Human Gene SETDB1 (ENST00000692827.1_4) from GENCODE V47lift37
  Description: SET domain bifurcated histone lysine methyltransferase 1, transcript variant 7 (from RefSeq NM_001393959.1)
Gencode Transcript: ENST00000692827.1_4
Gencode Gene: ENSG00000143379.13_18
Transcript (Including UTRs)
   Position: hg19 chr1:150,898,839-150,937,213 Size: 38,375 Total Exon Count: 22 Strand: +
Coding Region
   Position: hg19 chr1:150,900,191-150,936,840 Size: 36,650 Coding Exon Count: 21 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
Microarray ExpressionRNA StructureOther SpeciesmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:150,898,839-150,937,213)mRNA (may differ from genome)Protein (1292 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblExonPrimerGeneCardsHGNC
MalacardsMGIPubMedUniProtKBWikipedia

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: SETDB1
Diseases sorted by gene-association score: dracunculiasis (16), huntington disease (15), pleuropneumonia (11), hypoglycemic coma (6)

-  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.

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -54.10166-0.326 Picture PostScript Text
3' UTR -94.50373-0.253 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.

-  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 orthologGenome BrowserNo ortholog
Gene DetailsGene Details  Gene Details 
Gene SorterGene Sorter  Gene Sorter 
 RGD  WormBase 
    Protein Sequence 
    Alignment 

-  Descriptions from all associated GenBank mRNAs
  LF383809 - JP 2014500723-A/191312: Polycomb-Associated Non-Coding RNAs.
AK302461 - Homo sapiens cDNA FLJ52896 complete cds, highly similar to Histone-lysine N-methyltransferase, H3lysine-9 specific 4 (EC 2.1.1.43).
AK308335 - Homo sapiens cDNA, FLJ98283.
BC028671 - Homo sapiens SET domain, bifurcated 1, mRNA (cDNA clone MGC:16563 IMAGE:4098658), complete cds.
D31891 - Homo sapiens KIAA0067 mRNA.
BC009362 - Homo sapiens SET domain, bifurcated 1, mRNA (cDNA clone IMAGE:4301680), complete cds.
BC008738 - Homo sapiens cDNA clone IMAGE:3345759, with apparent retained intron.
JD408102 - Sequence 389126 from Patent EP1572962.
KJ900837 - Synthetic construct Homo sapiens clone ccsbBroadEn_10231 SETDB1 gene, encodes complete protein.
CU679323 - Synthetic construct Homo sapiens gateway clone IMAGE:100018215 5' read SETDB1 mRNA.
AB383733 - Synthetic construct DNA, clone: pF1KSDA0067, Homo sapiens SETDB1 gene for SET domain, bifurcated 1, complete cds, without stop codon, in Flexi system.
LF352519 - JP 2014500723-A/160022: Polycomb-Associated Non-Coding RNAs.
LF352518 - JP 2014500723-A/160021: Polycomb-Associated Non-Coding RNAs.
LF352517 - JP 2014500723-A/160020: Polycomb-Associated Non-Coding RNAs.
LF352514 - JP 2014500723-A/160017: Polycomb-Associated Non-Coding RNAs.
LF352513 - JP 2014500723-A/160016: Polycomb-Associated Non-Coding RNAs.
LF352512 - JP 2014500723-A/160015: Polycomb-Associated Non-Coding RNAs.
LF352506 - JP 2014500723-A/160009: Polycomb-Associated Non-Coding RNAs.
AK095075 - Homo sapiens cDNA FLJ37756 fis, clone BRHIP2023773, highly similar to Mus musculus ERG-associated protein ESET mRNA.
LF352505 - JP 2014500723-A/160008: Polycomb-Associated Non-Coding RNAs.
JD317600 - Sequence 298624 from Patent EP1572962.
JD402863 - Sequence 383887 from Patent EP1572962.
JD152122 - Sequence 133146 from Patent EP1572962.
JD146899 - Sequence 127923 from Patent EP1572962.
MA619386 - JP 2018138019-A/191312: Polycomb-Associated Non-Coding RNAs.
MA588096 - JP 2018138019-A/160022: Polycomb-Associated Non-Coding RNAs.
MA588095 - JP 2018138019-A/160021: Polycomb-Associated Non-Coding RNAs.
MA588094 - JP 2018138019-A/160020: Polycomb-Associated Non-Coding RNAs.
MA588091 - JP 2018138019-A/160017: Polycomb-Associated Non-Coding RNAs.
MA588090 - JP 2018138019-A/160016: Polycomb-Associated Non-Coding RNAs.
MA588089 - JP 2018138019-A/160015: Polycomb-Associated Non-Coding RNAs.
MA588083 - JP 2018138019-A/160009: Polycomb-Associated Non-Coding RNAs.
MA588082 - JP 2018138019-A/160008: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A0A8I5KT93, A0A8I5KT93_HUMAN, hCG_39375 , NM_001393959, SETDB1 , uc330xtr.1, uc330xtr.2
UCSC ID: ENST00000692827.1_4
RefSeq Accession: NM_001366418.1

-  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.