Human Gene OLIG2 (ENST00000382357.4) from GENCODE V44
  Description: Homo sapiens oligodendrocyte transcription factor 2 (OLIG2), mRNA. (from RefSeq NM_005806)
RefSeq Summary (NM_005806): This gene encodes a basic helix-loop-helix transcription factor which is expressed in oligodendroglial tumors of the brain. The protein is an essential regulator of ventral neuroectodermal progenitor cell fate. The gene is involved in a chromosomal translocation t(14;21)(q11.2;q22) associated with T-cell acute lymphoblastic leukemia. Its chromosomal location is within a region of chromosome 21 which has been suggested to play a role in learning deficits associated with Down syndrome. [provided by RefSeq, Jul 2008].
Gencode Transcript: ENST00000382357.4
Gencode Gene: ENSG00000205927.5
Transcript (Including UTRs)
   Position: hg38 chr21:33,025,935-33,029,185 Size: 3,251 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg38 chr21:33,026,863-33,027,834 Size: 972 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr21:33,025,935-33,029,185)mRNA (may differ from genome)Protein (323 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
OMIMPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Oligodendrocyte transcription factor 2; Short=Oligo2; AltName: Full=Class B basic helix-loop-helix protein 1; Short=bHLHb1; AltName: Full=Class E basic helix-loop-helix protein 19; Short=bHLHe19; AltName: Full=Protein kinase C-binding protein 2; AltName: Full=Protein kinase C-binding protein RACK17;
FUNCTION: Required for oligodendrocyte and motor neuron specification in the spinal cord, as well as for the development of somatic motor neurons in the hindbrain. Cooperates with OLIG1 to establish the pMN domain of the embryonic neural tube. Antagonist of V2 interneuron and of NKX2-2-induced V3 interneuron development (By similarity).
SUBUNIT: Interacts with NKX2-2 (By similarity).
SUBCELLULAR LOCATION: Nucleus (By similarity). Cytoplasm (By similarity). Note=The NLS contained in the bHLH domain could be masked in the native form and translocation to the nucleus could be mediated by interaction either with class E bHLH partner protein or with NKX2-2 (By similarity).
TISSUE SPECIFICITY: Expressed in the brain, in oligodendrocytes. Strongly expressed in oligodendrogliomas, while expression is weak to moderate in astrocytomas. Expression in glioblastomas highly variable.
INDUCTION: By SHH. Also induced by NKX6-1 in the developing spinal cord, but not in the rostral hindbrain (By similarity).
DOMAIN: The bHLH is essential for interaction with NKX2-2 (By similarity).
DISEASE: Note=A chromosomal aberration involving OLIG2 may be a cause of a form of T-cell acute lymphoblastic leukemia (T-ALL). Translocation t(14;21)(q11.2;q22) with TCRA.
SIMILARITY: Contains 1 bHLH (basic helix-loop-helix) domain.
SEQUENCE CAUTION: Sequence=AAC72247.1; Type=Erroneous initiation; Sequence=AAF61215.1; Type=Erroneous initiation;
WEB RESOURCE: Name=Atlas of Genetics and Cytogenetics in Oncology and Haematology; URL="";

-  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: OLIG2
Diseases sorted by gene-association score: oligodendroglioma (12), lymphoblastic leukemia (7), pilocytic astrocytoma (5), astrocytoma (5), down syndrome (3), papillary glioneuronal tumor (3), brain cancer (2), childhood oligodendroglioma (2), clear cell ependymoma (1), tanycytic ependymoma (1), cerebellar liponeurocytoma (1), charcot-marie-tooth disease, type 4d (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 22.71 RPKM in Brain - Amygdala
Total median expression: 172.55 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 -47.80154-0.310 Picture PostScript Text
3' UTR -490.001351-0.363 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
IPR011598 - HLH_dom

Pfam Domains:
PF00010 - Helix-loop-helix DNA-binding domain

ModBase Predicted Comparative 3D Structure on Q13516
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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
Protein SequenceProtein Sequence    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0003705 transcription factor activity, RNA polymerase II distal enhancer sequence-specific binding
GO:0042803 protein homodimerization activity
GO:0046983 protein dimerization activity
GO:0071837 HMG box domain binding

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0007275 multicellular organism development
GO:0007399 nervous system development
GO:0021522 spinal cord motor neuron differentiation
GO:0021529 spinal cord oligodendrocyte cell differentiation
GO:0021530 spinal cord oligodendrocyte cell fate specification
GO:0021778 oligodendrocyte cell fate specification
GO:0021794 thalamus development
GO:0030182 neuron differentiation
GO:0042552 myelination
GO:0045665 negative regulation of neuron differentiation
GO:0048663 neuron fate commitment
GO:0048709 oligodendrocyte differentiation
GO:0048714 positive regulation of oligodendrocyte differentiation

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm

-  Descriptions from all associated GenBank mRNAs
  LF213394 - JP 2014500723-A/20897: Polycomb-Associated Non-Coding RNAs.
MA448971 - JP 2018138019-A/20897: Polycomb-Associated Non-Coding RNAs.
BC047511 - Homo sapiens oligodendrocyte lineage transcription factor 2, mRNA (cDNA clone MGC:51023 IMAGE:5300879), complete cds.
AK091462 - Homo sapiens cDNA FLJ34143 fis, clone FCBBF3011570, highly similar to Oligodendrocyte transcription factor 2.
BC036245 - Homo sapiens oligodendrocyte lineage transcription factor 2, mRNA (cDNA clone MGC:39835 IMAGE:5303546), complete cds.
BC034681 - Homo sapiens oligodendrocyte lineage transcription factor 2, mRNA (cDNA clone IMAGE:4214822), partial cds.
BC036275 - Homo sapiens oligodendrocyte lineage transcription factor 2, mRNA (cDNA clone IMAGE:4179760).
AF221520 - Homo sapiens basic helix-loop-helix protein class B 1 (BHLHB1) mRNA, partial cds.
U48250 - Human protein kinase C-binding protein RACK17 mRNA, partial cds.
JD544054 - Sequence 525078 from Patent EP1572962.
JD119582 - Sequence 100606 from Patent EP1572962.
JD527725 - Sequence 508749 from Patent EP1572962.
JD472997 - Sequence 454021 from Patent EP1572962.
JD223195 - Sequence 204219 from Patent EP1572962.
JD086212 - Sequence 67236 from Patent EP1572962.
JD544105 - Sequence 525129 from Patent EP1572962.
JD195525 - Sequence 176549 from Patent EP1572962.
JD403157 - Sequence 384181 from Patent EP1572962.
JD254157 - Sequence 235181 from Patent EP1572962.
JD063406 - Sequence 44430 from Patent EP1572962.
JD294796 - Sequence 275820 from Patent EP1572962.
JD450202 - Sequence 431226 from Patent EP1572962.
JD459335 - Sequence 440359 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B3KRF3, BHLHB1, BHLHE19, ENST00000382357.1, ENST00000382357.2, ENST00000382357.3, NM_005806, OLIG2_HUMAN, PRKCBP2, Q13516, Q86X04, Q9NZ14, RACK17, uc002yqx.1, uc002yqx.2, uc002yqx.3, uc002yqx.4
UCSC ID: ENST00000382357.4
RefSeq Accession: NM_005806
Protein: Q13516 (aka OLIG2_HUMAN or OLG2_HUMAN)
CCDS: CCDS13620.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.