HEATR3
geneOn this page
Also known as FLJ20718
Summary
HEATR3 (HEAT repeat containing 3, HGNC:26087) is a protein-coding gene on chromosome 16q12.1, encoding HEAT repeat-containing protein 3 (Q7Z4Q2). Plays a role in ribosome biogenesis and in nuclear import of the 60S ribosomal protein L5/large ribosomal subunit protein uL18 (RPL5). It is a selective cancer dependency (DepMap: 25.8% of cell lines).
The protein encoded by this gene plays a role in ribosomal protein transport and in the assembly of the 5S ribonucleoprotein particle (5S RNP). The encoded protein also may be involved in NOD2-mediated NF-kappaB signaling.
Source: NCBI Gene 55027 — RefSeq curated summary.
At a glance
- Gene–disease (curated): Diamond-Blackfan anemia 21 (Strong, GenCC) — +1 more curated relationship
- GWAS associations: 13
- Clinical variants (ClinVar): 112 total — 4 pathogenic
- Phenotypes (HPO): 89
- Cancer dependency (DepMap): dependent in 25.8% of screened cell lines
- MANE Select transcript:
NM_182922
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:26087 |
| Approved symbol | HEATR3 |
| Name | HEAT repeat containing 3 |
| Location | 16q12.1 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | FLJ20718 |
| Ensembl gene | ENSG00000155393 |
| Ensembl biotype | protein_coding |
| OMIM | 614951 |
| Entrez | 55027 |
Gene structure
Transcript identifiers
Ensembl transcripts: 19 — 7 retained_intron, 5 protein_coding, 4 protein_coding_CDS_not_defined, 3 nonsense_mediated_decay
ENST00000299192, ENST00000561525, ENST00000561819, ENST00000564942, ENST00000569324, ENST00000685571, ENST00000688981, ENST00000689598, ENST00000690683, ENST00000691120, ENST00000691270, ENST00000691604, ENST00000692328, ENST00000693174, ENST00000693352, ENST00000693599, ENST00000887923, ENST00000887924, ENST00000948334
RefSeq mRNA: 4 — MANE Select: NM_182922
NM_001329729, NM_001329730, NM_001329731, NM_182922
CCDS: CCDS10739
Canonical transcript exons
ENST00000299192 — 15 exons
| Exon | Start | End |
|---|---|---|
| ENSE00000683138 | 50100230 | 50100373 |
| ENSE00000683146 | 50102259 | 50102435 |
| ENSE00000945056 | 50094705 | 50094793 |
| ENSE00001020708 | 50070178 | 50070290 |
| ENSE00001020709 | 50072605 | 50072714 |
| ENSE00001100302 | 50066367 | 50066539 |
| ENSE00001142015 | 50078741 | 50079018 |
| ENSE00001142026 | 50075571 | 50075711 |
| ENSE00001550935 | 50104939 | 50107272 |
| ENSE00002612757 | 50065970 | 50066269 |
| ENSE00003465098 | 50084569 | 50084651 |
| ENSE00003466557 | 50083937 | 50084027 |
| ENSE00003514217 | 50068780 | 50068867 |
| ENSE00003530435 | 50086215 | 50086351 |
| ENSE00003607188 | 50084134 | 50084291 |
Expression profiles
Bgee: expression breadth ubiquitous, 248 present calls, max score 89.19.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 17.0627 / max 155.1186, expressed in 1808 samples.
