Aliases for SOX21-AS1 Gene

Subcategory (RNA class) for SOX21-AS1 Gene

lncRNA

Number of RNA Genes sources:

3 / 17

Aliases for SOX21-AS1 Gene

  • SOX21 Antisense Divergent Transcript 1 2 3 5
  • SOX21-AS1 2 5 165
  • SOX21 Antisense RNA 1 (Non-Protein Coding) 2 3
  • SOX21 Antisense RNA 1 (Head To Head) 2 3
  • SOX21 Antisense RNA 1 2
  • NONHSAG013973.2 91
  • NONHSAG013975.2 91
  • HSALNG0098682 164
  • HSALNG0098686 164
  • Lnc-GPR180-2 165

External Ids for SOX21-AS1 Gene

Previous GeneCards Identifiers for SOX21-AS1 Gene

  • GC13P095366

Summaries for SOX21-AS1 Gene

GeneCards Summary for SOX21-AS1 Gene

SOX21-AS1 (SOX21 Antisense Divergent Transcript 1) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with SOX21-AS1 include Oral Squamous Cell Carcinoma and Colorectal Cancer.

Additional gene information for SOX21-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 SOX21-AS1 Gene

Genomics for SOX21-AS1 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SOX21-AS1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH13J094705 Promoter/Enhancer 2.3 VISTA UCNEbase EPDnew Ensembl ENCODE dbSUPER 600.4 +6.7 6720 8.9 RNF2 ATF7 PRDM10 ZSCAN4 ZNF24 PATZ1 CTCF ZNF501 EZH2 ZNF341 LOC101927248 LINC00391 SOX21-AS1 TGDS GPR180 LOC112268114 SOX21
GH13J094704 Enhancer 0.5 ENCODE dbSUPER 600.7 +1.9 1871 0.8 USF1 EZH2 SOX21-AS1 LOC101927248 LINC00391 SOX21 GPR180
GH13J094707 Enhancer 0.4 ENCODE dbSUPER 600.7 +1.3 1328 0.2 EZH2 SOX21-AS1 LOC101927248 LINC00391 SOX21 GPR180
GH13J094708 Enhancer 0.3 ENCODE 600.7 +0.9 868 0.2 EZH2 SOX21-AS1 LINC00391 SOX21 GPR180
GH13J094706 Enhancer 0.3 ENCODE 600.7 +1.1 1128 0.2 EZH2 SOX21-AS1 LINC00391 SOX21 GPR180
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SOX21-AS1 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for SOX21-AS1 Gene

Genomic Locations for SOX21-AS1 Gene
chr13:94,703,454-94,803,430
(GRCh38/hg38)
Size:
99,977 bases
Orientation:
Plus strand
chr13:95,364,970-95,368,500
(GRCh37/hg19)
Size:
3,531 bases
Orientation:
Plus strand

Genomic View for SOX21-AS1 Gene

Genes around SOX21-AS1 on UCSC Golden Path with GeneCards custom track
SOX21-AS1 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Cytogenetic band:
SOX21-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 SOX21-AS1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SOX21-AS1 Gene

Proteins for SOX21-AS1 Gene

Post-translational modifications for SOX21-AS1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SOX21-AS1 Gene

Domains & Families for SOX21-AS1 Gene

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for SOX21-AS1 Gene

Function for SOX21-AS1 Gene

Phenotypes From GWAS Catalog for SOX21-AS1 Gene

Animal Model Products

CRISPR Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for SOX21-AS1 Gene

Localization for SOX21-AS1 Gene

Subcellular locations from

COMPARTMENTS
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 SOX21-AS1 gene
Compartment Confidence
cytoskeleton 1
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 SOX21-AS1 Gene

Pathways & Interactions for SOX21-AS1 Gene

PathCards logo

SuperPathways for SOX21-AS1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SOX21-AS1 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for SOX21-AS1 Gene

Drugs & Compounds for SOX21-AS1 Gene

No Compound Related Data Available

Transcripts for SOX21-AS1 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for SOX21-AS1 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS000075C72F_9606 lncRNA 2986 3

