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Aliases for CHL1 Gene

Aliases for CHL1 Gene

  • Cell Adhesion Molecule L1-Like 2 3
  • Close Homolog Of L1 2 3 4
  • CALL 3 4 6
  • Cell Adhesion Molecule With Homology To L1CAM (Close Homologue Of L1) 2 3
  • Cell Adhesion Molecule With Homology To L1CAM (Close Homolog Of L1) 2 3
  • L1CAM2 3 6
  • Neural Cell Adhesion Molecule L1-Like Protein 3
  • Neural Cell Adhesion Molecule 2
  • L1 Cell Adhesion Molecule 2 3

External Ids for CHL1 Gene

Previous GeneCards Identifiers for CHL1 Gene

  • GC03P000167

Summaries for CHL1 Gene

Entrez Gene Summary for CHL1 Gene

  • The protein encoded by this gene is a member of the L1 gene family of neural cell adhesion molecules. It is a neural recognition molecule that may be involved in signal transduction pathways. The deletion of one copy of this gene may be responsible for mental defects in patients with 3p- syndrome. This protein may also play a role in the growth of certain cancers. Alternate splicing results in both coding and non-coding variants. [provided by RefSeq, Nov 2011]

GeneCards Summary for CHL1 Gene

CHL1 (Cell Adhesion Molecule L1-Like) is a Protein Coding gene. Diseases associated with CHL1 include distal monosomy 3p and 3p- syndrome. Among its related pathways are L1CAM interactions and L1CAM interactions. GO annotations related to this gene include protease binding. An important paralog of this gene is PRTG.

UniProtKB/Swiss-Prot for CHL1 Gene

  • Extracellular matrix and cell adhesion protein that plays a role in nervous system development and in synaptic plasticity. Both soluble and membranous forms promote neurite outgrowth of cerebellar and hippocampal neurons and suppress neuronal cell death. Plays a role in neuronal positioning of pyramidal neurons and in regulation of both the number of interneurons and the efficacy of GABAergic synapses. May play a role in regulating cell migration in nerve regeneration and cortical development. Potentiates integrin-dependent cell migration towards extracellular matrix proteins. Recruits ANK3 to the plasma membrane (By similarity).

Gene Wiki entry for CHL1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CHL1 Gene

Genomics for CHL1 Gene

Regulatory Elements for CHL1 Gene

Genomic Location for CHL1 Gene

Start:
196,588 bp from pter
End:
409,417 bp from pter
Size:
212,830 bases
Orientation:
Plus strand

Genomic View for CHL1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CHL1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CHL1 Gene

Proteins for CHL1 Gene

  • Protein details for CHL1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O00533-NCHL1_HUMAN
    Recommended name:
    Neural cell adhesion molecule L1-like protein
    Protein Accession:
    O00533
    Secondary Accessions:
    • B7ZL03
    • Q2M3G2
    • Q59FY0

    Protein attributes for CHL1 Gene

    Size:
    1208 amino acids
    Molecular mass:
    135071 Da
    Quaternary structure:
    • May interact with L1CAM. May interact with ITGB1/ITGA1 heterodimer and ITGB1/ITGA2 heterodimer as well as with ANK3 (By similarity).
    SequenceCaution:
    • Sequence=BAD92566.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Alternative splice isoforms for CHL1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CHL1 Gene

Proteomics data for CHL1 Gene at MOPED

Post-translational modifications for CHL1 Gene

  • Cleavage by metalloprotease ADAM8 in the extracellular part generates 2 soluble forms (125 kDa and 165 kDa) in vitro and is inhibited by metalloprotease inhibitors
  • N-glycosylated. Contains N-linked oligosaccharides with a sulfated carbohydrate structure type HNK-1 (SO4-3-GlcUABeta1,3GalBeta1,4GlcNAc) (By similarity).
  • O-glycosylated.
  • Glycosylation at Asn299, Asn476, Asn482, Asn562, Asn580, Asn767, Asn822, Asn945, Asn1026, and Asn231
  • Modification sites at PhosphoSitePlus

Antibody Products

No data available for DME Specific Peptides for CHL1 Gene

Domains for CHL1 Gene

Gene Families for CHL1 Gene

HGNC:
  • FN3 :Fibronectin type III domain containing
  • IGD :Immunoglobulin superfamily / Immunoglobulin-like domain containing
  • ISET :Immunoglobulin superfamily / I-set domain containing

Suggested Antigen Peptide Sequences for CHL1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O00533

UniProtKB/Swiss-Prot:

NCHL1_HUMAN :
  • O00533
Domain:
  • The FIG[AQ]Y motif seems to be an ankyrin recruitment region
  • The DGEA motif seems to be a recognition site for integrin
  • Contains 4 fibronectin type-III domains.
  • Contains 6 Ig-like C2-type (immunoglobulin-like) domains.
Family:
  • Belongs to the immunoglobulin superfamily. L1/neurofascin/NgCAM family.
genes like me logo Genes that share domains with CHL1: view

Function for CHL1 Gene

Molecular function for CHL1 Gene

GENATLAS Biochemistry: cell adhesion L1-like,highly expressed in brain,heart,prostate,ovary,small intestine and colon,immunoglobulin superfamily
UniProtKB/Swiss-Prot Function: Extracellular matrix and cell adhesion protein that plays a role in nervous system development and in synaptic plasticity. Both soluble and membranous forms promote neurite outgrowth of cerebellar and hippocampal neurons and suppress neuronal cell death. Plays a role in neuronal positioning of pyramidal neurons and in regulation of both the number of interneurons and the efficacy of GABAergic synapses. May play a role in regulating cell migration in nerve regeneration and cortical development. Potentiates integrin-dependent cell migration towards extracellular matrix proteins. Recruits ANK3 to the plasma membrane (By similarity).

