Aliases for SPATA42 Gene

Subcategory (RNA class) for SPATA42 Gene

lncRNA

Quality Score for this RNA gene is

15

Aliases for SPATA42 Gene

  • Spermatogenesis Associated 42 2 3 5
  • Spermatogenesis Associated 42 (Non-Protein Coding) 2 3
  • Spermatogenesis-Related Gene 7 2 3
  • AKNAD1 Antisense RNA 1 2 3
  • SPATA42 2 170
  • Spermatogenesis-Related Protein 7 3
  • NONHSAG002319 94
  • HSALNG0005835 169
  • AKNAD1-AS1 3
  • SRG7 3

External Ids for SPATA42 Gene

Previous GeneCards Identifiers for SPATA42 Gene

  • GC01P109402
  • GC01P108857

Summaries for SPATA42 Gene

GeneCards Summary for SPATA42 Gene

SPATA42 (Spermatogenesis Associated 42) is an RNA Gene, and is affiliated with the lncRNA class.

Additional gene information for SPATA42 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 SPATA42 Gene

Genomics for SPATA42 Gene

GeneHancer (GH) Regulatory Elements for SPATA42 Gene

Promoters and enhancers for SPATA42 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
GH01J108824 Enhancer 0.3 ENCODE 750.6 +0.6 584 0.1 CTBP1 SPATA42 AKNAD1 LOC105378891
GH01J108875 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 6.5 +54.2 54235 3.9 GTF3C2 ZNF785 ZBTB40 SMARCE1 POLR2A USF2 CREB1 MYC CC2D1A NFYC GPSM2 PRPF38B ENSG00000228703 ENSG00000244716 ENSG00000228665 SPATA42 CLCC1 piR-30791-003 AKNAD1
GH01J108896 Enhancer 0.7 Ensembl ENCODE 18 +73.4 73415 2.9 CTCF CC2D1A RAD21 REST TRIM22 RFX5 SMC3 KLF16 ZBTB33 SPATA42 AKNAD1 ENSG00000251484 piR-30791-003 GPSM2 lnc-WDR47-1
GH01J108889 Enhancer 0.6 Ensembl 20.6 +65.9 65850 3.4 DACH1 ELF3 GATAD2A EP300 SOX6 SAP130 NR2C2 GABPA NR2F2 ZNF395 piR-30791-003 SPATA42 AKNAD1 PRPF38B CLCC1 GPSM2 lnc-WDR47-1
GH01J108913 Enhancer 1 Ensembl ENCODE 11.1 +89.7 89651 1.4 SMARCE1 DACH1 TEAD4 CBFA2T2 SP7 SMARCA4 TRIM24 GMEB1 IKZF1 DPF2 AKNAD1 ENSG00000228703 SPATA42 WDR47 RANP5 CLCC1 piR-30791-003 lnc-WDR47-1 GPSM2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SPATA42 on UCSC Golden Path with GeneCards custom track

Genomic Locations for SPATA42 Gene

Genomic Locations for SPATA42 Gene
chr1:108,823,650-108,858,525
(GRCh38/hg38)
Size:
34,876 bases
Orientation:
Plus strand
chr1:109,399,839-109,401,146
(GRCh37/hg19)
Size:
1,308 bases
Orientation:
Plus strand

Genomic View for SPATA42 Gene

Genes around SPATA42 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SPATA42 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SPATA42 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SPATA42 Gene

Proteins for SPATA42 Gene

Post-translational modifications for SPATA42 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SPATA42 Gene

Domains & Families for SPATA42 Gene

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for SPATA42 Gene

Function for SPATA42 Gene

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for SPATA42 Gene

Localization for SPATA42 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 SPATA42 Gene

Pathways & Interactions for SPATA42 Gene

PathCards logo

SuperPathways for SPATA42 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SPATA42 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SPATA42 Gene

Drugs & Compounds for SPATA42 Gene

No Compound Related Data Available

Transcripts for SPATA42 Gene

mRNA/cDNA for SPATA42 Gene

(2) REFSEQ mRNAs :
(3) Additional mRNA sequences :
(3) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
(4) NONCODE transcripts :
(7) RNACentral transcripts :
(3) LncBook transcripts :
(3) LNCipedia transcripts :

Alternative Splicing Database (ASD) splice patterns (SP) for SPATA42 Gene

No ASD Table

Relevant External Links for SPATA42 Gene

GeneLoc Exon Structure for
SPATA42
ECgene alternative splicing isoforms for
SPATA42

Expression for SPATA42 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SPATA42 Gene

mRNA differential expression in normal tissues according to GTEx for SPATA42 Gene

This gene is overexpressed in Testis (x51.7).

NURSA nuclear receptor signaling pathways regulating expression of SPATA42 Gene:

SPATA42
genes like me logo Genes that share expression patterns with SPATA42: 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 SPATA42 Gene

Orthologs for SPATA42 Gene

Evolution for SPATA42 Gene

ENSEMBL:
Gene Tree for SPATA42 (if available)
TreeFam:
Gene Tree for SPATA42 (if available)

No data available for Orthologs for SPATA42 Gene

Paralogs for SPATA42 Gene

No data available for Paralogs for SPATA42 Gene

Variants for SPATA42 Gene

Sequence variations from dbSNP and Humsavar for SPATA42 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000058441 -- 108,858,370(+) C/A downstream_transcript_variant, genic_downstream_transcript_variant, intron_variant
rs1000661282 -- 108,856,828(+) C/T upstream_transcript_variant
rs1001573326 -- 108,855,866(+) A/G upstream_transcript_variant
rs1001604365 -- 108,856,089(+) G/ upstream_transcript_variant
rs1001659904 -- 108,855,366(+) T/A upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for SPATA42 Gene

Variant ID Type Subtype PubMed ID
esv3587139 CNV gain 21293372
esv3587140 CNV gain 21293372
nsv1013192 CNV gain 25217958

Additional Variant Information for SPATA42 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SPATA42

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SPATA42 Gene

Disorders for SPATA42 Gene

Additional Disease Information for SPATA42

No disorders were found for SPATA42 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SPATA42 Gene

Publications for SPATA42 Gene

No publications were found for SPATA42 Gene.

Products for SPATA42 Gene

Sources for SPATA42 Gene