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

HOXB-AS3 Gene

RNA gene   GIFtS: 24
GCID: GC17P046626

HOXB cluster antisense RNA 3

(Previous name: HOXB cluster antisense RNA 3 (non-protein coding) )
  Search for HOXB-AS3
in
MalaCards
our new
 Human Malady Compendium 
Biological research products
for HOXB-AS3    

Aliases
for HOXB-AS3 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): non-coding RNA

Quality score for this RNA gene is 3

Aliases
HOXB Cluster Antisense RNA 31 2
HOXB Cluster Antisense RNA 3 (Non-Protein Coding)1
Protein HOXB-AS34

External Ids:    HGNC: 402831   Entrez Gene: 4042662   Ensembl: ENSG000002331017   UniProtKB: D3DTV84   UniProtKB: I3L0Z44   
UniProtKB: I3L3474   UniProtKB: I3L4524   UniProtKB: I3L4J54   UniProtKB: I3NI354   

Export aliases for HOXB-AS3 gene to outside databases

Previous GC identifer: GC17P046667


Summaries
for HOXB-AS3 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 HOXB-AS3 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_000017.10  NC_018928.1  NT_010783.15  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for HOXB-AS3
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for HOXB-AS3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat HOXB-AS3


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

Entrez Gene cytogenetic band: 17q21.32   Ensembl cytogenetic band:  17q21.32   HGNC cytogenetic band: 17q21.32

HOXB-AS3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
HOXB-AS3 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17P046626:  view genomic region     (about GC identifiers)

Start:
 46,626,992 bp from pter      End:
 46,683,776 bp from pter
Size:
 56,785 bases      Orientation:
 plus strand

Proteins
for HOXB-AS3 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/TrEMBL: D3DTV8 (See protein sequence)
Recommended Name: HCG2042068, isoform CRA_d  
Size: 76 amino acids; 8675 Da

UniProtKB/TrEMBL: I3L0Z4 (See protein sequence)

Recommended Name: HCG2042068, isoform CRA_c  
Size: 66 amino acids; 7133 Da

UniProtKB/TrEMBL: I3L347 (See protein sequence)

Recommended Name: HCG2042068, isoform CRA_a  
Size: 115 amino acids; 12833 Da

UniProtKB/TrEMBL: I3L452 (See protein sequence)

Recommended Name: HCG2042068, isoform CRA_b  
Size: 105 amino acids; 11292 Da

UniProtKB/TrEMBL: I3L4J5 (See protein sequence)

Recommended Name: Protein HOXB-AS3  
Size: 67 amino acids; 7943 Da
Caution: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as
preliminary data

UniProtKB/TrEMBL: I3NI35 (See protein sequence)

Recommended Name: Protein HOXB-AS3  
Size: 82 amino acids; 9630 Da
Caution: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as
preliminary data

HOXB-AS3 Protein expression data from MOPED and PaxDb: --

ENSEMBL proteins: 
 ENSP00000458548   ENSP00000458453   ENSP00000458292   ENSP00000458894   ENSP00000460963  
 ENSP00000461304   ENSP00000460167   ENSP00000461200   ENSP00000461853   ENSP00000460974  

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Protein Domains /
Families
for HOXB-AS3 gene

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

ProtoNet protein and cluster: D3DTV8


Function
for HOXB-AS3 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
miRNA
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Inhib. RNA
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In Situ Assay
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Pathways & Interactions
for HOXB-AS3 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 HOXB-AS3

Drugs & Compounds
for HOXB-AS3 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
Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for HOXB-AS3
Search CenterWatch for drugs/clinical trials and news about HOXB-AS3 

Transcripts
for HOXB-AS3 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

Unigene Cluster for HOXB-AS3:

HOXB cluster antisense RNA 3
Hs.660088  [show with all ESTs]
Unigene Representative Sequence: BM466974
15 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000465846 ENST00000476204 ENST00000474040 ENST00000467155(uc021tzh.1)
ENST00000480872(uc021tzg.1) ENST00000429755(uc021tzi.1) ENST00000492897
ENST00000487849(uc021tzj.1) ENST00000481995(uc021tzk.1) ENST00000460041
ENST00000474324 ENST00000477144 ENST00000466037 ENST00000491264 ENST00000494420


miRNA
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Inhib. RNA
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Primer
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Additional cDNA sequence: 

BC010732.1 NR_033201.1 NR_033202.1 NR_033203.1 NR_033204.1 NR_033205.1 

12 DOTS entries:

DT.80100109  DT.40126866  DT.75163047  DT.75148684  DT.120919493  DT.120919505  DT.120919475  DT.95158165 
DT.92068133  DT.91743795  DT.91859624  DT.95158163 

