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Aliases for TMEM56-RWDD3 Gene

Aliases for TMEM56-RWDD3 Gene

  • TMEM56-RWDD3 Readthrough 2 3 5

External Ids for TMEM56-RWDD3 Gene

Previous GeneCards Identifiers for TMEM56-RWDD3 Gene

  • GC01U903134
  • GC01P095583

Summaries for TMEM56-RWDD3 Gene

Entrez Gene Summary for TMEM56-RWDD3 Gene

  • This locus represents naturally occurring read-through transcription between the neighboring TMEM56 (transmembrane protein 56) and RWDD3 (RWD domain containing 3) genes on chromosome 1. The read-through transcript encodes a protein that shares sequence identity with the upstream gene product, but it contains a distinct C-terminus due to frameshifts versus the downstream gene coding sequence. [provided by RefSeq, Dec 2010]

GeneCards Summary for TMEM56-RWDD3 Gene

TMEM56-RWDD3 (TMEM56-RWDD3 Readthrough) is a Protein Coding gene. An important paralog of this gene is TMEM56.

No data available for UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TMEM56-RWDD3 Gene

Genomics for TMEM56-RWDD3 Gene

Regulatory Elements for TMEM56-RWDD3 Gene

Enhancers for TMEM56-RWDD3 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
GH01F095179 1.2 FANTOM5 ENCODE 8.3 +61.8 61778 1.1 HDAC1 PKNOX1 CBX3 ATF1 ARNT TBL1XR1 CHAMP1 GATA2 CREM NCOA1 TMEM56 TMEM56-RWDD3 RWDD3 ENSG00000206679 GC01M095126 LOC101928118
GH01F095139 0.5 FANTOM5 7.4 +21.4 21440 0.2 SMARCA4 REST RWDD3 TMEM56-RWDD3 TMEM56 ENSG00000206679 GC01M095126 LOC101928118
GH01F095116 1 ENCODE 0.8 -0.5 -547 2.1 CREB3L1 ARID4B SIN3A ZNF2 GLIS2 ZNF143 KLF13 SP3 REST SMARCA4 TMEM56 RWDD3 TMEM56-RWDD3
GH01F095115 1 ENCODE 0.8 -2.0 -1964 0.2 ARNT MLX ARID4B YY1 GATA2 NCOA1 KAT8 PPARGC1A MBD2 MIER3 TMEM56-RWDD3 TMEM56
GH01F095095 1 Ensembl ENCODE 0.3 -21.9 -21900 1.6 ESRRA TBL1XR1 CEBPG RAD21 ZBTB40 GATA2 NCOR1 HNF4G GATAD2A KLF6 LOC729970 TMEM56 TMEM56-RWDD3
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TMEM56-RWDD3 on UCSC Golden Path with GeneCards custom track

Promoters for TMEM56-RWDD3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000541297 -423 1801 ARID4B SIN3A ZNF2 GLIS2 ZNF143 KLF13 SP3 REST SMARCA4 MXD3

Genomic Location for TMEM56-RWDD3 Gene

Chromosome:
1
Start:
95,117,923 bp from pter
End:
95,247,225 bp from pter
Size:
129,303 bases
Orientation:
Plus strand

Genomic View for TMEM56-RWDD3 Gene

Genes around TMEM56-RWDD3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TMEM56-RWDD3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TMEM56-RWDD3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TMEM56-RWDD3 Gene

Proteins for TMEM56-RWDD3 Gene

  • Protein details for TMEM56-RWDD3 Gene (UniProtKB/TrEMBL)

    Protein Symbol:
    S4R3V7
    Recommended name:
    Protein TMEM56-RWDD3
    Protein Accession:
    S4R3V7

    Protein attributes for TMEM56-RWDD3 Gene

    Size:
    108 amino acids
    Molecular mass:
    12115 Da
    Quaternary structure:
    No Data Available
  • Protein details for TMEM56-RWDD3 Gene (UniProtKB/TrEMBL)

    Protein Symbol:
    S4R434
    Recommended name:
    Protein TMEM56-RWDD3
    Protein Accession:
    S4R434

    Protein attributes for TMEM56-RWDD3 Gene

    Size:
    201 amino acids
    Molecular mass:
    22715 Da
    Quaternary structure:
    No Data Available

neXtProt entry for TMEM56-RWDD3 Gene

Post-translational modifications for TMEM56-RWDD3 Gene

No Post-translational modifications

Other Protein References for TMEM56-RWDD3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for TMEM56-RWDD3 Gene

Domains & Families for TMEM56-RWDD3 Gene

Protein Domains for TMEM56-RWDD3 Gene

InterPro:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with TMEM56-RWDD3: view

No data available for Gene Families , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for TMEM56-RWDD3 Gene

Function for TMEM56-RWDD3 Gene

Animal Model Products

Clone Products

Flow Cytometry Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for TMEM56-RWDD3 Gene

Localization for TMEM56-RWDD3 Gene

Gene Ontology (GO) - Cellular Components for TMEM56-RWDD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with TMEM56-RWDD3: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from COMPARTMENTS for TMEM56-RWDD3 Gene

