Human Gene ZC3H18 (uc002fky.3) Description and Page Index
  Description: Homo sapiens zinc finger CCCH-type containing 18 (ZC3H18), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr16:88,636,789-88,698,372 Size: 61,584 Total Exon Count: 18 Strand: +
Coding Region
   Position: hg19 chr16:88,643,532-88,697,707 Size: 54,176 Coding Exon Count: 17 

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 (chr16:88,636,789-88,698,372)mRNA (may differ from genome)Protein (953 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: ZCH18_HUMAN
DESCRIPTION: RecName: Full=Zinc finger CCCH domain-containing protein 18; AltName: Full=Nuclear protein NHN1;
SUBCELLULAR LOCATION: Nucleus (By similarity).
SIMILARITY: Contains 1 C3H1-type zinc finger.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): ZC3H18
CDC HuGE Published Literature: ZC3H18

-  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: 28.95 RPKM in Testis
Total median expression: 638.99 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 -79.30200-0.397 Picture PostScript Text
3' UTR -193.33665-0.291 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
IPR000571 - Znf_CCCH

Pfam Domains:
PF14608 - RNA-binding, Nab2-type zinc finger

ModBase Predicted Comparative 3D Structure on Q86VM9
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 orthologGenome BrowserNo orthologGenome BrowserNo orthologNo ortholog
Gene DetailsGene Details Gene Details  
Gene SorterGene Sorter Gene Sorter  
 RGD FlyBase  
 Protein Sequence Protein Sequence  
 Alignment Alignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0005515 protein binding
GO:0046872 metal ion binding

Cellular Component:
GO:0005634 nucleus
GO:0016607 nuclear speck
GO:0032991 macromolecular complex


-  Descriptions from all associated GenBank mRNAs
  AK302716 - Homo sapiens cDNA FLJ52876 complete cds, moderately similar to Homo sapiens conserved nuclear protein NHN1 (NHN1), mRNA.
AK300254 - Homo sapiens cDNA FLJ61387 complete cds, highly similar to Homo sapiens conserved nuclear protein NHN1 (NHN1), mRNA.
AK225807 - Homo sapiens mRNA for conserved nuclear protein NHN1 variant, clone: FCC130C11.
AK056632 - Homo sapiens cDNA FLJ32070 fis, clone OCBBF1000119.
BC050463 - Homo sapiens zinc finger CCCH-type containing 18, mRNA (cDNA clone MGC:54295 IMAGE:6042036), complete cds.
JD192194 - Sequence 173218 from Patent EP1572962.
JD443718 - Sequence 424742 from Patent EP1572962.
JD070991 - Sequence 52015 from Patent EP1572962.
JD435077 - Sequence 416101 from Patent EP1572962.
JD045336 - Sequence 26360 from Patent EP1572962.
CU690696 - Synthetic construct Homo sapiens gateway clone IMAGE:100021521 5' read NHN1 mRNA.
EU832323 - Synthetic construct Homo sapiens clone HAIB:100067352; DKFZo008E0727 zinc finger CCCH-type containing 18 protein (ZC3H18) gene, encodes complete protein.
EU832408 - Synthetic construct Homo sapiens clone HAIB:100067437; DKFZo004E0728 zinc finger CCCH-type containing 18 protein (ZC3H18) gene, encodes complete protein.
KJ900087 - Synthetic construct Homo sapiens clone ccsbBroadEn_09481 ZC3H18 gene, encodes complete protein.
BC001584 - Homo sapiens zinc finger CCCH-type containing 18, mRNA (cDNA clone IMAGE:3461401), partial cds.
AK091849 - Homo sapiens cDNA FLJ34530 fis, clone HLUNG2008153, highly similar to Homo sapiens conserved nuclear protein NHN1 (NHN1), mRNA.
AX747220 - Sequence 745 from Patent EP1308459.
AK122593 - Homo sapiens mRNA for FLJ00419 protein.
AK093394 - Homo sapiens cDNA FLJ36075 fis, clone TESTI2019729, highly similar to Homo sapiens conserved nuclear protein NHN1 (NHN1), mRNA.
AX748097 - Sequence 1622 from Patent EP1308459.
AK026317 - Homo sapiens cDNA: FLJ22664 fis, clone HSI08202.
JD216206 - Sequence 197230 from Patent EP1572962.
JD060367 - Sequence 41391 from Patent EP1572962.
JD539896 - Sequence 520920 from Patent EP1572962.
JD335664 - Sequence 316688 from Patent EP1572962.
JD124903 - Sequence 105927 from Patent EP1572962.
JD406528 - Sequence 387552 from Patent EP1572962.
JD402731 - Sequence 383755 from Patent EP1572962.
JD164805 - Sequence 145829 from Patent EP1572962.
JD259843 - Sequence 240867 from Patent EP1572962.
JD254039 - Sequence 235063 from Patent EP1572962.
JD487414 - Sequence 468438 from Patent EP1572962.
JD468162 - Sequence 449186 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: NHN1, NM_144604, NP_653205, Q86VM9, Q96DG4, Q96MP7, ZCH18_HUMAN
UCSC ID: uc002fky.3
RefSeq Accession: NM_144604
Protein: Q86VM9 (aka ZCH18_HUMAN)
CCDS: CCDS10967.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_144604.3
exon count: 18CDS single in 3' UTR: no RNA size: 3744
ORF size: 2862CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 5831.00frame shift in genome: no % Coverage: 99.55
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.