FANTOM5 promoters (1 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 153977 | 17.0627 | 1808 |
Top tissues by expression
274 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| monocyte | CL:0000576 | 89.19 | gold quality |
| mononuclear cell | CL:0000842 | 88.97 | gold quality |
| leukocyte | CL:0000738 | 88.50 | gold quality |
| buccal mucosa cell | CL:0002336 | 87.70 | silver quality |
| granulocyte | CL:0000094 | 84.55 | gold quality |
| adrenal tissue | UBERON:0018303 | 83.72 | gold quality |
| gastrocnemius | UBERON:0001388 | 83.38 | gold quality |
| muscle of leg | UBERON:0001383 | 83.08 | gold quality |
| mucosa of sigmoid colon | UBERON:0004993 | 82.91 | gold quality |
| spleen | UBERON:0002106 | 82.39 | gold quality |
| cerebellar hemisphere | UBERON:0002245 | 82.26 | gold quality |
| cortical plate | UBERON:0005343 | 82.20 | gold quality |
| cerebellar cortex | UBERON:0002129 | 82.07 | gold quality |
| stromal cell of endometrium | CL:0002255 | 81.68 | gold quality |
| vermiform appendix | UBERON:0001154 | 81.56 | gold quality |
| rectum | UBERON:0001052 | 81.49 | gold quality |
| right hemisphere of cerebellum | UBERON:0014890 | 81.46 | gold quality |
| cerebellum | UBERON:0002037 | 81.24 | gold quality |
| colonic mucosa | UBERON:0000317 | 81.23 | gold quality |
| left adrenal gland cortex | UBERON:0035825 | 81.00 | gold quality |
| right adrenal gland cortex | UBERON:0035827 | 80.90 | gold quality |
| right adrenal gland | UBERON:0001233 | 80.89 | gold quality |
| left adrenal gland | UBERON:0001234 | 80.79 | gold quality |
| mucosa of transverse colon | UBERON:0004991 | 80.79 | gold quality |
| adrenal gland | UBERON:0002369 | 80.68 | gold quality |
| adrenal cortex | UBERON:0001235 | 80.16 | gold quality |
| skeletal muscle organ | UBERON:0014892 | 79.95 | gold quality |
| muscle organ | UBERON:0001630 | 79.94 | gold quality |
| blood | UBERON:0000178 | 79.91 | gold quality |
| body of pancreas | UBERON:0001150 | 79.63 | gold quality |
Single-cell (SCXA)
Detected in 1 experiment(s), a significant marker in 1.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-ANND-3 | yes | 4.62 |
Regulation
Is transcription factor: no
miRNA regulators (miRDB)
19 targeting HEATR3, 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-4262 | 100.00 | 73.26 | 3931 |
| HSA-MIR-181A-5P | 99.99 | 72.96 | 2995 |
| HSA-MIR-181B-5P | 99.99 | 72.97 | 2996 |
| HSA-MIR-181C-5P | 99.99 | 72.95 | 2996 |
| HSA-MIR-181D-5P | 99.99 | 73.04 | 2997 |
| HSA-MIR-150-5P | 99.99 | 66.69 | 1976 |
| HSA-MIR-3662 | 99.99 | 73.82 | 5684 |
| HSA-LET-7A-2-3P | 99.87 | 70.53 | 1921 |
| HSA-LET-7G-3P | 99.85 | 70.43 | 1929 |
| HSA-MIR-4713-5P | 99.78 | 67.80 | 1794 |
| HSA-MIR-3942-3P | 99.57 | 69.03 | 2854 |
| HSA-MIR-12131 | 99.48 | 68.72 | 1673 |
| HSA-MIR-1275 | 99.47 | 67.90 | 2749 |
| HSA-MIR-619-5P | 98.57 | 64.97 | 1988 |
| HSA-MIR-5585-3P | 98.25 | 67.41 | 941 |
| HSA-MIR-4665-5P | 97.91 | 67.69 | 1536 |
| HSA-MIR-630 | 97.50 | 66.38 | 921 |
| HSA-MIR-1227-3P | 97.36 | 66.94 | 834 |
| HSA-MIR-6879-3P | 93.93 | 64.00 | 759 |
Functional genomics
DepMap (CRISPR cell-line fitness): dependent in 25.8% of screened cell lines.
Literature-anchored findings (GeneRIF, showing 2)
- Data indicate that HEATR3 plays a positive role in NOD2-mediated NF-kappaB signaling. (PMID:23615072)
- HEATR3 variants impair nuclear import of uL18 (RPL5) and drive Diamond-Blackfan anemia. (PMID:35213692)
Cross-species orthologs
4 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | heatr3 | ENSDARG00000036076 |
| mus_musculus | Heatr3 | ENSMUSG00000031657 |
| rattus_norvegicus | Heatr3 | ENSRNOG00000015459 |
| drosophila_melanogaster | CG10286 | FBGN0037439 |
Protein
Protein identifiers
HEAT repeat-containing protein 3 — Q7Z4Q2 (reviewed: Q7Z4Q2)
Alternative names: Symportin Syo1
All UniProt accessions (5): Q7Z4Q2, A0A8I5KQT3, A0A8I5KR70, A0A8I5KVQ2, A0A8I5KWG8
UniProt curated annotations — full annotation on UniProt →
Function. Plays a role in ribosome biogenesis and in nuclear import of the 60S ribosomal protein L5/large ribosomal subunit protein uL18 (RPL5). Required for proper erythrocyte maturation.
