Aliases for TLCD4 Gene

Aliases for TLCD4 Gene

  • TLC Domain Containing 4 2 3
  • Transmembrane Protein 56 2 3 4 5
  • TMEM56 3 4 5
  • TLC Domain-Containing Protein 4 3 4

External Ids for TLCD4 Gene

Previous HGNC Symbols for TLCD4 Gene

  • TMEM56

Summaries for TLCD4 Gene

GeneCards Summary for TLCD4 Gene

TLCD4 (TLC Domain Containing 4) is a Protein Coding gene. An important paralog of this gene is TLCD4-RWDD3.

Additional gene information for TLCD4 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for TLCD4 Gene

Genomics for TLCD4 Gene

GeneHancer (GH) Regulatory Elements for TLCD4 Gene

Promoters and enhancers for TLCD4 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
GH01J095116 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 756.1 +25.1 25084 2.8 CTCF ZBTB6 RBPJ SMARCE1 POLR2A CTBP1 CREB1 MIXL1 MAX RAD21 TLCD4 TLCD4-RWDD3 RWDD3
GH01J094986 Promoter/Enhancer 1 EPDnew Ensembl ENCODE 755 -104.8 -104816 2.2 PRDM1 RXRB SMAD4 RARA THRB TLCD4 CNN3 ENSG00000235501 ALG14-AS1 ALG14 LOC105378863 LOC729970 lnc-CNN3-2
GH01J095093 Enhancer 0.6 Ensembl 750.6 +0.8 784 0.6 TEAD4 CBFA2T2 TRIM24 EP300 NFE2 RUNX3 JUNB NCOR1 TCF12 BATF TLCD4 piR-39099-006 piR-33735-001 piR-58297-017 ENSG00000235501 TLCD4-RWDD3
GH01J095148 Promoter 0.3 EPDnew 750.2 +56.2 56194 0.1 TLCD4 lnc-ALG14-9 ENSG00000206679 TLCD4-RWDD3
GH01J095195 Promoter 0.3 EPDnew 750.1 +102.8 102767 0.1 TLCD4 ENSG00000226026 RWDD3 piR-55809-001 LOC101928118 TLCD4-RWDD3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around TLCD4 on UCSC Golden Path with GeneCards custom track

Genomic Locations for TLCD4 Gene

Genomic Locations for TLCD4 Gene
chr1:95,092,517-95,197,607
(GRCh38/hg38)
Size:
105,091 bases
Orientation:
Plus strand
chr1:95,582,894-95,663,163
(GRCh37/hg19)
Size:
80,270 bases
Orientation:
Plus strand

Genomic View for TLCD4 Gene

Genes around TLCD4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TLCD4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TLCD4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TLCD4 Gene

Proteins for TLCD4 Gene

  • Protein details for TLCD4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96MV1-TLCD4_HUMAN
    Recommended name:
    TLC domain-containing protein 4
    Protein Accession:
    Q96MV1
    Secondary Accessions:
    • B2RPI2
    • D3DT48

    Protein attributes for TLCD4 Gene

    Size:
    263 amino acids
    Molecular mass:
    30041 Da
    Quaternary structure:
    No Data Available

neXtProt entry for TLCD4 Gene

Post-translational modifications for TLCD4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TLCD4 Gene

No data available for DME Specific Peptides for TLCD4 Gene

Domains & Families for TLCD4 Gene

Gene Families for TLCD4 Gene

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

Protein Domains for TLCD4 Gene

Blocks:
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for TLCD4 Gene

GenScript: Design optimal peptide antigens:
  • Transmembrane protein 56 (TMM56_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q96MV1

UniProtKB/Swiss-Prot:

TLCD4_HUMAN :
  • Belongs to the TLCD4 family.
Family:
  • Belongs to the TLCD4 family.
genes like me logo Genes that share domains with TLCD4: view

Function for TLCD4 Gene

Phenotypes From GWAS Catalog for TLCD4 Gene

Gene Ontology (GO) - Molecular Function for TLCD4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
genes like me logo Genes that share ontologies with TLCD4: view
genes like me logo Genes that share phenotypes with TLCD4: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TLCD4

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TLCD4 Gene

Localization for TLCD4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TLCD4 Gene

Membrane; Multi-pass 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 TLCD4 gene
Compartment Confidence
plasma membrane 3
endoplasmic reticulum 0

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear speckles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for TLCD4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with TLCD4: view

Pathways & Interactions for TLCD4 Gene

PathCards logo

SuperPathways for TLCD4 Gene

No Data Available

Gene Ontology (GO) - Biological Process for TLCD4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008150 biological_process ND --
genes like me logo Genes that share ontologies with TLCD4: view

