Free for academic non-profit institutions. Other users need a Commercial license

Aliases for CLTA Gene

Aliases for CLTA Gene

  • Clathrin Light Chain A 2 3 3 5
  • Clathrin, Light Polypeptide (Lca) 2 3
  • Clathrin, Light Chain A 2
  • LCA 3
  • Lca 4

External Ids for CLTA Gene

Previous GeneCards Identifiers for CLTA Gene

  • GC09P036503
  • GC09P036360

Summaries for CLTA Gene

Entrez Gene Summary for CLTA Gene

  • Clathrin is a large, soluble protein composed of heavy and light chains. It functions as the main structural component of the lattice-type cytoplasmic face of coated pits and vesicles which entrap specific macromolecules during receptor-mediated endocytosis. This gene encodes one of two clathrin light chain proteins which are believed to function as regulatory elements. Alternative splicing results in multiple transcript variants. Related pseudogenes have been identified on chromosomes 8 and 12. [provided by RefSeq, May 2010]

GeneCards Summary for CLTA Gene

CLTA (Clathrin Light Chain A) is a Protein Coding gene. Among its related pathways are C-MYB transcription factor network and wtCFTR and delta508-CFTR traffic / Generic schema (norm and CF). Gene Ontology (GO) annotations related to this gene include structural molecule activity and clathrin heavy chain binding. An important paralog of this gene is CLTB.

UniProtKB/Swiss-Prot for CLTA Gene

  • Clathrin is the major protein of the polyhedral coat of coated pits and vesicles. Acts as component of the TACC3/ch-TOG/clathrin complex proposed to contribute to stabilization of kinetochore fibers of the mitotic spindle by acting as inter-microtubule bridge (PubMed:15858577, PubMed:21297582).

Additional gene information for CLTA Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLTA Gene

Genomics for CLTA Gene

GeneHancer (GH) Regulatory Elements for CLTA Gene

Promoters and enhancers for CLTA 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
GH09J036189 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 656.3 +0.4 385 3 HDGF PKNOX1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 POLR2B ZNF143 CLTA RGP1 ARHGEF39 ZCCHC7 GLIPR2 GNE PIR52930
GH09J036256 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 10.5 +67.3 67284 2.6 HDGF PKNOX1 MLX ARID4B SIN3A FEZF1 DMAP1 ZNF2 IRF4 YY1 GNE LOC102724322 ZCCHC7 TMEM8B RGP1 HMGB3P24 NPR2 CLTA RNU4-53P
GH09J035913 Enhancer 1.4 Ensembl ENCODE dbSUPER 11.8 -273.6 -273614 7.7 HDGF ARNT ARID4B NEUROD1 YBX1 ZBTB7B YY1 ZNF766 ZNF207 MCM3 PIGO ARHGEF39 RGP1 RECK TLN1 ENSG00000231393 GBA2 SPAAR CLTA NDUFA5P4
GH09J036138 Enhancer 1.3 FANTOM5 ENCODE dbSUPER 11.2 -48.6 -48583 7.5 PTBP1 PKNOX1 FOXA2 YBX1 RAD21 TCF12 GATA2 ZNF366 ZFP91 RUNX3 GLIPR2 CCIN CLTA HMGB3P24
GH09J036147 Enhancer 1.2 Ensembl ENCODE dbSUPER 11.3 -42.2 -42239 2.5 SMAD1 NFIB STAT5A BATF IRF4 RCOR1 FOS BCLAF1 IKZF2 RUNX3 CCIN CLTA ZCCHC7 RECK GLIPR2 GNE
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CLTA on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CLTA gene promoter:
  • E2F-5
  • E2F
  • E2F-1
  • E2F-2
  • E2F-3a
  • E2F-4
  • c-Myb
  • GATA-1
  • Pax-5
  • C/EBPalpha

Genomic Locations for CLTA Gene

Genomic Locations for CLTA Gene
chr9:36,190,856-36,304,781
(GRCh38/hg38)
Size:
113,926 bases
Orientation:
Plus strand
chr9:36,190,853-36,304,778
(GRCh37/hg19)
Size:
113,926 bases
Orientation:
Plus strand

Genomic View for CLTA Gene

Genes around CLTA on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for CLTA Gene