Subunit / interactions. Component of a hexameric 5S RNP precursor complex, composed of 5S RNA, RRS1, RPF2/BXDC1, RPL5, RPL11 and HEATR3; this complex acts as a precursor for ribosome assembly.
Disease relevance. Diamond-Blackfan anemia 21 (DBA21) [MIM:620072] An autosomal recessive form of Diamond-Blackfan anemia, a congenital non-regenerative hypoplastic anemia that usually presents early in infancy. Diamond-Blackfan anemia is characterized by a moderate to severe macrocytic anemia, erythroblastopenia, and an increased risk of malignancy. 30 to 40% of Diamond-Blackfan anemia patients present with short stature and congenital anomalies, the most frequent being craniofacial (Pierre-Robin syndrome and cleft palate), thumb and urogenital anomalies. DBA21 patients manifest bone marrow failure, short stature, facial and acromelic dysmorphic features, and intellectual disability. The disease is caused by variants affecting the gene represented in this entry.
Similarity. Belongs to the nuclear import and ribosome assembly adapter family.
Isoforms (3)
| UniProt ID | Names | Canonical? |
|---|---|---|
| Q7Z4Q2-1 | 1 | yes |
| Q7Z4Q2-2 | 2 | |
| Q7Z4Q2-3 | 3 |
RefSeq proteins (4): NP_001316658, NP_001316659, NP_001316660, NP_891552* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR011989 | ARM-like | Homologous_superfamily |
| IPR016024 | ARM-type_fold | Homologous_superfamily |
| IPR052616 | SYO1-like | Family |
| IPR057990 | TPR_SYO1 | Domain |
Pfam: PF13513, PF25567
UniProt features (19 total): sequence variant 5, splice variant 3, modified residue 3, repeat 2, sequence conflict 2, compositionally biased region 2, chain 1, region of interest 1
Structure
Experimental structures (PDB)
0 structures.
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q7Z4Q2-F1 | 83.07 | 0.65 |
Functional residue map
Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.
Post-translational modifications (3): 15, 144, 340
Function
Pathways and Gene Ontology
Reactome pathways
0 pathways
MSigDB gene sets: 317 (showing top):
GOBP_MYELOID_CELL_DIFFERENTIATION, GOBP_RIBOSOME_BIOGENESIS, GOBP_MYELOID_CELL_HOMEOSTASIS, TGCGCANK_UNKNOWN, GOBP_MYELOID_CELL_DEVELOPMENT, GOBP_INTRACELLULAR_PROTEIN_TRANSPORT, SHEPARD_CRASH_AND_BURN_MUTANT_UP, GOBP_ERYTHROCYTE_HOMEOSTASIS, GOBP_ESTABLISHMENT_OF_PROTEIN_LOCALIZATION_TO_ORGANELLE, GOBP_NUCLEAR_TRANSPORT, GOBP_ANATOMICAL_STRUCTURE_MATURATION, GOBP_CELL_MATURATION, GOBP_ERYTHROCYTE_MATURATION, ZHOU_INFLAMMATORY_RESPONSE_LIVE_DN, TIEN_INTESTINE_PROBIOTICS_24HR_UP
GO Biological Process (4): protein import into nucleus (GO:0006606), ribosomal large subunit biogenesis (GO:0042273), erythrocyte maturation (GO:0043249), ribosome biogenesis (GO:0042254)
GO Molecular Function (1): obsolete unfolded protein binding (GO:0051082)
GO Cellular Component (0):
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| ribonucleoprotein complex biogenesis | 2 |
| intracellular protein transport | 1 |
| protein localization to nucleus | 1 |
