Human Gene SPATA7 (ENST00000393545.9_5) from GENCODE V47lift37
  Description: spermatogenesis associated 7, transcript variant 1 (from RefSeq NM_018418.5)
Gencode Transcript: ENST00000393545.9_5
Gencode Gene: ENSG00000042317.17_12
Transcript (Including UTRs)
   Position: hg19 chr14:88,852,001-88,904,804 Size: 52,804 Total Exon Count: 12 Strand: +
Coding Region
   Position: hg19 chr14:88,852,163-88,904,766 Size: 52,604 Coding Exon Count: 12 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureOther SpeciesmRNA DescriptionsOther Names
GeneReviewsModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:88,852,001-88,904,804)mRNA (may differ from genome)Protein (599 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: SPATA7
Diseases sorted by gene-association score: leber congenital amaurosis 3* (937), severe early-childhood-onset retinal dystrophy* (202), leber congenital amaurosis* (113), spata7-related leber congenital amaurosis* (100), spata7-related retinitis pigmentosa* (100), retinitis pigmentosa* (50), hereditary retinal dystrophy (9), fundus dystrophy (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 32.24 RPKM in Testis
Total median expression: 179.70 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -69.20162-0.427 Picture PostScript Text
3' UTR -1.1038-0.029 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Descriptions from all associated GenBank mRNAs
  BC090875 - Homo sapiens spermatogenesis associated 7, mRNA (cDNA clone MGC:102934 IMAGE:30383306), complete cds.
LF384875 - JP 2014500723-A/192378: Polycomb-Associated Non-Coding RNAs.
AL136604 - Homo sapiens mRNA; cDNA DKFZp564F2122 (from clone DKFZp564F2122).
AF144487 - Homo sapiens clone HSD-3.1 unknown mRNA.
GQ891487 - Homo sapiens clone HEL-S-208 epididymis secretory sperm binding protein mRNA, complete cds.
EU668353 - Homo sapiens epididymis secretory protein Li 296 (HEL-S-296) mRNA, complete cds.
AK225746 - Homo sapiens mRNA for Spermatogenesis associated protein 7 variant, clone: TST06008.
AK290631 - Homo sapiens cDNA FLJ76119 complete cds.
AK293007 - Homo sapiens cDNA FLJ78263 complete cds.
CR936777 - Homo sapiens mRNA; cDNA DKFZp686D07199 (from clone DKFZp686D07199).
AK055864 - Homo sapiens cDNA FLJ31302 fis, clone LIVER1000079, highly similar to Spermatogenesis-associated protein 7.
AB463283 - Synthetic construct DNA, clone: pF1KB8656, Homo sapiens SPATA7 gene for spermatogenesis associated 7, without stop codon, in Flexi system.
AM393238 - Synthetic construct Homo sapiens clone IMAGE:100001633 for hypothetical protein (SPATA7 gene).
CR533563 - Homo sapiens full open reading frame cDNA clone RZPDo834G0821D for gene SPATA7, spermatogenesis associated 7; complete cds, incl. stopcodon.
AF144488 - Homo sapiens clone HSD-3.2 unknown mRNA.
MA620452 - JP 2018138019-A/192378: Polycomb-Associated Non-Coding RNAs.
JD057719 - Sequence 38743 from Patent EP1572962.
JD227026 - Sequence 208050 from Patent EP1572962.
BC034635 - Homo sapiens cDNA clone IMAGE:4831226, **** WARNING: chimeric clone ****.
BC037809 - Homo sapiens spermatogenesis associated 7, mRNA (cDNA clone IMAGE:4797676), with apparent retained intron.
BC008656 - Homo sapiens spermatogenesis associated 7, mRNA (cDNA clone IMAGE:3854920), partial cds.
GQ891486 - Homo sapiens clone HEL-S-207 epididymis secretory sperm binding protein mRNA, partial cds.
CU679017 - Synthetic construct Homo sapiens gateway clone IMAGE:100018798 5' read SPATA7 mRNA.
KJ902884 - Synthetic construct Homo sapiens clone ccsbBroadEn_12278 SPATA7 gene, encodes complete protein.
JD177984 - Sequence 159008 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000393545.1, ENST00000393545.2, ENST00000393545.3, ENST00000393545.4, ENST00000393545.5, ENST00000393545.6, ENST00000393545.7, ENST00000393545.8, hCG_21084 , HEL-S-296 , NM_018418, SPATA7 , uc318vyh.1, uc318vyh.2, V9HVY9, V9HVY9_HUMAN
UCSC ID: ENST00000393545.9_5
RefSeq Accession: NM_018418.5

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene SPATA7:
lca-ov (Leber Congenital Amaurosis / Early-Onset Severe Retinal Dystrophy Overview)
rp-overview (Nonsyndromic Retinitis Pigmentosa Overview)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.