NR2F6

nuclear receptor subfamily 2 group F member 6, the group of Nuclear receptor subfamily 2 group F

Basic information

Region (hg38): 19:17231883-17245919

Previous symbols: [ "ERBAL2" ]

Links

ENSG00000160113 ∙ NCBI:2063 ∙ OMIM:132880 ∙ HGNC:7977 ∙ Uniprot:P10588 ∙ AlphaFold ∙ GenCC ∙ jax ∙ Sfari ∙ GnomAD ∙ Pubmed ∙ ClinVar

Phenotypes

GenCC

Source: genCC

No genCC data.

ClinVar

This is a list of variants' phenotypes submitted to ClinVar and linked to the NR2F6 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the NR2F6 gene is commonly pathogenic or not.

In the table, we include only reliable ClinVar variants with their consequences to MANE Select, Mane Plus Clinical transcripts, or transcripts with TSL equals 1. Click the count to view the source variants.

Warning: slight differences between displayed counts and the number of variants in ClinVar may occur, primarily due to (1) the application of a different transcript and/or consequence by our variant effect predictor or (2) differences in clinical significance: we classify Benign/Likely benign variants as Likely benign and Pathogenic/Likely pathogenic variants as Likely pathogenic.

Variant type	Pathogenic	Likely pathogenic	VUS	Likely benign	Benign	Sum
synonymous						0
missense			25	1		26
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	25	1	0

Variants in NR2F6

This is a list of pathogenic ClinVar variants found in the NR2F6 region.

You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.

Position	Type	Phenotype	Significance	ClinVar
19-17232362-G-A		not specified	Uncertain significance (Jun 27, 2022)
19-17232366-C-T		not specified	Uncertain significance (Jun 07, 2023)
19-17232387-T-C		not specified	Uncertain significance (Jan 24, 2023)
19-17232482-G-A		not specified	Uncertain significance (Apr 06, 2023)
19-17232483-C-T		not specified	Uncertain significance (Dec 20, 2023)
19-17232522-G-A		not specified	Uncertain significance (Jun 13, 2024)
19-17232548-C-T		not specified	Uncertain significance (Mar 15, 2024)
19-17232566-G-A		not specified	Uncertain significance (Apr 26, 2023)
19-17232570-C-T		not specified	Uncertain significance (Feb 28, 2024)
19-17235535-A-T		not specified	Uncertain significance (Sep 22, 2023)
19-17235552-T-C		not specified	Uncertain significance (May 03, 2023)
19-17235595-C-A		not specified	Uncertain significance (Dec 19, 2022)
19-17235639-G-C		not specified	Uncertain significance (Dec 03, 2021)
19-17235654-G-A		not specified	Uncertain significance (Dec 27, 2023)
19-17235672-G-A		not specified	Uncertain significance (May 08, 2023)
19-17235699-G-A		not specified	Uncertain significance (Mar 20, 2023)
19-17235715-G-C		not specified	Uncertain significance (Jun 02, 2024)
19-17235844-T-C		not specified	Uncertain significance (Jan 17, 2024)
19-17235906-G-A		not specified	Uncertain significance (Apr 26, 2023)
19-17235961-G-A		not specified	Uncertain significance (Jun 27, 2023)
19-17235985-C-T		not specified	Uncertain significance (Oct 25, 2022)
19-17235993-G-A		not specified	Uncertain significance (May 06, 2024)
19-17235996-C-G		not specified	Uncertain significance (Dec 15, 2022)
19-17236011-G-A		not specified	Uncertain significance (Oct 14, 2023)
19-17236044-G-A		not specified	Uncertain significance (Dec 31, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
NR2F6	protein_coding	protein_coding	ENST00000291442	4	14058

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.451	0.543	125726	0	5	125731	0.0000199

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.87	115	187	0.615	0.0000112	2525
Missense in Polyphen		57	107.58	0.52986		1160
Synonymous	-2.20	111	85.2	1.30	0.00000527	873
Loss of Function	2.32	2	9.87	0.203	4.25e-7	132

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000289	0.0000289
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.0000352	0.0000352
Middle Eastern	0.00	0.00
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Transcription factor predominantly involved in transcriptional repression. Binds to promoter/enhancer response elements that contain the imperfect 5'-AGGTCA-3' direct or inverted repeats with various spacings which are also recognized by other nuclear hormone receptors. Involved in modulation of hormonal responses. Represses transcriptional activity of the lutropin-choriogonadotropic hormone receptor/LHCGR gene, the renin/REN gene and the oxytocin-neurophysin/OXT gene. Represses the triiodothyronine-dependent and -independent transcriptional activity of the thyroid hormone receptor gene in a cell type- specific manner. The corepressing function towards thyroid hormone receptor beta/THRB involves at least in part the inhibition of THRB binding to triiodothyronine response elements (TREs) by NR2F6. Inhibits NFATC transcription factor DNA binding and subsequently its transcriptional activity. Acts as transcriptional repressor of IL-17 expression in Th-17 differentiated CD4(+) T cells and may be involved in induction and/or maintenance of peripheral immunological tolerance and autoimmunity. Involved in development of forebrain circadian clock; is required early in the development of the locus coeruleus (LC). {ECO:0000269|PubMed:10644740, ECO:0000269|PubMed:10713182, ECO:0000269|PubMed:11682620, ECO:0000269|PubMed:18701084}.
• Pathway: NHR;Nuclear Receptors;IL-6 signaling pathway;Gene expression (Transcription);Generic Transcription Pathway;Nuclear Receptor transcription pathway;RNA Polymerase II Transcription (Consensus)

Recessive Scores

• pRec: 0.161

Haploinsufficiency Scores

• pHI: 0.188
• hipred: Y
• hipred_score: 0.716
• ghis: 0.638

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.992

Gene Damage Prediction

	All	Recessive	Dominant
Mendelian	Medium	Medium	Medium
Primary Immunodeficiency	Medium	Medium	Medium
Cancer	Medium	Medium	Medium

Mouse Genome Informatics

• Gene name: Nr2f6
• Phenotype: integument phenotype (the observable morphological and physiological characteristics of the skin and its associated structures, such as the hair, nails, sweat glands, sebaceous glands and other secretory glands that are manifested through development and lifespan); behavior/neurological phenotype (the observable actions or reactions of mammalian organisms that are manifested through development and lifespan); nervous system phenotype (the observable morphological and physiological characteristics of the extensive, intricate network of electochemical structures in the body that is comprised of the brain, spinal cord, nerves, ganglia and parts of the receptor organs that are manifested through development and lifespan)

Gene ontology

• Biological process: negative regulation of transcription by RNA polymerase II;transcription initiation from RNA polymerase II promoter;signal transduction;intracellular receptor signaling pathway;entrainment of circadian clock by photoperiod;steroid hormone mediated signaling pathway;neuron development;detection of temperature stimulus involved in sensory perception of pain
• Cellular component: nucleus;nucleoplasm
• Molecular function: RNA polymerase II distal enhancer sequence-specific DNA binding;DNA-binding transcription factor activity, RNA polymerase II-specific;DNA-binding transcription repressor activity, RNA polymerase II-specific;DNA binding;DNA-binding transcription factor activity;steroid hormone receptor activity;nuclear receptor activity;protein binding;zinc ion binding;sequence-specific DNA binding