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

HOXA11-AS Gene

RNA gene   GIFtS: 21
GCID: GC07P027230

HOXA11 antisense RNA

(Previous names: homeobox A11 antisense, HOXA11 antisense RNA (non-protein...)
(Previous symbol: HOXA11AS)
  Search for HOXA11-AS
in
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Biological research products
for HOXA11-AS    

Aliases
for HOXA11-AS gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Subcategory (RNA class): antisense

Quality score for this RNA gene is 3

Aliases
HOXA11 Antisense RNA1 2     HOXA11AS1 2
HOXA11S1 2 5     NCRNA000761 2
HOXA-AS51 2     Homeobox A11 Antisense1
HOXA11-AS11 2     HOXA11 Antisense RNA (Non-Protein Coding)1

External Ids:    HGNC: 249571   Entrez Gene: 2218832   Ensembl: ENSG000002409907   OMIM: 6075305   

Export aliases for HOXA11-AS gene to outside databases


Summaries
for HOXA11-AS 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 HOXA11-AS 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
 Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for HOXA11-AS
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
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Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat HOXA11-AS


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

Entrez Gene cytogenetic band: 7p15.2   Ensembl cytogenetic band:  7p15.2   HGNC cytogenetic band: 7p15.2

HOXA11-AS Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
HOXA11-AS gene location

GeneLoc information about chromosome 7         GeneLoc Exon Structure

GeneLoc location for GC07P027230:  view genomic region     (about GC identifiers)

Start:
 27,224,137 bp from pter      End:
 27,228,912 bp from pter
Size:
 4,776 bases      Orientation:
 plus strand

1 alternative location:
Chr7+,CRA_TCAG 27,276,212-27,280,097     

Proteins
for HOXA11-AS 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: --

Protein Domains /
Families
for HOXA11-AS gene

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
   --

Function
for HOXA11-AS gene

(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, Sirion Biotech, 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, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, Sirion Biotech, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
About This Section
Animal Models:
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miRNA
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Pathways & Interactions
for HOXA11-AS 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



Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for HOXA11-AS

Drugs & Compounds
for HOXA11-AS 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 Small Molecules at EMD Millipore
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Browse Tocris compounds for HOXA11-AS
Search CenterWatch for drugs/clinical trials and news about HOXA11-AS 

Transcripts
for HOXA11-AS 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, Sirion Biotech, 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
6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000520360 ENST00000522863 ENST00000522674(uc003syz.1) ENST00000517723
ENST00000520395 ENST00000479766

miRNA
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Inhib. RNA
Products:     		Browse for Gene Knock-down Tools from EMD Millipore
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Browse OriGene siRNA
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Clone
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Primer
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  QIAGEN QuantiFast Probe-based Assays in human, mouse, rat HOXA11-AS

GeneLoc Exon Structure


Expression
for HOXA11-AS 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

Expression evidence for HOXA11-AS:none

See probesets specificity/sensitivity at GeneAnnot
CGAP TAG: --


HOXA11-AS expression in embryonic tissues and stem cells
Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table

2 LifeMap In Vivo Development Anatomical Compartments/Cells 
Tissue Anatomical Compartment CellCategory (developmental path)
KidneyMetanephric MesenchymeMetanephric Mesenchyme CellsKidney
LimbForelimb MyotomeLimb Muscle Progenitor CellsSkeletal Muscle
Expression: Positive    Negative     Selective marker
Experimental details: Curated     Microarrays     In-situ hybridization
Stem Cell Differentiation: 2 LifeMap Cells 
NameCategory
PureStem™ progenitor SK17 (Embryonic Progenitor Cell)
CD31, CD144 positive cells (Two-step protocol fo...)

Genevestigator expression for HOXA11-AS
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In Situ
Assay Products: 
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Orthologs
for HOXA11-AS 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
This gene was present in the common ancestor of human and mouse.

