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Aliases for SPATA41 Gene

Subcategory (RNA class) for SPATA41 Gene

non-coding RNA

Quality Score for this RNA gene is


Aliases for SPATA41 Gene

  • Spermatogenesis Associated 41 (Non-Protein Coding) 2 3 5
  • HSD47 3

External Ids for SPATA41 Gene

Previous GeneCards Identifiers for SPATA41 Gene

  • GC15M100886

Summaries for SPATA41 Gene

GeneCards Summary for SPATA41 Gene

SPATA41 (Spermatogenesis Associated 41 (Non-Protein Coding)) is an RNA Gene, and is affiliated with the non-coding RNA class. Diseases associated with SPATA41 include Autosomal Recessive Congenital Ichthyosis.

Additional gene information for SPATA41 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SPATA41 Gene

Genomics for SPATA41 Gene

Regulatory Elements for SPATA41 Gene

Enhancers for SPATA41 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH15H100720 1.9 FANTOM5 Ensembl ENCODE dbSUPER 6.8 -373.8 -373772 8.6 PKNOX1 FOXA2 ARID4B SIN3A FEZF1 BRCA1 FOS DEK TSHZ1 REST SNRPA1 LOC100419174 SPATA41 ALDH1A3 LOC105371024 GC15M100739
GH15H100349 1 ENCODE 8.4 +0.5 542 2 PKNOX1 FOXA2 ATF1 ARID4B SIN3A YY1 ELK1 ZNF143 FOS ATF7 SPATA41 CERS3-AS1 ADAMTS17 LOC105371021
GH15H100307 0.9 ENCODE dbSUPER 6.2 +42.2 42240 1.7 L3MBTL2 BHLHE40 FEZF1 ZBTB8A ZIC2 CTBP1 GLIS1 ZNF423 ADAMTS17 SPATA41 PIR51596 PIR40167
GH15H100525 0.6 ENCODE 7.7 -175.3 -175341 0.8 CTCF MAX RAD21 FOXA1 GABPA YY1 JUND HNF4A SPATA41 CERS3-AS1 CERS3
GH15H100309 0.8 ENCODE dbSUPER 5.7 +39.4 39438 3.1 POLR2A ZNF341 HLF SETDB1 SPATA41 PIR51596 PIR40167
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SPATA41 on UCSC Golden Path with GeneCards custom track

Promoters for SPATA41 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000081899 618 1001 PKNOX1 ATF1 SIN3A YY1 ELK1 ZNF143 ATF7 NFYC REST MIER2

Genomic Locations for SPATA41 Gene

Genomic Locations for SPATA41 Gene
6,262 bases
Minus strand

Genomic View for SPATA41 Gene

Genes around SPATA41 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SPATA41 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SPATA41 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SPATA41 Gene

Proteins for SPATA41 Gene

Post-translational modifications for SPATA41 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SPATA41 Gene

Domains & Families for SPATA41 Gene

Graphical View of Domain Structure for InterPro Entry

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SPATA41 Gene

Function for SPATA41 Gene

genes like me logo Genes that share phenotypes with SPATA41: view

Animal Model Products

Inhibitory RNA Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for SPATA41 Gene

Localization for SPATA41 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 SPATA41 Gene

Pathways & Interactions for SPATA41 Gene

SuperPathways for SPATA41 Gene

No Data Available

Interacting Proteins for SPATA41 Gene

Gene Ontology (GO) - Biological Process for SPATA41 Gene


No data available for Pathways by source and SIGNOR curated interactions for SPATA41 Gene

Drugs & Compounds for SPATA41 Gene

No Compound Related Data Available

Transcripts for SPATA41 Gene

mRNA/cDNA for SPATA41 Gene

(1) REFSEQ mRNAs :
(5) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for SPATA41 Gene

No ASD Table

Relevant External Links for SPATA41 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SPATA41 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SPATA41 Gene

mRNA differential expression in normal tissues according to GTEx for SPATA41 Gene

This gene is overexpressed in Testis (x5.7) and Liver (x5.5).

NURSA nuclear receptor signaling pathways regulating expression of SPATA41 Gene:

genes like me logo Genes that share expression patterns with SPATA41: 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 SPATA41 Gene

Orthologs for SPATA41 Gene

Evolution for SPATA41 Gene

Gene Tree for SPATA41 (if available)
Gene Tree for SPATA41 (if available)

No data available for Orthologs for SPATA41 Gene

Paralogs for SPATA41 Gene

No data available for Paralogs for SPATA41 Gene

Variants for SPATA41 Gene

Sequence variations from dbSNP and Humsavar for SPATA41 Gene

SNP ID Clin Chr 15 pos Sequence Context AA Info Type
rs1000382623 -- 100,349,480(+) AGCCG(C/T)CGTGC intron-variant, nc-transcript-variant, upstream-variant-2KB
rs1000952000 -- 100,346,895(+) GACCA(C/T)GTATC intron-variant
rs1000984757 -- 100,350,490(+) GGCAC(C/T)GGCGG nc-transcript-variant, upstream-variant-2KB
rs1001034294 -- 100,344,398(+) ACACA(C/T)GACAT intron-variant, upstream-variant-2KB
rs1001106283 -- 100,352,394(+) GGTAT(A/G)GGTCC downstream-variant-500B, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for SPATA41 Gene

Variant ID Type Subtype PubMed ID
nsv570781 CNV gain 21841781
nsv570779 CNV gain 21841781
nsv570777 CNV gain 21841781
nsv471265 CNV gain 18288195
nsv457287 CNV gain 19166990
nsv457284 CNV gain 19166990
nsv1045838 CNV gain 25217958
esv3892745 CNV gain 25118596
esv3637474 CNV gain 21293372
esv3637473 CNV gain 21293372

Relevant External Links for SPATA41 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SPATA41 Gene

Disorders for SPATA41 Gene

MalaCards: The human disease database

(1) MalaCards diseases for SPATA41 Gene - From: DISEASES

Disorder Aliases PubMed IDs
autosomal recessive congenital ichthyosis
  • arci
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for SPATA41

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with SPATA41: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SPATA41 Gene

Publications for SPATA41 Gene

  1. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K … Sugano S (Genome research 2006) 3 60
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 60
  3. 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 60

Products for SPATA41 Gene

Sources for SPATA41 Gene

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