ETV1

ETS variant transcription factor 1, the group of ETS transcription factor family

Basic information

Region (hg38): 7:13891229-13991425

Links

ENSG00000006468 ∙ NCBI:2115 ∙ OMIM:600541 ∙ HGNC:3490 ∙ Uniprot:P50549 ∙ 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 ETV1 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ETV1 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			25
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region				1		1
non coding						0
Total	0	0	25	0	0

Variants in ETV1

This is a list of pathogenic ClinVar variants found in the ETV1 region.

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

Position	Type	Phenotype	Significance	ClinVar
7-13895870-T-C		not specified	Uncertain significance (Aug 08, 2023)
7-13895895-G-A		not specified	Uncertain significance (Jan 20, 2023)
7-13895895-G-C		not specified	Uncertain significance (Apr 09, 2024)
7-13895918-G-A		not specified	Uncertain significance (Oct 04, 2022)
7-13895919-G-A		not specified	Uncertain significance (May 20, 2024)
7-13895935-C-G		not specified	Uncertain significance (Jun 16, 2024)
7-13895981-C-T			Uncertain significance (Apr 01, 2024)
7-13896008-C-T		not specified	Uncertain significance (Dec 02, 2022)
7-13896016-A-T		not specified	Uncertain significance (Apr 13, 2023)
7-13900829-C-T		not specified	Uncertain significance (Mar 29, 2024)
7-13906569-C-T		not specified	Uncertain significance (Jun 07, 2024)
7-13909656-A-C		not specified	Uncertain significance (Feb 10, 2022)
7-13911249-G-T		not specified	Uncertain significance (May 23, 2023)
7-13931546-G-A		not specified	Uncertain significance (Apr 04, 2023)
7-13931549-G-C		not specified	Uncertain significance (May 11, 2022)
7-13931570-G-A		not specified	Uncertain significance (Aug 11, 2022)
7-13931589-T-C		not specified	Uncertain significance (Aug 13, 2021)
7-13931597-T-C		not specified	Uncertain significance (Mar 02, 2023)
7-13931612-T-C		not specified	Uncertain significance (Dec 26, 2023)
7-13931619-G-C		not specified	Uncertain significance (Mar 21, 2023)
7-13931643-G-A		not specified	Uncertain significance (Jul 09, 2021)
7-13931682-G-A		not specified	Uncertain significance (May 30, 2024)
7-13931744-C-T		not specified	Uncertain significance (Dec 07, 2021)
7-13935786-G-A		not specified	Uncertain significance (May 27, 2022)
7-13935834-G-A		not specified	Uncertain significance (Apr 13, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ETV1	protein_coding	protein_coding	ENST00000430479	12	100198

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.937	0.0631	124664	0	11	124675	0.0000441

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.875	229	269	0.850	0.0000146	3167
Missense in Polyphen		79	120.32	0.65657		1389
Synonymous	-2.28	120	92.2	1.30	0.00000499	845
Loss of Function	4.04	4	26.4	0.151	0.00000132	318

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00	0.00
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.0000930	0.0000464
European (Non-Finnish)	0.000124	0.0000796
Middle Eastern	0.00	0.00
South Asian	0.0000336	0.0000327
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Transcriptional activator that binds to DNA sequences containing the consensus pentanucleotide 5'-CGGA[AT]-3'.
• Disease: DISEASE: Ewing sarcoma (ES) [MIM:612219]: A highly malignant, metastatic, primitive small round cell tumor of bone and soft tissue that affects children and adolescents. It belongs to the Ewing sarcoma family of tumors, a group of morphologically heterogeneous neoplasms that share the same cytogenetic features. They are considered neural tumors derived from cells of the neural crest. Ewing sarcoma represents the less differentiated form of the tumors. {ECO:0000269|PubMed:7700648}. Note=The gene represented in this entry is involved in disease pathogenesis. A chromosomal aberration involving ETV1 is found in patients with Erwing sarcoma. Translocation t(7;22)(p22;q12) with EWSR1. {ECO:0000269|PubMed:7700648}.
• Pathway: Transcriptional misregulation in cancer - Homo sapiens (human);p38 signaling mediated by MAPKAP kinases (Consensus)

Intolerance Scores

• rvis_EVS: -0.43
• rvis_percentile_EVS: 25.37

Haploinsufficiency Scores

• pHI: 0.807
• hipred: Y
• hipred_score: 0.794
• ghis: 0.589

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.822

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Etv1
• Phenotype: behavior/neurological phenotype (the observable actions or reactions of mammalian organisms that are manifested through development and lifespan); mortality/aging (the observable characteristics related to the ability of a mammalian organism to live and age that are manifested throughout development and life span); normal phenotype; 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); growth/size/body region phenotype; muscle phenotype; cellular phenotype

Gene ontology

• Biological process: regulation of transcription by RNA polymerase II;transcription by RNA polymerase II;axon guidance;muscle organ development;mechanosensory behavior;cell differentiation;positive regulation of transcription by RNA polymerase II;peripheral nervous system neuron development
• Cellular component: nucleus
• Molecular function: RNA polymerase II proximal promoter sequence-specific DNA binding;DNA-binding transcription factor activity, RNA polymerase II-specific;DNA-binding transcription activator activity, RNA polymerase II-specific;DNA-binding transcription factor activity;protein binding