FUT9
Basic information
Region (hg38): 6:96015973-96215612
Links
Phenotypes
GenCC
Source:
ClinVar
This is a list of variants' phenotypes submitted to
Variants pathogenicity by type
Statistics on ClinVar variants can assist in determining whether a specific variant type in the FUT9 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 | 7 | |||||
| nonsense | 0 | |||||
| start loss | 0 | |||||
| frameshift | 0 | |||||
| inframe indel | 0 | |||||
| splice donor/acceptor (+/-2bp) | 0 | |||||
| splice region | 0 | |||||
| non coding | 0 | |||||
| Total | 0 | 0 | 7 | 0 | 0 |
Variants in FUT9
This is a list of pathogenic ClinVar variants found in the FUT9 region.
You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.
| Position | Type | Phenotype | Significance | ClinVar |
|---|---|---|---|---|
| 6-96203207-A-G | not specified | Uncertain significance (Mar 25, 2024) | ||
| 6-96203257-C-G | not specified | Uncertain significance (Sep 17, 2021) | ||
| 6-96203286-C-A | not specified | Uncertain significance (Sep 22, 2023) | ||
| 6-96203439-C-T | not specified | Uncertain significance (Aug 11, 2022) | ||
| 6-96203496-G-A | not specified | Uncertain significance (Feb 07, 2023) | ||
| 6-96203592-G-C | not specified | Uncertain significance (Feb 22, 2023) | ||
| 6-96203619-C-A | not specified | Uncertain significance (Mar 20, 2024) | ||
| 6-96203634-G-A | not specified | Uncertain significance (May 14, 2024) | ||
| 6-96203748-C-T | not specified | Uncertain significance (Oct 20, 2023) | ||
| 6-96204071-G-A | not specified | Uncertain significance (May 29, 2024) | ||
| 6-96204138-G-A | not specified | Uncertain significance (Sep 14, 2022) |
GnomAD
Source:
| Gene | Type | Bio Type | Transcript | Coding Exons | Length |
|---|---|---|---|---|---|
| FUT9 | protein_coding | protein_coding | ENST00000302103 | 1 | 199629 |
| pLI Probability LOF Intolerant | pRec Probability LOF Recessive | Individuals with no LOFs | Individuals with Homozygous LOFs | Individuals with Heterozygous LOFs | Defined | p |
|---|---|---|---|---|---|---|
| 0.0832 | 0.908 | 125612 | 0 | 4 | 125616 | 0.0000159 |
| Z-Score | Observed | Expected | Observed/Expected | Mutation Rate | Total Possible in Transcript | |
|---|---|---|---|---|---|---|
| Missense | 2.02 | 111 | 189 | 0.586 | 0.00000947 | 2385 |
| Missense in Polyphen | 31 | 74.409 | 0.41662 | 905 | ||
| Synonymous | -0.397 | 75 | 70.8 | 1.06 | 0.00000363 | 659 |
| Loss of Function | 2.28 | 4 | 12.8 | 0.313 | 7.18e-7 | 151 |
LoF frequencies by population
| Ethnicity | Sum of pLOFs | p |
|---|---|---|
| African & African-American | 0.00 | 0.00 |
| Ashkenazi Jewish | 0.00 | 0.00 |
| East Asian | 0.0000544 | 0.0000544 |
| Finnish | 0.00 | 0.00 |
| European (Non-Finnish) | 0.0000271 | 0.0000264 |
| Middle Eastern | 0.0000544 | 0.0000544 |
| South Asian | 0.00 | 0.00 |
| Other | 0.00 | 0.00 |
dbNSFP
Source:
- Function
- FUNCTION: Transfers a fucose to lacto-N-neotetraose but not to either alpha2,3-sialyl lacto-N-neotetraose or lacto-N-tetraose. Can catalyze the last step in the biosynthesis of Lewis antigen, the addition of a fucose to precursor polysaccharides. {ECO:0000269|PubMed:10386598}.;
- Pathway
- Mannose type O-glycan biosynthesis - Homo sapiens (human);Glycosphingolipid biosynthesis - globo and isoglobo series - Homo sapiens (human);Glycosphingolipid biosynthesis - lacto and neolacto series - Homo sapiens (human);Globo Sphingolipid Metabolism;Glycosphingolipid biosynthesis - neolactoseries;Glycosphingolipid biosynthesis - globoseries;terminal <i>O</i>-glycans residues modification
(Consensus)
Recessive Scores
- pRec
- 0.130
Intolerance Scores
- loftool
- 0.337
- rvis_EVS
- 0.13
- rvis_percentile_EVS
- 63
Haploinsufficiency Scores
- pHI
- 0.638
- hipred
- Y
- hipred_score
- 0.582
- ghis
- 0.426
Essentials
- essential_gene_CRISPR
- N
- essential_gene_CRISPR2
- N
- essential_gene_gene_trap
- N
- gene_indispensability_pred
- N
- gene_indispensability_score
- 0.307
Gene Damage Prediction
| All | Recessive | Dominant | |
|---|---|---|---|
| Mendelian | Medium | Medium | Medium |
| Primary Immunodeficiency | Medium | Medium | Medium |
| Cancer | Medium | Medium | Medium |
Mouse Genome Informatics
- Gene name
- Fut9
- Phenotype
- nervous system phenotype (the observable morphological and physiological characteristics of the extensive, intricate network of electochemical structures in the body that is comprised of the brain, spinal cord, nerves, ganglia and parts of the receptor organs that are manifested through development and lifespan);
Gene ontology
- Biological process
- carbohydrate metabolic process;protein glycosylation;nervous system development;fucosylation;L-fucose catabolic process
- Cellular component
- Golgi apparatus;integral component of membrane;Golgi cisterna membrane
- Molecular function
- fucosyltransferase activity;alpha-(1->3)-fucosyltransferase activity