Human Gene ZSCAN10 (ENST00000576985.6_9) from GENCODE V47lift37
  Description: zinc finger and SCAN domain containing 10, transcript variant 1 (from RefSeq NM_032805.3)
Gencode Transcript: ENST00000576985.6_9
Gencode Gene: ENSG00000130182.8_11
Transcript (Including UTRs)
   Position: hg19 chr16:3,138,891-3,149,295 Size: 10,405 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr16:3,139,092-3,142,938 Size: 3,847 Coding Exon Count: 5 

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 (chr16:3,138,891-3,149,295)mRNA (may differ from genome)Protein (780 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: I3L1J3_HUMAN
DESCRIPTION: SubName: Full=Zinc finger and SCAN domain-containing protein 10; Flags: Fragment;
SIMILARITY: Contains 1 SCAN box domain.
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

-  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: 0.21 RPKM in Brain - Cerebellum
Total median expression: 1.01 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 -66.00172-0.384 Picture PostScript Text
3' UTR -47.50201-0.236 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
IPR008916 - Retrov_capsid_C
IPR003309 - Tscrpt_reg_SCAN
IPR007087 - Znf_C2H2
IPR015880 - Znf_C2H2-like
IPR013087 - Znf_C2H2/integrase_DNA-bd

Pfam Domains:
PF00096 - Zinc finger, C2H2 type
PF02023 - SCAN domain
PF13894 - C2H2-type zinc finger
PF13912 - C2H2-type zinc finger

SCOP Domains:
47353 - Retrovirus capsid dimerization domain-like
54171 - DNA-binding domain
57667 - beta-beta-alpha zinc fingers
57783 - Zinc beta-ribbon
57903 - FYVE/PHD zinc finger

ModBase Predicted Comparative 3D Structure on I3L1J3
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:0003676 nucleic acid binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0043565 sequence-specific DNA binding
GO:0046872 metal ion binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0045892 negative regulation of transcription, DNA-templated

Cellular Component:
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  AK074736 - Homo sapiens cDNA FLJ90255 fis, clone NT2RM4000326, highly similar to Zinc finger protein 206.
MK764728 - Homo sapiens zinc finger and SCAN domain containing protein 10 transcript variant 5 (ZSCAN10) mRNA, complete cds.
AK027455 - Homo sapiens cDNA FLJ14549 fis, clone NT2RM2001670, weakly similar to ZINC FINGER PROTEIN 29.
BC114452 - Homo sapiens zinc finger and SCAN domain containing 10, mRNA (cDNA clone IMAGE:40007610), partial cds.
JD535691 - Sequence 516715 from Patent EP1572962.
BC167837 - Synthetic construct Homo sapiens clone IMAGE:100068227, MGC:195844 zinc finger and SCAN domain containing 10 (ZSCAN10) mRNA, encodes complete protein.
JD203444 - Sequence 184468 from Patent EP1572962.
BC111367 - Homo sapiens cDNA clone IMAGE:7481438.
JD542629 - Sequence 523653 from Patent EP1572962.
JD065514 - Sequence 46538 from Patent EP1572962.
JD477874 - Sequence 458898 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000576985.1, ENST00000576985.2, ENST00000576985.3, ENST00000576985.4, ENST00000576985.5, I3L1J3, I3L1J3_HUMAN, NM_032805, uc326eum.1, uc326eum.2, ZSCAN10
UCSC ID: ENST00000576985.6_9
RefSeq Accession: NM_032805.3
Protein: I3L1J3

-  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.