Proteins for CLTA Gene

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

    Protein Symbol:
    P09496-CLCA_HUMAN
    Recommended name:
    Clathrin light chain A
    Protein Accession:
    P09496
    Secondary Accessions:
    • A8K4W3
    • B4DIN1
    • F5H6N3
    • Q2XPN5
    • Q53XZ1

    Protein attributes for CLTA Gene

    Size:
    248 amino acids
    Molecular mass:
    27077 Da
    Quaternary structure:
    • Clathrin coats are formed from molecules containing 3 heavy chains and 3 light chains. Interacts with CALY; the interaction stimulates clathrin self-assembly and clathrin-mediated endocytosis. Interacts with CKAP5 and TACC3 forming the TACC3/ch-TOG/clathrin complex located at spindle inter-microtubules bridges; the complex implicates clathrin triskelions.

    Alternative splice isoforms for CLTA Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CLTA Gene

Post-translational modifications for CLTA Gene

  • Ubiquitination at Lys141
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for CLTA Gene

Domains & Families for CLTA Gene

Gene Families for CLTA Gene

Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for CLTA Gene

Blocks:
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for CLTA Gene

Graphical View of Domain Structure for InterPro Entry

P09496

UniProtKB/Swiss-Prot:

CLCA_HUMAN :
  • Belongs to the clathrin light chain family.
Family:
  • Belongs to the clathrin light chain family.
genes like me logo Genes that share domains with CLTA: view

Function for CLTA Gene

Molecular function for CLTA Gene

UniProtKB/Swiss-Prot Function:
Clathrin is the major protein of the polyhedral coat of coated pits and vesicles. Acts as component of the TACC3/ch-TOG/clathrin complex proposed to contribute to stabilization of kinetochore fibers of the mitotic spindle by acting as inter-microtubule bridge (PubMed:15858577, PubMed:21297582).
GENATLAS Biochemistry:
clathrin,light chain A (Lca),component of coated vesicles and coated pits,translocated to plasma membrane through AP2 binding,also expressed in synaptic vesicles

Phenotypes From GWAS Catalog for CLTA Gene

Gene Ontology (GO) - Molecular Function for CLTA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
GO:0005198 structural molecule activity IBA --
GO:0005515 protein binding IPI 16595675
GO:0032050 clathrin heavy chain binding IPI 4066749
GO:0042277 peptide binding IEA --
genes like me logo Genes that share ontologies with CLTA: view
genes like me logo Genes that share phenotypes with CLTA: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

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

Clone Products

  • Addgene plasmids for CLTA

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CLTA Gene

Localization for CLTA Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLTA Gene

Cytoplasmic vesicle membrane; Peripheral membrane protein; Cytoplasmic side. Membrane, coated pit; Peripheral membrane protein; Cytoplasmic side. Cytoplasm, cytoskeleton, spindle. Note=Cytoplasmic face of coated pits and vesicles. In complex with TACC3 and CKAP5 (forming the TACC3/ch-TOG/clathrin complex) localized to inter-microtubule bridges in mitotic spindles. {ECO:0000305}.

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 CLTA gene
Compartment Confidence
cytosol 5
plasma membrane 4
lysosome 4
golgi apparatus 4
endosome 4
cytoskeleton 3

Subcellular locations from the

Human Protein Atlas (HPA)
  • Endosomes (4)
  • Lysosomes (4)
  • Vesicles (4)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for CLTA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
GO:0005819 spindle IEA --
GO:0005829 cytosol TAS --
GO:0005856 cytoskeleton IEA --
GO:0005886 plasma membrane TAS --
genes like me logo Genes that share ontologies with CLTA: view

Pathways & Interactions for CLTA Gene

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

Gene Ontology (GO) - Biological Process for CLTA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006886 intracellular protein transport IEA --
GO:0006897 endocytosis IEA --
GO:0007018 microtubule-based movement TAS --
GO:0007049 cell cycle IEA --
GO:0016192 vesicle-mediated transport IEA --
genes like me logo Genes that share ontologies with CLTA: view

No data available for SIGNOR curated interactions for CLTA Gene

Drugs & Compounds for CLTA Gene

No Compound Related Data Available

Transcripts for CLTA Gene

Unigene Clusters for CLTA Gene

Clathrin, light chain A:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

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

Clone Products

  • Addgene plasmids for CLTA

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

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b · 7c · 7d
SP1:
SP2: -
SP3: - -
SP4: -
SP5: - -
SP6: - -
SP7: - - - -
SP8: -
SP9: - - -

Relevant External Links for CLTA Gene

GeneLoc Exon Structure for
CLTA
ECgene alternative splicing isoforms for
CLTA

Expression for CLTA Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for CLTA Gene

This gene is overexpressed in Brain (23.0) and Bone (8.2).

