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0027675	protein coding gene	Chr3:102549956-102639360 (+)
A/J	MGP_AJ_G0027634	protein coding gene	Chr3:99304797-99391952 (+)
AKR/J	MGP_AKRJ_G0027600	protein coding gene	Chr3:101756414-101845919 (+)
BALB/cJ	MGP_BALBcJ_G0027647	protein coding gene	Chr3:99057421-99144279 (+)
C3H/HeJ	MGP_C3HHeJ_G0027376	protein coding gene	Chr3:102046880-102133740 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0028090	protein coding gene	Chr3:106319423-106411033 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0025431	protein coding gene	Chr3:95499602-95586844 (+)
CAST/EiJ	MGP_CASTEiJ_G0026832	protein coding gene	Chr3:101144606-101236244 (+)
CBA/J	MGP_CBAJ_G0027351	protein coding gene	Chr3:109972105-110066764 (+)
DBA/2J	MGP_DBA2J_G0027494	protein coding gene	Chr3:98545083-98631974 (+)
FVB/NJ	MGP_FVBNJ_G0027462	protein coding gene	Chr3:96484021-96571145 (+)
LP/J	MGP_LPJ_G0027601	protein coding gene	Chr3:103903677-103991166 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0027492	protein coding gene	Chr3:116165315-116256013 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0028145	protein coding gene	Chr3:101240575-101329265 (+)
PWK/PhJ	MGP_PWKPhJ_G0026559	protein coding gene	Chr3:98301833-98389476 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0026381	protein coding gene	Chr3:99320327-99412549 (+)
WSB/EiJ	MGP_WSBEiJ_G0026912	protein coding gene	Chr3:101803097-101893220 (+)

Human Ortholog

IGSF3, immunoglobulin superfamily member 3

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

IGSF3, immunoglobulin superfamily member 3
Synonyms

EWI-3, LCDD, V8
Links

HGNC:5950

NCBI Gene ID: 3321

neXtProt AC: NX_O75054

UniProt: O75054
Chr Location

1p13.1; chr1:116574398-116667755 (-) GRCh38

MGI Vertebrate Homology

Igsf3 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: IGSF3
Gene Tree

Igsf3

Diseases

1 with human IGSF3 associations

				Human Disease	Mouse Models
				lacrimal duct obstruction IDs lacrimal duct obstruction DOID:13929 MESH:D007767 NCI:C34757 UMLS_CUI:C0022906

Click on a disease name to see all genes associated with that disease.

References

1 with disease annotations

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Phenotype Summary

6 phenotypes from 1 allele in 1 genetic background
16 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

23
Chemically induced (other)

1
Endonuclease-mediated

4
Gene trapped

16
Radiation induced

1
Targeted

1
Genomic Mutations

2 involving Igsf3
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

56 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Homozygous null mice show reduced migration of vagal neural crest cells and impaired development of the enteric nervous system, with defects in formation of the muscularis externa and disorganized innervation of the enteric villi in the small intestine.

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All GO Annotations

3
GO References

3

Molecular Function

No experimental evidence to support Molecular Function annotation, following literature review. See J:73796.

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

711
Tissues

3
cDNA Data

11
Literature Summary

5

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

GEISHA IGSF3

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All Sequences

52
RefSeq

12
UniProt

2
CCDS

CCDS17682.1

Ensembl

ENSMUSG00000042035 (Evidence)
NCBI Gene

78908

			Length	Strain/Species	Flank
genomic	ENSMUSG00000042035	Ensembl Gene Model \| MGI Sequence Detail	85977	C57BL/6J	± kb
transcript	ENSMUST00000195164	Ensembl \| MGI Sequence Detail	3876	Not Applicable
polypeptide	ENSMUSP00000141823	Ensembl \| MGI Sequence Detail	1214	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000031371 immunoglobulin superfamily member 3

(term hierarchy)
InterPro Domains

IPR007110 Immunoglobulin-like domain

IPR036179 Immunoglobulin-like domain superfamily

IPR013783 Immunoglobulin-like fold

IPR003599 Immunoglobulin subtype

IPR051102 Immunoglobulin superfamily V-set and transmembrane domain-containing protein

IPR013106 Immunoglobulin V-set domain
GlyGen

Q6ZQA6 6 sites, 6 N-linked glycans (4 sites)

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All nucleic 13

cDNA 11

Primer pair 1

Other 1

Microarray probesets 3

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MGI:1919956, MGI:1922800

Summaries

All 46

Developmental Gene Expression 5

Diseases 1

Gene Ontology 3

Phenotypes 16
Earliest

J:65060 Kawai J, et al., Functional annotation of a full-length mouse cDNA collection. Nature. 2001 Feb 8;409(6821):685-90
Latest

J:350469 Alderman PJ, et al., Delayed maturation and migration of excitatory neurons in the juvenile mouse paralaminar amygdala. Neuron. 2024 Feb 21;112(4):574-592.e10

TSS for Igsf3:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr30901	Chr3:101284306-101284339 (+)	-76 bp
Tssr30902	Chr3:101284390-101284474 (+)	33 bp
Tssr987	Chr3:101331438-101331441 (+)	47,041 bp
Tssr30903	Chr3:101334343-101334391 (+)	49,968 bp
Tssr988	Chr3:101336162-101336166 (+)	51,765 bp
Tssr30904	Chr3:101367930-101367940 (+)	83,536 bp
Tssr30905	Chr3:101369385-101369408 (+)	84,998 bp

Igsf3 is Candidate Gene for:

QTL	Genetic Location*	Genome Location (GRCm39)	Reference	QTL Note
Idd10	Chr3, syntenic		J:83540	The authors narrow the critical region containing Idd10 to a genomic area bounded proximally by 70A7SSR18 and distally by D3Mit342. Within that region a likely candidate for the Idd10 phenotype is Igsf2(Cd101).

*cM position of peak correlated region/marker

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 12/10/2024 MGI 6.24