Chl1 MGI Mouse Gene Detail - MGI:1098266 - cell adhesion molecule L1-like

Symbol

Chl1
Name

cell adhesion molecule L1-like
Synonyms

A530023M13Rik, CALL, close homolog of L1, LICAM2

Feature Type

protein coding gene
IDs

MGI:1098266
NCBI Gene: 12661
Alliance

gene page
Transcription Start Sites

22 TSS

Sequence Map

Chr6:103487372-103709999 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 6, 47.97 cM, cytoband E1
Mapping Data

3 experiments

SNPs within 2kb

6828 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1098266	protein coding gene	Chr6:103487372-103727172 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0031091	protein coding gene	Chr6:105620293-105868166 (+)
A/J	MGP_AJ_G0031060	protein coding gene	Chr6:101604341-101845437 (+)
AKR/J	MGP_AKRJ_G0030991	protein coding gene	Chr6:104387336-104626959 (+)
BALB/cJ	MGP_BALBcJ_G0031071	protein coding gene	Chr6:101572109-101802224 (+)
C3H/HeJ	MGP_C3HHeJ_G0030637	protein coding gene	Chr6:79739898-79981140 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0031530	protein coding gene	Chr6:108318698-108571301 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0028694	protein coding gene	Chr6:99214472-99435549 (+)
CAST/EiJ	MGP_CASTEiJ_G0030178	protein coding gene	Chr6:104690676-104930023 (+)
CBA/J	MGP_CBAJ_G0030757	protein coding gene	Chr6:112534060-112756916 (+)
DBA/2J	MGP_DBA2J_G0030910	protein coding gene	Chr6:100748641-100980784 (+)
FVB/NJ	MGP_FVBNJ_G0030864	protein coding gene	Chr6:99864466-100087528 (+)
LP/J	MGP_LPJ_G0030990	protein coding gene	Chr6:105705346-105952656 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0030898	protein coding gene	Chr6:116449348-116711735 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0031557	protein coding gene	Chr6:104306531-104564928 (+)
PWK/PhJ	MGP_PWKPhJ_G0029894	protein coding gene	Chr6:99732536-99965261 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0029722	protein coding gene	Chr6:103176954-103417878 (+)
WSB/EiJ	MGP_WSBEiJ_G0030262	protein coding gene	Chr6:104858185-105093973 (+)

Human Ortholog

CHL1, cell adhesion molecule L1 like

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

CHL1, cell adhesion molecule L1 like
Synonyms

CALL, L1CAM2
Links

HGNC:1939

NCBI Gene ID: 10752

neXtProt AC: NX_O00533

UniProt: O00533
Chr Location

3p26.3; chr3:196763-409417 (+) GRCh38

MGI Vertebrate Homology

Chl1 stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: CHL1
Gene Tree

Chl1

Diseases

1 with human CHL1 associations

				Human Disease	Mouse Models
				schizophrenia IDs schizophrenia DOID:5419 DOID:14734 ICD10CM:F20 ICD9CM:295 ICD9CM:295.8 ICD9CM:295.80 ICD9CM:295.9 ICD9CM:295.90 MESH:D012559 NCI:C3362 OMIM:181500 UMLS_CUI:C0036341

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

less

Phenotype Summary

17 phenotypes from 2 alleles in 4 genetic backgrounds
2 phenotypes from multigenic genotypes
41 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
Spontaneous

1
Targeted

3
Genomic Mutations

1 involving Chl1
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

57 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Homozygous mutation of this gene results in enlargement of the lateral ventricles and altered hippocampal mossy fiber organization. Mutant animals exhibit altered exploratory behavior.

less

All GO Annotations

15
GO References

8

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.

less

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

860
Tissues

77
cDNA Data

79
Literature Summary

35

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

GEISHA CHL1

less

All Sequences

88
RefSeq

36
UniProt

3
CCDS

CCDS39582.1

Ensembl

ENSMUSG00000030077 (Evidence)
NCBI Gene

12661

			Length	Strain/Species	Flank
genomic	12661	NCBI Gene Model \| MGI Sequence Detail	222628	C57BL/6J	± kb
transcript	NM_007697	RefSeq \| MGI Sequence Detail	7751	C57BL/6
polypeptide	P70232	UniProt \| EBI \| MGI Sequence Detail	1209	Not Applicable

less

UniProt

3 Sequences
Protein Ontology

PR:000005429 neural cell adhesion molecule L1-like protein

(term hierarchy)
InterPro Domains

IPR050958 Cell Adhesion and Cytoskeletal Organization

IPR003961 Fibronectin type III

IPR036116 Fibronectin type III superfamily

IPR013098 Immunoglobulin I-set

IPR007110 Immunoglobulin-like domain

IPR036179 Immunoglobulin-like domain superfamily

IPR013783 Immunoglobulin-like fold

IPR003599 Immunoglobulin subtype

IPR003598 Immunoglobulin subtype 2

IPR026966 Neurofascin/L1/NrCAM, C-terminal domain
GlyGen

P70232 16 sites, 21 N-linked glycans (13 sites), 1 O-linked glycan (1 site)

less

All nucleic 84

Genomic 1

cDNA 79

Primer pair 4

Microarray probesets 9

less

MGI:2141424, MGI:2442516

Summaries

All 104

Developmental Gene Expression 35

Gene Ontology 8

Phenotypes 41
Earliest

J:36169 Holm J, et al., Structural features of a close homologue of L1 (CHL1) in the mouse: a new member of the L1 family of neural recognition molecules. Eur J Neurosci. 1996 Aug;8(8):1613-29
Latest

J:347856 Fernandes L, et al., CHL1 depletion affects dopamine receptor D2-dependent modulation of mouse behavior. Front Behav Neurosci. 2023;17:1288509

TSS for Chl1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr58006	Chr6:103487539-103487566 (+)	181 bp
Tssr58007	Chr6:103487592-103487595 (+)	222 bp
Tssr58008	Chr6:103487600-103487621 (+)	239 bp
Tssr58009	Chr6:103487630-103487658 (+)	272 bp
Tssr58010	Chr6:103487734-103487745 (+)	368 bp
Tssr58011	Chr6:103487796-103487828 (+)	440 bp
Tssr58012	Chr6:103487835-103487859 (+)	475 bp
Tssr58013	Chr6:103487869-103487878 (+)	502 bp
Tssr58014	Chr6:103487887-103487911 (+)	527 bp
Tssr58015	Chr6:103487921-103487969 (+)	573 bp
Tssr58016	Chr6:103487973-103488039 (+)	634 bp
Tssr58017	Chr6:103488044-103488049 (+)	675 bp
Tssr58018	Chr6:103488317-103488334 (+)	954 bp
Tssr58019	Chr6:103488360-103488369 (+)	993 bp
Tssr58020	Chr6:103488832-103488855 (+)	1,472 bp
Tssr58021	Chr6:103488856-103488871 (+)	1,492 bp
Tssr1955	Chr6:103488883-103488902 (+)	1,521 bp
Tssr58022	Chr6:103489023-103489045 (+)	1,662 bp
Tssr58023	Chr6:103551560-103551563 (+)	64,190 bp
Tssr58024	Chr6:103641690-103641693 (+)	154,320 bp
Tssr58025	Chr6:103668942-103668945 (+)	181,572 bp
Tssr58026	Chr6:103674695-103674752 (+)	187,352 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