DDX19B

DEAD-box helicase 19B, the group of DEAD-box helicases

Basic information

Region (hg38): 16:70289663-70335305

Previous symbols: [ "DDX19" ]

Links

ENSG00000157349 ∙ NCBI:11269 ∙ OMIM:605812 ∙ HGNC:2742 ∙ Uniprot:Q9UMR2 ∙ AlphaFold ∙ 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 DDX19B gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the DDX19B 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			16			16
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region				1		1
non coding						0
Total	0	0	16	0	0

Variants in DDX19B

This is a list of pathogenic ClinVar variants found in the DDX19B region.

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

Position	Type	Phenotype	Significance	ClinVar
16-70312628-A-T		not specified	Uncertain significance (Apr 19, 2023)
16-70314936-G-C		not specified	Uncertain significance (Apr 22, 2022)
16-70317539-C-T		not specified	Uncertain significance (Feb 07, 2023)
16-70317554-C-A		not specified	Uncertain significance (Dec 03, 2024)
16-70324585-C-G		not specified	Likely benign (May 23, 2023)
16-70324659-A-G		not specified	Uncertain significance (Feb 12, 2024)
16-70325638-G-A		not specified	Uncertain significance (Dec 19, 2023)
16-70325661-C-G		not specified	Uncertain significance (Feb 07, 2023)
16-70325665-C-T		not specified	Uncertain significance (Aug 05, 2024)
16-70329294-G-A		not specified	Uncertain significance (Apr 04, 2024)
16-70329381-C-A		not specified	Uncertain significance (Nov 10, 2022)
16-70329944-A-T		not specified	Uncertain significance (Jun 22, 2024)
16-70329995-G-A		not specified	Uncertain significance (Aug 13, 2021)
16-70330030-G-A		not specified	Uncertain significance (Jun 06, 2023)
16-70331782-C-G		not specified	Uncertain significance (Dec 07, 2024)
16-70331789-G-A		not specified	Uncertain significance (May 24, 2023)
16-70331837-G-A		not specified	Uncertain significance (Aug 08, 2022)
16-70331846-A-G		not specified	Uncertain significance (Feb 23, 2023)
16-70331849-A-G		not specified	Uncertain significance (Apr 07, 2023)
16-70332979-G-A		not specified	Uncertain significance (Feb 10, 2022)
16-70333031-A-G		not specified	Uncertain significance (Jan 23, 2024)
16-70333558-C-A		not specified	Uncertain significance (Dec 30, 2023)
16-70333562-A-G		not specified	Uncertain significance (Apr 06, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
DDX19B	protein_coding	protein_coding	ENST00000288071	12	45621

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
1.56e-7	0.960	125720	0	26	125746	0.000103

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	2.22	168	271	0.620	0.0000150	3175
Missense in Polyphen		23	70.774	0.32498		835
Synonymous	0.712	91	100	0.909	0.00000564	899
Loss of Function	1.98	15	25.9	0.579	0.00000135	295

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000152	0.000152
Ashkenazi Jewish	0.00	0.00
East Asian	0.000109	0.000109
Finnish	0.00	0.00
European (Non-Finnish)	0.000124	0.000123
Middle Eastern	0.000109	0.000109
South Asian	0.000164	0.000163
Other	0.000329	0.000326

dbNSFP

Source: dbNSFP

• Function: FUNCTION: ATP-dependent RNA helicase involved in mRNA export from the nucleus. Rather than unwinding RNA duplexes, DDX19B functions as a remodeler of ribonucleoprotein particles, whereby proteins bound to nuclear mRNA are dissociated and replaced by cytoplasmic mRNA binding proteins.

Recessive Scores

• pRec: 0.617

Intolerance Scores

• loftool: 0.749
• rvis_EVS: 0.04
• rvis_percentile_EVS: 56.92

Haploinsufficiency Scores

• pHI: 0.199
• hipred: Y
• hipred_score: 0.655
• ghis: 0.486

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: S
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.976

Gene Damage Prediction

	All	Recessive	Dominant
Mendelian	Medium	Medium	Medium
Primary Immunodeficiency	Medium	Medium	Medium
Cancer	Medium	Medium	Medium

Mouse Genome Informatics

• Gene name: Ddx19b

Gene ontology

• Biological process: mRNA export from nucleus
• Cellular component: nuclear pore;cytoplasm;membrane;nuclear membrane;extracellular exosome
• Molecular function: RNA binding;helicase activity;protein binding;ATP binding