Human Gene TSPYL1 (ENST00000368608.4_6) from GENCODE V47lift37
  Description: TSPY like 1 (from RefSeq NM_003309.4)
Gencode Transcript: ENST00000368608.4_6
Gencode Gene: ENSG00000189241.8_10
Transcript (Including UTRs)
   Position: hg19 chr6:116,596,021-116,601,093 Size: 5,073 Total Exon Count: 1 Strand: -
Coding Region
   Position: hg19 chr6:116,599,680-116,600,993 Size: 1,314 Coding Exon Count: 1 

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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 (chr6:116,596,021-116,601,093)mRNA (may differ from genome)Protein (437 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TSYL1_HUMAN
DESCRIPTION: RecName: Full=Testis-specific Y-encoded-like protein 1; Short=TSPY-like protein 1;
SUBCELLULAR LOCATION: Nucleus, nucleolus.
TISSUE SPECIFICITY: Expressed in testis, ovary, liver, spleen, brain, kidney, prostate, lung, liver, and heart.
DISEASE: Defects in TSPYL1 are the cause of sudden infant death with dysgenesis of the testes syndrome (SIDDT) [MIM:608800]. SIDDT is an autosomal recessive disorder. Affected infants appear normal at birth, develop signs of visceroautonomic dysfunction early in life, and die before 12 months of age of abrupt cardiorespiratory arrest. Features included bradycardia, hypothermia, severe gastroesophageal reflux, laryngospasm, bronchospasm, and abnormal cardiorespiratory patterns during sleep. Genotypic males with SIDDT had fetal testicular dysgenesis and ambiguous genitalia, with findings such as intraabdominal testes, dysplastic testes, deficient fetal testosterone production, fusion and rugation of the gonadal sac, and partial development of the penile shaft. Female sexual development was normal. Affected infants had an unusual staccato cry, similar to the cry of a goat.
SIMILARITY: Belongs to the nucleosome assembly protein (NAP) family.

-  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: TSPYL1
Diseases sorted by gene-association score: sudden infant death with dysgenesis of the testes syndrome* (1391), sudden infant death syndrome (14), spermatocytoma (6)
* = 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: 115.27 RPKM in Brain - Frontal Cortex (BA9)
Total median expression: 1785.21 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 -35.60100-0.356 Picture PostScript Text
3' UTR -968.753659-0.265 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
IPR002164 - NAP_family

Pfam Domains:
PF00956 - Nucleosome assembly protein (NAP)

SCOP Domains:
143113 - NAP-like

ModBase Predicted Comparative 3D Structure on Q9H0U9
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:0019899 enzyme binding

Biological Process:
GO:0006334 nucleosome assembly
GO:0008150 biological_process

Cellular Component:
GO:0005634 nucleus
GO:0005730 nucleolus


-  Descriptions from all associated GenBank mRNAs
  AK096882 - Homo sapiens cDNA FLJ39563 fis, clone SKMUS2001164.
JD317372 - Sequence 298396 from Patent EP1572962.
JD295850 - Sequence 276874 from Patent EP1572962.
JD045690 - Sequence 26714 from Patent EP1572962.
JD449688 - Sequence 430712 from Patent EP1572962.
JD172490 - Sequence 153514 from Patent EP1572962.
JD254746 - Sequence 235770 from Patent EP1572962.
JD071958 - Sequence 52982 from Patent EP1572962.
JD396365 - Sequence 377389 from Patent EP1572962.
JD326566 - Sequence 307590 from Patent EP1572962.
JD463172 - Sequence 444196 from Patent EP1572962.
JD213207 - Sequence 194231 from Patent EP1572962.
JD407619 - Sequence 388643 from Patent EP1572962.
JD256808 - Sequence 237832 from Patent EP1572962.
JD293264 - Sequence 274288 from Patent EP1572962.
JD154106 - Sequence 135130 from Patent EP1572962.
JD367349 - Sequence 348373 from Patent EP1572962.
JD381490 - Sequence 362514 from Patent EP1572962.
JD386655 - Sequence 367679 from Patent EP1572962.
JD182071 - Sequence 163095 from Patent EP1572962.
JD122836 - Sequence 103860 from Patent EP1572962.
JD430016 - Sequence 411040 from Patent EP1572962.
AJ420580 - Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 1677234.
BC068554 - Homo sapiens TSPY-like 1, mRNA (cDNA clone IMAGE:4797730).
AK026849 - Homo sapiens cDNA: FLJ23196 fis, clone REC00850, highly similar to AF042181 Homo sapiens testis-specific Y-encoded-like protein (TSPYL) mRNA.
AL136629 - Homo sapiens mRNA; cDNA DKFZp564D152 (from clone DKFZp564D152).
BC048969 - Homo sapiens TSPY-like 1, mRNA (cDNA clone MGC:57205 IMAGE:5297724), complete cds.
JD040359 - Sequence 21383 from Patent EP1572962.
JD185262 - Sequence 166286 from Patent EP1572962.
JD273195 - Sequence 254219 from Patent EP1572962.
JD315984 - Sequence 297008 from Patent EP1572962.
JD212041 - Sequence 193065 from Patent EP1572962.
JD394150 - Sequence 375174 from Patent EP1572962.
JD490501 - Sequence 471525 from Patent EP1572962.
JD349159 - Sequence 330183 from Patent EP1572962.
JD192452 - Sequence 173476 from Patent EP1572962.
JD488145 - Sequence 469169 from Patent EP1572962.
JD331025 - Sequence 312049 from Patent EP1572962.
JD242725 - Sequence 223749 from Patent EP1572962.
JD505638 - Sequence 486662 from Patent EP1572962.
JD053253 - Sequence 34277 from Patent EP1572962.
JD198703 - Sequence 179727 from Patent EP1572962.
JD272190 - Sequence 253214 from Patent EP1572962.
AF042181 - Homo sapiens testis-specific Y-encoded-like protein (TSPYL) mRNA, partial cds.
JD146019 - Sequence 127043 from Patent EP1572962.
JD048751 - Sequence 29775 from Patent EP1572962.
AK297717 - Homo sapiens cDNA FLJ60717 complete cds, highly similar to Testis-specific Y-encoded-like protein 1.
JD164540 - Sequence 145564 from Patent EP1572962.
CR533535 - Homo sapiens full open reading frame cDNA clone RZPDo834G0419D for gene TSPYL, TSPY-like; complete cds, incl. stopcodon.
KJ901812 - Synthetic construct Homo sapiens clone ccsbBroadEn_11206 TSPYL1 gene, encodes complete protein.
DQ597991 - Homo sapiens piRNA piR-36057, complete sequence.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000368608.1, ENST00000368608.2, ENST00000368608.3, NM_003309, O75885, Q5TFE6, Q9H0U9, TSPYL, TSYL1_HUMAN, uc318gxa.1, uc318gxa.2
UCSC ID: ENST00000368608.4_6
RefSeq Accession: NM_003309.4
Protein: Q9H0U9 (aka TSYL1_HUMAN or TSY1_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.