Human Gene TSNAX (ENST00000366639.9_4) from GENCODE V47lift37
  Description: translin associated factor X (from RefSeq NM_005999.3)
Gencode Transcript: ENST00000366639.9_4
Gencode Gene: ENSG00000116918.15_12
Transcript (Including UTRs)
   Position: hg19 chr1:231,664,415-231,702,270 Size: 37,856 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg19 chr1:231,664,557-231,700,651 Size: 36,095 Coding Exon Count: 6 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:231,664,415-231,702,270)mRNA (may differ from genome)Protein (290 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TSNAX_HUMAN
DESCRIPTION: RecName: Full=Translin-associated protein X; AltName: Full=Translin-associated factor X;
FUNCTION: Acts in combination with TSN as an endonuclease involved in the activation of the RNA-induced silencing complex (RISC). Possible role in spermatogenesis.
SUBUNIT: Ring-shaped heterooctamer of six TSN and two TSNAX subunits. Interacts with GOLGA3, TSNAXIP1, SUN1 and AKAP9. Interacts with the homodimeric form of C1D following gamma- radiation. Interacts with TSN and C1D in a mutually exclusive manner.
SUBCELLULAR LOCATION: Cytoplasm, perinuclear region. Golgi apparatus (By similarity). Nucleus. Note=Accumulate in the Golgi complex of mid-late pachytene spermatocytes (By similarity). Expressed in the cytoplasm in the presence of TSN.
PTM: Sumoylated with SUMO1.
SIMILARITY: Belongs to the translin 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: TSNAX
Diseases sorted by gene-association score: schizophrenia (2)

-  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: 20.73 RPKM in Adrenal Gland
Total median expression: 706.53 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 -43.00142-0.303 Picture PostScript Text
3' UTR -376.901619-0.233 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
IPR002848 - Translin
IPR016069 - Translin_C
IPR016068 - Translin_N

Pfam Domains:
PF01997 - Translin family

SCOP Domains:
74784 - Translin
109797 - Bacteriocin immunity protein-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
3PJA - X-ray MuPIT 3QB5 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q99598
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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 Gene Details  
Gene SorterGene Sorter Gene Sorter  
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003677 DNA binding
GO:0003723 RNA binding
GO:0008565 protein transporter activity
GO:0043565 sequence-specific DNA binding
GO:0046872 metal ion binding

Biological Process:
GO:0007275 multicellular organism development
GO:0007283 spermatogenesis
GO:0015031 protein transport
GO:0030154 cell differentiation

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005794 Golgi apparatus
GO:0005829 cytosol
GO:0048471 perinuclear region of cytoplasm


-  Descriptions from all associated GenBank mRNAs
  FJ804224 - Homo sapiens disrupted in schizophrenia 1 isoform 54 (DISC1) mRNA, complete cds, alternatively spliced.
FJ804223 - Homo sapiens disrupted in schizophrenia 1 isoform 53 (DISC1) mRNA, complete cds, alternatively spliced.
FJ804218 - Homo sapiens disrupted in schizophrenia 1 isoform 48 (DISC1) mRNA, complete cds, alternatively spliced.
FJ804219 - Homo sapiens disrupted in schizophrenia 1 isoform 49 (DISC1) mRNA, complete cds, alternatively spliced.
FJ804220 - Homo sapiens disrupted in schizophrenia 1 isoform 50 (DISC1) mRNA, complete cds, alternatively spliced.
FJ804221 - Homo sapiens disrupted in schizophrenia 1 isoform 51 (DISC1) mRNA, complete cds, alternatively spliced.
FJ804222 - Homo sapiens disrupted in schizophrenia 1 isoform 52 (DISC1) mRNA, complete cds, alternatively spliced.
FJ804217 - Homo sapiens disrupted in schizophrenia 1 isoform 47 (DISC1) mRNA, complete cds, alternatively spliced.
BC000236 - Homo sapiens translin-associated factor X, mRNA (cDNA clone IMAGE:3351964), **** WARNING: chimeric clone ****.
X95073 - H.sapiens mRNA for translin associated protein X.
BC011797 - Homo sapiens translin-associated factor X, mRNA (cDNA clone MGC:19629 IMAGE:4138517), complete cds.
BC010376 - Homo sapiens translin-associated factor X, mRNA (cDNA clone MGC:13527 IMAGE:4283594), complete cds.
JD410045 - Sequence 391069 from Patent EP1572962.
AK313068 - Homo sapiens cDNA, FLJ93547, Homo sapiens translin-associated factor X (TSNAX), mRNA.
JD280373 - Sequence 261397 from Patent EP1572962.
JD374046 - Sequence 355070 from Patent EP1572962.
KJ892324 - Synthetic construct Homo sapiens clone ccsbBroadEn_01718 TSNAX gene, encodes complete protein.
BX537610 - Homo sapiens mRNA; cDNA DKFZp686G1650 (from clone DKFZp686G1650).
JD286078 - Sequence 267102 from Patent EP1572962.
JD303082 - Sequence 284106 from Patent EP1572962.
JD048499 - Sequence 29523 from Patent EP1572962.
JD052810 - Sequence 33834 from Patent EP1572962.
JD046270 - Sequence 27294 from Patent EP1572962.
JD370251 - Sequence 351275 from Patent EP1572962.
JD432427 - Sequence 413451 from Patent EP1572962.
JD294000 - Sequence 275024 from Patent EP1572962.
JD481440 - Sequence 462464 from Patent EP1572962.
JD056821 - Sequence 37845 from Patent EP1572962.
JD139080 - Sequence 120104 from Patent EP1572962.
JD043577 - Sequence 24601 from Patent EP1572962.
JD350747 - Sequence 331771 from Patent EP1572962.
JD511470 - Sequence 492494 from Patent EP1572962.
JD329108 - Sequence 310132 from Patent EP1572962.
JD383842 - Sequence 364866 from Patent EP1572962.
JD105350 - Sequence 86374 from Patent EP1572962.
JD420226 - Sequence 401250 from Patent EP1572962.
JD145486 - Sequence 126510 from Patent EP1572962.
JD083194 - Sequence 64218 from Patent EP1572962.
JD158300 - Sequence 139324 from Patent EP1572962.
JD243952 - Sequence 224976 from Patent EP1572962.
JD243953 - Sequence 224977 from Patent EP1572962.
JD294149 - Sequence 275173 from Patent EP1572962.
JD257046 - Sequence 238070 from Patent EP1572962.
JD472451 - Sequence 453475 from Patent EP1572962.
JD472452 - Sequence 453476 from Patent EP1572962.
JD199480 - Sequence 180504 from Patent EP1572962.
JD421527 - Sequence 402551 from Patent EP1572962.
JD179121 - Sequence 160145 from Patent EP1572962.
JD452718 - Sequence 433742 from Patent EP1572962.
JD299331 - Sequence 280355 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q99598 (Reactome details) participates in the following event(s):

R-HSA-9023909 C3PO hydrolyzes cleaved passenger strand
R-HSA-426486 Small interfering RNA (siRNA) biogenesis
R-HSA-211000 Gene Silencing by RNA
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: B1APC6, ENST00000366639.1, ENST00000366639.2, ENST00000366639.3, ENST00000366639.4, ENST00000366639.5, ENST00000366639.6, ENST00000366639.7, ENST00000366639.8, NM_005999, Q99598, TRAX, TSNAX_HUMAN, uc318fgh.1, uc318fgh.2
UCSC ID: ENST00000366639.9_4
RefSeq Accession: NM_005999.3
Protein: Q99598 (aka TSNAX_HUMAN or TSNX_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.