This locus represents naturally occurring read-through transcription between the neighboring SLX1A (SLX1 structure-specific endonuclease subunit homolog A) and SULT1A3 (sulfotransferase family, cytosolic, 1A, phenol-preferring, member 3) genes on the short arm of chromosome 16. A duplicate read-through locus also exists between the SLX1B and SULT1A4 genes located approximately ... See more...

Aliases for SLX1A-SULT1A3 Gene

Data sources for SLX1A-SULT1A3 Gene:

RNA type for SLX1A-SULT1A3 Gene

lncRNA

Aliases for SLX1A-SULT1A3 Gene

External Ids for SLX1A-SULT1A3 Gene

Previous GeneCards Identifiers for SLX1A-SULT1A3 Gene

  • GC16U901280
  • GC16P030212
  • GC16P030216
  • GC16P030219
  • GC16P030198
  • GC16P030221
  • GC16P030278
  • GC16P030283
  • GC16P030288
  • GC16P030331
  • GC16P030224
  • GC16P030237
  • GC16P030244
  • GC16P030249
  • GC16P030256
  • GC16P030262
  • GC16P030267
  • GC16P030272
  • GC16P030379
  • GC16P030485

Summaries for SLX1A-SULT1A3 Gene

Entrez Gene Summary for SLX1A-SULT1A3 Gene

  • This locus represents naturally occurring read-through transcription between the neighboring SLX1A (SLX1 structure-specific endonuclease subunit homolog A) and SULT1A3 (sulfotransferase family, cytosolic, 1A, phenol-preferring, member 3) genes on the short arm of chromosome 16. A duplicate read-through locus also exists between the SLX1B and SULT1A4 genes located approximately 730 kb upstream on the same chromosome. The read-through transcript is a candidate for nonsense-mediated mRNA decay (NMD), and is thus unlikely to produce a protein product. [provided by RefSeq, Feb 2017]

GeneCards Summary for SLX1A-SULT1A3 Gene

SLX1A-SULT1A3 (SLX1A-SULT1A3 Readthrough (NMD Candidate)) is an RNA Gene, and is affiliated with the lncRNA class. Among its related pathways are Sulfation Biotransformation Reaction and Cytochrome P450 - arranged by substrate type. Gene Ontology (GO) annotations related to this gene include sulfotransferase activity and aryl sulfotransferase activity.

Additional gene information for SLX1A-SULT1A3 Gene

No data available for CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SLX1A-SULT1A3 Gene

Genomics for SLX1A-SULT1A3 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SLX1A-SULT1A3 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
GH16J030192 Promoter/Enhancer 0.8 EPDnew Ensembl dbSUPER 250.7 -0.1 -91 3.2 BOLA2B SLX1A SLX1A-SULT1A3 lnc-NPIPB13-1 BOLA2 CORO1A HSALNG0110697
GH16J030195 Promoter/Enhancer 0.5 Ensembl dbSUPER 250.7 +1.9 1909 0.4 BOLA2B SLX1A SLX1A-SULT1A3 SULT1A3 HSALNG0110697
GH16J030119 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas 12.6 -71.7 -71721 5.8 ZNF207 MYC IKZF1 ZNF600 ZNF592 ZMYM3 POLR2A CEBPA ZIC2 CHD4 MAPK3 RF00017-1830 YPEL3 SETD1A NPIPB13 NPIPB12 SRCAP ZNF747 INO80E CORO1A
GH16J030112 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE 12.3 -79.0 -79044 5.5 MYC IKZF1 SSRP1 ZNF580 ZNF592 ZMYM3 CEBPA POLR2A NFIC ZIC2 GDPD3 HSALNG0110693 lnc-PPP4C-12 SLX1A TBX6 SRCAP INO80E SMG1P5 SMG1P2 LOC107984875
GH16J030208 Promoter/Enhancer 0.8 EPDnew Ensembl dbSUPER 0.4 +5.6 5609 0.6 SULT1A3 HSALNG0110701-002 SLX1A-SULT1A3 HSALNG0110697 NPIPB13
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SLX1A-SULT1A3 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for SLX1A-SULT1A3 Gene

Latest Assembly
chr16:30,193,892-30,204,329
(GRCh38/hg38)
Size:
10,438 bases
Orientation:
Plus strand

Previous Assembly
chr16:30,205,754-30,215,650
(GRCh37/hg19 by Entrez Gene)
Size:
9,897 bases
Orientation:
Plus strand

chr16:30,205,213-30,215,631
(GRCh37/hg19 by Ensembl)
Size:
10,419 bases
Orientation:
Plus strand

Genomic View for SLX1A-SULT1A3 Gene

Genes around SLX1A-SULT1A3 on UCSC Golden Path with GeneCards custom track
SLX1A-SULT1A3 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Cytogenetic band:
SLX1A-SULT1A3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SLX1A-SULT1A3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SLX1A-SULT1A3 Gene

Proteins for SLX1A-SULT1A3 Gene

Post-translational modifications for SLX1A-SULT1A3 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SLX1A-SULT1A3 Gene

Domains & Families for SLX1A-SULT1A3 Gene

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for SLX1A-SULT1A3 Gene

Function for SLX1A-SULT1A3 Gene

Phenotypes From GWAS Catalog for SLX1A-SULT1A3 Gene

Phenotypes for SLX1A-SULT1A3 Gene

genes like me logo Genes that share phenotypes with SLX1A-SULT1A3: view

miRNA for SLX1A-SULT1A3 Gene

miRTarBase miRNAs that target SLX1A-SULT1A3

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SLX1A-SULT1A3 Gene

Localization for SLX1A-SULT1A3 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for SLX1A-SULT1A3 Gene

