--- title: "TP53 c.993+1del (rs1131691033) | Dante Labs" description: "ClinVar classifies TP53 c.993+1del as Likely pathogenic (reviewed by expert panel). Where it sits in the genome, its predicted effect, and the Genome Test reports that look at it." url: "https://dantelabs.com/genes/tp53/variants/c-993plus1del" --- 1. [Genes](https://dantelabs.com/genes) 2. [TP53](https://dantelabs.com/genes/tp53) 3. TP53 c.993+1del Variant # TP53 c.993+1del NM_000546.6(TP53):c.993+1del (p.?) Also known as - p.? - rs1131691033 * ClinVar classification Likely pathogenic * Review status 3 stars out of 4 reviewed by expert panel * Last evaluated 24 June 2025 * Expert panel ClinGen TP53 Variant Curation Expert Panel, ClinGen Data current to ClinVar release 2026-10-12 · Dante Labs data release 2026.10.16-c6eea6bf Facts last changed 16 October 2026 ## Summary c.993+1del is a splice variant in TP53: it sits at or near a boundary between an exon and an intron, where it may change how the gene's RNA is put together. ClinVar classifies it as likely pathogenic for Li-Fraumeni Syndrome (reviewed by expert panel). ## ClinVar classifications | Condition | Classification | Review status | Submissions | Last evaluated | | --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- | ----------------- | ----------------------------------------- | ------------ | -------------- | | [Li-Fraumeni Syndrome](https://dantelabs.com/conditions/li-fraumeni-syndrome) [ClinVar VCV000428898 (opens in a new tab)](https://www.ncbi.nlm.nih.gov/clinvar/variation/428898/) | Likely pathogenic | 3 stars out of 4 reviewed by expert panel | 1 submission | 24 June 2025 | Classifications as ClinVar records them in release 2026-10-12. ClinVar updates them as evidence is reviewed. ## Where it lies in TP53 c.993+1del lies in intron 9, between exons 9 and 10 of the 11 in TP53's MANE Select transcript, NM_000546.6. [TP53's gene diagram →](https://dantelabs.com/genes/tp53#gene-structure) ## Molecular details | Gene | [TP53](https://dantelabs.com/genes/tp53) | | --------------------------- | ----------------------------------------------------------------------------------------------------------------------------------------------------- | | Transcript | NM_000546.6 MANE Select | | Coding DNA change (HGVS c.) | c.993+1del | | Protein change (HGVS p.) | p.? | | Predicted consequence | Splice site or region [splice_donor_variant (opens in a new tab)](https://purl.obolibrary.org/obo/SO_0001575) coding_transcript_intron_variant | | Predicted impact | High | | Position (GRCh38) | chr17:7673533 AC>A | | Position (GRCh37) | chr17:7576851 AC>A | | dbSNP ID | [rs1131691033 (opens in a new tab)](https://www.ncbi.nlm.nih.gov/snp/rs1131691033) | | ClinVar Variation ID | [VCV000428898 (opens in a new tab)](https://www.ncbi.nlm.nih.gov/clinvar/variation/428898/) | | ClinVar Allele ID | 420638 | | ClinGen Allele Registry ID | [CA645369685 (opens in a new tab)](https://reg.clinicalgenome.org/redmine/projects/registry/genboree_registry/by_canonicalid?canonicalid=CA645369685) | | ClinVar name | NM_000546.6(TP53):c.993+1del | ## TP53 c.993+1del in other databases - [ClinVar VCV000428898 (opens in a new tab)](https://www.ncbi.nlm.nih.gov/clinvar/variation/428898/) - [dbSNP rs1131691033 (opens in a new tab)](https://www.ncbi.nlm.nih.gov/snp/rs1131691033) - [ClinGen Allele Registry CA645369685 (opens in a new tab)](https://reg.clinicalgenome.org/redmine/projects/registry/genboree_registry/by_canonicalid?canonicalid=CA645369685) - [gnomAD 17-7673533-AC-A (opens in a new tab)](https://gnomad.broadinstitute.org/variant/17-7673533-AC-A?dataset=gnomad_r4) - [Ensembl rs1131691033 (opens in a new tab)](https://www.ensembl.org/Homo_sapiens/Variation/Explore?v=rs1131691033) ## Reports that look at this variant (1) These