This gene encodes a type I transmembrane protein that is localized to junctional complexes between endothelial and epithelial cells and may have a role in cell-cell adhesion. Expression of this gene in white adipose tissue is implicated in adipocyte maturation and development of obesity. This gene is also essential for normal intestinal development and mutations in the gene are... See more...

Aliases for CLMP Gene

Aliases for CLMP Gene

  • CXADR Like Membrane Protein 2 3 5
  • Coxsackie- And Adenovirus Receptor-Like Membrane Protein 2 3 4
  • ACAM 2 3 4
  • ASAM 2 3 4
  • Adipocyte-Specific Adhesion Molecule 2 3
  • Adipocyte Adhesion Molecule 2 4
  • CXADR-Like Membrane Protein 3 4
  • CAR-Like Membrane Protein 3 4
  • FLJ22415 2
  • CSBM 3
  • CSBS 3
  • CLMP 5

External Ids for CLMP Gene

Previous GeneCards Identifiers for CLMP Gene

  • GC11M122943

Summaries for CLMP Gene

Entrez Gene Summary for CLMP Gene

  • This gene encodes a type I transmembrane protein that is localized to junctional complexes between endothelial and epithelial cells and may have a role in cell-cell adhesion. Expression of this gene in white adipose tissue is implicated in adipocyte maturation and development of obesity. This gene is also essential for normal intestinal development and mutations in the gene are associated with congenital short bowel syndrome. [provided by RefSeq, Aug 2015]

GeneCards Summary for CLMP Gene

CLMP (CXADR Like Membrane Protein) is a Protein Coding gene. Diseases associated with CLMP include Congenital Short Bowel Syndrome and Intestinal Pseudo-Obstruction. An important paralog of this gene is CXADR.

UniProtKB/Swiss-Prot Summary for CLMP Gene

  • May be involved in the cell-cell adhesion. May play a role in adipocyte differentiation and development of obesity. Is required for normal small intestine development.

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CLMP Gene

Genomics for CLMP Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for CLMP Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH11J123192 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 609.1 +0.7 714 4.6 ATF7 KDM1A POLR2A EZH2 ZNF341 CEBPA CEBPB ZBTB20 SP2 ZXDB CLMP lnc-GRAMD1B-5 UBASH3B ENSG00000254710 HSPA8
GH11J123357 Promoter/Enhancer 1.5 Ensembl ENCODE CraniofacialAtlas 19.5 -163.3 -163299 1.7 CTCF PRDM10 KDM1A ZNF692 BACH1 PRDM1 PATZ1 SMAD5 IKZF2 POLR2A GRAMD1B lnc-JHY-7 CLMP SCN3B
GH11J123172 Enhancer 1.2 Ensembl ENCODE CraniofacialAtlas dbSUPER 23.2 +20.4 20444 4.8 SCRT2 CEBPB SP1 JUND RCOR1 FOS SCRT1 MAX NR2F2 EP300 CLMP ENSG00000254710 RF00017-1056 HSPA8
GH11J123055 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 12.2 +134.1 134136 10.9 CEBPG SP1 HNRNPL CREB1 PRDM10 REST RFX1 LEF1 NFKBIZ ZNF692 ENSG00000288061 HSPA8 LOC101929289 SNORD14C lnc-CLMP-3 piR-59038 piR-61486 ZNF202 CLMP JHY
GH11J123740 Promoter/Enhancer 2.2 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas 12.1 -546.5 -546548 4.4 PRDM10 TFE3 ZNF512 LEF1 POLR2A ZNF7 BACH1 JUND GABPA MTA2 ZNF202 lnc-GRAMD1B-6 lnc-ZNF202-1 VWA5A CLMP OR6X1 OR10G7 OR6M1 OR10G4 OR8G2P
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CLMP on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for CLMP

Genomic Locations for CLMP Gene

Genomic Locations for CLMP Gene
chr11:123,069,872-123,195,248
(GRCh38/hg38)
Size:
125,377 bases
Orientation:
Minus strand
chr11:122,943,020-123,066,007
(GRCh37/hg19)
Size:
122,988 bases
Orientation:
Minus strand

Genomic View for CLMP Gene

Genes around CLMP on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CLMP Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CLMP Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLMP Gene

Proteins for CLMP Gene

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

    Protein Symbol:
    Q9H6B4-CLMP_HUMAN
    Recommended name:
    CXADR-like membrane protein
    Protein Accession:
    Q9H6B4

    Protein attributes for CLMP Gene

    Size:
    373 amino acids
    Molecular mass:
    41281 Da
    Quaternary structure:
    No Data Available

neXtProt entry for CLMP Gene

Post-translational modifications for CLMP Gene

  • Glycosylation at Asn74 and Asn197
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect

Other Protein References for CLMP Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for CLMP Gene

Domains & Families for CLMP Gene

Gene Families for CLMP Gene

HGNC:
Human Protein Atlas (HPA):
  • Disease related genes
  • Predicted membrane proteins

