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Aliases for CLTB Gene

Aliases for CLTB Gene

  • Clathrin Light Chain B 2 3 5
  • Clathrin, Light Polypeptide (Lcb) 2 3
  • LCB 3 4
  • Clathrin, Light Chain (Lcb) 3
  • Clathrin, Light Chain B 2

External Ids for CLTB Gene

Previous GeneCards Identifiers for CLTB Gene

  • GC05M176168
  • GC05M176638
  • GC05M175754
  • GC05M175800
  • GC05M175752
  • GC05M175819
  • GC05M170744

Summaries for CLTB Gene

Entrez Gene Summary for CLTB 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. [provided by RefSeq, Jul 2008]

GeneCards Summary for CLTB Gene

CLTB (Clathrin Light Chain B) is a Protein Coding gene. Diseases associated with CLTB include Leber Congenital Amaurosis 6 and Leber Congenital Amaurosis. Among its related pathways are CTLA4 Signaling and Clathrin derived vesicle budding. GO annotations related to this gene include structural molecule activity and peptide binding. An important paralog of this gene is CLTA.

UniProtKB/Swiss-Prot for CLTB Gene

  • Clathrin is the major protein of the polyhedral coat of coated pits and vesicles.

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

Genomics for CLTB Gene

Regulatory Elements for CLTB Gene

Enhancers for CLTB Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH05G176402 1 ENCODE dbSUPER 14.6 +12.3 12263 4.0 ELF3 CTCF RFX1 SAP130 BHLHE40 USF2 MNT RAD21 EP300 TEAD3 HIGD2A CLTB NOP16
GH05G176386 1.4 ENCODE dbSUPER 9.9 +28.1 28147 4.1 CREB3L1 AGO1 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 NFYC HIGD2A FAF2 MXD3 ENSG00000251414 ENSG00000250909 ZNF346 RPL21P60 ZNF346-IT1 CLTB NOP16
GH05G176481 0.8 ENCODE 17.1 -65.4 -65362 0.8 HDAC1 KLF1 SAP130 BACH1 SIN3A FOXM1 ZNF316 CTBP1 FOS NFE2 CLTB FAF2 NOP16 HIGD2A CDHR2 RN7SL684P MIR1271 KIAA1191 ARL10 PIR40188
GH05G176410 1.6 Ensembl ENCODE dbSUPER 8.3 +1.7 1653 8.8 PKNOX1 ARNT CREB3L1 ARID4B SIN3A DMAP1 ZNF2 ZBTB7B ZNF143 ZNF207 ENSG00000251414 FAF2 HIGD2A ARL10 NOP16 ENSG00000250909 MIR1271 KIAA1191 CDHR2 RN7SL684P
GH05G176400 0.8 ENCODE dbSUPER 13.8 +15.4 15422 1.9 USF1 KLF1 RAD51 NFYC KLF17 KLF4 HIGD2A CLTB NOP16
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around CLTB on UCSC Golden Path with GeneCards custom track

Promoters for CLTB Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000191215 469 1401 PKNOX1 ARNT CREB3L1 ARID4B SIN3A DMAP1 ZNF2 ZNF143 ZNF207 FOS

Genomic Location for CLTB Gene

Chromosome:
5
Start:
176,392,455 bp from pter
End:
176,416,569 bp from pter
Size:
24,115 bases
Orientation:
Minus strand

Genomic View for CLTB Gene

Genes around CLTB on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for CLTB Gene

Proteins for CLTB Gene

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

    Protein Symbol:
    P09497-CLCB_HUMAN
    Recommended name:
    Clathrin light chain B
    Protein Accession:
    P09497
    Secondary Accessions:
    • Q53Y37
    • Q6FHW1

    Protein attributes for CLTB Gene

    Size:
    229 amino acids
    Molecular mass:
    25190 Da
    Quaternary structure:
    • Clathrin coats are formed from molecules containing 3 heavy chains and 3 light chains. Interacts (via N-terminus) with HIP1. Interacts with HIP1R.