Gene Ontology (GO) - Molecular Function for CHL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002020 protease binding IEA --
GO:0005515 protein binding --
genes like me logo Genes that share ontologies with CHL1: view
genes like me logo Genes that share phenotypes with CHL1: view

Animal Models for CHL1 Gene

MGI Knock Outs for CHL1:

Animal Model Products

CRISPR Products

miRNA for CHL1 Gene

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for CHL1

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting and HOMER Transcription for CHL1 Gene

Localization for CHL1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CHL1 Gene

Cell membrane; Single-pass type I membrane protein. Note=Soluble forms produced by cleavage/shedding also exist. {ECO:0000250}.
Processed neural cell adhesion molecule L1-like protein: Secreted, extracellular space, extracellular matrix.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CHL1 Gene COMPARTMENTS Subcellular localization image for CHL1 gene
Compartment Confidence
plasma membrane 5
extracellular 2
endoplasmic reticulum 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for CHL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005578 proteinaceous extracellular matrix IEA --
GO:0005886 plasma membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0030425 dendrite IEA --
GO:0045177 apical part of cell IEA --
genes like me logo Genes that share ontologies with CHL1: view

Pathways for CHL1 Gene

genes like me logo Genes that share pathways with CHL1: view

Pathways by source for CHL1 Gene

Gene Ontology (GO) - Biological Process for CHL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001764 neuron migration IEA --
GO:0007155 cell adhesion IEA --
GO:0007165 signal transduction TAS 9799093
GO:0007411 axon guidance TAS --
GO:0008344 adult locomotory behavior IEA --
genes like me logo Genes that share ontologies with CHL1: view

Transcripts for CHL1 Gene

Unigene Clusters for CHL1 Gene

Cell adhesion molecule with homology to L1CAM (close homolog of L1):
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for CHL1

Primer Products

  • OriGene qSTAR qPCR primer pairs in human,mouse,rat for CHL1

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for CHL1 Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2a · 2b ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7a · 7b · 7c ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^
SP1: - - - - -
SP2: - - - - - -
SP3: - - - -
SP4:
SP5:
SP6: - - - - - -
SP7: - - - - - -
SP8: - - -
SP9: -
SP10:

ExUns: 19 ^ 20a · 20b ^ 21 ^ 22 ^ 23 ^ 24 ^ 25 ^ 26 ^ 27 ^ 28a · 28b ^ 29 ^ 30 ^ 31 ^ 32a · 32b
SP1: -
SP2: -
SP3: -
SP4:
SP5: -
SP6:
SP7:
SP8:
SP9:
SP10:

Relevant External Links for CHL1 Gene

GeneLoc Exon Structure for
CHL1
ECgene alternative splicing isoforms for
CHL1

Expression for CHL1 Gene

mRNA expression in normal human tissues for CHL1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CHL1 Gene

This gene is overexpressed in Brain - Frontal Cortex (BA9) (5.4) and Brain - Anterior cingulate cortex (BA24) (5.0).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for CHL1 Gene

SOURCE GeneReport for Unigene cluster for CHL1 Gene Hs.148909

mRNA Expression by UniProt/SwissProt for CHL1 Gene

O00533-NCHL1_HUMAN
Tissue specificity: Expressed in the fetal and adult brain as well as in Schwann cell culture. Also detected in adult peripheral tissues.
genes like me logo Genes that share expressions with CHL1: view

In Situ Assay Products

Orthologs for CHL1 Gene

This gene was present in the common ancestor of animals.

Orthologs for CHL1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CHL1 35
  • 99.16 (n)
  • 99.26 (a)
CHL1 36
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CHL1 35
  • 88.48 (n)
  • 89.71 (a)
CHL1 36
  • 89 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CHL1 35
  • 90.88 (n)
  • 91.58 (a)
CHL1 36
  • 92 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Chl1 35
  • 84.62 (n)
  • 84.92 (a)
Chl1 16
Chl1 36
  • 85 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia CHL1 36
  • 75 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CHL1 36
  • 67 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Chl1 35
  • 84.04 (n)
  • 85.14 (a)
chicken
(Gallus gallus)
Aves CHL1 35
  • 68.98 (n)
  • 64.93 (a)
CHL1 36
  • 65 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CHL1 36
  • 58 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii CHL1 (1 of 2) 36
  • 48 (a)
OneToMany
chl1a 35
  • 54.5 (n)
  • 46.88 (a)
chl1a 36
  • 47 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta Nrg 37
  • 28 (a)
worm
(Caenorhabditis elegans)
Secernentea C33F10.5a 37
  • 23 (a)
C33F10.5b 37
  • 23 (a)
Y54G2A.25 37
  • 29 (a)
Species with no ortholog for CHL1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for CHL1 Gene

