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    Chl1 cell adhesion molecule L1-like [ Rattus norvegicus (Norway rat) ]

    Gene ID: 89828, updated on 27-Dec-2024

    Summary

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    Symbol
    Chl1provided by RGD
    Full Name
    cell adhesion molecule L1-likeprovided by RGD
    Primary source
    RGD:620122
    See related
    EnsemblRapid:ENSRNOG00000045771 AllianceGenome:RGD:620122
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Call
    Summary
    Predicted to enable protease binding activity. Involved in axon regeneration. Predicted to be located in apical part of cell and dendrite. Predicted to be active in neuron projection. Human ortholog(s) of this gene implicated in schizophrenia. Orthologous to human CHL1 (cell adhesion molecule L1 like). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 405.3), Testes (RPKM 284.7) and 1 other tissue See more
    Orthologs
    human mouse all
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    Genomic context

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    See Chl1 in Genome Data Viewer
    Location:
    4q41
    Exon count:
    29
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (137847648..138062077)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (136291504..136505830)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (70269414..70331313)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein L30, pseudogene 10 Neighboring gene uncharacterized LOC120102179 Neighboring gene ribosomal protein L4, pseudogene 2 Neighboring gene uncharacterized LOC102549329 Neighboring gene U7 small nuclear RNA Neighboring gene uncharacterized LOC120102180

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Increase of close homolog of cell adhesion molecule L1 in primary afferent by nerve injury and the contribution to neuropathic pain. Yamanaka H, et al. J Comp Neurol, 2011 Jun 1. PMID 21452236
    2. Increased expression of the close homolog of the adhesion molecule L1 in different cell types over time after rat spinal cord contusion. Wu J, et al. J Neurosci Res, 2011 May. PMID 21337374
    3. Expression of regeneration-related molecules in injured and regenerating striatal and nigral neurons. Chaisuksunt V, et al. J Neurocytol, 2003 Feb. PMID 14707551
    4. Axonal regeneration from CNS neurons in the cerebellum and brainstem of adult rats: correlation with the patterns of expression and distribution of messenger RNAs for L1, CHL1, c-jun and growth-associated protein-43. Chaisuksunt V, et al. Neuroscience, 2000. PMID 10996461
    5. Mice deficient for the close homologue of the neural adhesion cell L1 (CHL1) display alterations in emotional reactivity and motor coordination. Pratte M, et al. Behav Brain Res, 2003 Dec 17. PMID 14659567

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Up-regulation of Chl1 in multiple cell types and locations in a rat model of contusion injury involves both inhibition of axonal regeneration and recovery processes after spinal cord injury.
      Title: Increased expression of the close homolog of the adhesion molecule L1 in different cell types over time after rat spinal cord contusion.
    2. Data suggest that alterations of CHL1 may be involved in the structural plasticity after peripheral nerve injury and have important roles in neuropathic pain.
      Title: Increase of close homolog of cell adhesion molecule L1 in primary afferent by nerve injury and the contribution to neuropathic pain.
    3. CHL1-Fc saved the same number of motoneurons as did L1-Fc
      Title: Neural adhesion molecules L1 and CHL1 are survival factors for motoneurons.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables protease binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within adult locomotory behavior ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within axon guidance ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in axon regeneration IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in axon regeneration NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within cognition ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within exploration behavior ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT acts_upstream_of_or_within homophilic cell adhesion via plasma membrane adhesion molecules ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of neuron apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within neuron migration ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within neuron projection development ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in apical part of cell ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in dendrite ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in neuron projection IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    neural cell adhesion molecule L1-like protein
    Names
    cell adhesion molecule with homology to L1CAM (close homologue of L1)

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001427108.1 → NP_001414037.1  neural cell adhesion molecule L1-like protein precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/TrEMBL
      A0A8I5Y8T8
      Related
      ENSRNOP00000076353.1, ENSRNOT00000116427.2

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086022.1 Reference GRCr8

      Range
      137847648..138062077
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063286790.1 → XP_063142860.1  neural cell adhesion molecule L1-like protein isoform X4

      UniProtKB/TrEMBL
      A0A8I5Y8T8

    2. XM_039108773.2 → XP_038964701.1  neural cell adhesion molecule L1-like protein isoform X1

      UniProtKB/TrEMBL
      A0A8I5Y8T8, M0RC17
      Related
      ENSRNOP00000067122.3, ENSRNOT00000073039.5
      Conserved Domains (7) summary
      cd00063
      Location:627 → 716
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00041
      Location:730 → 811
      fn3; Fibronectin type III domain
      pfam13882
      Location:1120 → 1201
      Bravo_FIGEY; Bravo-like intracellular region
      cd00096
      Location:273 → 277
      Ig; Ig strand B [structural motif]
      cd04978
      Location:347 → 434
      Ig4_L1-NrCAM_like; Fourth immunoglobulin (Ig)-like domain of L1, Ng-CAM (Neuron-glia CAM cell adhesion molecule), and NrCAM (Ng-CAM-related)
      cd05845
      Location:134 → 224
      IgI_2_L1-CAM_like; Second immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM), and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cl11960
      Location:261 → 343
      Ig; Immunoglobulin domain

