IGLL1
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Also known as IGVPBIGL514.1CD179B
Summary
IGLL1 (immunoglobulin lambda like polypeptide 1, HGNC:5870) is a protein-coding gene on chromosome 22q11.23, encoding Immunoglobulin lambda-like polypeptide 1 (P15814). Critical for B-cell development.
The preB cell receptor is found on the surface of proB and preB cells, where it is involved in transduction of signals for cellular proliferation, differentiation from the proB cell to the preB cell stage, allelic exclusion at the Ig heavy chain gene locus, and promotion of Ig light chain gene rearrangements. The preB cell receptor is composed of a membrane-bound Ig mu heavy chain in association with a heterodimeric surrogate light chain. This gene encodes one of the surrogate light chain subunits and is a member of the immunoglobulin gene superfamily. This gene does not undergo rearrangement. Mutations in this gene can result in B cell deficiency and agammaglobulinemia, an autosomal recessive disease in which few or no gamma globulins or antibodies are made. Two transcript variants encoding different isoforms have been found for this gene.
Source: NCBI Gene 3543 — RefSeq curated summary.
At a glance
- Gene–disease (curated): agammaglobulinemia 2, autosomal recessive (Strong, GenCC) — +1 more curated relationship
- GWAS associations: 5
- Clinical variants (ClinVar): 271 total
- Phenotypes (HPO): 38
- Dosage sensitivity (ClinGen): haploinsufficiency autosomal recessive, triplosensitivity no evidence
- MANE Select transcript:
NM_020070
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:5870 |
| Approved symbol | IGLL1 |
| Name | immunoglobulin lambda like polypeptide 1 |
| Location | 22q11.23 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | IGVPB, IGL5, 14.1, CD179B |
| Ensembl gene | ENSG00000128322 |
| Ensembl biotype | protein_coding |
| OMIM | 146770 |
| Entrez | 3543 |
Gene structure
Transcript identifiers
Ensembl transcripts: 3 — 3 protein_coding
ENST00000249053, ENST00000330377, ENST00000438703
RefSeq mRNA: 3 — MANE Select: NM_020070
NM_001369906, NM_020070, NM_152855
CCDS: CCDS13809, CCDS13810
Canonical transcript exons
ENST00000330377 — 3 exons
| Exon | Start | End |
|---|---|---|
| ENSE00000879461 | 23574967 | 23575082 |
| ENSE00001313083 | 23579985 | 23580290 |
| ENSE00003586626 | 23573125 | 23573585 |
Expression profiles
Bgee: expression breadth ubiquitous, 112 present calls, max score 91.67.
FANTOM5 (CAGE): breadth tissue_specific, TPM avg 13.5294 / max 4710.0035, expressed in 67 samples.
FANTOM5 promoters (7 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 193316 | 7.6297 | 54 |
| 193315 | 3.7384 | 45 |
| 193317 | 1.1518 | 34 |
| 193314 | 0.6265 | 23 |
| 193313 | 0.1544 | 10 |
| 193318 | 0.1459 | 20 |
| 209418 | 0.0827 | 15 |
Top tissues by expression
256 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| bone marrow | UBERON:0002371 | 91.67 | gold quality |
| bone marrow cell | CL:0002092 | 87.94 | gold quality |
| male germ line stem cell (sensu Vertebrata) in testis | CL:0000089 ∩ UBERON:0000473 | 85.88 | gold quality |
| left testis | UBERON:0004533 | 84.90 | gold quality |
| right testis | UBERON:0004534 | 83.75 | gold quality |
