Human Gene SPATA21 (ENST00000335496.5_13) from GENCODE V47lift37
  Description: spermatogenesis associated 21, transcript variant 1 (from RefSeq NM_198546.1)
Gencode Transcript: ENST00000335496.5_13
Gencode Gene: ENSG00000187144.11_15
Transcript (Including UTRs)
   Position: hg19 chr1:16,725,138-16,763,919 Size: 38,782 Total Exon Count: 13 Strand: -
Coding Region
   Position: hg19 chr1:16,725,260-16,757,866 Size: 32,607 Coding Exon Count: 11 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:16,725,138-16,763,919)mRNA (may differ from genome)Protein (469 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SPT21_HUMAN
DESCRIPTION: RecName: Full=Spermatogenesis-associated protein 21;
FUNCTION: Involved in the differentiation of haploid spermatids (By similarity).
SIMILARITY: Contains 1 EF-hand domain.

-  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


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 5.48 RPKM in Testis
Total median expression: 7.29 RPKM



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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -152.60483-0.316 Picture PostScript Text
3' UTR -41.40122-0.339 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.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR011992 - EF-hand-like_dom
IPR018247 - EF_Hand_1_Ca_BS
IPR018249 - EF_HAND_2

Pfam Domains:
PF13202 - EF hand
PF13833 - EF-hand domain pair

SCOP Domains:
63446 - Type I dockerin domain
47473 - EF-hand

ModBase Predicted Comparative 3D Structure on Q7Z572
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  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    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005509 calcium ion binding
GO:0046872 metal ion binding


-  Descriptions from all associated GenBank mRNAs
  AK128106 - Homo sapiens cDNA FLJ46227 fis, clone TESTI4014891.
AY327405 - Homo sapiens hypothetical protein mRNA, complete cds.
BC150598 - Homo sapiens spermatogenesis associated 21, mRNA (cDNA clone MGC:183508 IMAGE:9056968), complete cds.
JD369564 - Sequence 350588 from Patent EP1572962.
JD317148 - Sequence 298172 from Patent EP1572962.
JD477561 - Sequence 458585 from Patent EP1572962.
JD044991 - Sequence 26015 from Patent EP1572962.
JD117652 - Sequence 98676 from Patent EP1572962.
JD470239 - Sequence 451263 from Patent EP1572962.
AK311614 - Homo sapiens cDNA, FLJ18656.
BC022039 - Homo sapiens spermatogenesis associated 21, mRNA (cDNA clone IMAGE:4823419), complete cds.

-  Other Names for This Gene
  Alternate Gene Symbols: B9EK40, ENST00000335496.1, ENST00000335496.2, ENST00000335496.3, ENST00000335496.4, F5GXP5, NM_198546, Q7Z572, SPT21_HUMAN, uc317ugw.1, uc317ugw.2
UCSC ID: ENST00000335496.5_13
RefSeq Accession: NM_198546.1
Protein: Q7Z572 (aka SPT21_HUMAN)

-  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.