Seroatlas · Human Serome Atlas

DDX39B

Spliceosome RNA helicase DDX39B

Also known as: BAT1, D6S81E, DX39B_HUMAN, UAP56

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession
Q13838
Gene
DDX39B
Ensembl
ENSG00000198563
Chromosome
6
Canonical length
428 aa
Protein class
Enzymes, Plasma proteins, Predicted intracellular proteins, Transporters
Subcellular location
Nuclear speckles
Quaternary structure
Homodimer

OverviewNCBI Gene

This gene encodes a member of the DEAD box family of RNA-dependent ATPases that mediate ATP hydrolysis during pre-mRNA splicing. The encoded protein is an essential splicing factor required for association of U2 small nuclear ribonucleoprotein with pre-mRNA, and it also plays an important role in mRNA export from the nucleus to the cytoplasm. This gene belongs to a cluster of genes localized in the vicinity of the genes encoding tumor necrosis factor alpha and tumor necrosis factor beta. These genes are all within the human major histocompatibility complex class III region. Mutations in this gene may be associated with rheumatoid arthritis. Alternative splicing results in multiple transcript variants. Related pseudogenes have been identified on both chromosomes 6 and 11. Read-through transcription also occurs between this gene and the upstream ATP6V1G2 (ATPase, H+ transporting, lysosomal 13kDa, V1 subunit G2) gene. [provided by RefSeq, Feb 2011]

Canonical amino-acid sequenceUniProt

428 residues, UniProt reviewed canonical sequence.

>Q13838|DDX39B
     1  MAENDVDNEL LDYEDDEVET AAGGDGAEAP AKKDVKGSYV SIHSSGFRDF LLKPELLRAI
    61  VDCGFEHPSE VQHECIPQAI LGMDVLCQAK SGMGKTAVFV LATLQQLEPV TGQVSVLVMC
   121  HTRELAFQIS KEYERFSKYM PNVKVAVFFG GLSIKKDEEV LKKNCPHIVV GTPGRILALA
   181  RNKSLNLKHI KHFILDECDK MLEQLDMRRD VQEIFRMTPH EKQVMMFSAT LSKEIRPVCR
   241  KFMQDPMEIF VDDETKLTLH GLQQYYVKLK DNEKNRKLFD LLDVLEFNQV VIFVKSVQRC
   301  IALAQLLVEQ NFPAIAIHRG MPQEERLSRY QQFKDFQRRI LVATNLFGRG MDIERVNIAF
   361  NYDMPEDSDT YLHRVARAGR FGTKGLAITF VSDENDAKIL NDVQDRFEVN ISELPDEIDI
   421  SSYIEQTR

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against DDX39B can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability
Intracellular
Secreted
No
Transmembrane segments
0
Mean surface accessibility (rSASA)
0.28
Highest tissue expression
177 nTPM

Expression across tissuesHPA

Tissue

  • ovary: 177 nTPM
  • spleen: 173 nTPM
  • cervix: 162 nTPM
  • cerebellum: 157 nTPM
  • pancreas: 156 nTPM
  • skeletal muscle: 155 nTPM

Single-cell type

  • choroid plexus epithelial cells: 87 nCPM
  • astrocytes: 85 nCPM
  • oligodendrocyte progenitor cells: 85 nCPM
  • bergmann glia: 82 nCPM
  • microglia: 79 nCPM
  • oligodendrocytes: 71 nCPM

Immune cell

  • naive CD4 T-cell: 10 nTPM
  • myeloid DC: 9.2 nTPM
  • naive CD8 T-cell: 8.8 nTPM
  • plasmacytoid DC: 7.7 nTPM
  • intermediate monocyte: 7.5 nTPM
  • T-reg: 7.1 nTPM

Brain region

  • white matter: 15 nTPM
  • medulla oblongata: 14 nTPM
  • spinal cord: 12 nTPM
  • cerebellum: 10 nTPM
  • midbrain: 10 nTPM
  • pons: 10 nTPM

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance)
0.22
gnomAD pLI
1
gnomAD missense Z
4.56
DepMap mean gene effect
-0.75
DepMap dependency class
common

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 6% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of DDX39B in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads DDX39B as an antibody target. Whether an autoantibody or antibody against DDX39B could matter depends on whether native DDX39B is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

DDX39B is annotated as predominantly intracellular. Intracellular proteins are common autoantibody markers, becoming visible to the immune system after cell injury or altered processing, but are usually markers of disease rather than direct drivers.

Annotation status

The present source text does not explicitly label DDX39B as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/DDX39B. Study-independent annotations aggregated from UniProt, Human Protein Atlas, PubMed, IEDB, Pfam, InterPro, Gene Ontology, AlphaFold, gnomAD, DepMap, ClinVar, TCGA. Catalog release seroatlas-reviewed-human-uniprot-20260313.

Seroatlas is the reference for exploring autoantibody and antibody serology at the human-protein level: the autoreactome and human serome, multiplex serology (HuProt, HuScan, VirScan, PhIP-Seq).

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