LINC01389

long intergenic non-protein coding RNA 1389, the group of Long intergenic non-protein coding RNAs

Basic information

Region (hg38): 1:47380733-47433569

Links

ENSG00000225762 ∙ ∙ ∙ HGNC:50661 ∙ ∙ ∙ 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 LINC01389 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the LINC01389 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						0
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	0	0	0

Variants in LINC01389

This is a list of pathogenic ClinVar variants found in the LINC01389 region.

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

Position	Type	Phenotype	Significance	ClinVar
1-47416226-G-T			Benign (Aug 14, 2018)
1-47416235-T-TG			Benign (Mar 06, 2020)
1-47416245-C-G			Likely benign (Apr 12, 2019)
1-47416265-TCGGCGGCCCCTGCGGTCCCGGAGCCGCGCGGGCAGGGGCTGCCGCAGCCGATGGCGGGGCGCAGCGACATGGATCCGCCCGCCGCGTTCTCTGGCTTCCCTGCCCTGCCAGCGGTCGCGCCGTCGGGGCCGCCGCCGTCGCCGCTCGCAGGAGCCGAGCCAGGGCGGGAGCCAGAGGAGGCGGCGGCTGGCCGCGGAGAGGCGGCCCCCACGCCCGCGCCCGGCCCGGGGCGGCGGCGG-T		Congenital primary aphakia;Anterior segment dysgenesis	Uncertain significance (Jan 21, 2019)
1-47416272-C-T			Likely benign (Sep 18, 2018)
1-47416302-G-A		not specified	Benign (Jul 31, 2023)
1-47416306-G-A		FOXE3-related disorder	Likely benign (Jul 03, 2021)
1-47416314-C-G		not specified	Uncertain significance (Aug 10, 2023)
1-47416316-A-G		Anterior segment dysgenesis;Congenital primary aphakia	Uncertain significance (Mar 13, 2024)
1-47416316-A-T		Anterior segment dysgenesis;Congenital primary aphakia	Uncertain significance (Mar 09, 2022)
1-47416316-AT-A		Congenital primary aphakia;Anterior segment dysgenesis	Uncertain significance (Mar 07, 2024)
1-47416318-G-A			Uncertain significance (Mar 01, 2022)
1-47416318-G-C		Congenital primary aphakia;Anterior segment dysgenesis • not specified	Uncertain significance (Apr 09, 2024)
1-47416318-G-T		Cardiovascular phenotype	Uncertain significance (Nov 08, 2022)
1-47416320-C-G		Cardiovascular phenotype	Uncertain significance (Apr 26, 2024)
1-47416321-G-A		Cardiovascular phenotype • Anterior segment dysgenesis;Congenital primary aphakia	Conflicting classifications of pathogenicity (May 27, 2024)
1-47416321-G-C		Anterior segment dysgenesis;Congenital primary aphakia • Cardiovascular phenotype	Likely benign (Oct 17, 2024)
1-47416321-G-T		Cardiovascular phenotype • Congenital primary aphakia;Anterior segment dysgenesis	Likely benign (Sep 24, 2023)
1-47416328-A-AG		Cardiovascular phenotype	Uncertain significance (May 01, 2024)
1-47416331-G-A		not specified • Congenital primary aphakia;Anterior segment dysgenesis • Cardiovascular phenotype	Benign/Likely benign (Feb 03, 2025)
1-47416333-CATGG-C		Congenital primary aphakia • Congenital primary aphakia;Anterior segment dysgenesis	Pathogenic (Apr 10, 2024)
1-47416334-A-G		Cardiovascular phenotype • Congenital primary aphakia;Anterior segment dysgenesis	Uncertain significance (Sep 18, 2024)
1-47416337-G-C		Congenital primary aphakia;Anterior segment dysgenesis	Uncertain significance (Oct 04, 2021)
1-47416342-G-T		Cardiovascular phenotype	Likely benign (Nov 26, 2023)
1-47416343-C-T		Cardiovascular phenotype	Uncertain significance (Nov 26, 2023)

GnomAD

Source: gnomAD

dbNSFP

Source: dbNSFP