| testis | UBERON:0000473 | 81.77 | gold quality |
| trabecular bone tissue | UBERON:0002483 | 81.64 | gold quality |
| tendon of biceps brachii | UBERON:0008188 | 72.79 | gold quality |
| skeletal muscle tissue of biceps brachii | UBERON:0004502 | 70.81 | gold quality |
| thymus | UBERON:0002370 | 68.82 | silver quality |
| buccal mucosa cell | CL:0002336 | 66.16 | gold quality |
| gluteal muscle | UBERON:0002000 | 65.61 | gold quality |
| skeletal muscle tissue of rectus abdominis | UBERON:0004511 | 64.92 | gold quality |
| vena cava | UBERON:0004087 | 63.63 | gold quality |
| male germ cell | CL:0000015 | 63.52 | gold quality |
| triceps brachii | UBERON:0001509 | 62.91 | gold quality |
| sperm | CL:0000019 | 62.57 | gold quality |
| monocyte | CL:0000576 | 62.53 | gold quality |
| mononuclear cell | CL:0000842 | 62.41 | gold quality |
| biceps brachii | UBERON:0001507 | 62.41 | gold quality |
| leukocyte | CL:0000738 | 62.12 | gold quality |
| adult organism | UBERON:0007023 | 61.24 | gold quality |
| tongue squamous epithelium | UBERON:0006919 | 60.69 | gold quality |
| endothelial cell | CL:0000115 | 60.11 | gold quality |
| jejunal mucosa | UBERON:0000399 | 57.83 | gold quality |
| oral cavity | UBERON:0000167 | 57.70 | gold quality |
| lymph node | UBERON:0000029 | 57.49 | gold quality |
| myocardium | UBERON:0002349 | 57.28 | gold quality |
| gingiva | UBERON:0001828 | 55.78 | gold quality |
| quadriceps femoris | UBERON:0001377 | 55.60 | gold quality |
Single-cell (SCXA)
Detected in 15 experiment(s), a significant marker in 15.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-HCAD-4 | yes | 3905.92 |
| E-CURD-112 | yes | 3411.65 |
| E-MTAB-7407 | yes | 3193.07 |
| E-MTAB-9067 | yes | 3102.31 |
| E-MTAB-10432 | yes | 2497.42 |
| E-CURD-79 | yes | 1811.15 |
| E-MTAB-8884 | yes | 1472.08 |
| E-GEOD-100618 | yes | 1214.98 |
| E-ANND-5 | yes | 704.07 |
| E-GEOD-76312 | yes | 686.83 |
| E-HCAD-6 | yes | 72.25 |
| E-HCAD-10 | yes | 15.27 |
| E-MTAB-10042 | yes | 11.67 |
| E-CURD-122 | yes | 7.18 |
| E-ANND-3 | yes | 7.06 |
Regulation
Is transcription factor: no
Upstream regulators (CollecTRI, top): EBF1, IKZF1, IKZF3, MYB, PAX5, PREB, RUNX1, SOX4, SSRP1, TCF3
miRNA regulators (miRDB)
10 targeting IGLL1, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):
| miRNA | Max score | Avg score | miRNA target_count |
|---|---|---|---|
| HSA-MIR-4492 | 99.87 | 68.25 | 3611 |
| HSA-MIR-762 | 99.58 | 66.61 | 1994 |
| HSA-MIR-4441 | 99.49 | 66.56 | 3216 |
| HSA-MIR-4498 | 99.47 | 67.42 | 2360 |
| HSA-MIR-5001-5P | 99.05 | 66.76 | 1972 |
| HSA-MIR-4270 | 99.02 | 66.26 | 1987 |
| HSA-MIR-6754-5P | 98.60 | 65.54 | 1627 |
| HSA-MIR-563 | 96.26 | 66.13 | 450 |
| HSA-MIR-380-5P | 95.68 | 67.32 | 512 |
| HSA-MIR-503-3P | 92.89 | 66.09 | 537 |
Functional genomics
ClinGen dosage: haploinsufficiency 30 (autosomal recessive), triplosensitivity 0 (no evidence). ClinGen Gene Dosage Map
Literature-anchored findings (GeneRIF, showing 3)
- Hhydrophobic residues from the lambda5-UR is crucial for the interaction with GAL1 and for pre-BCR clustering. (PMID:23124203)
