PAIP1

poly(A) binding protein interacting protein 1, the group of MIF4G domain containing proteins

Basic information

Region (hg38): 5:43526267-43557758

Links

ENSG00000172239 ∙ NCBI:10605 ∙ OMIM:605184 ∙ HGNC:16945 ∙ Uniprot:Q9H074 ∙ 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 PAIP1 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the PAIP1 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			28	1		29
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	28	1	0

Variants in PAIP1

This is a list of pathogenic ClinVar variants found in the PAIP1 region.

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

Position	Type	Phenotype	Significance	ClinVar
5-43529796-C-G		not specified	Uncertain significance (Mar 14, 2023)
5-43534897-T-C		not specified	Uncertain significance (Dec 05, 2024)
5-43534905-G-A		not specified	Uncertain significance (Mar 07, 2025)
5-43534907-A-T		not specified	Uncertain significance (Aug 05, 2024)
5-43535559-C-T		not specified	Uncertain significance (Sep 01, 2021)
5-43535592-C-G		not specified	Uncertain significance (May 30, 2023)
5-43536881-G-C		not specified	Uncertain significance (Jan 10, 2022)
5-43538973-C-A		not specified	Uncertain significance (Nov 04, 2023)
5-43539030-C-T		not specified	Uncertain significance (Jun 01, 2023)
5-43543022-C-A		not specified	Uncertain significance (Oct 26, 2022)
5-43543037-T-G		not specified	Uncertain significance (Aug 20, 2024)
5-43543080-G-A		not specified	Uncertain significance (Jan 28, 2025)
5-43547880-T-C		not specified	Uncertain significance (Aug 20, 2024)
5-43555849-C-A		not specified	Uncertain significance (Nov 13, 2024)
5-43555849-C-T		not specified	Uncertain significance (Apr 15, 2024)
5-43555850-C-T		not specified	Uncertain significance (Sep 21, 2021)
5-43555885-T-C		not specified	Uncertain significance (Nov 01, 2022)
5-43555942-T-C		not specified	Uncertain significance (Dec 23, 2024)
5-43555975-G-A		not specified	Uncertain significance (Jun 28, 2022)
5-43556600-G-A		not specified	Uncertain significance (Sep 12, 2024)
5-43556623-G-A		not specified	Uncertain significance (May 14, 2024)
5-43556631-G-C		not specified	Uncertain significance (May 20, 2024)
5-43556650-G-C		not specified	Uncertain significance (Sep 16, 2021)
5-43556654-T-C		not specified	Likely benign (Apr 07, 2023)
5-43556674-G-A		not specified	Uncertain significance (Jan 22, 2025)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
PAIP1	protein_coding	protein_coding	ENST00000306846	11	31492

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.999	0.00116	125737	0	3	125740	0.0000119

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.903	174	211	0.825	0.0000104	3084
Missense in Polyphen		28	60.3	0.46435		841
Synonymous	-0.924	85	74.8	1.14	0.00000345	937
Loss of Function	4.35	1	24.0	0.0416	0.00000128	309

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)	0.0000267	0.0000264
Middle Eastern	0.00	0.00
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Acts as a coactivator in the regulation of translation initiation of poly(A)-containing mRNAs. Its stimulatory activity on translation is mediated via its action on PABPC1. Competes with PAIP2 for binding to PABPC1. Its association with EIF4A and PABPC1 may potentiate contacts between mRNA termini. May also be involved in translationally coupled mRNA turnover. Implicated with other RNA-binding proteins in the cytoplasmic deadenylation/translational and decay interplay of the FOS mRNA mediated by the major coding-region determinant of instability (mCRD) domain. {ECO:0000269|PubMed:11051545, ECO:0000269|PubMed:9548260}.
• Pathway: RNA transport - Homo sapiens (human);Translation Factors;Metabolism of RNA;Deadenylation of mRNA;Deadenylation-dependent mRNA decay (Consensus)

Recessive Scores

• pRec: 0.106

Intolerance Scores

• loftool: 0.130
• rvis_EVS: -0.43
• rvis_percentile_EVS: 25.15

Haploinsufficiency Scores

• pHI: 0.577
• hipred: Y
• hipred_score: 0.775
• ghis: 0.680

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.966

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Paip1

Gene ontology

• Biological process: translational initiation;regulation of translational initiation;positive regulation of translation;mRNA stabilization
• Cellular component: cytoplasm;cytosol
• Molecular function: RNA binding;protein binding;translation activator activity