Human Gene ZSCAN5A (uc002qmr.3) Description and Page Index
  Description: Homo sapiens zinc finger and SCAN domain containing 5A (ZSCAN5A), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr19:56,732,679-56,879,752 Size: 147,074 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr19:56,732,944-56,736,415 Size: 3,472 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:56,732,679-56,879,752)mRNA (may differ from genome)Protein (496 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
PubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: ZSA5A_HUMAN
DESCRIPTION: RecName: Full=Zinc finger and SCAN domain-containing protein 5A; AltName: Full=Zinc finger protein 495;
FUNCTION: May be involved in transcriptional regulation.
SUBCELLULAR LOCATION: Nucleus (Potential).
SIMILARITY: Contains 5 C2H2-type zinc fingers.
SIMILARITY: Contains 1 SCAN box domain.

-  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: 8.20 RPKM in Testis
Total median expression: 41.88 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 -205.22696-0.295 Picture PostScript Text
3' UTR -49.80265-0.188 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
PF12874 - Zinc-finger of C2H2 type
PF13894 - C2H2-type zinc finger
PF13912 - C2H2-type zinc finger

SCOP Domains:
48695 - Multiheme cytochromes
57667 - C2H2 and C2HC zinc fingers

ModBase Predicted Comparative 3D Structure on Q9BUG6
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 Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0046872 metal ion binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter

Cellular Component:
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  BC043232 - Homo sapiens zinc finger and SCAN domain containing 5A, mRNA (cDNA clone MGC:44323 IMAGE:5295665), complete cds.
AK301873 - Homo sapiens cDNA FLJ57647 complete cds, highly similar to Zinc finger and SCAN domain-containing protein 5.
BC002636 - Homo sapiens zinc finger and SCAN domain containing 5A, mRNA (cDNA clone MGC:4161 IMAGE:3606994), complete cds.
AK098700 - Homo sapiens cDNA FLJ25834 fis, clone TST08262.
AK223485 - Homo sapiens mRNA for zinc finger and SCAN domain containing 5 variant, clone: FCC119F06.
JD503015 - Sequence 484039 from Patent EP1572962.
JD363639 - Sequence 344663 from Patent EP1572962.
KJ894663 - Synthetic construct Homo sapiens clone ccsbBroadEn_04057 ZSCAN5A gene, encodes complete protein.
DQ893129 - Synthetic construct clone IMAGE:100005759; FLH194050.01X; RZPDo839E1179D zinc finger and SCAN domain containing 5 (ZSCAN5) gene, encodes complete protein.
DQ896408 - Synthetic construct Homo sapiens clone IMAGE:100010868; FLH194046.01L; RZPDo839E1169D zinc finger and SCAN domain containing 5 (ZSCAN5) gene, encodes complete protein.
AB464371 - Synthetic construct DNA, clone: pF1KB7754, Homo sapiens ZSCAN5 gene for zinc finger and SCAN domain containing protein 5, without stop codon, in Flexi system.
CU678080 - Synthetic construct Homo sapiens gateway clone IMAGE:100020292 5' read ZSCAN5 mRNA.
AK310500 - Homo sapiens cDNA, FLJ17542.

-  Other Names for This Gene
  Alternate Gene Symbols: BC043232, NM_024303, NP_077279, Q49A73, Q53F04, Q8N7B3, Q9BUG6, ZNF495, ZSA5A_HUMAN, ZSCAN5
UCSC ID: uc002qmr.3
RefSeq Accession: NM_024303
Protein: Q9BUG6 (aka ZSA5A_HUMAN)
CCDS: CCDS12941.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: BC043232.1
exon count: 7CDS single in 3' UTR: no RNA size: 2472
ORF size: 1491CDS single in intron: no Alignment % ID: 99.96
txCdsPredict score: 2613.50frame shift in genome: no % Coverage: 99.11
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
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.