USB1

Chr 16

U6 snRNA biogenesis phosphodiesterase 1

Also known as: C16orf57, HVSL1, Mpn1, PN, hMpn1, hUsb1

This gene encodes a protein with several conserved domains, however, its exact function is not known. Mutations in this gene are associated with poikiloderma with neutropenia (PN), which shows phenotypic overlap with Rothmund-Thomson syndrome (RTS) caused by mutations in the RECQL4 gene. It is believed that this gene product interacts with RECQL4 protein via SMAD4 proteins, explaining the partial clinical overlap between PN and RTS. Alternatively spliced transcript variants encoding different isoforms have been noted for this gene. [provided by RefSeq, Mar 2011]

GeneReviewsResearchGenerating clinical summary…

Primary Disease Associations & Inheritance

UniProtPoikiloderma with neutropenia

Clinical highlights

Interpreting a novel variant
Loss of function is the curated mechanism (Gene2Phenotype), though the gene is not strongly LoF-constrained in the population — weigh truncating variants against that tolerance.Curated gene-level mechanism — a prior for triage, not a per-variant call.
0
Active trials
9
Pubs (1 yr)
P/LP submissions
P/LP missense
1.00
LOEUF
LOF
Mechanism· G2P
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GeneReview available — USB1
Authoritative clinical overview · Recommended first read
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Some data sources returned errors (1)

omim: Error: OMIM fetch failed: 429

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

Tolerant — LoF & missense variants common in population
LoF Constraint?
1.00LOEUF
pLI 0.001
Z-score 1.57
OE 0.53 (0.301.00)
Tolerant

Typical tolerance to LoF variation

Missense Constraint?
0.19Z-score
OE missense 0.96 (0.841.10)
147 obs / 153.7 exp
Tolerant

Mild missense constraint

Observed / Expected Ratios?
LoF OE?0.53 (0.301.00)
00.351.4
Missense OE?0.96 (0.841.10)
00.61.4
Synonymous OE?1.13
01.21.6
LoF obs/exp: 7 / 13.2Missense obs/exp: 147 / 153.7Syn Z: -0.82

ClinVar Variant Classifications

0 submitted variants in ClinVar

Protein Context — Lollipop Plot

USB1 · protein map & ClinVar variants

Showing all ClinVar variants across the protein. Search a specific variant to highlight its position.

Clinical Trials

Active and recruiting trials from ClinicalTrials.gov

No active trials found for this gene.

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