Human Gene ZNF41 (uc004dhy.4) Description and Page Index
  Description: Homo sapiens zinc finger protein 41 (ZNF41), transcript variant 2, mRNA.
RefSeq Summary (NM_153380): This gene encodes a protein that contains KRAB-A and KRAB-B domains multiple zinc finger DNA binding motifs and finger linking regions characteristic of the Kruppel family. An initial study suggested that this gene may be associated with X-linked cognitive disability, but a later study has called this finding into question (PMID:23871722).[provided by RefSeq, Apr 2016].
Transcript (Including UTRs)
   Position: hg19 chrX:47,305,561-47,342,345 Size: 36,785 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chrX:47,306,829-47,326,880 Size: 20,052 Coding Exon Count: 4 

Page IndexSequence and LinksMalaCardsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsPathways
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:47,305,561-47,342,345)mRNA (may differ from genome)Protein (779 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCLynxMGIOMIMPubMed
ReactomeStanford SOURCETreefamUniProtKBWikipedia

-  MalaCards Disease Associations
  MalaCards Gene Search: ZNF41
Diseases sorted by gene-association score: aland island eye disease (7), x-linked non-specific intellectual disability* (5), congenital stationary night blindness (1)
* = Manually curated disease association

-  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: 3.93 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 121.15 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 -286.50640-0.448 Picture PostScript Text
3' UTR -334.711268-0.264 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
  Pfam Domains:
PF00096 - Zinc finger, C2H2 type
PF01352 - KRAB box
PF13912 - C2H2-type zinc finger

SCOP Domains:
48695 - Multiheme cytochromes
109640 - KRAB domain (Kruppel-associated box, Pfam 01352)
57667 - C2H2 and C2HC zinc fingers
57889 - Cysteine-rich domain
57903 - FYVE/PHD zinc finger

ModBase Predicted Comparative 3D Structure on P51814-6
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     
      
      
      

-  Descriptions from all associated GenBank mRNAs
  AK294858 - Homo sapiens cDNA FLJ58149 complete cds, highly similar to Zinc finger protein 41.
BC015023 - Homo sapiens zinc finger protein 41, mRNA (cDNA clone MGC:8941 IMAGE:3908304), complete cds.
AK290021 - Homo sapiens cDNA FLJ76763 complete cds, highly similar to Homo sapiens zinc finger protein 41 (ZNF41), transcript variant 1, mRNA.
X60155 - Homo sapiens mRNA for zinc finger 41 (ZNF41 gene).
JF432825 - Synthetic construct Homo sapiens clone IMAGE:100074143 zinc finger protein 41 (ZNF41) gene, encodes complete protein.
KJ892407 - Synthetic construct Homo sapiens clone ccsbBroadEn_01801 ZNF41 gene, encodes complete protein.
KR709594 - Synthetic construct Homo sapiens clone CCSBHm_00003854 ZNF41 (ZNF41) mRNA, encodes complete protein.
KR712228 - Synthetic construct Homo sapiens clone CCSBHm_00900185 ZNF41 (ZNF41) mRNA, encodes complete protein.
KR712230 - Synthetic construct Homo sapiens clone CCSBHm_00900188 ZNF41 (ZNF41) mRNA, encodes complete protein.
EU446910 - Synthetic construct Homo sapiens clone IMAGE:100070187; IMAGE:100012119; FLH258753.01L zinc finger protein 41 (ZNF41) gene, encodes complete protein.
JD082214 - Sequence 63238 from Patent EP1572962.
CU677175 - Synthetic construct Homo sapiens gateway clone IMAGE:100020461 5' read ZNF41 mRNA.
AJ010017 - Homo sapiens mRNA for zinc finger protein, clone cZNF41.2, partial.
AJ010018 - Homo sapiens mRNA for zinc finger protein, clone cZNF41.3, partial.
AJ010019 - Homo sapiens mRNA for zinc finger protein, clone cZNF41.4, partial.
AJ010020 - Homo sapiens mRNA for zinc finger protein, clone cZNF41.5, partial.
AJ010021 - Homo sapiens mRNA for zinc finger protein, clone CZNF41.6, partial.
AJ010022 - Homo sapiens mRNA for zinc finger protein, clone cZNF41.7, partial.
AJ010023 - Homo sapiens mRNA for zinc finger protein, clone cZNF41.8, partial.
AB209520 - Homo sapiens mRNA for zinc finger protein 41 variant protein.
JD172988 - Sequence 154012 from Patent EP1572962.
JD544756 - Sequence 525780 from Patent EP1572962.
JD483587 - Sequence 464611 from Patent EP1572962.
JD318433 - Sequence 299457 from Patent EP1572962.
JD250568 - Sequence 231592 from Patent EP1572962.
JD047453 - Sequence 28477 from Patent EP1572962.
JD314876 - Sequence 295900 from Patent EP1572962.
JD434463 - Sequence 415487 from Patent EP1572962.
JD372928 - Sequence 353952 from Patent EP1572962.
JD037448 - Sequence 18472 from Patent EP1572962.
JD549873 - Sequence 530897 from Patent EP1572962.
JD126091 - Sequence 107115 from Patent EP1572962.
JD048566 - Sequence 29590 from Patent EP1572962.
JD189847 - Sequence 170871 from Patent EP1572962.
JD145671 - Sequence 126695 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein P51814 (Reactome details) participates in the following event(s):

R-HSA-975040 KRAB-ZNF / KAP Interaction
R-HSA-212436 Generic Transcription Pathway
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: NM_153380, NP_700359, P51814-6
UCSC ID: uc004dhy.4
RefSeq Accession: NM_153380
Protein: P51814-6, splice isoform of P51814 CCDS: CCDS14279.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_153380.2
exon count: 5CDS single in 3' UTR: no RNA size: 4248
ORF size: 2340CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4550.50frame shift in genome: no % Coverage: 100.00
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.