- in autosomal recessive agammaglobulinemia a homozygous missense mutation at codon 142 (CCG>with CTG) resulting in a Pro>Leu substitution was identified in exon 3 of the IGLL1 gene; 2 additional silent homozygous substitutions were identified at codons 131 (T>C) and 140 (T>C); sequencing also revealed 2 homozygous single-nucleotide polymorphisms in the noncoding region of exon 3 (PMID:27576013)
- Irrespective of subtype, Acute Lymphoblastic Leukemia with high levels of IGHM, IGLL1 and VPREB1 are arrested at the pre-B stage and correlate with good prognosis in high-risk pediatric B-cell precursor acute lymphoblastic leukemia. (PMID:27611867)
Cross-species orthologs
8 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| mus_musculus | Iglc2 | ENSMUSG00000076937 |
| mus_musculus | Iglc3 | ENSMUSG00000105547 |
| mus_musculus | Iglc1 | ENSMUSG00000105906 |
| mus_musculus | Iglc4 | ENSMUSG00000106039 |
| rattus_norvegicus | Iglc1 | ENSRNOG00000058590 |
| rattus_norvegicus | ENSRNOG00000077205 | |
| rattus_norvegicus | ENSRNOG00000079313 | |
| rattus_norvegicus | ENSRNOG00000086508 |
Paralogs (82): IGHV1OR15-9 (ENSG00000188403), IGKC (ENSG00000211592), IGLC1 (ENSG00000211675), IGLC2 (ENSG00000211677), IGLC3 (ENSG00000211679), IGLC7 (ENSG00000211685), TRDC (ENSG00000211829), IGHA2 (ENSG00000211890), IGHE (ENSG00000211891), IGHG4 (ENSG00000211892), IGHG2 (ENSG00000211893), IGHA1 (ENSG00000211895), IGHG1 (ENSG00000211896), IGHG3 (ENSG00000211897), IGHD (ENSG00000211898), IGHM (ENSG00000211899), IGHV6-1 (ENSG00000211933), IGHV1-2 (ENSG00000211934), IGHV1-3 (ENSG00000211935), IGHV2-5 (ENSG00000211937), IGHV3-7 (ENSG00000211938), IGHV3-11 (ENSG00000211941), IGHV3-13 (ENSG00000211942), IGHV3-15 (ENSG00000211943), IGHV3-16 (ENSG00000211944), IGHV1-18 (ENSG00000211945), IGHV3-20 (ENSG00000211946), IGHV3-21 (ENSG00000211947), IGHV3-23 (ENSG00000211949), IGHV1-24 (ENSG00000211950), IGHV2-26 (ENSG00000211951), IGHV4-28 (ENSG00000211952), IGHV3-33 (ENSG00000211955), IGHV4-34 (ENSG00000211956), IGHV3-35 (ENSG00000211957), IGHV3-38 (ENSG00000211958), IGHV4-39 (ENSG00000211959), IGHV1-45 (ENSG00000211961), IGHV1-46 (ENSG00000211962), IGHV3-48 (ENSG00000211964)
Protein
Protein identifiers
Immunoglobulin lambda-like polypeptide 1 — P15814 (reviewed: P15814)
Alternative names: CD179 antigen-like family member B, Ig lambda-5, Immunoglobulin omega polypeptide, Immunoglobulin-related protein 14.1
All UniProt accessions (2): P15814, C9JEE0
UniProt curated annotations — full annotation on UniProt →
Function. Critical for B-cell development.
Subunit / interactions. Associates non-covalently with VPREB1. Interacts with SYNV1/HRD1 (via N-terminus); this interaction leads to increased IGLL1 ubiquitination and degradation in pre-B cells, possibly through a lysosomal, not proteasomal, pathway.
Subcellular location. Endoplasmic reticulum. Secreted.
Tissue specificity. Expressed only in pre-B-cells and a special B-cell line (which is surface Ig negative).
Disease relevance. Agammaglobulinemia 2, autosomal recessive (AGM2) [MIM:613500] A primary immunodeficiency characterized by profoundly low or absent serum antibodies and low or absent circulating B cells due to an early block of B-cell development. Affected individuals develop severe infections in the first years of life. The disease is caused by variants affecting the gene represented in this entry.
