Aliases for SOX9-AS1 Gene

Subcategory (RNA class) for SOX9-AS1 Gene


Number of RNA Genes sources:

4 / 17

Aliases for SOX9-AS1 Gene

  • SOX9 Antisense RNA 1 2 3 5
  • SOX9-AS1 2 5
  • Lnc-SLC39A11-10 165
  • NONHSAG022651.2 91
  • Lnc-SLC39A11-6 165
  • HSALNG0118528 164
  • HSALNG0118532 164
  • HSALNG0118537 164
  • FLJ37644 2

External Ids for SOX9-AS1 Gene

Previous GeneCards Identifiers for SOX9-AS1 Gene

  • GC17M070033

Summaries for SOX9-AS1 Gene

GeneCards Summary for SOX9-AS1 Gene

SOX9-AS1 (SOX9 Antisense RNA 1) is an RNA Gene, and is affiliated with the lncRNA class.

Additional gene information for SOX9-AS1 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SOX9-AS1 Gene

Genomics for SOX9-AS1 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SOX9-AS1 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH17J072237 Enhancer 0.3 Ensembl CraniofacialAtlas 600.7 -0.1 -127 0.9 SOX9-AS1 FJ601684-191 SOX9 SLC39A11
GH17J073150 Promoter/Enhancer 1.4 EPDnew FANTOM5 Ensembl ENCODE 5 -915.3 -915298 3.4 GATAD2A SOX13 PKNOX1 ARID3A FOXA2 MAFF CHD2 MAFK ARNT FOXP1 SLC39A11 SOX9-AS1 lnc-SSTR2-4 SSTR2 lnc-FAM104A-3
GH17J073144 Enhancer 1 FANTOM5 Ensembl ENCODE 5 -905.1 -905098 8.2 REST IKZF2 GABPA ZNF792 SPI1 PRDM10 POLR2A GABPB1 ZNF133 IKZF1 SSTR2 SOX9-AS1 lnc-SSTR2-4 HSALNG0118570 SLC39A11
GH17J072116 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 0.1 +115.1 115148 12.1 SP1 HNRNPL CREB1 GATAD2A CTCF ATF7 PRDM10 ZNF629 REST TFE3 SOX9 SLC39A11 LOC107987249 piR-47675-052 SOX9-AS1
GH17J072235 Enhancer 0.4 Ensembl CraniofacialAtlas 0.7 +2.0 2002 1.6 MAFK SOX9-AS1 piR-55705-022 SOX9 SLC39A11
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SOX9-AS1 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for SOX9-AS1 Gene

Genomic Locations for SOX9-AS1 Gene
203,097 bases
Minus strand
184,523 bases
Minus strand

Genomic View for SOX9-AS1 Gene

Genes around SOX9-AS1 on UCSC Golden Path with GeneCards custom track
SOX9-AS1 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Cytogenetic band:
SOX9-AS1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SOX9-AS1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SOX9-AS1 Gene

Proteins for SOX9-AS1 Gene

Post-translational modifications for SOX9-AS1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SOX9-AS1 Gene

Domains & Families for SOX9-AS1 Gene

Gene Families for SOX9-AS1 Gene

genes like me logo Genes that share domains with SOX9-AS1: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for SOX9-AS1 Gene

Function for SOX9-AS1 Gene

Phenotypes From GWAS Catalog for SOX9-AS1 Gene

Phenotypes for SOX9-AS1 Gene

genes like me logo Genes that share phenotypes with SOX9-AS1: view

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for SOX9-AS1 Gene

Localization for SOX9-AS1 Gene

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SOX9-AS1 gene
Compartment Confidence
nucleus 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for SOX9-AS1 Gene

Pathways & Interactions for SOX9-AS1 Gene

PathCards logo

SuperPathways for SOX9-AS1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SOX9-AS1 Gene


No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for SOX9-AS1 Gene

Drugs & Compounds for SOX9-AS1 Gene

No Compound Related Data Available

Transcripts for SOX9-AS1 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for SOX9-AS1 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS000075EE78_9606 lncRNA 3033 5

HGNC: 49321,

RefSeq: NR_103738,

LncBook: HSALNT0244809,

LNCipedia: lnc-SLC39A11-10:30,


URS00009AF450_9606 lncRNA 961 4

Ensembl: ENST00000630770 (view in UCSC) ,

LncBook: HSALNT0244793,

LNCipedia: lnc-SLC39A11-10:47,


URS00008BD7F5_9606 lncRNA 742 4

Ensembl: ENST00000414600 (view in UCSC) ,

LncBook: HSALNT0244843,

LNCipedia: lnc-SLC39A11-10:8,


URS00009AD10D_9606 lncRNA 733 4

Ensembl: ENST00000628742 (view in UCSC) ,

LncBook: HSALNT0244792,

LNCipedia: lnc-SLC39A11-10:7,


URS00008B793E_9606 lncRNA 635 4

Ensembl: ENST00000412640 (view in UCSC) ,

LncBook: HSALNT0244788,

LNCipedia: lnc-SLC39A11-10:46,


SOX9-AS1 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for SOX9-AS1 Gene

3 NCBI additional mRNA sequence :
3 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for SOX9-AS1 Gene

No ASD Table

Relevant External Links for SOX9-AS1 Gene

GeneLoc Exon Structure for

Expression for SOX9-AS1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SOX9-AS1 Gene

mRNA differential expression in normal tissues according to GTEx for SOX9-AS1 Gene

This gene is overexpressed in Muscle - Skeletal (x5.4).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SOX9-AS1

genes like me logo Genes that share expression patterns with SOX9-AS1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SOX9-AS1 Gene

Orthologs for SOX9-AS1 Gene

Evolution for SOX9-AS1 Gene

Gene Tree for SOX9-AS1 (if available)
Gene Tree for SOX9-AS1 (if available)

No data available for Orthologs for SOX9-AS1 Gene

Paralogs for SOX9-AS1 Gene

No data available for Paralogs for SOX9-AS1 Gene

Variants for SOX9-AS1 Gene

Additional dbSNP identifiers (rs#s) for SOX9-AS1 Gene

Structural Variations from Database of Genomic Variants (DGV) for SOX9-AS1 Gene

Variant ID Type Subtype PubMed ID
esv3381146 CNV duplication 20981092
esv3573809 CNV gain 25503493
nsv828101 CNV gain 20364138
nsv833530 CNV gain+loss 17160897

Additional Variant Information for SOX9-AS1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP and Variation tolerance for SOX9-AS1 Gene

Disorders for SOX9-AS1 Gene

No disorders were found for SOX9-AS1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SOX9-AS1 Gene

Publications for SOX9-AS1 Gene

  1. A SOX9-AS1/miR-5590-3p/SOX9 positive feedback loop drives tumor growth and metastasis in hepatocellular carcinoma through the Wnt/β-catenin pathway. (PMID: 31402556) Zhang W … Xu Z (Molecular oncology 2019) 2 3
  2. The long non-coding RNA ROCR contributes to SOX9 expression and chondrogenic differentiation of human mesenchymal stem cells. (PMID: 29084806) Barter MJ … Young DA (Development (Cambridge, England) 2017) 2 3
  3. Genome-wide association study identifies loci influencing concentrations of liver enzymes in plasma. (PMID: 22001757) Chambers JC … Kooner JS (Nature genetics 2011) 3
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3

Products for SOX9-AS1 Gene

Sources for SOX9-AS1 Gene