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



Protein tissue co-expression partners for CLTA Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CLTA Gene:

CLTA

SOURCE GeneReport for Unigene cluster for CLTA Gene:

Hs.522114

Evidence on tissue expression from TISSUES for CLTA Gene

  • Nervous system(4.9)
  • Lung(4.8)
  • Liver(4.4)
  • Skin(3.9)
  • Pancreas(2.9)
  • Eye(2.6)
  • Intestine(2.3)
  • Spleen(2.1)
  • Blood(2)
  • Kidney(2)
genes like me logo Genes that share expression patterns with CLTA: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for CLTA Gene

Orthologs for CLTA Gene

This gene was present in the common ancestor of animals.

Orthologs for CLTA Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CLTA 34 33
  • 99.33 (n)
OneToOne
dog
(Canis familiaris)
Mammalia CLTA 34 33
  • 95.7 (n)
OneToOne
cow
(Bos Taurus)
Mammalia CLTA 34 33
  • 94.1 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Clta 16 34 33
  • 92.61 (n)
rat
(Rattus norvegicus)
Mammalia Clta 33
  • 91.67 (n)
oppossum
(Monodelphis domestica)
Mammalia CLTA 34
  • 89 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CLTA 34
  • 79 (a)
OneToOne
chicken
(Gallus gallus)
Aves CLTA 34 33
  • 77.22 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CLTA 34
  • 81 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia clta 33
  • 71.05 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.5904 33
zebrafish
(Danio rerio)
Actinopterygii clta 34 33
  • 73.45 (n)
OneToOne
Dr.28835 33
fruit fly
(Drosophila melanogaster)
Insecta Clc 34 33
  • 53.23 (n)
OneToMany
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP010608 33
  • 51.97 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.79 34
  • 39 (a)
ManyToMany
-- 34
  • 25 (a)
ManyToMany
Species where no ortholog for CLTA was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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 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 CLTA Gene

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

Paralogs for CLTA Gene

Paralogs for CLTA Gene

Pseudogenes.org Pseudogenes for CLTA Gene

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

Variants for CLTA Gene

Sequence variations from dbSNP and Humsavar for CLTA Gene

SNP ID Clin Chr 09 pos Variation AA Info Type
rs1000031030 -- 36,208,424(+) G/A/T intron_variant
rs1000058249 -- 36,207,910(+) A/T intron_variant
rs1000084519 -- 36,201,165(+) G/C intron_variant
rs1000087794 -- 36,209,752(+) G/A intron_variant
rs1000188470 -- 36,191,463(+) T/C intron_variant

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

Variant ID Type Subtype PubMed ID
esv34080 CNV loss 18971310
nsv1017711 CNV gain 25217958
nsv1115174 CNV deletion 24896259
nsv1125318 OTHER inversion 24896259

Variation tolerance for CLTA Gene

Residual Variation Intolerance Score: 35.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.25; 24.97% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CLTA Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CLTA

SNP Genotyping and Copy Number Assay Products

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

Disorders for CLTA Gene

Additional Disease Information for CLTA

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for CLTA Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CLTA Gene

Publications for CLTA Gene

  1. Chromosomal location and some structural features of human clathrin light-chain genes (CLTA and CLTB). (PMID: 7713494) Ponnambalam S … Parham P (Genomics 1994) 2 3 22 58
  2. A TACC3/ch-TOG/clathrin complex stabilises kinetochore fibres by inter-microtubule bridging. (PMID: 21297582) Booth DG … Royle SJ (The EMBO journal 2011) 3 4 58
  3. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey SD … DREAM investigators (Diabetes care 2010) 3 44 58
  4. Calcyon, a novel partner of clathrin light chain, stimulates clathrin-mediated endocytosis. (PMID: 16595675) Xiao J … Bergson C (The Journal of biological chemistry 2006) 3 4 58
  5. DNA sequence and analysis of human chromosome 9. (PMID: 15164053) Humphray SJ … Dunham I (Nature 2004) 3 4 58

Products for CLTA Gene

Sources for CLTA Gene

Content
Loading form....