HGNC: 39807,

RefSeq: NR_046514,

LNCipedia: SOX21-AS1:3,

URS0000585972_9606 lncRNA 3287 2

Ensembl: ENST00000438290 (view in UCSC) ,

LNCipedia: SOX21-AS1:4,

URS0000EF4746_9606 lncRNA 1565 1

Ensembl: ENST00000665450 (view in UCSC) ,

URS00008BDE2D_9606 lncRNA 2894 3

LncBook: HSALNT0205489,

LNCipedia: lnc-GPR180-2:2,

NONCODE: NONHSAT034743.2,

URS00008B5AC0_9606 lncRNA 2984 2

LNCipedia: SOX21-AS1:1,

NONCODE: NONHSAT034741.2,

SOX21-AS1 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for SOX21-AS1 Gene

1 NCBI additional mRNA sequence :

CRISPR Products

Alternative Splicing Database (ASD) splice patterns (SP) for SOX21-AS1 Gene

No ASD Table

Relevant External Links for SOX21-AS1 Gene

GeneLoc Exon Structure for
SOX21-AS1

Expression for SOX21-AS1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SOX21-AS1 Gene

mRNA differential expression in normal tissues according to GTEx for SOX21-AS1 Gene

This gene is overexpressed in Esophagus - Mucosa (x4.9), Brain - Amygdala (x4.5), Brain - Caudate (basal ganglia) (x4.3), and Brain - Putamen (basal ganglia) (x4.0).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SOX21-AS1

SOURCE GeneReport for Unigene cluster for SOX21-AS1 Gene:

Hs.556071
genes like me logo Genes that share expression patterns with SOX21-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 SOX21-AS1 Gene

Orthologs for SOX21-AS1 Gene

Evolution for SOX21-AS1 Gene

ENSEMBL:
Gene Tree for SOX21-AS1 (if available)
TreeFam:
Gene Tree for SOX21-AS1 (if available)

No data available for Orthologs for SOX21-AS1 Gene

Paralogs for SOX21-AS1 Gene

No data available for Paralogs for SOX21-AS1 Gene

Variants for SOX21-AS1 Gene

Additional dbSNP identifiers (rs#s) for SOX21-AS1 Gene

Structural Variations from Database of Genomic Variants (DGV) for SOX21-AS1 Gene

Variant ID Type Subtype PubMed ID
dgv3325n54 CNV loss 21841781
dgv3326n54 CNV loss 21841781
esv28079 CNV loss 19812545
esv34004 CNV loss 18971310
nsv1070605 CNV deletion 25765185
nsv562766 CNV loss 21841781
nsv826750 CNV gain 20364138
nsv832686 CNV gain 17160897

Additional Variant Information for SOX21-AS1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SOX21-AS1

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 SOX21-AS1 Gene

Disorders for SOX21-AS1 Gene

MalaCards: The human disease database

(2) MalaCards diseases for SOX21-AS1 Gene - From: LncRNADisease and DISEASES

Disorder Aliases PubMed IDs
oral squamous cell carcinoma
  • mouth squamous cell carcinoma
colorectal cancer
  • crc
- elite association - COSMIC cancer census association via MalaCards
genes like me logo Genes that share disorders with SOX21-AS1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SOX21-AS1 Gene

Publications for SOX21-AS1 Gene

  1. A Novel Long Non-Coding RNA, SOX21-AS1, Indicates a Poor Prognosis and Promotes Lung Adenocarcinoma Proliferation. (PMID: 28873379) Lu X … Guo R (Cellular physiology and biochemistry : international journal of experimental cellular physiology, biochemistry, and pharmacology 2017) 2 3
  2. Aberrant DNA hypermethylation-silenced SOX21-AS1 gene expression and its clinical importance in oral cancer. (PMID: 27933111) Yang CM … Tsai KW (Clinical epigenetics 2016) 2 3
  3. Principles of long noncoding RNA evolution derived from direct comparison of transcriptomes in 17 species. (PMID: 25959816) Hezroni H … Ulitsky I (Cell reports 2015) 2 3
  4. Long noncoding RNA SOX21-AS1 promotes cervical cancer progression by competitively sponging miR-7/VDAC1. (PMID: 30912129) Zhang X … Zhang Z (Journal of cellular physiology 2019) 3
  5. Hypomethylation of the lncRNA SOX21-AS1 has clinical prognostic value in cervical cancer. (PMID: 31369759) Wang R … Cheng G (Life sciences 2019) 3

Products for SOX21-AS1 Gene

Sources for SOX21-AS1 Gene