SPATA42 Gene (RNA Gene)

Spermatogenesis Associated 42

GC01P108823
GIFtS:
12
See more...

Aliases for SPATA42 Gene

Subcategory (RNA class) for SPATA42 Gene

lncRNA

Number of RNA Genes sources:

3 / 17

Aliases for SPATA42 Gene

  • Spermatogenesis Associated 42 2 3 5
  • SPATA42 2 5 165
  • Spermatogenesis Associated 42 (Non-Protein Coding) 2 3
  • Spermatogenesis-Related Gene 7 2 3
  • AKNAD1 Antisense RNA 1 2 3
  • AKNAD1-AS1 2 3
  • SRG7 2 3
  • Spermatogenesis-Related Protein 7 3
  • NONHSAG002319.2 91
  • HSALNG0005835 164

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 Pubs

Download GeneHancer 2017 data
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
GH01J108856 Promoter 0.8 EPDnew Ensembl 612.7 +33.6 33551 0.8 ZSCAN4 SPATA42 GSTM5 lnc-AKNAD1-2 GPSM2 AKNAD1 STXBP3
GH01J108824 Enhancer 0.3 ENCODE 600.7 +0.6 584 0.1 CTBP1 SPATA42 AKNAD1 LOC105378891 lnc-AKNAD1-2 GPSM2 STXBP3
GH01J108896 Enhancer 0.8 Ensembl ENCODE 18 +73.4 73415 2.9 CTCF REST RAD21 TRIM22 RFX5 TFDP1 SMC3 ZNF654 ZNF660 ZBTB33 SPATA42 AKNAD1 ENSG00000251484 piR-30791-003 GPSM2 MN296835 CLCC1
GH01J108875 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 6.5 +54.2 54235 3.9 RNF2 ARHGAP35 CREB1 PRDM10 TFE3 IKZF1 ZNF692 LARP7 PRDM1 MTA2 GPSM2 PRPF38B PSRC1 SPATA42 CLCC1 piR-30791-003 AKNAD1
GH01J108889 Enhancer 0.6 Ensembl 20.6 +65.9 65850 3.4 GATAD2A SOX6 EP300 NR2C2 GABPA NR2F2 SAP130 ZNF395 ZNF584 ATF4 piR-30791-003 SPATA42 AKNAD1 PRPF38B CLCC1 GPSM2 MN296835
- 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 the GeneHancer Hub at the UCSC Golden Path

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
SPATA42 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

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 Structure • Gene Density

RefSeq DNA sequence for SPATA42 Gene

Proteins for SPATA42 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

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

Gene Families for SPATA42 Gene

HGNC:
genes like me logo Genes that share domains with SPATA42: view

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

Function for SPATA42 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

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 , Interacting Proteins and SIGNOR curated interactions for SPATA42 Gene

Drugs & Compounds for SPATA42 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for SPATA42 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

Non-coding RNA (ncRNA) Transcripts from RNAcentral for SPATA42 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS0000071D11_9606 lncRNA 535 3

Ensembl: ENST00000369989 (view in UCSC) ,

LNCipedia: SPATA42:1,

NONCODE: NONHSAT005003.2,

URS00001D559B_9606 lncRNA 441 3

Ensembl: ENST00000417241 (view in UCSC) ,

LncBook: HSALNT0012147,

LNCipedia: SPATA42:3,

URS000075BBB0_9606 lncRNA 535 2

HGNC: 41198,

RefSeq: NR_034168,

URS0000EF2A90_9606 lncRNA 472 1

Ensembl: ENST00000662170 (view in UCSC) ,

URS000075AB99_9606 lncRNA 468 1

RefSeq: NR_049777,

SPATA42 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for SPATA42 Gene

3 NCBI additional mRNA sequence :

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

No ASD Table

Relevant External Links for SPATA42 Gene

GeneLoc Exon Structure for
SPATA42

Expression for SPATA42 Gene

Products:

  1. Primer
  2. Gene Expression Assay

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

mRNA expression in normal human tissues for SPATA42 Gene
mRNA expression by GTEx for SPATA42 Gene

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

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

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

Products:

  1. SNP Genotyping and Copy Number Assay

Additional dbSNP identifiers (rs#s) for SPATA42 Gene

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 , Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP and Variation tolerance for SPATA42 Gene

Disorders for SPATA42 Gene

Additional Disease Information for SPATA42

ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform

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.

ExternalLinks

View latest publications for SPATA42 gene in Mastermind

Products for SPATA42 Gene

Sources for SPATA42 Gene