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Aliases for SDE2 Gene

Aliases for SDE2 Gene

  • SDE2 Telomere Maintenance Homolog 2 3 5
  • C1orf55 3 4
  • SDE2 Telomere Maintenance Homolog (S. Pombe) 2
  • Chromosome 1 Open Reading Frame 55 2
  • UPF0667 Protein C1orf55 3
  • Protein SDE2 Homolog 3
  • DJ671D7.1 3

External Ids for SDE2 Gene

Previous HGNC Symbols for SDE2 Gene

  • C1orf55

Previous GeneCards Identifiers for SDE2 Gene

  • GC01M226171

Summaries for SDE2 Gene

GeneCards Summary for SDE2 Gene

SDE2 (SDE2 Telomere Maintenance Homolog) is a Protein Coding gene. An important paralog of this gene is SF3A3.

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SDE2 Gene

Genomics for SDE2 Gene

Regulatory Elements for SDE2 Gene

Enhancers for SDE2 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
GH01F225995 1.9 FANTOM5 Ensembl ENCODE 31.1 -0.9 -933 8.8 CREB3L1 FEZF1 DMAP1 YY1 SLC30A9 ZNF416 ZNF143 ZNF548 ZNF263 SP3 ACBD3 ENSG00000234478 SDE2 H3F3A RPL34P7 TMEM63A GC01M225948
GH01F226033 1.6 FANTOM5 Ensembl ENCODE 32.8 -35.6 -35582 3.5 MLX ZNF493 ZFP64 ARID4B ZNF48 ZNF143 FOS ZNF202 SP5 REST ACBD3 ENSG00000234478 H3F3A SDE2 GC01M225948
GH01F225735 1.4 Ensembl ENCODE 30.6 +262.8 262824 2.9 HDGF PKNOX1 ARNT CREB3L1 ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 ACBD3 SDE2 ENSG00000234478 LOC102723834 ENAH LINC01703 LBR ENSG00000226349 GC01P225742
GH01F225459 1.8 FANTOM5 Ensembl ENCODE 20.6 +535.1 535120 10.1 PKNOX1 ZFP64 ARID4B SIN3A DMAP1 FEZF1 ZNF2 YY1 SLC30A9 ZNF302 ACBD3 LBR ENSG00000234478 SDE2 RPL34P7 LOC105373110 LINC01703 ENSG00000255835 MIR6741 PYCR2
GH01F226120 1.4 Ensembl ENCODE 22.9 -124.1 -124137 5.4 HDGF PKNOX1 MLX CREB3L1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 ENSG00000234478 H3F3A SDE2 RPL34P7 ACBD3 LINC01703 MIXL1 LIN9 ENSG00000270598 GC01P226093
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SDE2 on UCSC Golden Path with GeneCards custom track

Promoters for SDE2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000289599 65 2201 CREB3L1 FEZF1 DMAP1 YY1 SLC30A9 ZNF416 ZNF143 ZNF548 ZNF263 SP3

Genomic Location for SDE2 Gene

Chromosome:
1
Start:
225,982,702 bp from pter
End:
225,999,365 bp from pter
Size:
16,664 bases
Orientation:
Minus strand

Genomic View for SDE2 Gene

Genes around SDE2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SDE2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SDE2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SDE2 Gene

Proteins for SDE2 Gene

  • Protein details for SDE2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6IQ49-SDE2_HUMAN
    Recommended name:
    Protein SDE2 homolog
    Protein Accession:
    Q6IQ49
    Secondary Accessions:
    • A8K4P3
    • Q5TD36
    • Q6ZS26
    • Q8NAG7

    Protein attributes for SDE2 Gene

    Size:
    451 amino acids
    Molecular mass:
    49742 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for SDE2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SDE2 Gene

Post-translational modifications for SDE2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SDE2 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SDE2 Gene

Domains & Families for SDE2 Gene

Protein Domains for SDE2 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SDE2 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q6IQ49

UniProtKB/Swiss-Prot:

SDE2_HUMAN :
  • Belongs to the SDE2 family.
Family:
  • Belongs to the SDE2 family.
genes like me logo Genes that share domains with SDE2: view

No data available for Gene Families for SDE2 Gene

Function for SDE2 Gene

genes like me logo Genes that share phenotypes with SDE2: view

Animal Model Products

miRNA for SDE2 Gene

miRTarBase miRNAs that target SDE2

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SDE2 Gene

Localization for SDE2 Gene

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 SDE2 gene
Compartment Confidence
nucleus 4
cytosol 3
plasma membrane 2
mitochondrion 2
golgi apparatus 2
extracellular 1
peroxisome 1
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for SDE2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA --
genes like me logo Genes that share ontologies with SDE2: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for SDE2 Gene

