Igsf21 MGI Mouse Gene Detail - MGI:2681842 - immunoglobulin superfamily, member 21

Symbol

Igsf21
Name

immunoglobulin superfamily, member 21
Synonyms

LOC230868, MGC:67646

Feature Type

protein coding gene
IDs

MGI:2681842
NCBI Gene: 230868
Alliance

genome feature page
Transcription Start Sites

6 TSS

Sequence Map

Chr4:139754157-139974095 bp, - strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 4, 71.09 cM
Mapping Data

3 experiments

SNPs within 2kb

7376 from dbSNP Build 142
Strain Annotations

19

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2681842	protein coding gene	Chr4:139754157-139974294 (-)
129S1/SvImJ	ENSMUSG00200042243	protein coding gene	Chr4:133170327-133390298 (-)
A/J	ENSMUSG00195029765	protein coding gene	Chr4:134514032-134734025 (-)
AKR/J	ENSMUSG00220045167	protein coding gene	Chr4:133512824-133735110 (-)
BALB/cJ	ENSMUSG00180043024	protein coding gene	Chr4:132152744-132374995 (-)
C3H/HeJ	ENSMUSG00175034706	protein coding gene	Chr4:133180795-133401878 (-)
C57BL/6NJ	ENSMUSG00215047409	protein coding gene	Chr4:134699594-134919562 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0026720	protein coding gene	Chr4:129706015-129925520 (-)
CAST/EiJ	ENSTCUG00005013256	protein coding gene	Chr4:134136246-134357431 (-)
CBA/J	ENSMUSG00210029422	protein coding gene	Chr4:132804804-133025876 (-)
DBA/2J	ENSMUSG00185050484	protein coding gene	Chr4:134314971-134537199 (-)
FVB/NJ	ENSMUSG00205039752	protein coding gene	Chr4:132570910-132791938 (-)
JF1/MsJ	ENSUMUG00000038630	protein coding gene	Chr4:135007123-135227154 (-)
LP/J	ENSMUSG00230037950	protein coding gene	Chr4:138108922-138328876 (-)
NOD/ShiLtJ	ENSMUSG00190023032	protein coding gene	Chr4:132572813-132792775 (-)
NZO/HlLtJ	ENSMUSG00225008352	protein coding gene	Chr4:144063627-144283579 (-)
PWK/PhJ	ENSLUMG00010036210	protein coding gene	Chr4:132002955-132223714 (-)
SPRET/EiJ	ENSMSPG00010032291	protein coding gene	Chr4:134059007-134284530 (-)
WSB/EiJ	ENSIUOG00005042457	protein coding gene	Chr4:132456978-132678035 (-)

Human Ortholog

IGSF21, immunoglobin superfamily member 21

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

IGSF21, immunoglobin superfamily member 21
Links

HGNC:28246

NCBI Gene ID: 84966

UniProt: Q96ID5
Chr Location

1p36.13; chr1:18107710-18378483 (+) GRCh38

MGI Vertebrate Homology

Igsf21 stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: IGSF21
Gene Tree

Igsf21

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Phenotype Summary

5 phenotypes from 1 allele in 1 genetic background
10 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

31
Chemically induced (other)

2
Endonuclease-mediated

3
Gene trapped

23
Targeted

3
Genomic Mutations

3 involving Igsf21
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

42 strains or lines available

Mice homozygous for a knock-out allele exhibit abnormal differentiation of inhibitory synapses with decreased mIPSC frequency and prepulse inhibition.

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All GO Annotations

19
GO References

5

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

854
Tissues

62
cDNA Data

6
Literature Summary

6

Images

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase igsf21

ZFIN igsf21a, igsf21b

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All Sequences

33
RefSeq

4
UniProt

1
CCDS

CCDS18851.1

Ensembl

ENSMUSG00000040972 (Evidence)
NCBI Gene

230868

			Length	Strain/Species	Flank
genomic	ENSMUSG00000040972	Ensembl Gene Model \| MGI Sequence Detail	219939	C57BL/6J	± kb
transcript	ENSMUST00000039331	Ensembl \| MGI Sequence Detail	1979	Not Applicable
polypeptide	ENSMUSP00000046558	Ensembl \| MGI Sequence Detail	468	Not Applicable

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UniProt

1 Sequence
Protein Ontology

PR:000030476 immunoglobulin superfamily member 21

(term hierarchy)
InterPro Domains

IPR003599 Immunoglobulin domain subtype

IPR007110 Immunoglobulin-like domain

IPR036179 Immunoglobulin-like domain superfamily

IPR013783 Immunoglobulin-like fold

IPR013106 Immunoglobulin V-set domain

IPR051427 Nectin and Nectin-like
GlyGen

Q7TNR6 4 sites, 8 N-linked glycans (3 sites), 1 O-linked glycan (1 site)

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All nucleic 9

cDNA 7

Primer pair 2

Antibodies 1

Microarray probesets 3

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MGI:2684987

Summaries

All 39

Developmental Gene Expression 6

Gene Ontology 5

Phenotypes 10
Earliest

J:84714 Nishijima I, et al., Two new balancer chromosomes on mouse chromosome 4 to facilitate functional annotation of human chromosome 1p. Genesis. 2003 Jul;36(3):142-8
Latest

J:313619 Bedogni F, et al., Cell-Type-Specific Gene Expression in Developing Mouse Neocortex: Intermediate Progenitors Implicated in Axon Development. Front Mol Neurosci. 2021;14:686034

TSS for Igsf21:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr44247	Chr4:139974229-139974257 (-)	-148 bp
Tssr44246	Chr4:139974105-139974135 (-)	-25 bp
Tssr44245	Chr4:139974062-139974104 (-)	12 bp
Tssr44244	Chr4:139964134-139964148 (-)	9,954 bp
Tssr44243	Chr4:139833564-139833597 (-)	140,514 bp
Tssr44242	Chr4:139765040-139765052 (-)	209,049 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 09/01/2026 MGI 6.24