Protein Domains for CLMP Gene

InterPro:
Blocks:
  • Immunoglobulin C-2 type
  • Immunoglobulin V-set
ProtoNet:

Suggested Antigen Peptide Sequences for CLMP Gene

GenScript: Design optimal peptide antigens:
  • Coxsackie- and adenovirus receptor-like membrane protein (CLMP_HUMAN)
genes like me logo Genes that share domains with CLMP: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for CLMP Gene

Function for CLMP Gene

Molecular function for CLMP Gene

UniProtKB/Swiss-Prot Function:
May be involved in the cell-cell adhesion. May play a role in adipocyte differentiation and development of obesity. Is required for normal small intestine development.
UniProtKB/Swiss-Prot Induction:
Up-regulated in mature adipocytes and adipocyte tissue of obese individuals.

Phenotypes From GWAS Catalog for CLMP Gene

genes like me logo Genes that share phenotypes with CLMP: view

Human Phenotype Ontology for CLMP Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for CLMP Gene

MGI Knock Outs for CLMP:

Animal Model Products

  • Taconic Biosciences Mouse Models for CLMP

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CLMP

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Transcription Factor Targets and HOMER Transcription for CLMP Gene

Localization for CLMP Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLMP Gene

Cell junction, tight junction. Cell membrane. Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CLMP gene
Compartment Confidence
cytoskeleton 5
plasma membrane 4
nucleus 3
extracellular 2
cytosol 2
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1
endosome 1
lysosome 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for CLMP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005881 cytoplasmic microtubule IDA 23264731
GO:0005886 plasma membrane IEA --
GO:0005923 bicellular tight junction IEA,IDA 22155368
GO:0009986 cell surface HDA 19581412
GO:0016020 membrane IEA --
genes like me logo Genes that share ontologies with CLMP: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for CLMP Gene

Pathways & Interactions for CLMP Gene

PathCards logo

SuperPathways for CLMP Gene

No Data Available

Gene Ontology (GO) - Biological Process for CLMP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0048565 digestive tract development IMP 22155368
genes like me logo Genes that share ontologies with CLMP: view

No data available for Pathways by source and SIGNOR curated interactions for CLMP Gene

Drugs & Compounds for CLMP Gene

No Compound Related Data Available

Transcripts for CLMP Gene

mRNA/cDNA for CLMP Gene

1 REFSEQ mRNAs :
10 NCBI additional mRNA sequence :
4 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CLMP

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

ExUns: 1 ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b ^ 7a · 7b
SP1:
SP2: -

Relevant External Links for CLMP Gene

GeneLoc Exon Structure for
CLMP

Expression for CLMP Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for CLMP Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Artery - Aorta (x4.2).

Protein differential expression in normal tissues from HIPED for CLMP Gene

This gene is overexpressed in Urine (32.0), Gallbladder (12.8), Adipocyte (10.4), and Fetal Brain (8.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for CLMP Gene



Transcriptomic regulation report from SPP (The Signaling Pathways Project) for CLMP

SOURCE GeneReport for Unigene cluster for CLMP Gene:

Hs.591949

mRNA Expression by UniProt/SwissProt for CLMP Gene:

Q9H6B4-CLMP_HUMAN
Tissue specificity: Predominantly expressed in epithelial cells within different tissues and in the white adipose tissue. Expressed at high levels in small intestine and placenta, at intermediate levels in the heart, skeletal muscle, colon, spleen, kidney and lung and at low levels in the liver and peripheral blood leukocytes. Highly abundant in the intestine during embryo and fetal development (at protein level).

Evidence on tissue expression from TISSUES for CLMP Gene

  • Muscle(4.4)
  • Intestine(2.6)
  • Nervous system(2.4)
  • Skin(2.3)
  • Heart(2.3)
  • Blood(2.1)

Phenotype-based relationships between genes and organs from Gene ORGANizer for CLMP Gene

Germ Layers:
  • ectoderm
  • endoderm
  • mesoderm
Systems:
  • cardiovascular
  • digestive
  • integumentary
  • nervous
  • skeleton
Regions:
Head and neck:
  • brain
  • ear
  • eye
  • eyelid
  • face
  • head
  • lip
  • nose
  • outer ear
  • skull
Thorax:
  • esophagus
  • heart
Abdomen:
  • biliary tract
  • duodenum
  • intestine
  • large intestine
  • pancreas
  • small intestine
  • stomach
Pelvis:
  • anus
  • rectum
General:
  • blood
  • blood vessel
  • coagulation system
  • hair
  • skin
genes like me logo Genes that share expression patterns with CLMP: view

No data available for Protein tissue co-expression partners for CLMP Gene

Orthologs for CLMP Gene

This gene was present in the common ancestor of chordates.

