Human Gene JADE2 (ENST00000681547.2_6) from GENCODE V47lift37
  Description: jade family PHD finger 2, transcript variant 7 (from RefSeq NM_001388187.1)
Gencode Transcript: ENST00000681547.2_6
Gencode Gene: ENSG00000043143.22_14
Transcript (Including UTRs)
   Position: hg19 chr5:133,861,360-133,918,917 Size: 57,558 Total Exon Count: 12 Strand: +
Coding Region
   Position: hg19 chr5:133,871,548-133,915,007 Size: 43,460 Coding Exon Count: 11 

Page IndexSequence and LinksPrimersGene AllelesMicroarray ExpressionRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:133,861,360-133,918,917)mRNA (may differ from genome)Protein (834 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblExonPrimerGeneCardsMGI
PubMedUniProtKB

-  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


+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

+  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 -180.70342-0.528 Picture PostScript Text
3' UTR -1450.803910-0.371 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
IPR019542 - Enhancer_polycomb-like_N
IPR019786 - Zinc_finger_PHD-type_CS
IPR011011 - Znf_FYVE_PHD
IPR001965 - Znf_PHD
IPR019787 - Znf_PHD-finger
IPR013083 - Znf_RING/FYVE/PHD

Pfam Domains:
PF00628 - PHD-finger
PF10513 - Enhancer of polycomb-like
PF13771 - PHD-like zinc-binding domain
PF13831 - PHD-finger
PF13832 - PHD-zinc-finger like domain

SCOP Domains:
57903 - FYVE/PHD zinc finger

ModBase Predicted Comparative 3D Structure on G3XAA4
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    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0046872 metal ion binding
GO:0061630 ubiquitin protein ligase activity

Biological Process:
GO:0000209 protein polyubiquitination
GO:0050767 regulation of neurogenesis
GO:0050769 positive regulation of neurogenesis
GO:0051865 protein autoubiquitination
GO:0060395 SMAD protein signal transduction
GO:1990138 neuron projection extension

Cellular Component:
GO:0005654 nucleoplasm


-  Descriptions from all associated GenBank mRNAs
  AK294327 - Homo sapiens cDNA FLJ59498 complete cds, highly similar to Homo sapiens PHD finger protein 15 (PHF15), mRNA.
AK056471 - Homo sapiens cDNA FLJ31909 fis, clone NT2RP7004656, highly similar to Homo sapiens PHD finger protein 15 (PHF15), mRNA.
JD040376 - Sequence 21400 from Patent EP1572962.
BC021962 - Homo sapiens PHD finger protein 15, mRNA (cDNA clone MGC:11091 IMAGE:3830474), complete cds.
AK292635 - Homo sapiens cDNA FLJ75110 complete cds, highly similar to Homo sapiens PHD finger protein 15 (PHF15), mRNA.
AK074123 - Homo sapiens mRNA for FLJ00195 protein.
JD327655 - Sequence 308679 from Patent EP1572962.
JD409471 - Sequence 390495 from Patent EP1572962.
JD482965 - Sequence 463989 from Patent EP1572962.
D87076 - Homo sapiens mRNA for KIAA0239 gene.
AK290471 - Homo sapiens cDNA FLJ77750 complete cds, highly similar to Homo sapiens PHD finger protein 15 (PHF15), mRNA.
CU692426 - Synthetic construct Homo sapiens gateway clone IMAGE:100023200 5' read PHF15 mRNA.
EU446782 - Synthetic construct Homo sapiens clone IMAGE:100070278; IMAGE:100011991; FLH257278.01L PHD finger protein 15 (PHF15) gene, encodes complete protein.
AB383816 - Synthetic construct DNA, clone: pF1KSDA0239, Homo sapiens PHF15 gene for PHD finger protein 15, complete cds, without stop codon, in Flexi system.
KJ902328 - Synthetic construct Homo sapiens clone ccsbBroadEn_11722 PHF15 gene, encodes complete protein.
JD453939 - Sequence 434963 from Patent EP1572962.
JD260141 - Sequence 241165 from Patent EP1572962.
JD054214 - Sequence 35238 from Patent EP1572962.
JD106803 - Sequence 87827 from Patent EP1572962.
JD075126 - Sequence 56150 from Patent EP1572962.
JD329449 - Sequence 310473 from Patent EP1572962.
JD558422 - Sequence 539446 from Patent EP1572962.
AJ251833 - Homo sapiens mRNA for hypothetical protein (ORF1 DNA).
BC021169 - Homo sapiens PHD finger protein 15, mRNA (cDNA clone IMAGE:4045343), with apparent retained intron.
BC009307 - Homo sapiens PHD finger protein 15, mRNA (cDNA clone IMAGE:4301096), partial cds.
AK025001 - Homo sapiens cDNA: FLJ21348 fis, clone COL02733.
BC004292 - Homo sapiens PHD finger protein 15, mRNA (cDNA clone IMAGE:3621568), complete cds.
JD343507 - Sequence 324531 from Patent EP1572962.
AK124357 - Homo sapiens cDNA FLJ42366 fis, clone UTERU2027941.
JD357963 - Sequence 338987 from Patent EP1572962.
CU678658 - Synthetic construct Homo sapiens gateway clone IMAGE:100020651 5' read PHF15 mRNA.
KJ904684 - Synthetic construct Homo sapiens clone ccsbBroadEn_14078 PHF15 gene, encodes complete protein.
JD393632 - Sequence 374656 from Patent EP1572962.
JD122256 - Sequence 103280 from Patent EP1572962.
JD384940 - Sequence 365964 from Patent EP1572962.
JD093827 - Sequence 74851 from Patent EP1572962.
JD382245 - Sequence 363269 from Patent EP1572962.
JD270346 - Sequence 251370 from Patent EP1572962.
JD514803 - Sequence 495827 from Patent EP1572962.
JD517095 - Sequence 498119 from Patent EP1572962.
JD059971 - Sequence 40995 from Patent EP1572962.
JD406534 - Sequence 387558 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: D6R9B8, ENST00000681547.1, G3XAA4, G3XAA4_HUMAN, hCG_16590 , JADE2 , NM_001388187, PHF15 , uc330ipl.1, uc330ipl.2
UCSC ID: ENST00000681547.2_6
RefSeq Accession: NM_001388185.1
Protein: G3XAA4

-  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.