Isoforms (2)
| UniProt ID | Names | Canonical? |
|---|---|---|
| P15814-1 | 1 | yes |
| P15814-2 | 2 |
RefSeq proteins (3): NP_001356835, NP_064455, NP_690594 (=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR003006 | Ig/MHC_CS | Conserved_site |
| IPR003597 | Ig_C1-set | Domain |
| IPR007110 | Ig-like_dom | Domain |
| IPR013783 | Ig-like_fold | Homologous_superfamily |
| IPR036179 | Ig-like_dom_sf | Homologous_superfamily |
| IPR050160 | MHC/Immunoglobulin | Family |
Pfam: PF07654
UniProt features (24 total): strand 8, helix 4, turn 2, region of interest 2, disulfide bond 2, sequence variant 2, signal peptide 1, chain 1, domain 1, splice variant 1
Structure
Experimental structures (PDB)
3 structures.
| PDB | Method | Resolution (Å) |
|---|---|---|
| 2H3N | X-RAY DIFFRACTION | 2.3 |
| 2H32 | X-RAY DIFFRACTION | 2.7 |
| 2LKQ | SOLUTION NMR |
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-P15814-F1 | 75.19 | 0.53 |
Antibody-complex structures (SAbDab): 2 — 2H32, 2H3N
Functional residue map
Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.
Disulfide bonds (2): 135–194, 212
Function
Pathways and Gene Ontology
Reactome pathways
1 pathways
| ID | Pathway |
|---|---|
| R-HSA-202733 | Cell surface interactions at the vascular wall |
MSigDB gene sets: 213 (showing top):
MODULE_478, GOBP_LEUKOCYTE_MEDIATED_IMMUNITY, GOBP_B_CELL_MEDIATED_IMMUNITY, MODULE_75, GOBP_LYMPHOCYTE_MEDIATED_IMMUNITY, TAKEDA_TARGETS_OF_NUP98_HOXA9_FUSION_10D_UP, GOBP_ADAPTIVE_IMMUNE_RESPONSE, GOBP_IMMUNE_EFFECTOR_PROCESS, JAATINEN_HEMATOPOIETIC_STEM_CELL_UP, MCCABE_HOXC6_TARGETS_CANCER_UP, MODULE_46, REACTOME_CELL_SURFACE_INTERACTIONS_AT_THE_VASCULAR_WALL, GOBP_ADAPTIVE_IMMUNE_RESPONSE_BASED_ON_SOMATIC_RECOMBINATION_OF_IMMUNE_RECEPTORS_BUILT_FROM_IMMUNOGLOBULIN_SUPERFAMILY_DOMAINS, WILCOX_RESPONSE_TO_PROGESTERONE_DN, TAKEDA_TARGETS_OF_NUP98_HOXA9_FUSION_8D_UP
GO Biological Process (2): immune response (GO:0006955), immunoglobulin mediated immune response (GO:0016064)
GO Molecular Function (2): antigen binding (GO:0003823), protein binding (GO:0005515)
GO Cellular Component (4): extracellular region (GO:0005576), endoplasmic reticulum (GO:0005783), membrane (GO:0016020), IgG immunoglobulin complex (GO:0071735)
Reactome top-level categories
Rollup of top-1 pathways:
| Category | Pathways |
|---|---|
| Hemostasis | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| binding | 2 |
| cellular anatomical structure | 2 |
| immune system process | 1 |
| response to stimulus | 1 |
| B cell mediated immunity | 1 |
| cytoplasm | 1 |
| endomembrane system | 1 |
| intracellular membrane-bounded organelle | 1 |
