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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

SPANXA2-OT1 Gene

RNA gene   GIFtS: 24
GCID: GC0XP140591

SPANXA2 Overlapping Transcript 1 (Non-Protein Coding)

(Previous name: chromosome X open reading frame 18)
(Previous symbol: CXorf18)
  Search for SPANXA2-OT1
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Subcategory (RNA class): lncRNA

Quality score for this RNA gene is 3

Aliases
SPANXA2 Overlapping Transcript 1 (Non-Protein Coding)1 2
CXorf181 2 3
Chromosome X Open Reading Frame 181

External Ids:    HGNC: 316831   Entrez Gene: 6194552   Ensembl: ENSG000002265747   UniProtKB: Q8N9U93   
ORGUL members:         
NONCODE14:n385837      

Export aliases for SPANXA2-OT1 gene to outside databases


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

GeneCards Summary for SPANXA2-OT1 Gene: 
SPANXA2-OT1 (SPANXA2 overlapping transcript 1 (non-protein coding)) is an RNA gene, and is affiliated with the lncRNA class.


(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000023.10  NC_018934.2  NT_011786.16  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for SPANXA2-OT1
         Other transcription factors

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Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SPANXA2-OT1


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

Entrez Gene cytogenetic band: Xq27.2   Ensembl cytogenetic band:  Xq27.2   HGNC cytogenetic band: Xq27.2

SPANXA2-OT1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SPANXA2-OT1 gene location

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XP140591:  view genomic region     (about GC identifiers)

Start:
140,590,843 bp from pter      End:
140,738,069 bp from pter
Size:
147,227 bases      Orientation:
plus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: SPOT1_HUMAN, Q8N9U9 (See protein sequence)
Recommended Name: Putative uncharacterized protein SPANXA2-OT1  
Size: 137 amino acids; 13254 Da
Caution: Product of a dubious CDS prediction. May be a non-coding RNA

Explore the universe of human proteins at neXtProt for SPANXA2-OT1: NX_Q8N9U9

Explore proteomics data for SPANXA2-OT1 at MOPED 

SPANXA2-OT1 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

SPANXA2-OT1 Protein Expression

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
HGNC Gene Families: 
LNCRNA: Long non-coding RNAs

ProtoNet protein and cluster: Q8N9U9


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
About This Section

Animal Models:
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(Pathways according to EMD Millipore, 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 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 Oct 2013 via Entrez Gene).
About This Section



Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SPANXA2-OT1

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section
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Search CenterWatch for drugs/clinical trials and news about SPANXA2-OT1

(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,
Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
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Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

Unigene Cluster for SPANXA2-OT1:

SPANXA2 overlapping transcript 1 (non-protein coding)
Hs.590784
Unigene Representative Sequence: AK093505
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000421554(uc004fbm.1)
miRNA
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Additional mRNA sequence: 

AK093505.1 NR_037183.1 

1 DOTS entry:

DT.99927752 

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™, 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

Expression evidence for SPANXA2-OT1:none

SPANXA2-OT1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
SPANXA2-OT1 Expression
About this image


See SPANXA2-OT1 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for SPANXA2-OT1

SOURCE GeneReport for Unigene cluster: Hs.590784
    SABiosciences Custom PCR Arrays for SPANXA2-OT1
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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)
About This Section
  --

ENSEMBL Gene Tree for SPANXA2-OT1 (if available)
TreeFam Gene Tree for SPANXA2-OT1 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
Paralogs for SPANXA2-OT1 gene
4 SIMAP similar genes for SPANXA2-OT1 using alignment to 1 protein entry:     SPOT1_HUMAN:
CNOT2    DAW1    C19orf47    ZNF23

SPANXA2-OT1 for paralogs           About GeneDecksing



(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) 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

10/1091 SNPs in SPANXA2-OT1 are shown (see all 1091)    About this table     
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr X posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1860393291,2
--140594923(+) TGAGCC/GGAGAT 1 -- int10--------
rs2020223861,2
--140595021(+) TACTT-/AACGCC 1 -- int10--------
rs790217671,2
C--140596170(+) TATATA/GTGTAT 1 -- int10--------
rs2003301361,2
--140596173(+) ATGTG-/TATATAT 1 -- int10--------
rs793366041,2
C--140596174(+) TGTGTA/GTATAT 1 -- int10--------
rs1872026811,2
--140596183(+) ATATAG/TAGAGA 1 -- int10--------
rs2022043361,2
C--140600196(+) CTCCCA/TCCAGT 1 -- int10--------
rs2000863631,2
C--140600417(+) CCTGTA/GAAGTT 1 -- int10--------
rs2008854661,2
C--140602340(+) AGCCCA/GTGGTT 1 -- int10--------
rs1456354821,2
C--140602372(+) TTCCTA/CGCCAG 1 -- int10--------

HapMap Linkage Disequilibrium report for SPANXA2-OT1 (140590843 - 140738069 bp)

Structural Variations
     Database of Genomic Variants (DGV) 10/16 variations for SPANXA2-OT1 (see all 16):    About this table     
Variant IDTypeSubtypePubMed ID
nsv469528CNV Loss16826518
esv23188CNV Loss19812545
nsv470367CNV Loss18288195
nsv9983CNV Gain18304495
esv2752315CNV Gain17911159
nsv470369CNV Gain18288195
nsv471606CNV Gain15918152
nsv470371CNV Gain18288195
esv26320CNV Gain+Loss19812545
nsv516880CNV Gain+Loss19592680

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section
  --

(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 SPANXA2-OT1 gene integrated from 9 sources:
(articles sorted by number of sources associating them with SPANXA2-OT1)
    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, 2 Ota T.... Sugano S. (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. (2006)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 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)
About This Section
Entrez Gene: 619455 HGNC: 31683 Ensembl:ENSG00000226574 euGenes: HUgn619455 ECgene: SPANXA2-OT1
H-InvDB: SPANXA2-OT1

(According to HUGE)
About This Section
  --

(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
NameDescription
PharmGKB entry for SPANXA2-OT1 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
Patent Information for SPANXA2-OT1 gene:
Search GeneIP for patents involving SPANXA2-OT1

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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, 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
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About This Section

 
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