Orthologs for HOXA11-AS gene from 1 species (see representative species )    About this table
Organism Taxonomic
classification		 Gene Description Human
Similarity		 Orthology
Type		 Details
mouse
(Mus musculus)		 Mammalia Hoxa11as5 HOXA11 antisense RNA (non-protein coding)   --   6 (25.40 cM) 52244393 


ENSEMBL Gene Tree for HOXA11-AS (if available)
TreeFam Gene Tree for HOXA11-AS (if available) 

Paralogs
for HOXA11-AS gene

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

Genomic Variants
for HOXA11-AS 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

10/40 NCBI SNPs in HOXA11-AS are shown (see all 40)     About this table
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance		Chr 7 posSequence#AA
Chg		TypeMore#Allele
freq		PopTotal
sample		More
----------
rs1832809811,2
--27226982(+) TGTCCA/CGAGGG 1 -- int10--------
rs732903491,2
C--27227150(+) TCCACT/AGCATC 1 -- int11Minor allele frequency- A:0.50WA 2
rs1479034501,2
--27227286(+) CCCTAC/TCTTCG 1 -- int10--------
rs1868501261,2
--27227322(+) CAGTGA/GCTTTG 1 -- int10--------
rs22857241,2
C,F,A,H--27227359(+) GGCTCA/GCCCCG 1 -- int112Minor allele frequency- G:0.45EA NS WA NA 2406
rs1913607981,2
--27227865(+) CGCCCC/GGAAGG 1 -- int10--------
rs1436501711,2
--27227952(+) GTGGCA/CGAACA 1 -- int10--------
rs754932971,2
C--27227969(+) GTTGCC/TCAGCA 1 -- int10--------
rs1510452081,2
--27227979(+) AGGAAA/TAGGAG 1 -- int10--------
rs174375161,2
C--27228005(+) CCCAAC/GGCTGC 1 -- int10--------

HapMap Linkage Disequilibrium report for HOXA11-AS (27224137 - 27228912 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
      Database of Genomic Variants (DGV) variations for HOXA11-AS: --

SABiosciences Cancer Mutation PCR Assays
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Disorders / Diseases
for HOXA11-AS 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
HOXA11-AS for disorders           About MalaCards

HOXA11-AS for disorders           About GeneDecksing

OMIM gene information: 607530    OMIM disorders: --


Export disorders for HOXA11-AS gene to outside databases

Publications
for HOXA11-AS 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 HOXA11-AS gene integrated from 9 sources:
(articles sorted by number of sources associating them with HOXA11-AS)		    Utopia: connect your pdf to the dynamic
world of online information

  1. HOXA11 silencing and endogenous HOXA11 antisense ribonucleic acid in the uterine endometrium. (PubMed id 12050232)1, 3 Chau Y.M....Taylor H.S. (2002)
  2. Evolutionary conservation and tissue-specific processing of hoxa 11 antisense transcripts. (PubMed id 9745033)1, 3 Potter S.S. and Branford W.W. (1998)
  3. 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)
  4. Human chromosome 7: DNA sequence and biology. (PubMed id 12690205)1 Scherer S.W.... Tsui L.-C. (2003)
  5. 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. (2002)
  6. Comprehensive microarray analysis of Hoxa11/Hoxd11 mutant kidney development. (PubMed id 16581055)9 Schwab K....Potter S.S. (2006)

External Searches for HOXA11-AS gene

(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)

Genome Databases showing HOXA11-AS gene

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 221883 HGNC: 24957 Ensembl:ENSG00000240990 euGenes: HUgn221883 ECgene: HOXA11-AS
H-InvDB: HOXA11-AS

Other Databases showing HOXA11-AS gene

(According to HUGE)
About This Section
   --

Specialized Databases showing HOXA11-AS 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
NameDescription
PharmGKB entry for HOXA11-AS Pharmacogenomics, SNPs, Pathways

Intellectual Property
for HOXA11-AS gene

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
Patent Information for HOXA11-AS gene:
Search GeneIP for patents involving HOXA11-AS

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



Products
for HOXA11-AS gene

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