Pathways & Interactions for SDE2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SDE2 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SDE2 Gene

Transcripts for SDE2 Gene

mRNA/cDNA for SDE2 Gene

(1) REFSEQ mRNAs :
(6) Additional mRNA sequences :
(68) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for SDE2 Gene

SDE2 telomere maintenance homolog (S. pombe):
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SDE2 Gene

No ASD Table

Relevant External Links for SDE2 Gene

GeneLoc Exon Structure for
SDE2
ECgene alternative splicing isoforms for
SDE2

Expression for SDE2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SDE2 Gene

Protein differential expression in normal tissues from HIPED for SDE2 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (20.0), Lymph node (11.8), and Heart (9.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SDE2 Gene



Protein tissue co-expression partners for SDE2 Gene

NURSA nuclear receptor signaling pathways regulating expression of SDE2 Gene:

SDE2

SOURCE GeneReport for Unigene cluster for SDE2 Gene:

Hs.520192
genes like me logo Genes that share expression patterns with SDE2: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for SDE2 Gene

Orthologs for SDE2 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for SDE2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SDE2 34
  • 99.48 (n)
C1ORF55 35
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SDE2 34 35
  • 84.63 (n)
dog
(Canis familiaris)
Mammalia SDE2 34 35
  • 77.13 (n)
mouse
(Mus musculus)
Mammalia Sde2 34 16 35
  • 76.48 (n)
rat
(Rattus norvegicus)
Mammalia Sde2 34
  • 74.49 (n)
oppossum
(Monodelphis domestica)
Mammalia SDE2 35
  • 60 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SDE2 35
  • 56 (a)
OneToOne
chicken
(Gallus gallus)
Aves C3H1ORF55 34
  • 59.34 (n)
SDE2 35
  • 54 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SDE2 35
  • 56 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sde2 34
  • 56.07 (n)
Str.6740 34
African clawed frog
(Xenopus laevis)
Amphibia Xl.6972 34
zebrafish
(Danio rerio)
Actinopterygii sde2 35
  • 41 (a)
OneToOne
wufi34c02 34
fruit fly
(Drosophila melanogaster)
Insecta CG5986 35
  • 30 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea F53F4.14 35
  • 20 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes PRP9 35
  • 7 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.1605 35
  • 33 (a)
OneToOne
Species where no ortholog for SDE2 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)
  • 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)

Evolution for SDE2 Gene

ENSEMBL:
Gene Tree for SDE2 (if available)
TreeFam:
Gene Tree for SDE2 (if available)

Paralogs for SDE2 Gene

Paralogs for SDE2 Gene

genes like me logo Genes that share paralogs with SDE2: view

Variants for SDE2 Gene

Sequence variations from dbSNP and Humsavar for SDE2 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs10634727 -- 225,990,911(+) ACAGA(-/AAG)CAACC intron-variant
rs111766307 -- 225,984,012(+) GAGGC(C/G)AAAGT utr-variant-3-prime
rs111810998 -- 225,987,257(+) CATGC(C/T)GGCCA intron-variant
rs111827214 -- 226,000,534(+) ATTAC(-/A)AAAAA upstream-variant-2KB
rs112303945 -- 225,982,241(+) CAGGC(C/T)TGAGC downstream-variant-500B

Structural Variations from Database of Genomic Variants (DGV) for SDE2 Gene

Variant ID Type Subtype PubMed ID
nsv524126 CNV gain 19592680
esv3589004 CNV loss 21293372
esv2762223 CNV gain 21179565

Variation tolerance for SDE2 Gene

Residual Variation Intolerance Score: 44.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.57; 30.40% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SDE2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SDE2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SDE2 Gene

Disorders for SDE2 Gene

Relevant External Links for SDE2

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SDE2

No disorders were found for SDE2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SDE2 Gene

Publications for SDE2 Gene

  1. Sde2: a novel nuclear protein essential for telomeric silencing and genomic stability in Schizosaccharomyces pombe. (PMID: 21333630) Sugioka-Sugiyama R. … Sugiyama T. (Biochem. Biophys. Res. Commun. 2011) 2 3 64
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  3. Proximity biotinylation and affinity purification are complementary approaches for the interactome mapping of chromatin-associated protein complexes. (PMID: 25281560) Lambert J.P. … Gingras A.C. (J Proteomics 2015) 3 64
  4. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. (PMID: 26496610) Hein M.Y. … Mann M. (Cell 2015) 3 64
  5. An enzyme assisted RP-RPLC approach for in-depth analysis of human liver phosphoproteome. (PMID: 24275569) Bian Y. … Zou H. (J. Proteomics 2014) 4 64

Products for SDE2 Gene

Sources for SDE2 Gene

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