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CHODL chondrolectin [ Homo sapiens (human) ]

Gene ID: 140578, updated on 5-Mar-2024

Summary

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Official Symbol
CHODLprovided by HGNC
Official Full Name
chondrolectinprovided by HGNC
Primary source
HGNC:HGNC:17807
See related
Ensembl:ENSG00000154645 MIM:607247; AllianceGenome:HGNC:17807
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
MT75; PRED12; C21orf68
Summary
This gene encodes a type I membrane protein with a carbohydrate recognition domain characteristic of C-type lectins in its extracellular portion. In other proteins, this domain is involved in endocytosis of glycoproteins and exogenous sugar-bearing pathogens. This protein localizes predominantly to the perinuclear region. Several transcript variants encoding a few different isoforms have been found for this gene. [provided by RefSeq, Feb 2011]
Expression
Biased expression in testis (RPKM 14.8), spleen (RPKM 3.6) and 5 other tissues See more
Orthologs
mouse all
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Genomic context

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Location:
21q21.1
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 21 NC_000021.9 (17917340..18267370)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 21 NC_060945.1 (16276723..16627191)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 21 NC_000021.8 (19289657..19639687)

Chromosome 21 - NC_000021.9Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124900465 Neighboring gene CHODL antisense RNA 1 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr21:19275561-19276119 Neighboring gene uncharacterized LOC124905000 Neighboring gene ribosomal protein L37 pseudogene 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:19366518-19367018 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:19367019-19367519 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr21:19527809-19528341 Neighboring gene NANOG hESC enhancer GRCh37_chr21:19633596-19634097 Neighboring gene NANOG hESC enhancer GRCh37_chr21:19670536-19671363 Neighboring gene transmembrane serine protease 15 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr21:19940595-19941314 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr21:19941315-19942032 Neighboring gene MIR548X host gene Neighboring gene microRNA 548x

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Chondrolectin is a novel diagnostic biomarker and a therapeutic target for lung cancer. Masuda K, et al. Clin Cancer Res, 2011 Dec 15. PMID 22016508
  2. Expression and localization of CHODLDeltaE/CHODLfDeltaE, the soluble isoform of chondrolectin. Claessens A, et al. Cell Biol Int, 2007 Nov. PMID 17606388
  3. A novel alternative spliced chondrolectin isoform lacking the transmembrane domain is expressed during T cell maturation. Weng L, et al. J Biol Chem, 2003 May 23. PMID 12621022
  4. Molecular cloning and characterization of human chondrolectin, a novel type I transmembrane protein homologous to C-type lectins. Weng L, et al. Genomics, 2002 Jul. PMID 12079284
  5. Antibody-based protein profiling of the human chromosome 21. Uhlén M, et al. Mol Cell Proteomics, 2012 Mar. PMID 22042635, Free PMC Article

See all (17) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Data indicate that chondrolectin (CHODL) is likely to be a prognostic biomarker in the clinic and targeting CHODL might be a strategy for the development of anticancer drugs.
    Title: Chondrolectin is a novel diagnostic biomarker and a therapeutic target for lung cancer.
  2. CHODLDeltaE/CHODLfDeltaE protein variant localizes in the late endoplasmic reticulum and is detected in spleen and tonsils; the isoform seems to be differentially expressed in thymocytes and lymphocytes.
    Title: Expression and localization of CHODLDeltaE/CHODLfDeltaE, the soluble isoform of chondrolectin.
  3. cloning and characterization; localized at chromosome 21q21
    Title: Molecular cloning and characterization of human chondrolectin, a novel type I transmembrane protein homologous to C-type lectins.
  4. study describes the molecular characterization of novel members of the chondrolectin family associated with T cell maturation and a subcellular localization of chondrolectin f isoform in the endoplasmic reticulum-Golgi apparatus
    Title: A novel alternative spliced chondrolectin isoform lacking the transmembrane domain is expressed during T cell maturation.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genetic variants associated with disordered eating.
EBI GWAS Catalog
Genome-wide association study combining pathway analysis for typical sporadic amyotrophic lateral sclerosis in Chinese Han populations.
EBI GWAS Catalog
Genome-wide association study of chemotherapeutic agent-induced severe neutropenia/leucopenia for patients in Biobank Japan.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Clone Names

  • FLJ12627

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables carbohydrate binding IEA
Inferred from Electronic Annotation
more info
  
NOT enables hyaluronic acid binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in muscle organ development NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in nervous system development IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of axonogenesis IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in centrosome IDA
Inferred from Direct Assay
more info
  
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
  
located_in endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
  
located_in perinuclear region of cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
chondrolectin
Names
transmembrane protein MT75

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.

