Human Gene SPAG6 (ENST00000376624.8_4) from GENCODE V47lift37
  Description: sperm associated antigen 6, transcript variant 1 (from RefSeq NM_012443.4)
Gencode Transcript: ENST00000376624.8_4
Gencode Gene: ENSG00000077327.16_8
Transcript (Including UTRs)
   Position: hg19 chr10:22,634,425-22,706,539 Size: 72,115 Total Exon Count: 11 Strand: +
Coding Region
   Position: hg19 chr10:22,634,541-22,705,617 Size: 71,077 Coding Exon Count: 11 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr10:22,634,425-22,706,539)mRNA (may differ from genome)Protein (509 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SPAG6_HUMAN
DESCRIPTION: RecName: Full=Sperm-associated antigen 6; AltName: Full=Protein PF16 homolog; AltName: Full=Repro-SA-1; AltName: Full=Sperm flagellar protein;
FUNCTION: Important for structural integrity of the central apparatus in the sperm tail and for flagellar motility (By similarity).
SUBUNIT: Interacts with SPAG16 and SPAG17 (By similarity).
SUBCELLULAR LOCATION: Cytoplasm, cytoskeleton. Cell projection, cilium, flagellum. Note=Associated with microtubules. Detected on the sperm flagellum.
TISSUE SPECIFICITY: Highly expressed in testis.
SIMILARITY: Contains 8 ARM repeats.

-  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: SPAG6
Diseases sorted by gene-association score: hydrocephalus (3)

-  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: 43.00 RPKM in Testis
Total median expression: 59.35 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 -53.10116-0.458 Picture PostScript Text
3' UTR -194.70922-0.211 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
IPR011989 - ARM-like
IPR016024 - ARM-type_fold
IPR000225 - Armadillo

Pfam Domains:
PF00514 - Armadillo/beta-catenin-like repeat

SCOP Domains:
48371 - ARM repeat
48431 - Lipovitellin-phosvitin complex, superhelical domain

ModBase Predicted Comparative 3D Structure on O75602
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
      
      
  Ensembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0007286 spermatid development
GO:0030030 cell projection organization

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005856 cytoskeleton
GO:0005874 microtubule
GO:0005929 cilium
GO:0005930 axoneme
GO:0015630 microtubule cytoskeleton
GO:0031514 motile cilium
GO:0042995 cell projection


-  Descriptions from all associated GenBank mRNAs
  HM005489 - Homo sapiens clone HTL-T-176 testicular tissue protein Li 176 mRNA, complete cds.
AK302194 - Homo sapiens cDNA FLJ60368 complete cds, highly similar to Sperm-associated antigen 6.
AF079363 - Homo sapiens sperm flagellar protein Repro-SA-1 mRNA, complete cds.
AK310247 - Homo sapiens cDNA, FLJ17289.
AK289903 - Homo sapiens cDNA FLJ76752 complete cds, highly similar to Homo sapiens sperm associated antigen 6 (SPAG6), transcript variant 1, mRNA.
AL080136 - Homo sapiens mRNA; cDNA DKFZp434I153 (from clone DKFZp434I153).
BC030585 - Homo sapiens sperm associated antigen 6, mRNA (cDNA clone MGC:26276 IMAGE:4822996), complete cds.
AM392698 - Synthetic construct Homo sapiens clone IMAGE:100002443 for hypothetical protein (SPAG6 gene).
AM392674 - Synthetic construct Homo sapiens clone IMAGE:100001641 for hypothetical protein (SPAG6 gene).
AB527223 - Synthetic construct DNA, clone: pF1KE0301, Homo sapiens SPAG6 gene for sperm associated antigen 6, without stop codon, in Flexi system.
DQ894067 - Synthetic construct Homo sapiens clone IMAGE:100008527; FLH167071.01L; RZPDo839H0287D sperm associated antigen 6 (SPAG6) gene, encodes complete protein.
DQ890916 - Synthetic construct clone IMAGE:100003546; FLH167075.01X; RZPDo839H0288D sperm associated antigen 6 (SPAG6) gene, encodes complete protein.
CR533552 - Homo sapiens full open reading frame cDNA clone RZPDo834G0421D for gene SPAG6, sperm associated antigen 6; complete cds, incl. stopcodon.
HM370395 - Homo sapiens sperm associated antigen 6 (SPAG6) mRNA, partial cds, alternatively spliced.
JD222500 - Sequence 203524 from Patent EP1572962.
JD051440 - Sequence 32464 from Patent EP1572962.
JD312906 - Sequence 293930 from Patent EP1572962.
JD044174 - Sequence 25198 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A8K1I8, B4DXZ4, ENST00000376624.1, ENST00000376624.2, ENST00000376624.3, ENST00000376624.4, ENST00000376624.5, ENST00000376624.6, ENST00000376624.7, NM_012443, O75602, PF16, Q5VUX5, Q5VUX6, Q5VUX7, Q6FI74, Q8NHQ6, SPAG6_HUMAN, uc318nbr.1, uc318nbr.2
UCSC ID: ENST00000376624.8_4
RefSeq Accession: NM_012443.4
Protein: O75602 (aka SPAG6_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.