| import into nucleus | 1 |
| establishment of protein localization to organelle | 1 |
| ribosome biogenesis | 1 |
| cell maturation | 1 |
| erythrocyte development | 1 |
Protein interactions and networks
STRING
1796 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| HEATR3 | RPL5 | P46777 | 889 |
| HEATR3 | RPL11 | P25121 | 820 |
| HEATR3 | GRWD1 | Q9BQ67 | 736 |
| HEATR3 | SSX1 | Q16384 | 653 |
| HEATR3 | TSR2 | Q969E8 | 611 |
| HEATR3 | RPF2 | Q9H7B2 | 609 |
| HEATR3 | SS18 | Q15532 | 593 |
| HEATR3 | RPL4 | P36578 | 561 |
| HEATR3 | RPL3 | P39023 | 540 |
| HEATR3 | CNEP1R1 | Q8N9A8 | 525 |
| HEATR3 | SSX4 | O60224 | 506 |
| HEATR3 | C16orf78 | Q8WTQ4 | 482 |
| HEATR3 | C14orf119 | Q9NWQ9 | 482 |
| HEATR3 | MDN1 | Q9NU22 | 470 |
| HEATR3 | PSMD4 | P55036 | 459 |
IntAct
164 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| HEATR3 | TMEM186 | psi-mi:“MI:0914”(association) | 0.730 |
| LNPEP | CANX | psi-mi:“MI:0914”(association) | 0.640 |
| B3GAT3 | GOLIM4 | psi-mi:“MI:0914”(association) | 0.640 |
| SCN2B | EXOC5 | psi-mi:“MI:0914”(association) | 0.640 |
| HTR2C | KLRG2 | psi-mi:“MI:0914”(association) | 0.530 |
| LRFN4 | RIMOC1 | psi-mi:“MI:0914”(association) | 0.530 |
| GYPB | TCAF2 | psi-mi:“MI:0914”(association) | 0.530 |
| EPHA1 | EXOC5 | psi-mi:“MI:0914”(association) | 0.530 |
| COMTD1 | IFRD1 | psi-mi:“MI:0914”(association) | 0.530 |
| PTGER3 | PIK3R2 | psi-mi:“MI:0914”(association) | 0.530 |
| FZD10 | NRP1 | psi-mi:“MI:0914”(association) | 0.530 |
| CD83 | BTAF1 | psi-mi:“MI:0914”(association) | 0.530 |
| LMAN2 | PLXNB2 | psi-mi:“MI:0914”(association) | 0.530 |
| TMEM171 | THAP12 | psi-mi:“MI:0914”(association) | 0.530 |
| TMEM186 | POTEE | psi-mi:“MI:0914”(association) | 0.530 |
| HEATR3 | psi-mi:“MI:0914”(association) | 0.530 | |
| EGFR | PEX19 | psi-mi:“MI:0914”(association) | 0.530 |
| CD70 | METTL15 | psi-mi:“MI:0914”(association) | 0.530 |
| CHRM3 | PLD2 | psi-mi:“MI:0914”(association) | 0.530 |
BioGRID (233): HEATR3 (Affinity Capture-MS), HEATR3 (Affinity Capture-MS), HEATR3 (Affinity Capture-MS), HEATR3 (Affinity Capture-MS), HEATR3 (Affinity Capture-MS), HEATR3 (Affinity Capture-MS), HEATR3 (Affinity Capture-MS), HEATR3 (Affinity Capture-MS), HEATR3 (Affinity Capture-MS), HEATR3 (Affinity Capture-MS), HEATR3 (Co-fractionation), HEATR3 (Affinity Capture-MS), HEATR3 (Affinity Capture-MS), HEATR3 (Affinity Capture-MS), HEATR3 (Affinity Capture-MS)
ESM2 similar proteins: A0A1I9LM04, A2WXU2, A4QP73, B0M1H3, B8AXB6, B9FM64, C8VP82, F4I3Z5, F4I9T0, F4IIM1, F4IP13, F4KEY9, O22161, P23923, P49965, Q01H90, Q0JBY9, Q0JJ01, Q10FT0, Q10PI9, Q17DK2, Q21986, Q294E0, Q2R1D5, Q2R224, Q32PZ3, Q5N829, Q5RAP0, Q5ZK92, Q66GN3, Q6DKK2, Q6Z690, Q75HA6, Q7X993, Q7XUR2, Q7Z4Q2, Q8BQM4, Q8H1U4, Q94CK3, Q99KD5
Diamond homologs: Q7Z4Q2, Q8BQM4
SIGNOR signaling
0 interactions.
Enriched among interaction partners
Reactome pathways and GO biological processes over-represented among this gene’s 190 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.