Pathways & Interactions for TMEM56-RWDD3 Gene

SuperPathways for TMEM56-RWDD3 Gene

No Data Available

Interacting Proteins for TMEM56-RWDD3 Gene

Gene Ontology (GO) - Biological Process for TMEM56-RWDD3 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for TMEM56-RWDD3 Gene

Transcripts for TMEM56-RWDD3 Gene

mRNA/cDNA for TMEM56-RWDD3 Gene

(1) REFSEQ mRNAs :
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for TMEM56-RWDD3 Gene

No ASD Table

Relevant External Links for TMEM56-RWDD3 Gene

GeneLoc Exon Structure for
TMEM56-RWDD3
ECgene alternative splicing isoforms for
TMEM56-RWDD3

Expression for TMEM56-RWDD3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TMEM56-RWDD3 Gene

genes like me logo Genes that share expression patterns with TMEM56-RWDD3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and mRNA Expression by UniProt/SwissProt for TMEM56-RWDD3 Gene

Orthologs for TMEM56-RWDD3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for TMEM56-RWDD3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia -- 35
  • 63 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 60 (a)
ManyToMany
-- 35
  • 21 (a)
ManyToMany
-- 35
  • 16 (a)
ManyToMany
dog
(Canis familiaris)
Mammalia -- 35
  • 51 (a)
OneToMany
cow
(Bos Taurus)
Mammalia -- 35
  • 48 (a)
OneToMany
mouse
(Mus musculus)
Mammalia Tmem56 35
  • 46 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 43 (a)
OneToMany
chicken
(Gallus gallus)
Aves TMEM56 35
  • 40 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 26 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii tmem56a 35
  • 34 (a)
ManyToMany
si:dkey-10f21.4 35
  • 33 (a)
ManyToMany
tmem56b 35
  • 32 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 23 (a)
ManyToMany
CSA.1291 35
  • 21 (a)
ManyToMany
-- 35
  • 19 (a)
ManyToMany
Species where no ortholog for TMEM56-RWDD3 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)
  • 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)
  • rat (Rattus norvegicus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for TMEM56-RWDD3 Gene

ENSEMBL:
Gene Tree for TMEM56-RWDD3 (if available)
TreeFam:
Gene Tree for TMEM56-RWDD3 (if available)

Paralogs for TMEM56-RWDD3 Gene

Paralogs for TMEM56-RWDD3 Gene

(1) SIMAP similar genes for TMEM56-RWDD3 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with TMEM56-RWDD3: view

Variants for TMEM56-RWDD3 Gene

Sequence variations from dbSNP and Humsavar for TMEM56-RWDD3 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs10047154 -- 95,139,519(+) agtgg(C/T)gtgat intron-variant
rs10047226 -- 95,139,565(+) gtgat(C/T)ctcct intron-variant
rs10047238 -- 95,137,536(+) CAAAT(A/G)GGGGA intron-variant
rs10157254 -- 95,149,010(+) TATCC(A/C)AAACA intron-variant
rs10157405 -- 95,149,282(+) TTCAG(C/T)AGTAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TMEM56-RWDD3 Gene

Variant ID Type Subtype PubMed ID
nsv958163 CNV deletion 24416366
nsv830636 CNV loss 17160897
nsv823609 CNV loss 20364138
nsv160810 CNV deletion 16902084
nsv1154072 CNV deletion 26484159
nsv1078012 CNV deletion 25765185
esv4625 CNV loss 18987735
esv3566081 CNV deletion 23714750
esv3566070 CNV deletion 23714750
esv3566037 CNV deletion 23714750
esv2715006 CNV deletion 23290073
esv2714995 CNV deletion 23290073
esv2672109 CNV deletion 23128226
esv2641534 CNV deletion 19546169
esv2291039 CNV deletion 18987734
dgv128n106 CNV deletion 24896259

Variation tolerance for TMEM56-RWDD3 Gene

Residual Variation Intolerance Score: 46.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.14; 3.21% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TMEM56-RWDD3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TMEM56-RWDD3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TMEM56-RWDD3 Gene

Disorders for TMEM56-RWDD3 Gene

Relevant External Links for TMEM56-RWDD3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TMEM56-RWDD3

No disorders were found for TMEM56-RWDD3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TMEM56-RWDD3 Gene

Publications for TMEM56-RWDD3 Gene

  1. 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 J.H. … Mozaffarian D. (Circ Cardiovasc Genet 2013) 3 64
  2. Genome-wide association study identifies variants associated with histologic features of nonalcoholic Fatty liver disease. (PMID: 20708005) Chalasani N. … Rotter J.I. (Gastroenterology 2010) 3 64
  3. Expression of conjoined genes: another mechanism for gene regulation in eukaryotes. (PMID: 20967262) Prakash T. … Taylor T.D. (PLoS ONE 2010) 3 64
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3 64

Products for TMEM56-RWDD3 Gene

Sources for TMEM56-RWDD3 Gene

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