No data available for Pathways by source and SIGNOR curated interactions for TLCD4 Gene

Drugs & Compounds for TLCD4 Gene

No Compound Related Data Available

Transcripts for TLCD4 Gene

mRNA/cDNA for TLCD4 Gene

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TLCD4

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for TLCD4 Gene

No ASD Table

Relevant External Links for TLCD4 Gene

GeneLoc Exon Structure for
TLCD4
ECgene alternative splicing isoforms for
TLCD4

Expression for TLCD4 Gene

NURSA nuclear receptor signaling pathways regulating expression of TLCD4 Gene:

TLCD4

SOURCE GeneReport for Unigene cluster for TLCD4 Gene:

Hs.483512

Evidence on tissue expression from TISSUES for TLCD4 Gene

  • Nervous system(4.3)
genes like me logo Genes that share expression patterns with TLCD4: view

No data available for mRNA expression in normal human tissues , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for TLCD4 Gene

Orthologs for TLCD4 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for TLCD4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia -- 33
  • 100 (a)
OneToMany
TMEM56 32
  • 99.87 (n)
dog
(Canis familiaris)
Mammalia TMEM56 32
  • 87.58 (n)
-- 33
  • 81 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Tmem56 32
  • 80.48 (n)
mouse
(Mus musculus)
Mammalia Tmem56 17 33 32
  • 80.35 (n)
cow
(Bos Taurus)
Mammalia -- 33
  • 67 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 33
  • 66 (a)
ManyToMany
-- 33
  • 60 (a)
ManyToMany
oppossum
(Monodelphis domestica)
Mammalia -- 33
  • 65 (a)
OneToMany
chicken
(Gallus gallus)
Aves TMEM56 33 32
  • 71.06 (n)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 33
  • 37 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100489043 32
  • 64.47 (n)
Str.18352 32
zebrafish
(Danio rerio)
Actinopterygii tmem56a 33 32
  • 61.07 (n)
ManyToMany
si:dkey-10f21.4 33
  • 49 (a)
ManyToMany
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.11267 32
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes TDA4 35
thale cress
(Arabidopsis thaliana)
eudicotyledons AT1G31300 32
  • 41.37 (n)
rice
(Oryza sativa)
Liliopsida Os03g0666700 32
  • 44.56 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 33
  • 34 (a)
ManyToMany
CSA.1291 33
  • 30 (a)
ManyToMany
-- 33
  • 28 (a)
ManyToMany
Species where no ortholog for TLCD4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya 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)
  • 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)
  • 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for TLCD4 Gene

ENSEMBL:
Gene Tree for TLCD4 (if available)
TreeFam:
Gene Tree for TLCD4 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for TLCD4: view image

Paralogs for TLCD4 Gene

Pseudogenes.org Pseudogenes for TLCD4 Gene

genes like me logo Genes that share paralogs with TLCD4: view

Variants for TLCD4 Gene

Sequence variations from dbSNP and Humsavar for TLCD4 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000014289 -- 95,153,048(+) C/G intron_variant
rs1000017455 -- 95,136,425(+) A/G intron_variant
rs1000048224 -- 95,136,927(+) G/A/T intron_variant
rs1000084500 -- 95,101,972(+) G/A genic_upstream_transcript_variant, intron_variant
rs1000133360 -- 95,193,378(+) A/G 3_prime_UTR_variant

Structural Variations from Database of Genomic Variants (DGV) for TLCD4 Gene

Variant ID Type Subtype PubMed ID
esv2672109 CNV deletion 23128226
esv2714984 CNV deletion 23290073
esv2714995 CNV deletion 23290073
esv3566037 CNV deletion 23714750
esv3566070 CNV deletion 23714750
nsv823609 CNV loss 20364138
nsv830636 CNV loss 17160897

Variation tolerance for TLCD4 Gene

Residual Variation Intolerance Score: 29.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.31; 6.91% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TLCD4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TLCD4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TLCD4 Gene

Disorders for TLCD4 Gene

No disorders were found for TLCD4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot , Genatlas and External Links for TLCD4 Gene

Publications for TLCD4 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 56
  2. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 56
  3. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3 56
  4. Genome-wide association study identifies novel loci associated with concentrations of four plasma phospholipid fatty acids in the de novo lipogenesis pathway: results from the Cohorts for Heart and Aging Research in Genomic Epidemiology (CHARGE) consortium. (PMID: 23362303) Wu JH … Mozaffarian D (Circulation. Cardiovascular genetics 2013) 3 56
  5. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 56

Products for TLCD4 Gene

Sources for TLCD4 Gene