MID1IP1

MID1 interacting protein 1

Basic information

Region (hg38): X:38801440-38806537

Links

ENSG00000165175 ∙ NCBI:58526 ∙ OMIM:300961 ∙ HGNC:20715 ∙ Uniprot:Q9NPA3 ∙ 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 MID1IP1 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the MID1IP1 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				3		3
missense			3		1	4
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	3	3	1

Variants in MID1IP1

This is a list of pathogenic ClinVar variants found in the MID1IP1 region.

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

Position	Type	Phenotype	Significance	ClinVar
X-38805015-C-T			Likely benign (Jul 01, 2022)
X-38805075-G-C			Likely benign (Jul 01, 2022)
X-38805142-C-T		not specified	Uncertain significance (Dec 28, 2023)
X-38805149-C-T		not specified	Uncertain significance (Apr 23, 2024)
X-38805173-C-T		not specified	Uncertain significance (Mar 07, 2024)
X-38805211-A-G		not specified	Uncertain significance (Jan 04, 2022)
X-38805243-C-G		Flexion contracture	Uncertain significance (-)
X-38805254-G-C		not specified	Uncertain significance (May 20, 2024)
X-38805405-G-T			Likely benign (Aug 01, 2022)
X-38805421-T-A		not specified	Uncertain significance (Mar 25, 2024)
X-38805467-A-G		not specified	Uncertain significance (Apr 20, 2024)
X-38805491-G-A			Benign (Jun 22, 2018)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
MID1IP1	protein_coding	protein_coding	ENST00000336949	1	5106

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.577	0.382	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.235	67	72.6	0.922	0.00000477	1213
Missense in Polyphen		7	28.813	0.24295		495
Synonymous	-1.94	45	31.2	1.44	0.00000217	364
Loss of Function	1.51	0	2.65	0.00	1.69e-7	44

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	0.00	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: Plays a role in the regulation of lipogenesis in liver. Up-regulates ACACA enzyme activity. Required for efficient lipid biosynthesis, including triacylglycerol, diacylglycerol and phospholipid. Involved in stabilization of microtubules (By similarity). {ECO:0000250}.
• Pathway: Metabolism of lipids;Import of palmitoyl-CoA into the mitochondrial matrix;Metabolism;Fatty acid metabolism (Consensus)

Recessive Scores

• pRec: 0.118

Intolerance Scores

• rvis_EVS: 0.1
• rvis_percentile_EVS: 61.28

Haploinsufficiency Scores

• pHI: 0.359
• hipred: N
• hipred_score: 0.325
• ghis: 0.424

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.883

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Mid1ip1
• Phenotype: skeleton phenotype; limbs/digits/tail phenotype

Gene ontology

• Biological process: lipid metabolic process;carnitine shuttle;negative regulation of microtubule depolymerization;positive regulation of fatty acid biosynthetic process;regulation of lipid biosynthetic process;protein polymerization;positive regulation of ligase activity
• Cellular component: nucleus;cytosol;microtubule;microtubule cytoskeleton
• Molecular function: protein binding;protein C-terminus binding;identical protein binding