| immunoglobulin complex | 1 |
Protein interactions and networks
STRING
1318 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| IGLL1 | VPREB1 | P12018 | 999 |
| IGLL1 | CD79A | P11912 | 992 |
| IGLL1 | CD79B | P40259 | 991 |
| IGLL1 | IGHV4-38-2 | P0DP08 | 935 |
| IGLL1 | VPREB3 | Q9UKI3 | 890 |
| IGLL1 | PGM3 | O95394 | 879 |
| IGLL1 | BLNK | Q8WV28 | 815 |
| IGLL1 | RAG1 | P15918 | 749 |
| IGLL1 | RAG2 | P55895 | 737 |
| IGLL1 | LRRC8A | Q8IWT6 | 733 |
| IGLL1 | BTK | Q06187 | 724 |
| IGLL1 | CD19 | P15391 | 698 |
| IGLL1 | EBF1 | Q9UH73 | 651 |
| IGLL1 | JCHAIN | P01591 | 647 |
| IGLL1 | DNTT | P04053 | 642 |
IntAct
18 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| CD9 | ADAM10 | psi-mi:“MI:0914”(association) | 0.750 |
| IGLL1 | FAM25C | psi-mi:“MI:0915”(physical association) | 0.560 |
| IGLL1 | UBQLN2 | psi-mi:“MI:0915”(physical association) | 0.560 |
| FAM25C | IGLL1 | psi-mi:“MI:0915”(physical association) | 0.560 |
| IGLL5 | IGLC7 | psi-mi:“MI:0914”(association) | 0.530 |
| IGLL1 | psi-mi:“MI:0915”(physical association) | 0.510 | |
| IGLL1 | psi-mi:“MI:0915”(physical association) | 0.510 | |
| IGLL1 | psi-mi:“MI:0915”(physical association) | 0.370 | |
| IGLL1 | psi-mi:“MI:0915”(physical association) | 0.370 | |
| IGHG1 | PDPK1 | psi-mi:“MI:0914”(association) | 0.350 |
| IGLL5 | POTEF | psi-mi:“MI:0914”(association) | 0.350 |
| GPC3 | PXDNL | psi-mi:“MI:0914”(association) | 0.350 |
| MME | HLA-A | psi-mi:“MI:0914”(association) | 0.350 |
| IGLL1 | UBQLN2 | psi-mi:“MI:0915”(physical association) | 0.000 |
BioGRID (13): IGLL1 (Affinity Capture-MS), IGLL1 (Two-hybrid), IGLL1 (Affinity Capture-MS), IGLL1 (Affinity Capture-MS), UBQLN2 (Two-hybrid), FAM25A (Two-hybrid), FAM25G (Two-hybrid), FAM25C (Two-hybrid), IGLL1 (Affinity Capture-MS), IGLL1 (Affinity Capture-MS), IGLL1 (Co-fractionation), IGLL1 (Affinity Capture-RNA), IGLL1 (Two-hybrid)
ESM2 similar proteins: A4D1S0, A4K2S4, A6NMD0, B9A064, F8WCM5, H7C350, O00220, O14931, O15533, O70146, O73895, O75298, O76081, P01854, P01883, P14138, P15692, P15814, P16382, P20764, P24394, P49763, P61484, P83743, Q00731, Q0VCS0, Q15569, Q3UM83, Q5R8H1, Q5RFR2, Q5TJE4, Q63257, Q63572, Q68D85, Q6P050, Q6PZD2, Q6WG24, Q7TQM3, Q863Z5, Q8MJ02
Diamond homologs: A0A0A0MT76, B9A064, P15814, A0A5B9, A0M8Q6, P01834, P01835, P01836, P01837, P01838, P01839, P01840, P01841, P01843, P01844, P01845, P01846, P01847, P01850, P01851, P01852, P01854, P01855, P01857, P01859, P01860, P01861, P01862, P01863, P01865, P01867, P01868, P01869, P01871, P01872, P01874, P01921, P03984, P03987, P03988
SIGNOR signaling
0 interactions.
