Cadm3 MGI Mouse Gene Detail - MGI:2137858

Symbol

Cadm3
Name

cell adhesion molecule 3
Synonyms

BIgR, Igsf4b, Necl-1, Necl1, SynCAM3, Tsll1

Feature Type

protein coding gene
IDs

MGI:2137858
NCBI Gene: 94332
Alliance

gene page
Transcription Start Sites

7 TSS

Sequence Map

Chr1:173161825-173195214 bp, - strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 1, 80.33 cM, cytoband H3
Mapping Data

5 experiments

SNPs within 2kb

814 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2137858	protein coding gene	Chr1:173160825-173195261 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0016808	protein coding gene	Chr1:179263770-179298166 (-)
A/J	MGP_AJ_G0016785	protein coding gene	Chr1:171914379-171949045 (-)
AKR/J	MGP_AKRJ_G0016751	protein coding gene	Chr1:177139388-177174355 (-)
BALB/cJ	MGP_BALBcJ_G0016745	protein coding gene	Chr1:172456935-172491369 (-)
C3H/HeJ	MGP_C3HHeJ_G0016570	protein coding gene	Chr1:177668784-177703232 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0017208	protein coding gene	Chr1:185236816-185274946 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0014914	protein coding gene	Chr1:163542183-163576161 (-)
CAST/EiJ	MGP_CASTEiJ_G0016150	protein coding gene	Chr1:177063907-177101487 (-)
CBA/J	MGP_CBAJ_G0016544	protein coding gene	Chr1:191846059-191882648 (-)
DBA/2J	MGP_DBA2J_G0016651	protein coding gene	Chr1:170875455-170910988 (-)
FVB/NJ	MGP_FVBNJ_G0016648	protein coding gene	Chr1:169086530-169125915 (-)
LP/J	MGP_LPJ_G0016722	protein coding gene	Chr1:180337625-180372056 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0016674	protein coding gene	Chr1:199061685-199096354 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0017244	protein coding gene	Chr1:177032328-177067797 (-)
PWK/PhJ	MGP_PWKPhJ_G0015937	protein coding gene	Chr1:170236906-170271588 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0015719	protein coding gene	Chr1:175962500-176005241 (-)
WSB/EiJ	MGP_WSBEiJ_G0016214	protein coding gene	Chr1:177129218-177165558 (-)

Human Ortholog

CADM3, cell adhesion molecule 3

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

CADM3, cell adhesion molecule 3
Synonyms

BIgR, CMT2FF, IGSF4B, Necl-1, NECL1, synCAM3, TSLL1
Links

HGNC:17601

NCBI Gene ID: 57863

neXtProt AC: NX_Q8N126

UniProt: Q8N126
Chr Location

1q23.2; chr1:159171609-159203313 (+) GRCh38

MGI Vertebrate Homology

Cadm3 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: CADM3
Gene Tree

Cadm3

Diseases

1 with human CADM3 associations

				Human Disease	Mouse Models
				Charcot-Marie-Tooth disease IDs Charcot-Marie-Tooth disease DOID:10595 ICD10CM:G60.0 ICD9CM_2006:356.1 ICD9CM:356.1 MESH:D002607 NCI:C75467 OMIM:PS118220 UMLS_CUI:C0007959

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

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Phenotype Summary

2 phenotypes from 2 alleles in 2 genetic backgrounds
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

9
Chemically induced (other)

2
Targeted

7
Genomic Mutations

2 involving Cadm3
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

26 strains or lines available

Mice homozygous for a null allele exhibit delayed myelination. Other mice with ubiquitous conditional deletion of the gene do not display neurological abnormalities.

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All GO Annotations

10
GO References

4

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

883
Tissues

63
cDNA Data

55
Literature Summary

14

Images

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase cadm3

ZFIN cadm3

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All Sequences

49
RefSeq

6
UniProt

2
CCDS

CCDS15528.1

Ensembl

ENSMUSG00000005338 (Evidence)
NCBI Gene

94332

			Length	Strain/Species	Flank
genomic	94332	NCBI Gene Model \| MGI Sequence Detail	33390	C57BL/6J	± kb
transcript	NM_001412815	RefSeq \| MGI Sequence Detail	4325	C57BL/6
polypeptide	Q99N28	UniProt \| EBI \| MGI Sequence Detail	396	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000004962 cell adhesion molecule 3

(term hierarchy)
PDB

5ZO2
InterPro Domains

IPR013162 CD80-like, immunoglobulin C2-set

IPR007110 Immunoglobulin-like domain

IPR036179 Immunoglobulin-like domain superfamily

IPR013783 Immunoglobulin-like fold

IPR003599 Immunoglobulin subtype

IPR003598 Immunoglobulin subtype 2

IPR013106 Immunoglobulin V-set domain

IPR003585 Neurexin/syndecan/glycophorin C
GlyGen

Q99N28 1 site, 1 N-linked glycan (1 site)

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All nucleic 59

cDNA 56

Other 3

Microarray probesets 6

Summaries

All 49

Developmental Gene Expression 14

Gene Ontology 4

Phenotypes 10
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:347612 Kawashima R, et al., Necl-1/CADM3 regulates cone synapse formation in the mouse retina. iScience. 2024 Apr 19;27(4):109577

TSS for Cadm3:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr15274	Chr1:173195421-173195452 (-)	-223 bp
Tssr15273	Chr1:173195232-173195258 (-)	-31 bp
Tssr15272	Chr1:173195204-173195222 (-)	1 bp
Tssr15271	Chr1:173195049-173195052 (-)	163 bp
Tssr15270	Chr1:173173370-173173377 (-)	21,840 bp
Tssr15269	Chr1:173164377-173164387 (-)	30,832 bp
Tssr15268	Chr1:173163606-173163615 (-)	31,603 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)
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