HEMGN

hemogen

Basic information

Region (hg38): 9:97926791-97944856

Links

ENSG00000136929 ∙ NCBI:55363 ∙ OMIM:610715 ∙ HGNC:17509 ∙ Uniprot:Q9BXL5 ∙ 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 HEMGN gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the HEMGN 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					2	2
missense			34	1		35
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	34	1	2

Variants in HEMGN

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

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

Position	Type	Phenotype	Significance	ClinVar
9-97927451-G-C		not specified	Uncertain significance (Apr 19, 2023)
9-97927477-T-A		not specified	Uncertain significance (Dec 25, 2024)
9-97930043-A-G		not specified	Uncertain significance (Mar 07, 2023)
9-97930044-A-G		not specified	Uncertain significance (Aug 16, 2022)
9-97930048-A-G			Benign (Jul 21, 2018)
9-97930163-T-C		not specified	Uncertain significance (Mar 21, 2023)
9-97930176-C-A		not specified	Uncertain significance (Sep 26, 2024)
9-97930190-G-A		not specified	Uncertain significance (Apr 06, 2024)
9-97930241-T-C		not specified	Uncertain significance (Feb 28, 2024)
9-97930281-G-T		not specified	Uncertain significance (Jun 02, 2023)
9-97930286-G-A		not specified	Uncertain significance (Mar 01, 2024)
9-97930293-G-T		not specified	Uncertain significance (Nov 10, 2024)
9-97930311-C-G		not specified	Uncertain significance (Apr 19, 2024)
9-97930314-G-T		not specified	Uncertain significance (Aug 28, 2023)
9-97930361-T-C		not specified	Uncertain significance (Dec 14, 2024)
9-97930366-G-T			Benign (Dec 31, 2019)
9-97930386-C-T		not specified	Uncertain significance (Oct 26, 2022)
9-97930445-T-G		not specified	Uncertain significance (Sep 06, 2022)
9-97930449-G-C		not specified	Uncertain significance (Jun 22, 2021)
9-97930492-T-C		not specified	Uncertain significance (Oct 05, 2022)
9-97930540-A-C		not specified	Uncertain significance (Feb 02, 2025)
9-97930559-G-T		not specified	Uncertain significance (Oct 01, 2024)
9-97930620-G-T		not specified	Uncertain significance (Jan 27, 2025)
9-97930756-G-C		not specified	Uncertain significance (Jul 31, 2023)
9-97930757-T-C		not specified	Uncertain significance (Jan 26, 2025)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
HEMGN	protein_coding	protein_coding	ENST00000259456	4	18066

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
1.03e-9	0.309	125723	0	8	125731	0.0000318

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.237	229	239	0.957	0.0000110	3214
Missense in Polyphen		75	72.571	1.0335		998
Synonymous	-0.391	82	77.6	1.06	0.00000376	872
Loss of Function	0.812	16	19.9	0.804	9.84e-7	253

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000615	0.0000615
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.0000620	0.0000615
Middle Eastern	0.00	0.00
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Regulates the proliferation and differentiation of hematopoietic cells. Overexpression block the TPA-induced megakaryocytic differentiation in the K562 cell model. May also prevent cell apoptosis through the activation of the nuclear factor-kappa B (NF-kB). {ECO:0000269|PubMed:14730214, ECO:0000269|PubMed:15332117, ECO:0000269|PubMed:15920494}.

Recessive Scores

• pRec: 0.0896

Intolerance Scores

• loftool: 0.284
• rvis_EVS: -0.76
• rvis_percentile_EVS: 13.33

Haploinsufficiency Scores

• pHI: 0.124
• hipred: N
• hipred_score: 0.123
• ghis: 0.656

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.396

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Hemgn
• Phenotype: hearing/vestibular/ear phenotype

Gene ontology

• Biological process: multicellular organism development;cell differentiation;regulation of osteoblast differentiation
• Cellular component: nucleoplasm
• Molecular function: protein binding