Disease & clinical
Clinical variants and AI predictions
ClinVar
271 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 0 |
| Likely pathogenic | 0 |
| Uncertain significance | 153 |
| Likely benign | 76 |
| Benign | 21 |
Top pathogenic / likely-pathogenic (0)
SpliceAI
254 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 22:23574965:A:AC | donor_gain | 1.0000 |
| 22:23574966:C:CC | donor_gain | 1.0000 |
| 22:23573582:TGAC:T | acceptor_gain | 0.9900 |
| 22:23573585:CCT:C | acceptor_loss | 0.9900 |
| 22:23573586:C:CA | acceptor_loss | 0.9900 |
| 22:23573587:T:A | acceptor_loss | 0.9900 |
| 22:23579979:CCTTA:C | donor_loss | 0.9900 |
| 22:23579980:CTTA:C | donor_loss | 0.9900 |
| 22:23579981:TTACC:T | donor_loss | 0.9900 |
| 22:23579982:TACCT:T | donor_loss | 0.9900 |
| 22:23579983:A:C | donor_loss | 0.9900 |
| 22:23579984:C:T | donor_loss | 0.9900 |
| 22:23573581:CTGAC:C | acceptor_gain | 0.9800 |
| 22:23573586:C:CC | acceptor_gain | 0.9800 |
| 22:23573588:G:C | acceptor_gain | 0.9800 |
| 22:23573588:G:GC | acceptor_gain | 0.9800 |
| 22:23573595:C:CT | acceptor_gain | 0.9800 |
| 22:23579987:G:A | donor_gain | 0.9800 |
| 22:23573583:GAC:G | acceptor_gain | 0.9700 |
| 22:23573590:G:C | acceptor_gain | 0.9700 |
| 22:23573596:A:T | acceptor_gain | 0.9700 |
| 22:23574959:CCACT:C | donor_loss | 0.9700 |
| 22:23574960:CACTT:C | donor_loss | 0.9700 |
| 22:23574961:ACTT:A | donor_loss | 0.9700 |
| 22:23574962:CTTAC:C | donor_loss | 0.9700 |
| 22:23574963:TTA:T | donor_loss | 0.9700 |
| 22:23574964:TACT:T | donor_loss | 0.9700 |
| 22:23574965:ACTT:A | donor_loss | 0.9700 |
| 22:23573583:GACC:G | acceptor_gain | 0.9600 |
| 22:23573584:AC:A | acceptor_gain | 0.9600 |
AlphaMissense
1362 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 22:23573461:C:A | W149C | 0.982 |
| 22:23573461:C:G | W149C | 0.982 |
| 22:23573488:A:C | F140L | 0.981 |
| 22:23573488:A:T | F140L | 0.981 |
| 22:23573490:A:G | F140L | 0.981 |
| 22:23573350:C:A | W186C | 0.967 |
| 22:23573350:C:G | W186C | 0.967 |
| 22:23573463:A:G | W149R | 0.967 |
| 22:23573463:A:T | W149R | 0.967 |
| 22:23573504:C:G | C135S | 0.960 |
| 22:23573505:A:T | C135S | 0.960 |
| 22:23573377:G:C | S177R | 0.949 |
| 22:23573377:G:T | S177R | 0.949 |
| 22:23573379:T:G | S177R | 0.949 |
| 22:23573505:A:G | C135R | 0.949 |
| 22:23573327:C:G | C194S | 0.944 |
| 22:23573328:A:T | C194S | 0.944 |
| 22:23574995:A:C | F98L | 0.939 |
| 22:23574995:A:T | F98L | 0.939 |
| 22:23574997:A:G | F98L | 0.939 |
| 22:23573380:G:C | S176R | 0.931 |
| 22:23573380:G:T | S176R | 0.931 |
| 22:23573382:T:G | S176R | 0.931 |
| 22:23573352:A:G | W186R | 0.928 |
| 22:23573352:A:T | W186R | 0.928 |
| 22:23573551:G:C | F119L | 0.927 |
| 22:23573551:G:T | F119L | 0.927 |
| 22:23573553:A:G | F119L | 0.927 |
| 22:23573327:C:T | C194Y | 0.909 |
| 22:23573328:A:G | C194R | 0.909 |
dbSNP variants (sampled 300 via entrez): RS1000046947 (22:23576192 C>T), RS1000453116 (22:23582139 C>G,T), RS1000508939 (22:23581194 C>A), RS1001402001 (22:23580787 A>G), RS1001454428 (22:23581050 A>G), RS1001566096 (22:23580392 C>A), RS1001604188 (22:23577753 C>T), RS1002400303 (22:23579718 G>A), RS1002776535 (22:23575165 G>T), RS1003327368 (22:23579061 C>T), RS1004808166 (22:23574788 T>TG), RS1004956328 (22:23579925 C>A), RS1004968479 (22:23579899 A>C,G), RS1005417044 (22:23580118 G>A,T), RS1005472970 (22:23577125 G>C,T)
Disease associations
OMIM: gene MIM:146770 | disease phenotypes: MIM:613500
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| agammaglobulinemia 2, autosomal recessive | Strong | Autosomal recessive |
| autosomal agammaglobulinemia | Supportive | Autosomal dominant |
ClinGen Gene-Disease Validity (1)
Expert-panel classifications — Definitive > Strong > Moderate > Limited > Disputed > Refuted.