Reactome pathways:
| Pathway | Partners | Fold | FDR |
|---|---|---|---|
| Glycosaminoglycan-protein linkage region biosynthesis | 5 | 16.3× | 9e-03 |
GO biological processes:
| GO term | Partners | Fold | FDR |
|---|---|---|---|
| protein import into nucleus | 9 | 8.3× | 2e-03 |
Disease & clinical
Clinical variants and AI predictions
ClinVar
112 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 4 |
| Likely pathogenic | 0 |
| Uncertain significance | 78 |
| Likely benign | 9 |
| Benign | 2 |
Top pathogenic / likely-pathogenic (4)
| Variant ID | HGVS | Classification |
|---|---|---|
| 1300197 | NM_182922.4(HEATR3):c.400T>C (p.Cys134Arg) | Pathogenic |
| 1321318 | NM_182922.4(HEATR3):c.1337G>A (p.Cys446Tyr) | Pathogenic |
| 1334102 | NM_182922.4(HEATR3):c.399+1G>T | Pathogenic |
| 1334103 | NM_182922.4(HEATR3):c.719C>T (p.Pro240Leu) | Pathogenic |
SpliceAI
2673 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 16:50066267:AAGGT:A | donor_loss | 1.0000 |
| 16:50066268:AGGT:A | donor_loss | 1.0000 |
| 16:50066270:G:C | donor_loss | 1.0000 |
| 16:50066270:G:GG | donor_gain | 1.0000 |
| 16:50066271:T:G | donor_loss | 1.0000 |
| 16:50066363:GCAGC:G | acceptor_loss | 1.0000 |
| 16:50066364:CA:C | acceptor_loss | 1.0000 |
| 16:50066365:A:AG | acceptor_gain | 1.0000 |
| 16:50066365:A:C | acceptor_loss | 1.0000 |
| 16:50066366:G:GG | acceptor_gain | 1.0000 |
| 16:50066366:G:GT | acceptor_loss | 1.0000 |
| 16:50068865:GAG:G | donor_gain | 1.0000 |
| 16:50070176:A:AG | acceptor_gain | 1.0000 |
| 16:50070177:G:GG | acceptor_gain | 1.0000 |
| 16:50070177:GT:G | acceptor_gain | 1.0000 |
| 16:50070177:GTGTA:G | acceptor_gain | 1.0000 |
| 16:50075566:CGTA:C | acceptor_loss | 1.0000 |
| 16:50075568:TA:T | acceptor_loss | 1.0000 |
| 16:50075569:A:AG | acceptor_gain | 1.0000 |
| 16:50075569:A:AT | acceptor_loss | 1.0000 |
| 16:50075570:G:GT | acceptor_gain | 1.0000 |
| 16:50075570:GC:G | acceptor_gain | 1.0000 |
| 16:50075570:GCA:G | acceptor_gain | 1.0000 |
| 16:50075570:GCAT:G | acceptor_gain | 1.0000 |
| 16:50075570:GCATA:G | acceptor_gain | 1.0000 |
| 16:50075706:TAGC:T | donor_gain | 1.0000 |
| 16:50075707:AGCA:A | donor_gain | 1.0000 |
| 16:50075707:AGCAG:A | donor_loss | 1.0000 |
| 16:50075708:GCA:G | donor_gain | 1.0000 |
| 16:50075708:GCAGG:G | donor_loss | 1.0000 |
AlphaMissense
4477 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 16:50068787:A:C | S107R | 0.997 |
| 16:50068789:T:A | S107R | 0.997 |
| 16:50068789:T:G | S107R | 0.997 |
| 16:50102331:G:C | A606P | 0.995 |
| 16:50105017:T:C | F667L | 0.995 |
| 16:50105018:T:C | F667S | 0.995 |
| 16:50105019:T:A | F667L | 0.995 |
| 16:50105019:T:G | F667L | 0.995 |
| 16:50075576:T:C | C210R | 0.994 |
| 16:50066512:T:A | V95D | 0.992 |
| 16:50102335:T:C | L607P | 0.992 |
| 16:50102404:T:C | L630P | 0.992 |
| 16:50066391:C:A | R55S | 0.991 |
| 16:50094740:A:C | S516R | 0.991 |
| 16:50094742:T:A | S516R | 0.991 |
| 16:50094742:T:G | S516R | 0.991 |
| 16:50100330:G:A | G567D | 0.991 |
| 16:50102322:G:C | A603P | 0.991 |
| 16:50102346:T:C | F611L | 0.991 |
| 16:50102348:T:A | F611L | 0.991 |
| 16:50102348:T:G | F611L | 0.991 |
| 16:50066523:G:C | A99P | 0.990 |
| 16:50083979:G:C | A362P | 0.990 |
| 16:50102344:T:A | V610D | 0.990 |
| 16:50102347:T:C | F611S | 0.990 |
| 16:50105007:T:A | N663K | 0.990 |
| 16:50105007:T:G | N663K | 0.990 |
| 16:50070289:T:C | C171R | 0.989 |
| 16:50083995:T:C | L367P | 0.988 |
| 16:50105005:A:G | N663D | 0.988 |