    Alternative splice isoforms for CLTB Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CLTB Gene

Post-translational modifications for CLTB Gene

  • Ubiquitination at posLast=223223
  • Modification sites at PhosphoSitePlus

Other Protein References for CLTB Gene

No data available for DME Specific Peptides for CLTB Gene

Domains & Families for CLTB Gene

Protein Domains for CLTB Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for CLTB Gene

Graphical View of Domain Structure for InterPro Entry

P09497

UniProtKB/Swiss-Prot:

CLCB_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 CLTB: view

No data available for Gene Families for CLTB Gene

Function for CLTB Gene

Molecular function for CLTB Gene

GENATLAS Biochemistry:
clathrin,light chain B (Lcb),component of coated vesicles and coated pits,translocated to plasma membrane through AP2 binding,also expressed in synaptic vesicles
UniProtKB/Swiss-Prot Function:
Clathrin is the major protein of the polyhedral coat of coated pits and vesicles.

Gene Ontology (GO) - Molecular Function for CLTB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005198 structural molecule activity IBA --
GO:0005515 protein binding IPI 11889126
GO:0032050 clathrin heavy chain binding IBA --
GO:0042277 peptide binding IEA --
genes like me logo Genes that share ontologies with CLTB: view
genes like me logo Genes that share phenotypes with CLTB: view

Animal Model Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for CLTB

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

Localization for CLTB Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLTB Gene

Cytoplasmic vesicle membrane; Peripheral membrane protein; Cytoplasmic side. Membrane, coated pit; Peripheral membrane protein; Cytoplasmic side. Note=Cytoplasmic face of coated pits and vesicles.

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 CLTB gene
Compartment Confidence
plasma membrane 5
cytosol 5
nucleus 2
golgi apparatus 2
extracellular 1

Gene Ontology (GO) - Cellular Components for CLTB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005802 trans-Golgi network IEA --
GO:0005829 cytosol TAS,IDA --
GO:0005886 plasma membrane IDA --
GO:0005905 clathrin-coated pit IEA --
GO:0016020 membrane IEA --
genes like me logo Genes that share ontologies with CLTB: view

Pathways & Interactions for CLTB Gene

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

SIGNOR curated interactions for CLTB Gene

Other effect:

Gene Ontology (GO) - Biological Process for CLTB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006886 intracellular protein transport IEA --
GO:0016192 vesicle-mediated transport IEA --
GO:0061024 membrane organization TAS --
GO:0072583 clathrin-dependent endocytosis IBA --
genes like me logo Genes that share ontologies with CLTB: view

Drugs & Compounds for CLTB Gene

No Compound Related Data Available

Transcripts for CLTB Gene

Unigene Clusters for CLTB Gene

Clathrin, light chain B:
Representative Sequences:

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for CLTB

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

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

Relevant External Links for CLTB Gene

GeneLoc Exon Structure for
CLTB
ECgene alternative splicing isoforms for
CLTB

Expression for CLTB Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for CLTB Gene

This gene is overexpressed in Brain (20.5).

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



Protein tissue co-expression partners for CLTB Gene

NURSA nuclear receptor signaling pathways regulating expression of CLTB Gene:

CLTB

SOURCE GeneReport for Unigene cluster for CLTB Gene:

Hs.484241

Evidence on tissue expression from TISSUES for CLTB Gene

  • Liver(4.5)
  • Lung(4.4)
  • Eye(4.2)
  • Nervous system(3.2)
  • Muscle(2.8)
  • Skin(2.4)
genes like me logo Genes that share expression patterns with CLTB: view

Primer Products

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 CLTB Gene

Orthologs for CLTB Gene

This gene was present in the common ancestor of animals.