| Disease | Classification | Inheritance |
|---|---|---|
| agammaglobulinemia 2, autosomal recessive | Moderate | AR |
Mondo (2): agammaglobulinemia 2, autosomal recessive (MONDO:0013287), autosomal agammaglobulinemia (MONDO:0011096)
Orphanet (0):
HPO phenotypes
38 total (30 of 38 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000007 | Autosomal recessive inheritance |
| HP:0000218 | High palate |
| HP:0000246 | Sinusitis |
| HP:0000286 | Epicanthus |
| HP:0000316 | Hypertelorism |
| HP:0000377 | Abnormal pinna morphology |
| HP:0000389 | Chronic otitis media |
| HP:0000403 | Recurrent otitis media |
| HP:0000509 | Conjunctivitis |
| HP:0000988 | Skin rash |
| HP:0001287 | Meningitis |
| HP:0001369 | Arthritis |
| HP:0001508 | Failure to thrive |
| HP:0001581 | Recurrent skin infections |
| HP:0001875 | Decreased total neutrophil count |
| HP:0001944 | Dehydration |
| HP:0001945 | Fever |
| HP:0002014 | Diarrhea |
| HP:0002024 | Malabsorption |
| HP:0002110 | Bronchiectasis |
| HP:0002205 | Recurrent respiratory infections |
| HP:0002718 | Recurrent bacterial infections |
| HP:0002719 | Recurrent infections |
| HP:0002720 | Decreased circulating IgA concentration |
| HP:0002721 | Immunodeficiency |
| HP:0002754 | Osteomyelitis |
| HP:0002843 | Abnormal T cell morphology |
| HP:0002850 | Decreased circulating total IgM |
| HP:0003593 | Infantile onset |
| HP:0004432 | Agammaglobulinemia |
GWAS associations
5 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST000175_34 | Height | 6.000000e-06 |
| GCST001019_2 | Migraine | 8.000000e-06 |
| GCST002504_3 | Peripheral artery disease | 6.000000e-06 |
| GCST006585_916 | Blood protein levels | 4.000000e-25 |
| GCST010724_28 | HOMA-B (corrected for HOMA-IR) | 3.000000e-07 |
EFO canonical traits (1, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0004469 | HOMA-B |
MeSH disease descriptors (1)
| Descriptor | Name | Tree numbers |
|---|---|---|
| C538056 | Agammaglobulinemia, non-Bruton type (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (VIP=true, CPIC=false)
CTD chemical–gene interactions
17 total (human), top 17 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Benzo(a)pyrene | increases expression, affects methylation | 2 |
| Valproic Acid | increases expression, increases methylation, affects cotreatment | 2 |
| Zinc | affects expression, affects cotreatment, increases expression | 2 |
| sulforaphane | decreases expression | 1 |
| butyraldehyde | decreases expression | 1 |
| perfluorooctanoic acid | decreases expression | 1 |
| aflatoxin B2 | increases methylation | 1 |
| Bortezomib | decreases expression | 1 |
| Air Pollutants | increases abundance, increases expression | 1 |
| Air Pollutants, Occupational | affects expression | 1 |
| Cisplatin | decreases expression | 1 |
| Curcumin | decreases expression | 1 |
| Diethylhexyl Phthalate | decreases expression | 1 |
| Hydralazine | affects cotreatment, increases expression | 1 |
| Progesterone | decreases expression | 1 |
| Tetradecanoylphorbol Acetate | affects cotreatment, affects expression | 1 |
| Particulate Matter | increases abundance, increases expression | 1 |
Clinical trials (associated diseases)
0 trials via MONDO — disease-level, not drug-specific.
Related Atlas pages
- Associated diseases: agammaglobulinemia 2, autosomal recessive, autosomal agammaglobulinemia
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): agammaglobulinemia 2, autosomal recessive, autosomal agammaglobulinemia, migraine disorder, peripheral arterial disease