ENSEMBL:
Gene Tree for CHL1 (if available)
TreeFam:
Gene Tree for CHL1 (if available)

Paralogs for CHL1 Gene

Selected SIMAP similar genes for CHL1 Gene using alignment to 7 proteins:

genes like me logo Genes that share paralogs with CHL1: view

Variants for CHL1 Gene

Sequence variations from dbSNP and Humsavar for CHL1 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type MAF
rs87018 -- 296,594(-) GTGGA(C/T)AGTCA intron-variant
rs94029 -- 254,420(-) TCCCA(C/G)TTTCA intron-variant
rs94030 -- 254,434(+) GTATA(G/T)TTCCA intron-variant
rs162416 -- 324,356(+) AGTTT(G/T)CATTT intron-variant
rs162586 -- 334,949(+) AATGA(A/G)TAAAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CHL1 Gene

Variant ID Type Subtype PubMed ID
nsv469898 CNV Loss 18288195
nsv526340 CNV Loss 19592680
nsv428412 CNV Gain 18775914
essv21464 CNV CNV 17122850
dgv1424e1 CNV Complex 17122850
dgv1425e1 CNV Complex 17122850
dgv1426e1 CNV Complex 17122850
esv2667629 CNV Deletion 23128226
nsv876284 CNV Loss 21882294
dgv5071n71 CNV Gain 21882294
nsv460304 CNV Gain 19166990
esv2751984 CNV Gain 17911159
nsv3670 CNV Loss 18451855
nsv508206 CNV Loss 20534489
nsv876287 CNV Gain 21882294
nsv876288 CNV Gain 21882294
nsv876289 CNV Gain 21882294
dgv266n21 CNV Loss 19592680
esv2668040 CNV Deletion 23128226
dgv267n21 CNV Loss 19592680
nsv460305 CNV Loss 19166990
nsv834589 CNV Gain 17160897
esv2663135 CNV Deletion 23128226
nsv876290 CNV Loss 21882294
nsv460307 CNV Loss 19166990
esv2271283 CNV Deletion 18987734
esv26398 CNV Loss 19812545
nsv876291 CNV Gain 21882294
nsv10238 CNV Gain 18304495
esv24432 CNV Gain 19812545
nsv818121 CNV Gain 17921354
nsv433357 CNV Gain 18776910
nsv3671 CNV Insertion 18451855
esv1945808 CNV Deletion 18987734
esv2662179 CNV Deletion 23128226
nsv3672 CNV Loss 18451855
dgv5072n71 CNV Gain 21882294
nsv876294 CNV Gain 21882294
esv2675472 CNV Deletion 23128226
nsv876295 CNV Loss 21882294

Relevant External Links for CHL1 Gene

HapMap Linkage Disequilibrium report
CHL1
Human Gene Mutation Database (HGMD)
CHL1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CHL1 Gene

Disorders for CHL1 Gene

MalaCards: The human disease database

MalaCards: The human disease database. (2) Diseases for CHL1 Gene including...

Search for CHL1 Gene in MalaCards »

(1) University of Copenhagen DISEASES for CHL1 Gene

(1) Novoseek inferred disease relationships for CHL1 Gene

Disease -log(P) Hits PubMed IDs
schizophrenia 20.4 7

Relevant External Links for CHL1

Genetic Association Database (GAD)
CHL1
Human Genome Epidemiology (HuGE) Navigator
CHL1
genes like me logo Genes that share disorders with CHL1: view

No data available for UniProtKB/Swiss-Prot for CHL1 Gene

Publications for CHL1 Gene

  1. An association between a missense polymorphism in the close homologue of L1 (CHL1, CALL) gene and schizophrenia. (PMID: 11986985) Sakurai K. … Arinami T. (Mol. Psychiatry 2002) 3 23 48
  2. Case-control association study of the close homologue of L1 (CHL1) gene and schizophrenia in the Chinese population. (PMID: 15653271) Chen Q.Y. … He L. (Schizophr. Res. 2005) 3 23 48
  3. In silico-initiated cloning and molecular characterization of a novel human member of the L1 gene family of neural cell adhesion molecules. (PMID: 9799093) Wei M.-H. … Lerman M.I. (Hum. Genet. 1998) 2 3 4
  4. Human plasma N-glycoproteome analysis by immunoaffinity subtraction, hydrazide chemistry, and mass spectrometry. (PMID: 16335952) Liu T. … Smith R.D. (J. Proteome Res. 2005) 3 4
  5. Molecular genetic analysis of a cell adhesion molecule with homology to L1CAM, contactin 6, and contactin 4 candidate chromosome 3p26pter tumor suppressor genes in ovarian cancer. (PMID: 19509545) Manderson E.N. … Tonin P.N. (Int. J. Gynecol. Cancer 2009) 3 23

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