Orthologs for CLTB Gene

Organism Taxonomy Gene Similarity Type Details
dog
(Canis familiaris)
Mammalia CLTB 34 35
  • 93.52 (n)
cow
(Bos Taurus)
Mammalia CLTB 34 35
  • 92.06 (n)
chimpanzee
(Pan troglodytes)
Mammalia CLTB 34
  • 91.25 (n)
rat
(Rattus norvegicus)
Mammalia Cltb 34
  • 90.84 (n)
mouse
(Mus musculus)
Mammalia Cltb 34 16 35
  • 89.73 (n)
oppossum
(Monodelphis domestica)
Mammalia CLTB 35
  • 84 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CLTB 35
  • 82 (a)
OneToOne
chicken
(Gallus gallus)
Aves CLTB 34 35
  • 79.39 (n)
lizard
(Anolis carolinensis)
Reptilia CLTB 35
  • 72 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia cltb 34
  • 69.77 (n)
Str.3405 34
African clawed frog
(Xenopus laevis)
Amphibia MGC68704 34
zebrafish
(Danio rerio)
Actinopterygii LOC100329879 34
  • 68.91 (n)
FP102272.1 35
  • 63 (a)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.226 34
fruit fly
(Drosophila melanogaster)
Insecta Clc 35
  • 35 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.79 35
  • 40 (a)
ManyToMany
-- 35
  • 29 (a)
ManyToMany
Species where no ortholog for CLTB was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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 CLTB Gene

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

Paralogs for CLTB Gene

Paralogs for CLTB Gene

(1) SIMAP similar genes for CLTB Gene using alignment to 4 proteins:

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

Variants for CLTB Gene

Sequence variations from dbSNP and Humsavar for CLTB Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type
rs1000027940 -- 176,400,004(+) CTGAC(C/T)AACAT intron-variant
rs1000162708 -- 176,405,779(+) ACTCG(C/T)GACCT intron-variant, nc-transcript-variant, utr-variant-3-prime
rs1000214507 -- 176,405,976(+) ACCTG(C/G)TGGCC intron-variant, utr-variant-3-prime
rs1000563581 -- 176,417,819(+) TTTTT(C/T)GTTTT upstream-variant-2KB
rs1000576641 -- 176,418,144(+) GATAA(A/G)AGCTT upstream-variant-2KB

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

Variant ID Type Subtype PubMed ID
esv3607670 CNV loss 21293372
nsv1023853 CNV gain 25217958

Variation tolerance for CLTB Gene

Residual Variation Intolerance Score: 31.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.25; 5.69% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CLTB Gene

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

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

Disorders for CLTB Gene

MalaCards: The human disease database

(2) MalaCards diseases for CLTB Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
leber congenital amaurosis 6
  • lca6
leber congenital amaurosis
  • lca
- elite association - COSMIC cancer census association via MalaCards
Search CLTB in MalaCards View complete list of genes associated with diseases

Relevant External Links for CLTB

Genetic Association Database (GAD)
CLTB
Human Genome Epidemiology (HuGE) Navigator
CLTB
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CLTB
genes like me logo Genes that share disorders with CLTB: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CLTB Gene

Publications for CLTB 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 64
  2. 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 S.D. … Anand S. (Diabetes Care 2010) 3 46 64
  3. Huntingtin-interacting protein 1 (Hip1) and Hip1-related protein (Hip1R) bind the conserved sequence of clathrin light chains and thereby influence clathrin assembly in vitro and actin distribution in vivo. (PMID: 15533940) Chen C.-Y. … Brodsky F.M. (J. Biol. Chem. 2005) 3 4 64
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  5. HIP1 and HIP12 display differential binding to F-actin, AP2, and clathrin. Identification of a novel interaction with clathrin light chain. (PMID: 11889126) Legendre-Guillemin V. … McPherson P.S. (J. Biol. Chem. 2002) 3 4 64

Products for CLTB Gene

  • Addgene plasmids for CLTB

Sources for CLTB Gene

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