Genome Test condition reports include c.993+1del among the variants they look at. | Report | Conditions | Inheritance | | ----------------------------------------------------------------------------- | -------------------- | ------------------ | | [Li-Fraumeni Syndrome](https://dantelabs.com/conditions/li-fraumeni-syndrome) | Li-Fraumeni Syndrome | Autosomal dominant | ## Other variants in TP53 - [A138P Likely pathogenic 3 stars out of 4](https://dantelabs.com/genes/tp53/variants/a138p) - [A138V Likely pathogenic 3 stars out of 4](https://dantelabs.com/genes/tp53/variants/a138v) - [A161_Y163delinsD Likely pathogenic 3 stars out of 4](https://dantelabs.com/genes/tp53/variants/a161-y163delinsd) - [A347D Pathogenic 3 stars out of 4](https://dantelabs.com/genes/tp53/variants/a347d) - [c.-29+1G>T Likely pathogenic 3 stars out of 4](https://dantelabs.com/genes/tp53/variants/c--29plus1g-t) - [c.97-1G>A Pathogenic 3 stars out of 4](https://dantelabs.com/genes/tp53/variants/c-97-1g-a) - [c.375+5G>A Likely pathogenic 3 stars out of 4](https://dantelabs.com/genes/tp53/variants/c-375plus5g-a) - [c.919+1G>A Pathogenic 3 stars out of 4](https://dantelabs.com/genes/tp53/variants/c-919plus1g-a) - [C124X Pathogenic 3 stars out of 4](https://dantelabs.com/genes/tp53/variants/c124x) - [C135G Pathogenic 3 stars out of 4](https://dantelabs.com/genes/tp53/variants/c135g) [All TP53 variants](https://dantelabs.com/genes/tp53/variants) ## Limitations This page describes publicly available information about a genetic variant. It is not a diagnosis, and it says nothing about whether you or anyone else carries this variant. Classifications come from ClinVar and change as new evidence is reviewed. A classification here may differ from the one in ClinVar today, or from the one a laboratory reports. Whole genome sequencing with short reads can miss or miscall some variants, particularly in repeated or highly similar stretches of DNA and in large insertions, deletions or rearrangements. If you have questions about a variant in your own results or in your family, talk to a genetic counsellor or your doctor. ## Sources & credits - Classifications from ClinVar (release 2026-10-12), National Center for Biotechnology Information. - Condition terms from the Mondo Disease Ontology (release 2026-10-06), used under CC BY 4.0. - Gene symbols and names from the HUGO Gene Nomenclature Committee (release 2026-10-16). - Allele identifiers from the ClinGen Allele Registry (release 2026-10-16-c4908f54). - Reference SNP identifiers from dbSNP (release b157), National Center for Biotechnology Information. - Gene–disease links from the Gene Curation Coalition, GenCC (release 2026-10-16). - Difficult regions from the Genome in a Bottle Consortium (release v3.6). - Transcripts from MANE (release v1.5), NCBI and EMBL-EBI. - Predicted consequences from mehari (release 0.11.0), with transcript models from cdot. - Built from Dante Labs data release 2026.10.16-c6eea6bf of 16 October 2026. ## Cite this page APA > Dante Labs. (16 October 2026). TP53 c.993+1del (rs1131691033) (Version 2026.10.16-c6eea6bf). Retrieved 17 October 2026, from https\://dantelabs.com/genes/tp53/variants/c-993plus1del Vancouver > Dante Labs. TP53 c.993+1del (rs1131691033) \[Internet]. Version 2026.10.16-c6eea6bf. 16 October 2026 \[cited 17 October 2026]. Available from: https\://dantelabs.com/genes/tp53/variants/c-993plus1del Download citation [RIS](https://dantelabs.com/genes/tp53/variants/c-993plus1del/cite.ris) [BibTeX](https://dantelabs.com/genes/tp53/variants/c-993plus1del/cite.bib) [CSL-JSON](https://dantelabs.com/genes/tp53/variants/c-993plus1del/cite.json) ## Read your whole genome From $449 Free shipping · Results in 6–8 weeks [Explore the Genome Test](https://dantelabs.com/whole-genome-sequencing)