dbSNP variants (sampled 300 via entrez): RS1000042890 (16:50087322 A>G), RS1000057225 (16:50081234 G>A), RS1000068512 (16:50078002 A>G), RS1000161945 (16:50069600 C>G), RS1000167814 (16:50102841 C>A,T), RS1000329303 (16:50103121 G>GA), RS1000467708 (16:50085591 G>A), RS1000667882 (16:50104315 G>A,C,T), RS1000738806 (16:50075330 A>G), RS1000772502 (16:50096716 C>G), RS1000825260 (16:50096985 C>T), RS1000828561 (16:50072928 G>A), RS1000844188 (16:50067245 C>T), RS1000948907 (16:50104697 T>C), RS1000963873 (16:50072637 A>G)
Disease associations
OMIM: gene MIM:614951 | disease phenotypes: MIM:105650, MIM:620072
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| Diamond-Blackfan anemia 21 | Strong | Autosomal recessive |
| Diamond-Blackfan anemia | Strong | Autosomal recessive |
Mondo (3): Diamond-Blackfan anemia 1 (MONDO:0007110), Diamond-Blackfan anemia 21 (MONDO:0031071), Diamond-Blackfan anemia (MONDO:0015253)
Orphanet (1): Diamond-Blackfan anemia (Orphanet:124)
HPO phenotypes
89 total (30 of 89 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000007 | Autosomal recessive inheritance |
| HP:0000047 | Hypospadias |
| HP:0000085 | Horseshoe kidney |
| HP:0000104 | Renal agenesis |
| HP:0000119 | Abnormality of the genitourinary system |
| HP:0000160 | Narrow mouth |
| HP:0000185 | Cleft soft palate |
| HP:0000218 | High palate |
| HP:0000234 | Abnormality of the head |
| HP:0000252 | Microcephaly |
| HP:0000286 | Epicanthus |
| HP:0000293 | Full cheeks |
| HP:0000294 | Low anterior hairline |
| HP:0000316 | Hypertelorism |
| HP:0000347 | Micrognathia |
| HP:0000349 | Widow’s peak |
| HP:0000369 | Low-set ears |
| HP:0000411 | Protruding ear |
| HP:0000431 | Wide nasal bridge |
| HP:0000465 | Webbed neck |
| HP:0000470 | Short neck |
| HP:0000486 | Strabismus |
| HP:0000494 | Downslanted palpebral fissures |
| HP:0000508 | Ptosis |
| HP:0000519 | Developmental cataract |
| HP:0000664 | Synophrys |
| HP:0000912 | Sprengel anomaly |
| HP:0000965 | Cutis marmorata |
| HP:0000980 | Pallor |
| HP:0001087 | Developmental glaucoma |
GWAS associations
13 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST001674_1 | Esophageal cancer (squamous cell) | 2.000000e-20 |
| GCST002022_5 | Testicular germ cell tumor | 4.000000e-09 |
| GCST002023_4 | Testicular germ cell tumor | 3.000000e-06 |
| GCST004347_7 | Glioma | 4.000000e-11 |
| GCST004349_2 | Glioblastoma | 1.000000e-11 |
| GCST004635_32 | Testicular germ cell tumor | 5.000000e-07 |
| GCST004713_32 | Testicular germ cell tumor | 3.000000e-09 |
| GCST006804_55 | Red cell distribution width | 7.000000e-13 |
| GCST007343_3 | Epilepsy | 4.000000e-08 |
| GCST008423_2 | Uterine fibroids | 1.000000e-09 |
| GCST011956_101 | Systemic lupus erythematosus | 2.000000e-10 |
| GCST90000025_90 | Appendicular lean mass | 2.000000e-09 |
| GCST90002396_586 | Mean reticulocyte volume | 1.000000e-17 |
EFO canonical traits (3, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0009188 | Red cell distribution width |
| EFO:0004980 | appendicular lean mass |
| EFO:0010701 | mean reticulocyte volume |
MeSH disease descriptors (2)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D029503 | Anemia, Diamond-Blackfan | C15.378.050.085.080.090; C15.378.050.750.500; C15.378.190.223.500.500.090; C16.320.077.090 |
| C567302 | Diamond-Blackfan Anemia 1 (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (VIP=true, CPIC=false)
CTD chemical–gene interactions
46 total (human), top 30 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Benzo(a)pyrene | decreases expression, increases methylation | 3 |
| Estradiol | affects expression, decreases expression, increases expression | 3 |