Pathways & Interactions for SLX1A-SULT1A3 Gene

genes like me logo Genes that share pathways with SLX1A-SULT1A3: view

Pathways by source for SLX1A-SULT1A3 Gene

2 BioSystems pathways for SLX1A-SULT1A3 Gene

Gene Ontology (GO) - Biological Process for SLX1A-SULT1A3 Gene

None

No data available for Interacting Proteins and SIGNOR curated interactions for SLX1A-SULT1A3 Gene

Drugs & Compounds for SLX1A-SULT1A3 Gene

No Compound Related Data Available

Transcripts for SLX1A-SULT1A3 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for SLX1A-SULT1A3 Gene

RNAcentral Transcript ID RNA Type Length (nts) # of Sources Source Identifiers and Annotations
URS000075D98B_9606 lncRNA 2218 1

RefSeq: NR_037608,

URS0000EF5369_9606 lncRNA 2195 1

Ensembl: ENST00000565342 (view in UCSC) ,

URS00009AD331_9606 lncRNA 2424 1

NONCODE: NONHSAT172835.1,

SLX1A-SULT1A3 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for SLX1A-SULT1A3 Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for SLX1A-SULT1A3 Gene

No ASD Table

Relevant External Links for SLX1A-SULT1A3 Gene

GeneLoc Exon Structure for
SLX1A-SULT1A3

Expression for SLX1A-SULT1A3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SLX1A-SULT1A3 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SLX1A-SULT1A3

genes like me logo Genes that share expression patterns with SLX1A-SULT1A3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , 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 SLX1A-SULT1A3 Gene

Orthologs for SLX1A-SULT1A3 Gene

Evolution for SLX1A-SULT1A3 Gene

ENSEMBL:
Gene Tree for SLX1A-SULT1A3 (if available)
TreeFam:
Gene Tree for SLX1A-SULT1A3 (if available)
Alliance of Genome Resources:
Additional Orthologs for SLX1A-SULT1A3

No data available for Orthologs for SLX1A-SULT1A3 Gene

Paralogs for SLX1A-SULT1A3 Gene

No data available for Paralogs for SLX1A-SULT1A3 Gene

Variants for SLX1A-SULT1A3 Gene

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for SLX1A-SULT1A3 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for SLX1A-SULT1A3 Gene

Variant ID Type Subtype PubMed ID
dgv1515e59 CNV duplication 20981092
esv22245 CNV gain 19812545
esv2714183 CNV deletion 23290073
esv2758641 CNV gain 17122850
esv2758642 CNV gain 17122850
esv29892 CNV gain 19812545
esv3333204 CNV duplication 20981092
esv3388213 CNV duplication 20981092
esv3392583 CNV duplication 20981092
esv3406739 CNV duplication 20981092
esv3444439 CNV duplication 20981092
esv3451126 CNV duplication 20981092
nsv1056249 CNV gain 25217958
nsv1078392 CNV duplication 25765185
nsv1078393 CNV duplication 25765185
nsv1139652 CNV duplication 24896259
nsv1141284 CNV duplication 24896259
nsv1146152 CNV duplication 26484159
nsv1148121 CNV duplication 26484159
nsv1150245 CNV duplication 26484159
nsv471388 CNV gain 19718026
nsv471389 CNV gain 19718026
nsv498862 CNV loss 21111241
nsv571809 CNV loss 21841781
nsv571810 CNV loss 21841781
nsv571811 CNV loss 21841781
nsv571819 CNV gain 21841781
nsv820959 CNV duplication 20802225
nsv821543 CNV duplication 20802225
nsv9426 CNV gain 18304495
nsv9431 CNV gain+loss 18304495
nsv953799 CNV deletion 24416366
nsv960011 CNV duplication 23825009
nsv977952 CNV duplication 23825009
nsv977954 CNV duplication 23825009
nsv978130 CNV duplication 23825009

Additional Variant Information for SLX1A-SULT1A3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SLX1A-SULT1A3
Leiden Open Variation Database (LOVD)
SLX1A-SULT1A3

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 SLX1A-SULT1A3 Gene

Disorders for SLX1A-SULT1A3 Gene

Additional Disease Information for SLX1A-SULT1A3

No disorders were found for SLX1A-SULT1A3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SLX1A-SULT1A3 Gene

Publications for SLX1A-SULT1A3 Gene

  1. Expression of conjoined genes: another mechanism for gene regulation in eukaryotes. (PMID: 20967262) Prakash T … Taylor TD (PloS one 2010) 3
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3
  3. Human SULT1A3 pharmacogenetics: gene duplication and functional genomic studies. (PMID: 15358107) Hildebrandt MA … Weinshilboum RM (Biochemical and biophysical research communications 2004) 3
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 3
  5. Human platelet phenolsulfotransferases: cDNA cloning, stable expression in V79 cells and identification of a novel allelic variant of the phenol-sulfating form. (PMID: 7695643) Jones AL … Glatt H (Biochemical and biophysical research communications 1995) 3

Products for SLX1A-SULT1A3 Gene

Sources for SLX1A-SULT1A3 Gene