Genomic

  1. NG_029478.2 RefSeqGene

    Range
    332495..355032
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001204174.2 → NP_001191103.1  chondrolectin isoform b

    See identical proteins and their annotated locations for NP_001191103.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (b) has a shorter and distinct N-terminus compared to isoform a.
    Source sequence(s)
    AF257472, AK296009
    Consensus CDS
    CCDS56208.1
    UniProtKB/Swiss-Prot
    Q9H9P2
    Related
    ENSP00000443566.1, ENST00000543733.5
    Conserved Domains (1) summary
    cl02432
    Location:9 → 161
    CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

  2. NM_001204175.2 → NP_001191104.1  chondrolectin isoform c

    See identical proteins and their annotated locations for NP_001191104.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (c) is shorter at the N-terminus compared to isoform a. Variants 3 and 4 both encode the same isoform (c).
    Source sequence(s)
    AF257472, AK022689
    Consensus CDS
    CCDS56209.1
    UniProtKB/Swiss-Prot
    Q9H9P2
    Related
    ENSP00000382993.1, ENST00000400128.5
    Conserved Domains (1) summary
    cl02432
    Location:1 → 139
    CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

  3. NM_001204176.2 → NP_001191105.1  chondrolectin isoform c

    See identical proteins and their annotated locations for NP_001191105.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (c) is shorter at the N-terminus compared to isoform a. Variants 3 and 4 both encode the same isoform (c).
    Source sequence(s)
    AF257472, AF523314, AP000998
    Consensus CDS
    CCDS56209.1
    UniProtKB/Swiss-Prot
    Q9H9P2
    Related
    ENSP00000382992.1, ENST00000400127.5
    Conserved Domains (1) summary
    cl02432
    Location:1 → 139
    CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

  4. NM_001204177.2 → NP_001191106.1  chondrolectin isoform d

    See identical proteins and their annotated locations for NP_001191106.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR and coding sequence and lacks an alternate coding exon compared to variant 1, that causes a frameshift. The resulting isoform (d) has a shorter N-terminus and a longer and distinct C-terminus compared to isoform a. Variants 5 and 6 both encode the same isoform (d).
    Source sequence(s)
    AF257472, AF523315
    Consensus CDS
    CCDS56210.1
    UniProtKB/TrEMBL
    A0A0C4DFS2
    Related
    ENSP00000382996.1, ENST00000400131.5
    Conserved Domains (1) summary
    cl02432
    Location:1 → 139
    CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

  5. NM_001204178.2 → NP_001191107.1  chondrolectin isoform d

    See identical proteins and their annotated locations for NP_001191107.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR and coding sequence and lacks an alternate coding exon compared to variant 1, that causes a frameshift. The resulting isoform (d) has a shorter N-terminus and a longer and distinct C-terminus compared to isoform a. Variants 5 and 6 both encode the same isoform (d).
    Source sequence(s)
    AF257472, AF523313, AL078474, AP000998, KF457034
    Consensus CDS
    CCDS56210.1
    UniProtKB/TrEMBL
    A0A0C4DFS2
    Related
    ENSP00000383001.1, ENST00000400135.5
    Conserved Domains (1) summary
    cl02432
    Location:1 → 139
    CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

  6. NM_024944.3 → NP_079220.2  chondrolectin isoform a precursor

    See identical proteins and their annotated locations for NP_079220.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AF257472
    Consensus CDS
    CCDS13570.1
    UniProtKB/Swiss-Prot
    B2R9C0, B4DJB8, Q7Z798, Q7Z799, Q7Z7A0, Q9H9P2, Q9HCY3
    Related
    ENSP00000299295.2, ENST00000299295.7
    Conserved Domains (1) summary
    cl02432
    Location:28 → 180
    CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000021.9 Reference GRCh38.p14 Primary Assembly

    Range
    17917340..18267370
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047440682.1 → XP_047296638.1  chondrolectin isoform X3

  2. XM_011529453.3 → XP_011527755.1  chondrolectin isoform X2

    Conserved Domains (1) summary
    cl02432
    Location:28 → 180
    CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

  3. XM_017028273.2 → XP_016883762.1  chondrolectin isoform X1

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060945.1 Alternate T2T-CHM13v2.0

    Range
    16276723..16627191
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054324333.1 → XP_054180308.1  chondrolectin isoform X4

  2. XM_054324332.1 → XP_054180307.1  chondrolectin isoform X2

  3. XM_054324331.1 → XP_054180306.1  chondrolectin isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9H9P2.2 GenPept UniProtKB/Swiss-Prot:Q9H9P2

Gene LinkOut

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