HEXIM2

HEXIM P-TEFb complex subunit 2, the group of P-TEFb complex subunits

Basic information

Region (hg38): 17:45160700-45170040

Links

ENSG00000168517 ∙ NCBI:124790 ∙ OMIM:615695 ∙ HGNC:28591 ∙ Uniprot:Q96MH2 ∙ 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 HEXIM2 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the HEXIM2 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			24			24
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	24	0	0

Variants in HEXIM2

This is a list of pathogenic ClinVar variants found in the HEXIM2 region.

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

Position	Type	Phenotype	Significance	ClinVar
17-45162857-A-G		not specified	Uncertain significance (Jul 07, 2024)
17-45169027-C-T		not specified	Uncertain significance (Apr 20, 2024)
17-45169028-C-G			Uncertain significance (Feb 12, 2020)
17-45169117-G-C		not specified	Uncertain significance (Oct 18, 2021)
17-45169222-C-T		not specified	Uncertain significance (Aug 04, 2024)
17-45169229-G-T		not specified	Uncertain significance (May 31, 2022)
17-45169324-C-T		not specified	Uncertain significance (Jun 26, 2024)
17-45169373-A-C		not specified	Uncertain significance (Dec 10, 2024)
17-45169426-G-A		not specified	Uncertain significance (Dec 18, 2023)
17-45169446-C-G		not specified	Uncertain significance (Nov 15, 2021)
17-45169474-G-A		not specified	Uncertain significance (Jan 16, 2024)
17-45169528-T-G		not specified	Uncertain significance (Dec 24, 2024)
17-45169540-G-C		not specified	Uncertain significance (Mar 28, 2023)
17-45169580-A-G		not specified	Uncertain significance (Oct 17, 2023)
17-45169601-T-G		not specified	Uncertain significance (Oct 05, 2023)
17-45169670-C-T		not specified	Uncertain significance (Aug 05, 2024)
17-45169700-A-G		not specified	Uncertain significance (May 28, 2023)
17-45169705-G-T		not specified	Uncertain significance (Nov 03, 2022)
17-45169727-G-A		not specified	Uncertain significance (Jan 03, 2024)
17-45169730-C-A		not specified	Uncertain significance (Apr 26, 2024)
17-45169737-C-A		not specified	Uncertain significance (Aug 12, 2024)
17-45169741-C-T		not specified	Uncertain significance (Feb 10, 2023)
17-45169784-G-A		not specified	Uncertain significance (Apr 26, 2024)
17-45169784-G-T		not specified	Uncertain significance (Jun 27, 2023)
17-45169790-A-T		not specified	Uncertain significance (Nov 13, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
HEXIM2	protein_coding	protein_coding	ENST00000307275	2	9341

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.0280	0.927	125730	0	17	125747	0.0000676

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.0875	168	171	0.981	0.0000122	1834
Missense in Polyphen		54	57.644	0.93679		633
Synonymous	-0.752	81	72.8	1.11	0.00000472	588
Loss of Function	1.72	4	9.84	0.407	6.61e-7	90

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000276	0.000275
Ashkenazi Jewish	0.00	0.00
East Asian	0.000163	0.000163
Finnish	0.00	0.00
European (Non-Finnish)	0.0000705	0.0000703
Middle Eastern	0.000163	0.000163
South Asian	0.0000327	0.0000327
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Transcriptional regulator which functions as a general RNA polymerase II transcription inhibitor. In cooperation with 7SK snRNA sequesters P-TEFb in a large inactive 7SK snRNP complex preventing RNA polymerase II phosphorylation and subsequent transcriptional elongation. {ECO:0000269|PubMed:15713661, ECO:0000269|PubMed:15713662}.

Recessive Scores

• pRec: 0.111

Intolerance Scores

• loftool: 0.347
• rvis_EVS: -0.01
• rvis_percentile_EVS: 53.51

Haploinsufficiency Scores

• pHI: 0.131
• hipred: Y
• hipred_score: 0.664
• ghis: 0.521

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.961

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Hexim2

Gene ontology

• Biological process: negative regulation of transcription by RNA polymerase II;negative regulation of cyclin-dependent protein serine/threonine kinase activity;negative regulation of transcription, DNA-templated
• Cellular component: nucleus;nucleoplasm;cytoplasm;cytosol;nuclear speck
• Molecular function: cyclin-dependent protein serine/threonine kinase inhibitor activity;protein binding;snRNA binding;identical protein binding;7SK snRNA binding