ELF5

E74 like ETS transcription factor 5, the group of ETS transcription factor family

Basic information

Region (hg38): 11:34478790-34525193

Links

ENSG00000135374 ∙ NCBI:2001 ∙ OMIM:605169 ∙ HGNC:3320 ∙ Uniprot:Q9UKW6 ∙ 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 ELF5 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ELF5 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			18			18
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	18	0	0

Variants in ELF5

This is a list of pathogenic ClinVar variants found in the ELF5 region.

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

Position	Type	Phenotype	Significance	ClinVar
11-34480228-T-C		not specified	Uncertain significance (Nov 18, 2022)
11-34480268-C-T		not specified	Uncertain significance (Jul 20, 2021)
11-34480850-G-A		not specified	Uncertain significance (Jun 02, 2023)
11-34480869-T-G		not specified	Uncertain significance (Aug 02, 2022)
11-34480884-C-T		not specified	Uncertain significance (Feb 21, 2024)
11-34482433-G-T		not specified	Uncertain significance (Apr 15, 2024)
11-34482493-T-A		not specified	Uncertain significance (Apr 04, 2023)
11-34493487-C-A		not specified	Uncertain significance (Feb 27, 2023)
11-34493487-C-T		not specified	Uncertain significance (May 22, 2023)
11-34493488-G-A		not specified	Uncertain significance (Oct 06, 2022)
11-34493536-C-A		not specified	Uncertain significance (Sep 12, 2023)
11-34493566-A-C		not specified	Uncertain significance (Oct 06, 2022)
11-34493609-A-T		not specified	Uncertain significance (Jul 20, 2021)
11-34493619-A-C		not specified	Uncertain significance (Apr 06, 2023)
11-34493654-C-A		not specified	Uncertain significance (Dec 26, 2023)
11-34505644-A-C		not specified	Uncertain significance (Sep 29, 2022)
11-34505698-C-T		not specified	Uncertain significance (May 31, 2023)
11-34505715-G-C		not specified	Uncertain significance (Mar 29, 2024)
11-34505716-G-A		not specified	Uncertain significance (Sep 01, 2021)
11-34505736-A-T		not specified	Uncertain significance (Feb 15, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ELF5	protein_coding	protein_coding	ENST00000312319	7	35013

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.000869	0.986	125709	0	39	125748	0.000155

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.0153	145	146	0.996	0.00000782	1764
Missense in Polyphen		52	58.236	0.89292		693
Synonymous	-0.450	61	56.7	1.08	0.00000343	449
Loss of Function	2.19	8	18.0	0.444	9.53e-7	190

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000583	0.0000583
Ashkenazi Jewish	0.00	0.00
East Asian	0.0000544	0.0000544
Finnish	0.000324	0.000323
European (Non-Finnish)	0.0000794	0.0000791
Middle Eastern	0.0000544	0.0000544
South Asian	0.000687	0.000653
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Transcriptionally activator that may play a role in regulating the later stages of keratinocytes terminal differentiation. {ECO:0000269|PubMed:10506207}.
• Pathway: Prolactin signaling pathway - Homo sapiens (human) (Consensus)

Recessive Scores

• pRec: 0.131

Intolerance Scores

• loftool: 0.821
• rvis_EVS: -0.54
• rvis_percentile_EVS: 20.26

Haploinsufficiency Scores

• pHI: 0.309
• hipred: N
• hipred_score: 0.285
• ghis: 0.510

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.189

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Elf5
• Phenotype: reproductive system phenotype; 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); embryo phenotype; endocrine/exocrine gland phenotype; growth/size/body region 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)

Gene ontology

• Biological process: ectodermal cell fate commitment;regulation of transcription by RNA polymerase II;transcription by RNA polymerase II;cell population proliferation;cell differentiation;somatic stem cell population maintenance;negative regulation of cell differentiation;positive regulation of transcription by RNA polymerase II;mammary gland epithelial cell differentiation
• Cellular component: nucleus;cytoplasm
• Molecular function: RNA polymerase II regulatory region sequence-specific DNA binding;DNA-binding transcription factor activity, RNA polymerase II-specific;DNA-binding transcription activator activity, RNA polymerase II-specific