Human Gene ZSCAN30 (uc002kyl.3)
  Description: Homo sapiens zinc finger and SCAN domain containing 30 (ZSCAN30), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr18:32,831,023-32,870,196 Size: 39,174 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr18:32,833,414-32,844,316 Size: 10,903 Coding Exon Count: 3 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr18:32,831,023-32,870,196)mRNA (may differ from genome)Protein (494 aa)
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UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: ZSC30_HUMAN
DESCRIPTION: RecName: Full=Zinc finger and SCAN domain-containing protein 30; AltName: Full=ZNF-WYM; AltName: Full=Zinc finger protein 397 opposite strand; AltName: Full=Zinc finger protein 397OS;
FUNCTION: May be involved in transcriptional regulation.
SUBCELLULAR LOCATION: Nucleus (Probable).
SIMILARITY: Belongs to the krueppel C2H2-type zinc-finger protein family.
SIMILARITY: Contains 7 C2H2-type zinc fingers.
SIMILARITY: Contains 1 SCAN box domain.
SEQUENCE CAUTION: Sequence=AAL26786.1; Type=Miscellaneous discrepancy; Note=Probable cloning artifact;

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 5.37 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 83.92 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 -187.75456-0.412 Picture PostScript Text
3' UTR -741.482391-0.310 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
PF13912 - C2H2-type zinc finger

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

ModBase Predicted Comparative 3D Structure on Q86W11
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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 Details     
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-  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
  AL832180 - Homo sapiens mRNA; cDNA DKFZp686P1116 (from clone DKFZp686P1116).
AK001503 - Homo sapiens cDNA FLJ10641 fis, clone NT2RP2005748.
DQ597067 - Homo sapiens piRNA piR-35133, complete sequence.
AK057386 - Homo sapiens cDNA FLJ32824 fis, clone TESTI2003071, weakly similar to Homo sapiens C2H2 (Kruppel-type) zinc finger protein mRNA.
AF303374 - Homo sapiens B-lymphocyte activation-related protein (BC2028) mRNA, complete cds.
AY234408 - Homo sapiens zinc finger protein mRNA, complete cds.
DQ587165 - Homo sapiens piRNA piR-54277, complete sequence.
AK303447 - Homo sapiens cDNA FLJ56192 complete cds, moderately similar to Zinc finger protein 397.
JD314817 - Sequence 295841 from Patent EP1572962.
JD314816 - Sequence 295840 from Patent EP1572962.
JD047389 - Sequence 28413 from Patent EP1572962.
AK131291 - Homo sapiens cDNA FLJ16245 fis, clone HCHON2000743.
AX721137 - Sequence 97 from Patent WO0220754.
AK128697 - Homo sapiens cDNA FLJ46864 fis, clone UTERU3011579.

-  Other Names for This Gene
  Alternate Gene Symbols: B4E0N0, NM_001166012, NP_001159484, Q6ZNB3, Q86W11, Q96PN3, ZNF397OS, ZSC30_HUMAN
UCSC ID: uc002kyl.3
RefSeq Accession: NM_001166012
Protein: Q86W11 (aka ZSC30_HUMAN)
CCDS: CCDS42427.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001166012.1
exon count: 5CDS single in 3' UTR: no RNA size: 4346
ORF size: 1485CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2944.00frame shift in genome: no % Coverage: 99.68
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.