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SDHAP2 Gene

pseudogene   GIFtS: 20
GCID: GC03P195386

Succinate Dehydrogenase Complex, Subunit A, Flavoprotein...

(Previous names: succinate dehydrogenase complex, subunit A, flavoprotein-like...)
(Previous symbols: SDHAL2, SDHALP2)
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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Succinate Dehydrogenase Complex, Subunit A, Flavoprotein Pseudogene
21 2
SDHAL21 2
SDHALP21 2
Succinate Dehydrogenase Complex, Subunit A, Flavoprotein-Like 21

External Ids:    HGNC: 274081   Entrez Gene: 7279562   Ensembl: ENSG000002158377   

Export aliases for SDHAP2 gene to outside databases

Previous GC identifers: GC03U901266 GC03P195385 GC03M193002


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for SDHAP2 Gene:
SDHAP2 (succinate dehydrogenase complex, subunit A, flavoprotein pseudogene 2) is a pseudogene.


(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000003.11  NC_018914.2  NT_005612.17  NT_187532.1  NT_187649.1  NT_187678.1  NT_187688.1  NT_187689.1  
NT_187690.1  NT_187691.1  
Regulatory elements:
   Search for regulatory transcription factor binding sites for SDHAP2
         Other transcription factors

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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SDHAP2


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 3q29   Ensembl cytogenetic band:  3q29   HGNC cytogenetic band: 3q29

SDHAP2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SDHAP2 gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03P195386:  view genomic region     (about GC identifiers)

Start:
195,384,910 bp from pter      End:
195,415,742 bp from pter
Size:
30,833 bases      Orientation:
plus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for SDHAP2

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB: --


(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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  --

(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Animal Models:
   genOway: Develop your customized and physiologically relevant rodent model for SDHAP2

miRNA
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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
extracellular3
cytosol1
mitochondrion1

(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, 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 Apr 2014 via Entrez Gene).
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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SDHAP2
Interactions:

    Search GeneGlobe Interaction Network for SDHAP2

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
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Browse Tocris compounds for SDHAP2



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 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,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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Unigene Cluster for SDHAP2:

Succinate dehydrogenase complex, subunit A, flavoprotein pseudogene 2
Hs.596261  [show with all ESTs]
Unigene Representative Sequence: BC064564
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000455183
miRNA
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Additional mRNA sequence: 

AK057553.1 AK074764.1 AK300421.1 AK316025.1 BC053551.1 BC062438.1 BC064564.1 BC071730.1 
BC073879.1 NR_003264.2 NR_003265.3 

Selected DOTS entries (see all 43):

DT.102839670  DT.106205  DT.427384  DT.75156657  DT.92464260  DT.102828004  DT.100879622  DT.120927525 
DT.100794082  DT.95100117  DT.97822303  DT.100794079  DT.119091  DT.120852151  DT.120927776  DT.97817039 
DT.100031411  DT.108575  DT.121634778  DT.40289506  DT.75156458  DT.95100132  DT.100031405  DT.100704130 

GeneLoc Exon Structure


(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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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SDHAP2 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: CTGTGTACAG
SDHAP2 Expression
About this image

SDHAP2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

SDHAP2 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.596261
    Custom PCR Arrays for SDHAP2
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In Situ
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(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)
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  --

ENSEMBL Gene Tree for SDHAP2 (if available)
TreeFam Gene Tree for SDHAP2 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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  --

(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for SDHAP2 (see all 1010)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 3 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs49277801,2
C,A--195382915(-) ttcagC/Gagtgg 1 -- us2k10--------
rs49277791,2
C,A,H--195382933(-) ttttcC/Gcttgg 1 -- us2k10--------
rs76404541,2
C,A,H--195382946(+) taaacA/C/Gtgcac 1 -- us2k10--------
rs3775070431,2
C--195382946(+) AAACG-/TGCACA
CACAAACC
TGCAC
1 -- us2k10--------
rs117158371,2
C,H--195383022(+) tgtccA/G/Ttcggc 1 -- us2k10--------
rs117132871,2
C,H--195383024(+) tccgtC/Gggcag 1 -- us2k10--------
rs31077281,2
C,F,H--195383159(+) GGTGGG/CCACAG 1 -- us2k11Minor allele frequency- C:0.50NA 4
rs1851624001,2
C--195383218(+) TCGGGA/GAGCAG 1 -- us2k10--------
rs3743552551,2
C--195383262(+) CGAATG/TAGGAG 1 -- us2k10--------
rs1880176061,2
--195383325(+) CTGAGA/GGGCTG 1 -- us2k10--------

HapMap Linkage Disequilibrium report for SDHAP2 (195384910 - 195415742 bp)

Structural Variations
     Database of Genomic Variants (DGV) Selected variations for SDHAP2 (see all 21):    About this table    
Variant IDTypeSubtypePubMed ID
esv2726481CNV Deletion23290073
esv1494509CNV Deletion17803354
dgv905e199CNV Deletion23128226
esv2726477CNV Deletion23290073
esv2726482CNV Deletion23290073
esv2266152CNV Deletion18987734
nsv878154CNV Loss21882294
nsv878146CNV Loss21882294
nsv820189CNV Gain19587683
nsv822408CNV Gain20364138

Site Specific Mutation Identification with PCR Assays
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DNA2.0 Custom Variant and Variant Library Synthesis for SDHAP2

(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.)
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  --

(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)
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PubMed articles for SDHAP2 gene integrated from 10 sources:
(articles sorted by number of sources associating them with SDHAP2)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 3 Ota T.... Sugano S. (Nat. Genet. 2004)
  2. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (Genome Res. 2006)
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
  4. Shotgun sequencing of the human transcriptome with ORF expressed sequence tags. (PubMed id 10737800)1 Dias Neto E....Simpson A.J.G. (Proc. Natl. Acad. Sci. U.S.A. 2000)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 727956 HGNC: 27408 Ensembl:ENSG00000215837 euGenes: HUgn727956 ECgene: SDHAP2
H-InvDB: SDHAP2

(According to HUGE)
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  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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  --

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for SDHAP2 gene:
Search GeneIP for patents involving SDHAP2

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
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