SDE2 Gene
protein-coding GIFtS: 36
GCID: GC01M226171
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SDE2 telomere maintenance homolog (S. pombe)(Previous name: chromosome 1 open reading frame 55 )
(Previous symbol: C1orf55)
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Aliases
for SDE2 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
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| Aliases |
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| SDE2 Telomere Maintenance Homolog (S. Pombe)1 2 | | RP4-671D7.12 | | C1orf551 2 3 | | DJ671D7.11 | | FLJ353821 | | Protein SDE2 Homolog2 | | Chromosome 1 Open Reading Frame 551 | | UPF0667 Protein C1orf552 |
Export aliases for SDE2 gene to outside databases |
Summaries
for SDE2 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
-- |
Genomic Views
for SDE2 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000001.10 NC_018912.1 NT_167186.1
Regulatory elements:
 Search SABiosciences Regulatory transcription factor binding sites for SDE2
Other transcription factors
Search SABiosciences Chromatin IP Primers for SDE2
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SDE2 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 1q42.12 Ensembl cytogenetic band: 1q42.12 HGNC cytogenetic band: 1q42.12SDE2 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 1 GeneLoc Exon Structure GeneLoc location for GC01M226171: view genomic region
(about GC identifiers)
Start:
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226,170,403 bp from pter |
End:
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226,187,066 bp from pter |
Size:
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16,664 bases |
Orientation:
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minus strand |
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Proteins
for SDE2 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: SDE2_HUMAN, Q6IQ49 (See
protein sequence)Recommended Name: Protein SDE2 homolog Size: 451 amino acids; 49742 Da
Secondary accessions: A8K4P3 Q5TD36 Q6ZS26 Q8NAG7Alternative splicing: 3 isoforms: Q6IQ49-1 Q6IQ49-2 Q6IQ49-3 (No experimental confirmation available)Explore the universe of human proteins at neXtProt for SDE2: NX_Q6IQ49
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q6IQ49
SDE2 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_689821.3
ENSEMBL proteins: ENSP00000272091 ENSP00000355782
Human Recombinant Protein Products:
SDE2 Antibody Products:
Assay Products for SDE2: |
Protein
Domains /
Families
for SDE2 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
SDE2 for domains About GeneDecksing
1 InterPro domain/family:Graphical View of Domain Structure for InterPro Entry Q6IQ49ProtoNet protein and cluster: Q6IQ49 UniProtKB/Swiss-Prot: SDE2_HUMAN, Q6IQ49Similarity: Belongs to the SDE2 family |
Function
for SDE2 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SDE2 (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SDE2
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript Custom all cDNA clones Services for SDE2 | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for SDE2 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SDE2 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SDE2 |
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Pathways & Interactions
for SDE2 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
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Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SDE2
STRING Interaction
Network Preview (showing 4 interactants - click image to see more details)
5/6 Interacting proteins for SDE2 (Q6IQ493 ENSP000002720914) via UniProtKB, MINT, STRING, and/or I2D (see all 6)About this table
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Drugs & Compounds
for SDE2 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for SDE2
Search CenterWatch for drugs/clinical trials and news about SDE2
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Transcripts
for SDE2 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
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REFSEQ mRNAs for SDE2 gene: NM_152608.3 Unigene Cluster for SDE2: SDE2 telomere maintenance homolog (S. pombe) Hs.520192 [show with all ESTs]Unigene Representative Sequence: BC0162902 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000272091(uc001hpu.4) ENST00000366817
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SDE2 (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SDE2
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript Custom all cDNA clones Services for SDE2 | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for SDE2 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SDE2 |
Additional cDNA sequence: AK092701.1 AK127780.1 AK291008.1 AK308441.1 BC016290.1 BX648319.1 8 DOTS entries: DT.102822741 DT.203198 DT.101981451 DT.40300955 DT.100781130 DT.121356720 DT.91946303 DT.91690018 24/68 AceView cDNA sequences (see all 68): AW963092 AK127780 BX281956 CR599350 BG502215 AI830502 BX498290 AW069644 BI520048 BU150244 NM_152608 BG615109 BC016290 AK092701 AX747679 BX490143 AA449121 AW873966 BG496195 BX648319 T69822 BX490142 AA449552 CD655761
GeneLoc Exon Structure
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Expression
for SDE2 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| See probesets specificity/sensitivity at GeneAnnot
CGAP TAG: --
See SDE2 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for SDE2
SOURCE GeneReport for Unigene cluster: Hs.520192
SABiosciences Custom PCR Arrays for SDE2
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SDE2
Browse OriGene validated miRNA SYBR primer pairs
| | | Search SABiosciences RT2 qPCR
Primer Assays in human, mouse, rat SDE2 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SDE2 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SDE2 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SDE2 |
Orthologs
for SDE2 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
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This gene was present in the common ancestor of eukaryotes.
Orthologs for SDE2 gene from 9/27 species (see all 27) About this table
ENSEMBL Gene Tree for SDE2 (if available)
TreeFam Gene Tree for SDE2 (if available) |
Paralogs
for SDE2 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for SDE2 gene
- SF3A32
SDE2 for paralogs About GeneDecksing
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Genomic Variants
for SDE2 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
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| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 1 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
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HapMap Linkage Disequilibrium report for SDE2 (226170403 - 226187066 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for SDE2: -- | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SDE2 |
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Disorders
/ Diseases
for SDE2 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
SDE2 for disorders About GeneDecksing
2  diseases for SDE2: About MalaCardsintrahepatic cholangiocarcinoma cholangiocarcinoma
Export disorders for SDE2 gene to outside databases
|
Publications
for SDE2 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for SDE2 gene, integrated from 9 sources (see all 16):
(articles sorted by number of sources associating them with SDE2) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Sde2: a novel nuclear protein essential for telomeric silencing and genomic stability in Schizosaccharomyces pombe. (PubMed id 21333630)1, 3 Sugioka-Sugiyama R. and Sugiyama T. (2011)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
- Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
- Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
- Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (2010)
- Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions. (PubMed id 19690332)2 Mayya V.... Han D.K. (2009)
- Ubiquitin-mediated proteolysis of HuR by heat shock. (PubMed id 19322201)1 Abdelmohsen K....Gorospe M. (2009)
- Combining protein-based IMAC, peptide-based IMAC, and MudPIT for efficient phosphoproteomic analysis. (PubMed id 18220336)2 Cantin G.T....Yates J.R. III (2008)
- A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)2 Dephoure N.... Gygi S.P. (2008)
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External Searches for SDE2 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
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Genome Databases showing SDE2 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
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Other Databases showing SDE2 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing SDE2 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for SDE2 | Pharmacogenomics, SNPs, Pathways |
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About This Section
| Patent Information for SDE2 gene:
Search GeneIP for patents involving SDE2
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for SDE2 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
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| | |  | Browse OriGene Antibodies | | OriGene shRNA RFP for SDE2 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SDE2 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SDE2 | | | Browse OriGene Protein Over-expression Lysates | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for SDE2 | | OriGene 3'-UTR Clone for SDE2 | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SDE2 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SDE2 | | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | | Browse OriGene full length recombinant human proteins expressed in human HEK293 cells | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling | | | OriGene Custom Antibody Services for SDE2 | | OriGene Custom Protein Services for SDE2 | | | OriGene Custom Immunoassay Development | | |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat SDE2 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SDE2 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SDE2 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SDE2 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SDE2 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SDE2 |
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| | | | Search Tocris compounds for SDE2 |
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 | | | SDE2 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SDE2 |
|  |  |  | | | | Search ThermoFisher Antibodies for SDE2 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SDE2 |
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