    3. XM_039108777.2 → XP_038964705.1  neural cell adhesion molecule L1-like protein isoform X3

      UniProtKB/TrEMBL
      A0A8I5Y8T8, A0A8I6A9A6
      Conserved Domains (7) summary
      cd00063
      Location:627 → 716
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00041
      Location:730 → 811
      fn3; Fibronectin type III domain
      pfam13882
      Location:1066 → 1147
      Bravo_FIGEY; Bravo-like intracellular region
      cd00096
      Location:273 → 277
      Ig; Ig strand B [structural motif]
      cd04978
      Location:347 → 434
      Ig4_L1-NrCAM_like; Fourth immunoglobulin (Ig)-like domain of L1, Ng-CAM (Neuron-glia CAM cell adhesion molecule), and NrCAM (Ng-CAM-related)
      cd05845
      Location:134 → 224
      IgI_2_L1-CAM_like; Second immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM), and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cl11960
      Location:261 → 343
      Ig; Immunoglobulin domain

    4. XM_039108774.2 → XP_038964702.1  neural cell adhesion molecule L1-like protein isoform X1

      UniProtKB/TrEMBL
      A0A8I5Y8T8, M0RC17
      Conserved Domains (7) summary
      cd00063
      Location:627 → 716
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00041
      Location:730 → 811
      fn3; Fibronectin type III domain
      pfam13882
      Location:1120 → 1201
      Bravo_FIGEY; Bravo-like intracellular region
      cd00096
      Location:273 → 277
      Ig; Ig strand B [structural motif]
      cd04978
      Location:347 → 434
      Ig4_L1-NrCAM_like; Fourth immunoglobulin (Ig)-like domain of L1, Ng-CAM (Neuron-glia CAM cell adhesion molecule), and NrCAM (Ng-CAM-related)
      cd05845
      Location:134 → 224
      IgI_2_L1-CAM_like; Second immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM), and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cl11960
      Location:261 → 343
      Ig; Immunoglobulin domain

    5. XM_063286786.1 → XP_063142856.1  neural cell adhesion molecule L1-like protein isoform X2

      UniProtKB/TrEMBL
      A0A8I5Y8T8

    6. XM_063286788.1 → XP_063142858.1  neural cell adhesion molecule L1-like protein isoform X3

      UniProtKB/TrEMBL
      A0A8I5Y8T8, A0A8I6A9A6
      Related
      ENSRNOP00000089187.1, ENSRNOT00000107051.2

    7. XM_063286791.1 → XP_063142861.1  neural cell adhesion molecule L1-like protein isoform X4

      UniProtKB/TrEMBL
      A0A8I5Y8T8

    8. XM_063286789.1 → XP_063142859.1  neural cell adhesion molecule L1-like protein isoform X3

      UniProtKB/TrEMBL
      A0A8I5Y8T8, A0A8I6A9A6

    9. XM_063286787.1 → XP_063142857.1  neural cell adhesion molecule L1-like protein isoform X2

      UniProtKB/TrEMBL
      A0A8I5Y8T8

    10. XM_039108775.2 → XP_038964703.1  neural cell adhesion molecule L1-like protein isoform X1

      UniProtKB/TrEMBL
      A0A8I5Y8T8, M0RC17
      Conserved Domains (7) summary
      cd00063
      Location:627 → 716
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00041
      Location:730 → 811
      fn3; Fibronectin type III domain
      pfam13882
      Location:1120 → 1201
      Bravo_FIGEY; Bravo-like intracellular region
      cd00096
      Location:273 → 277
      Ig; Ig strand B [structural motif]
      cd04978
      Location:347 → 434
      Ig4_L1-NrCAM_like; Fourth immunoglobulin (Ig)-like domain of L1, Ng-CAM (Neuron-glia CAM cell adhesion molecule), and NrCAM (Ng-CAM-related)
      cd05845
      Location:134 → 224
      IgI_2_L1-CAM_like; Second immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM), and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cl11960
      Location:261 → 343
      Ig; Immunoglobulin domain
    Nucleotide Protein Strain
    Heading Accession and Version

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