MYPOP

Myb related transcription factor, partner of profilin, the group of Myb/SANT domain containing

Basic information

Region (hg38): 19:45890023-45902613

Links

ENSG00000176182 ∙ NCBI:339344 ∙ OMIM:617861 ∙ HGNC:20178 ∙ Uniprot:Q86VE0 ∙ 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 MYPOP gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the MYPOP 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			42	1		43
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	42	1	0

Variants in MYPOP

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

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

Position	Type	Phenotype	Significance	ClinVar
19-45890643-C-T		not specified	Uncertain significance (Jan 27, 2025)
19-45890651-T-C		not specified	Uncertain significance (Jan 10, 2025)
19-45890705-A-G		not specified	Uncertain significance (Jun 11, 2021)
19-45890714-G-C		not specified	Uncertain significance (Jan 16, 2025)
19-45890714-G-T		not specified	Uncertain significance (Apr 17, 2023)
19-45890720-G-A		not specified	Uncertain significance (Aug 20, 2024)
19-45890723-C-T		not specified	Uncertain significance (Jan 04, 2024)
19-45890724-G-A		not specified	Uncertain significance (Jun 21, 2023)
19-45890729-G-T		not specified	Uncertain significance (Jan 16, 2024)
19-45890753-A-C		not specified	Uncertain significance (Jan 23, 2024)
19-45890775-C-T		not specified	Uncertain significance (May 29, 2024)
19-45890784-C-G		not specified	Uncertain significance (Sep 16, 2021)
19-45890784-C-T		not specified	Uncertain significance (Jun 10, 2022)
19-45890805-C-T		not specified	Uncertain significance (Sep 09, 2021)
19-45890810-A-T		not specified	Uncertain significance (Feb 19, 2025)
19-45890874-G-A		not specified	Uncertain significance (Feb 26, 2025)
19-45890921-G-T		not specified	Uncertain significance (Dec 19, 2022)
19-45890946-C-A		not specified	Uncertain significance (Mar 25, 2024)
19-45890969-G-T		not specified	Uncertain significance (Aug 27, 2024)
19-45890981-C-T		not specified	Uncertain significance (Jan 10, 2025)
19-45890991-C-T		not specified	Uncertain significance (Nov 21, 2023)
19-45891002-C-T		not specified	Uncertain significance (Nov 07, 2023)
19-45891011-T-C		not specified	Uncertain significance (Dec 10, 2024)
19-45891032-C-T		not specified	Uncertain significance (Aug 04, 2021)
19-45891068-G-A		not specified	Likely benign (Nov 15, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
MYPOP	protein_coding	protein_coding	ENST00000322217	2	12585

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.669	0.327	123060	0	3	123063	0.0000122

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.975	156	194	0.803	0.0000116	2390
Missense in Polyphen		54	85.339	0.63277		967
Synonymous	-0.0401	88	87.5	1.01	0.00000551	921
Loss of Function	2.27	1	7.88	0.127	4.06e-7	106

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000939	0.0000933
Ashkenazi Jewish	0.000111	0.000101
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.00	0.00
Middle Eastern	0.00	0.00
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Transcriptional repressor; DNA-binding protein that specifically recognizes the core sequence 5'-YAAC[GT]G-3'. Dimerization with PFN1 reduces its DNA-binding capacity (By similarity). {ECO:0000250}.

Haploinsufficiency Scores

• hipred: N
• hipred_score: 0.372
• ghis: 0.562

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.109

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Mypop

Gene ontology

• Biological process: negative regulation of transcription by RNA polymerase II
• Cellular component: nucleus
• Molecular function: RNA polymerase II proximal promoter sequence-specific DNA binding;DNA-binding transcription factor activity, RNA polymerase II-specific;protein homodimerization activity