Orthologs for CLMP Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia CLMP 30 31
  • 100 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia CLMP 30 31
  • 93.13 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia ASAM 31
  • 90 (a)
OneToOne
CLMP 30
  • 89.19 (n)
Mouse
(Mus musculus)
Mammalia Clmp 30 17 31
  • 87.82 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Clmp 30
  • 87.73 (n)
Oppossum
(Monodelphis domestica)
Mammalia CLMP 31
  • 80 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia CLMP 31
  • 71 (a)
OneToOne
Chicken
(Gallus gallus)
Aves CLMP 30 31
  • 68.47 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia CLMP 31
  • 61 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia clmp 30
  • 59.22 (n)
Zebrafish
(Danio rerio)
Actinopterygii LOC100330877 30
  • 55.48 (n)
CLMP 31
  • 44 (a)
OneToOne
Species where no ortholog for CLMP was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • Fruit Fly (Drosophila melanogaster)
  • 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 Vase (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)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for CLMP Gene

ENSEMBL:
Gene Tree for CLMP (if available)
TreeFam:
Gene Tree for CLMP (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CLMP: view image

Paralogs for CLMP Gene

(1) SIMAP similar genes for CLMP Gene using alignment to 1 proteins:

  • CLMP_HUMAN
genes like me logo Genes that share paralogs with CLMP: view

Variants for CLMP Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for CLMP Gene

SNP ID Clinical significance and condition Chr 11 pos Variation AA Info Type
717448 Likely Benign: not provided 123,097,933(-) G/C SYNONYMOUS_VARIANT
717942 Benign: not provided 123,083,828(-) C/T SYNONYMOUS_VARIANT
719365 Benign: not provided 123,097,818(-) C/T MISSENSE_VARIANT
753985 Likely Benign: not provided 123,073,564(-) T/C SYNONYMOUS_VARIANT
784224 Benign: not provided 123,083,783(-) C/T SYNONYMOUS_VARIANT

Additional dbSNP identifiers (rs#s) for CLMP Gene

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

Variant ID Type Subtype PubMed ID
esv2745163 CNV deletion 23290073
esv2745165 CNV deletion 23290073
esv3548445 CNV deletion 23714750
nsv1039284 CNV gain 25217958
nsv1122675 CNV deletion 24896259
nsv1146235 CNV deletion 26484159

Variation tolerance for CLMP Gene

Residual Variation Intolerance Score: 24.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.47; 54.99% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CLMP Gene

Human Gene Mutation Database (HGMD)
CLMP
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CLMP

SNP Genotyping and Copy Number Assay Products

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

Disorders for CLMP Gene

MalaCards: The human disease database

(11) MalaCards diseases for CLMP Gene - From: UniProtKB/Swiss-Prot, OMIM, ClinVar, GTR, Orphanet, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
congenital short bowel syndrome
  • csbs
intestinal pseudo-obstruction
  • megaduodenum and/or megacystis
short bowel syndrome
  • acquired short bowel syndrome
barbiturate abuse
interstitial myocarditis
- elite association - COSMIC cancer census association via MalaCards
Search CLMP in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

CLMP_HUMAN
  • Congenital short bowel syndrome (CSBS) [MIM:615237]: A disease characterized by a shortened small intestine, intestinal malrotation, and malabsorption. The mean length of the small intestine in CSBS patients is approximately 50 cm, compared with a normal length at birth of 190-280 cm. Patients with CSBS may develop severe malnutrition as a result of the hugely reduced absorptive surface of the small intestine. Infants require parenteral nutrition for survival. However, parenteral nutrition itself causes life-threatening complications such as sepsis and liver failure which are associated with a high rate of mortality early in life. {ECO:0000269 PubMed:22155368}. Note=The disease is caused by mutations affecting the gene represented in this entry.
genes like me logo Genes that share disorders with CLMP: view

No data available for Genatlas for CLMP Gene

Publications for CLMP Gene

  1. CLMP, a novel member of the CTX family and a new component of epithelial tight junctions. (PMID: 14573622) Raschperger E … Fuxe J (The Journal of biological chemistry 2004) 2 3 4 23
  2. Identification of adipocyte adhesion molecule (ACAM), a novel CTX gene family, implicated in adipocyte maturation and development of obesity. (PMID: 15563274) Eguchi J … Makino H (The Biochemical journal 2005) 3 4 23
  3. IGSF11 gene, frequently up-regulated in intestinal-type gastric cancer, encodes adhesion molecule homologous to CXADR, FLJ22415 and ESAM. (PMID: 12851705) Katoh M … Katoh M (International journal of oncology 2003) 2 3 23
  4. CLMP is required for intestinal development, and loss-of-function mutations cause congenital short-bowel syndrome. (PMID: 22155368) Van Der Werf CS … Hofstra RM (Gastroenterology 2012) 3 4
  5. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark HF … Gray A (Genome research 2003) 3 4

Products for CLMP Gene

  • Signalway ELISA kits for CLMP
  • Signalway Proteins for CLMP

Sources for CLMP Gene