GeneLoc Exon Structure


Expression
for HOXB-AS3 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 HOXB-AS3:none

HOXB-AS3 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: CCAGTGCTGC

Microarray
RNAseq (Illumina Body Map)
(100×FPKM)½
SAGE (Serial Analysis of Gene Expression)
About this image

HOXB-AS3 expression in embryonic tissues and stem cells
Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
Stem Cell Differentiation: 2 LifeMap Cells 
NameCategory
PureStem™ progenitor RASMO12 (Embryonic Progenitor Cell)
PureStem™ progenitor SK17 (Embryonic Progenitor Cell)
Expression: Positive    Negative     Selective marker
Experimental details: Curated     Microarrays     In-situ hybridization

Genevestigator expression for HOXB-AS3

SOURCE GeneReport for Unigene cluster: Hs.660088
    SABiosciences Custom PCR Arrays for HOXB-AS3
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In Situ
Assay Products: 
 		Search Advanced Cell Diagnostics for RNAscope RNA in situ hybridization assays for HOXB-AS3

Orthologs
for HOXB-AS3 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
   --

ENSEMBL Gene Tree for HOXB-AS3 (if available)
TreeFam Gene Tree for HOXB-AS3 (if available) 

Paralogs
for HOXB-AS3 gene

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

Genomic Variants
for HOXB-AS3 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

10/31 NCBI SNPs in HOXB-AS3 are shown (see all 31)     About this table
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance		Chr 17 posSequence#AA
Chg		TypeMore#Allele
freq		PopTotal
sample		More
----------
rs98981551,2
C,F,--46665841(+) GGGAAG/TTATAT 1 -- us2k12Minor allele frequency- T:0.08WA EA 238
rs25551091,2
C,F,A,H,--46666005(-) CACCAT/CTGAAA 2 -- us2k110Minor allele frequency- C:0.30NA WA CSA EA 373
rs773335731,2
C,--46666049(+) TTTCTA/GAGGGA 2 -- us2k13Minor allele frequency- G:0.10CSA WA 121
rs1874839581,2
--46666355(+) GGCTGC/GTGAAA 2 -- us2k10--------
rs1930018801,2
--46666389(+) CCCACA/GGGTGT 2 -- us2k10--------
rs360879711,2
C,--46666404(+) GGGGGG/-TCAAT 2 -- us2k11Minor allele frequency- -:0.50NA 2
rs2005357961,2
--46666410(+) GGGGG-/TCAATT 2 -- us2k10--------
rs1174701671,2
C,F,--46666483(+) CTGGGG/AATCAA 2 -- us2k11Minor allele frequency- A:0.06NA 120
rs1846504251,2
--46666638(+) TTGAGA/GGATTT 2 -- us2k10--------
rs47939431,2
C,F,A,H,--46666937(+) GACCTC/GTTTTT 2 -- us2k117Minor allele frequency- G:0.09NS EA NA WA CSA 1145

HapMap Linkage Disequilibrium report for HOXB-AS3 (46626992 - 46683776 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
      Database of Genomic Variants (DGV) variations for HOXB-AS3: --

SABiosciences Cancer Mutation PCR Assays
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Disorders / Diseases
for HOXB-AS3 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
   --

Publications
for HOXB-AS3 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 HOXB-AS3 gene integrated from 9 sources:
(articles sorted by number of sources associating them with HOXB-AS3)		    Utopia: connect your pdf to the dynamic
world of online information

  1. 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)
  2. The sequence of the human genome. (PubMed id 11181995)1 Venter J.C.... Zhu X. (2001)
  3. Creation of genome-wide protein expression libraries using random activation of gene expression. (PubMed id 11329013)1 Harrington J.J.... Ducar M. (2001)
  4. Normalization and subtraction: two approaches to facilitate gene discovery. (PubMed id 8889548)1 Bonaldo M.F.... Soares M.B. (1996)
  5. Initial assessment of human gene diversity and expression patterns based upon 83 million nucleotides of cDNA sequence. (PubMed id 7566098)1 Adams M.D....White O. (1995)

External Searches for HOXB-AS3 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 HOXB-AS3 gene

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 404266 HGNC: 40283 Ensembl:ENSG00000233101 euGenes: HUgn404266 ECgene: HOXB-AS3
H-InvDB: HOXB-AS3

Other Databases showing HOXB-AS3 gene

(According to HUGE)
About This Section
   --

Specialized Databases showing HOXB-AS3 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
   --

Intellectual Property
for HOXB-AS3 gene

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
Patent Information for HOXB-AS3 gene:
Search GeneIP for patents involving HOXB-AS3

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



Products
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GeneCards Homepage - Last full update: 19 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013

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VWF
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von Willebrand factor
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