STRAP

protein-coding

serine/threonine kinase receptor associated protein, the group of SMN complex|WD repeat domain containing

Gene summary

Enables RNA binding activity. Involved in maintenance of gastrointestinal epithelium and spliceosomal snRNP assembly. Acts upstream of with a positive effect on negative regulation of transforming growth factor beta receptor signaling pathway. Located in cytosol. Part of SMN complex. Implicated in adenocarcinoma; colorectal carcinoma; large cell carcinoma; lung carcinoma; and squamous cell neoplasm. [provided by Alliance of Genome Resources, Jul 2025]

MANE transcript

NM_007178.4

Inheritance

—

ClinVar variants

U:26

Top phenotype

—

gnomAD constraint

pLI —, LoF o/e 0.14

Max pathogenic AF

—

Genomic locus

chr12:15,882,387-15,903,478

External References & Databases

Transcript & Mutation Effects

hg38 • Region Span ~21.1 kb
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GenCC Phenotypes & Disease Associations

Curated gene-disease validity assertions and inheritance patterns

No GenCC data available for this gene.

ClinVar Associated Diseases & Phenotypes

Reported disease conditions connected to STRAP variants in ClinVar

1 Conditions Cataloged
not specifiedTotal: 23

ClinVar Variants & Pathogenicity by Type

Statistics based on transcript NM_007178.4. Only rare variants are included.

We include only reliable ClinVar variants with their consequences to MANE Select, MANE Plus Clinical transcripts, or transcripts with TSL equal to 1. Click a count to filter the variants table below.

Slight differences between displayed counts and ClinVar may occur due to a different transcript/consequence chosen by our variant effect predictor, or because we classify Benign/Likely benign as Likely benign and Pathogenic/Likely pathogenic as Likely pathogenic.

EffectPLPVUSLBBSum
synonymous
0
missense
24
clinvar
24
nonsense
0
start loss
0
frameshift
0
splice donor/acceptor (+/-2bp)
2
clinvar
2
Total00260026
Loading ClinVar variants...

Transcript Catalog

Annotated transcript isoforms across RefSeq and Ensembl databases

Showing 4 of 43 transcripts
Transcript IDSourceProtein IDCoding ExonsMANE Status
NM_007178.4RefSeqNP_009109.310MANE Select
ENST00000419869.7EnsemblENSP00000392270.210MANE Select
ENST00000025399.10EnsemblENSP00000025399.611Standard
ENST00000025399.11EnsemblENSP00000025399.611Standard

Gene Ontology (GO) Annotations & Pathways

Biological processes, molecular functions, cellular components and pathways

Pathways ConsensusPathDB

  • RNA transport - Homo sapiens (human)
  • TGF-beta Signaling Pathway
  • EMT transition in Colorectal Cancer
  • Signal Transduction
  • TGF_beta_Receptor

Biological Process

  • negative regulation of transcription by RNA polymerase II
  • spliceosomal snRNP assembly
  • negative regulation of epithelial cell migration
  • negative regulation of epithelial to mesenchymal transition
  • maintenance of gastrointestinal epithelium

Molecular Function

  • RNA binding
  • signaling receptor binding
  • protein binding

Cellular Component

  • nucleoplasm
  • cytoplasm
  • cytosol
  • SMN complex
  • SMN-Sm protein complex

gnomAD Constraint

Source: gnomAD

Gene type
protein_coding
Transcript type
protein_coding
Transcript
ENST00000419869
Coding exons
10
Length
21088
Individuals with no LoFs
125741
Homozygous LoFs
0
Heterozygous LoFs
6
Defined
125747
p
0.0000239
Z-ScoreObservedExpectedObserved/ExpectedMutation RateTotal Possible
Missense2.081061860.5710.000008812285
Missense (PolyPhen)3171.3220.43465828
Synonymous1.055464.70.8340.00000314653
Loss of Function3.60320.70.1450.00000111245

Population LoF Frequency

PopulationCAFp-valueStatus
African0.0000620.000062rare
Latino/Admixed American00.0absent
Ashkenazi Jewish00.0absent
East Asian00.0absent
Finnish00.0absent
European (Non-Finnish)0.0000360.000035rare
South Asian00.0absent
Other0.000160.00016rare

dbNSFP Gene Annotations

Source: dbNSFP

Function
FUNCTION: The SMN complex plays a catalyst role in the assembly of small nuclear ribonucleoproteins (snRNPs), the building blocks of the spliceosome. Thereby, plays an important role in the splicing of cellular pre-mRNAs. Most spliceosomal snRNPs contain a common set of Sm proteins SNRPB, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF and SNRPG that assemble in a heptameric protein ring on the Sm site of the small nuclear RNA to form the core snRNP. In the cytosol, the Sm proteins SNRPD1, SNRPD2, SNRPE, SNRPF and SNRPG are trapped in an inactive 6S pICln-Sm complex by the chaperone CLNS1A that controls the assembly of the core snRNP. Dissociation by the SMN complex of CLNS1A from the trapped Sm proteins and their transfer to an SMN-Sm complex triggers the assembly of core snRNPs and their transport to the nucleus. STRAP plays a role in the cellular distribution of the SMN complex. Negatively regulates TGF-beta signaling but positively regulates the PDPK1 kinase activity by enhancing its autophosphorylation and by significantly reducing the association of PDPK1 with 14-3-3 protein. {ECO:0000269|PubMed:16251192, ECO:0000269|PubMed:18984161}.;

Recessive Scores

pRec
0.125

Intolerance Scores

RVIS EVS
-0.16
RVIS percentile EVS
41.64

Essentials

Essential (CRISPR)
E
Essential (CRISPR2)
N
Essential (gene trap)
E
Indispensability pred.
E
Indispensability score
1.00

Gene Damage Prediction

AllRecessiveDominant
MendelianMediumMediumMedium
Primary ImmunodeficiencyMediumMediumMedium
CancerMediumMediumMedium
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