Human Gene SPATS2L (uc002uvr.4) Description and Page Index
  Description: Homo sapiens spermatogenesis associated, serine-rich 2-like (SPATS2L), transcript variant 3, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr2:201,171,356-201,346,986 Size: 175,631 Total Exon Count: 13 Strand: +
Coding Region
   Position: hg19 chr2:201,253,968-201,342,754 Size: 88,787 Coding Exon Count: 11 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:201,171,356-201,346,986)mRNA (may differ from genome)Protein (558 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCHPRDLynxMGIneXtProt
OMIMPubMedStanford SOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: SPS2L_HUMAN
DESCRIPTION: RecName: Full=SPATS2-like protein; AltName: Full=DNA polymerase-transactivated protein 6; AltName: Full=Stress granule and nucleolar protein; Short=SGNP;
SUBCELLULAR LOCATION: Cytoplasm. Nucleus, nucleolus. Note=During oxidative stress as well as UV irradiation, energy deprivation or heat shock, relocalizes to cytoplasmic stress granules. In the nucleus, found in structures lacking NPM1.
SIMILARITY: Belongs to the SPATS2 family.
SEQUENCE CAUTION: Sequence=AAG22487.1; Type=Frameshift; Positions=92;

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): SPATS2L
CDC HuGE Published Literature: SPATS2L
Positive Disease Associations: Creatinine
Related Studies:
  1. Creatinine
    , , . [PubMed 0]

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

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 11.61 RPKM in Fallopian Tube
Total median expression: 394.30 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -207.40362-0.573 Picture PostScript Text
3' UTR -1229.904232-0.291 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
IPR009816 - DUF1387
IPR009060 - UBA-like

Pfam Domains:
PF07139 - Protein of unknown function (DUF1387)

ModBase Predicted Comparative 3D Structure on Q9NUQ6
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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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding

Cellular Component:
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0032991 macromolecular complex


-  Descriptions from all associated GenBank mRNAs
  AM392777 - Synthetic construct Homo sapiens clone IMAGE:100002416 for hypothetical protein (DNAPTP6 gene).
AK290496 - Homo sapiens cDNA FLJ77841 complete cds.
AL110124 - Homo sapiens mRNA; cDNA DKFZp564A2416 (from clone DKFZp564A2416).
AY450394 - Homo sapiens DNA polymerase-transactivated protein 6 (DNAPTP6) mRNA, complete cds.
AK090867 - Homo sapiens cDNA FLJ33548 fis, clone BRAMY2008979.
AK002064 - Homo sapiens cDNA FLJ11202 fis, clone PLACE1007746.
AK314561 - Homo sapiens cDNA, FLJ95385.
BC010848 - Homo sapiens viral DNA polymerase-transactivated protein 6, mRNA (cDNA clone IMAGE:3892762), with apparent retained intron.
BC018736 - Homo sapiens viral DNA polymerase-transactivated protein 6, mRNA (cDNA clone MGC:31863 IMAGE:4845423), complete cds.
AF193059 - Homo sapiens SP1224 mRNA, complete cds.
AK300075 - Homo sapiens cDNA FLJ59751 complete cds, weakly similar to Mus musculus spermatogenesis associated, serine-rich 2 (Spats2), mRNA.
AK299223 - Homo sapiens cDNA FLJ59743 complete cds, weakly similar to Mus musculus spermatogenesis associated, serine-rich 2 (Spats2), mRNA.
CU676300 - Synthetic construct Homo sapiens gateway clone IMAGE:100019635 5' read LOC26010 mRNA.
AB463071 - Synthetic construct DNA, clone: pF1KB8615, Homo sapiens LOC26010a gene for hypothetical protein LOC26010 isoform a, without stop codon, in Flexi system.
KJ902404 - Synthetic construct Homo sapiens clone ccsbBroadEn_11798 SPATS2L gene, encodes complete protein.
AK090703 - Homo sapiens cDNA FLJ33384 fis, clone BRACE2006534.
BC065817 - Homo sapiens cDNA clone IMAGE:6186273, partial cds.
JD368621 - Sequence 349645 from Patent EP1572962.
AK024200 - Homo sapiens cDNA FLJ14138 fis, clone MAMMA1002765.
AK092917 - Homo sapiens cDNA FLJ35598 fis, clone SPLEN2008317.
JD541653 - Sequence 522677 from Patent EP1572962.
JD147964 - Sequence 128988 from Patent EP1572962.
JD449590 - Sequence 430614 from Patent EP1572962.
JD378939 - Sequence 359963 from Patent EP1572962.
JD047084 - Sequence 28108 from Patent EP1572962.
JD361138 - Sequence 342162 from Patent EP1572962.
JD545727 - Sequence 526751 from Patent EP1572962.
JD108002 - Sequence 89026 from Patent EP1572962.
JD342098 - Sequence 323122 from Patent EP1572962.
JD342099 - Sequence 323123 from Patent EP1572962.
AK021816 - Homo sapiens cDNA FLJ11754 fis, clone HEMBA1005588.

-  Other Names for This Gene
  Alternate Gene Symbols: A8K381, B7WNZ7, DNAPTP6, NM_001100423, NP_056350, Q53T22, Q8WV53, Q8WYG1, Q9NTW4, Q9NUQ6, SP1224, SPS2L_HUMAN
UCSC ID: uc002uvr.4
RefSeq Accession: NM_001100423
Protein: Q9NUQ6 (aka SPS2L_HUMAN)
CCDS: CCDS46483.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001100423.1
exon count: 13CDS single in 3' UTR: no RNA size: 6285
ORF size: 1677CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3554.00frame shift in genome: no % Coverage: 99.78
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.