| Valproic Acid | affects cotreatment, increases expression | 3 |
| sodium arsenite | decreases expression, increases expression | 2 |
| Acetaminophen | decreases expression | 2 |
| Nickel | increases expression | 2 |
| Cadmium Chloride | decreases expression | 2 |
| Particulate Matter | affects cotreatment, decreases expression, increases abundance | 2 |
| FR900359 | decreases phosphorylation | 1 |
| methylmercuric chloride | decreases expression | 1 |
| triphenyl phosphate | affects expression | 1 |
| cobaltous chloride | decreases expression | 1 |
| potassium chromate(VI) | affects cotreatment, decreases expression | 1 |
| epigallocatechin gallate | affects cotreatment, decreases expression | 1 |
| cylindrospermopsin | increases expression | 1 |
| 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide | affects cotreatment, increases expression | 1 |
| ICG 001 | decreases expression | 1 |
| abrine | decreases expression | 1 |
| dorsomorphin | affects cotreatment, increases expression | 1 |
| 2-(1H-indazol-4-yl)-6-(4-methanesulfonylpiperazin-1-ylmethyl)-4-morpholin-4-ylthieno(3,2-d)pyrimidine | decreases expression, increases response to substance | 1 |
| 4-(4-((5-(4,5-dimethyl-2-nitrophenyl)-2-furanyl)methylene)-4,5-dihydro-3-methyl-5-oxo-1H-pyrazol-1-yl)benzoic acid | decreases expression | 1 |
| Resveratrol | affects cotreatment, increases expression | 1 |
| Sunitinib | increases expression | 1 |
| Vorinostat | increases expression | 1 |
| Air Pollutants | decreases expression, increases abundance | 1 |
| Atrazine | decreases expression | 1 |
| Caffeine | decreases phosphorylation | 1 |
| Cisplatin | increases expression | 1 |
| Enzyme Inhibitors | decreases activity, increases O-linked glycosylation | 1 |
| Ethyl Methanesulfonate | decreases expression | 1 |
Clinical trials (associated diseases)
38 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT00673608 | PHASE4 | COMPLETED | Magnetic Resonance Imaging (MRI) Assessments of the Heart and Liver Iron Load in Patients With Transfusion Induced Iron Overload |
| NCT00235391 | PHASE3 | COMPLETED | Expanded Access of Deferasirox to Patients With Congenital Disorders of Red Blood Cells and Chronic Iron Overload |
| NCT00001962 | PHASE2 | TERMINATED | A Study to Determine Whether Therapy With Daclizumab Will Benefit Patients With Bone Marrow Failure |
| NCT00011505 | PHASE2 | COMPLETED | Mobilization of Stem Cells With G-CSF for Collection From Patients With Diamond-Blackfan Anemia |
| NCT00301834 | PHASE2 | COMPLETED | Alemtuzumab, Fludarabine, and Busulfan Followed By Donor Stem Cell Transplant in Treating Young Patients With Hematologic Disorders |
| NCT00957931 | PHASE2 | COMPLETED | Allo-HCT MUD for Non-malignant Red Blood Cell (RBC) Disorders: Sickle Cell, Thal, and DBA: Reduced Intensity Conditioning, Co-tx MSCs |
| NCT01529827 | PHASE2 | COMPLETED | Fludarabine Phosphate, Melphalan, and Low-Dose Total-Body Irradiation Followed by Donor Peripheral Blood Stem Cell Transplant in Treating Patients With Hematologic Malignancies |
| NCT02386267 | PHASE2 | UNKNOWN | L-leucine in Diamond Blackfan Anemia Patients |
| NCT02512679 | PHASE2 | TERMINATED | Related Hematopoietic Stem Cell Transplantation (HSCT) for Genetic Diseases of Blood Cells |
| NCT03333486 | PHASE2 | TERMINATED | Fludarabine Phosphate, Cyclophosphamide, Total Body Irradiation, and Donor Stem Cell Transplant in Treating Patients With Blood Cancer |
| NCT04099966 | PHASE2 | RECRUITING | AlloSCT for Malignant and Non-malignant Hematologic Diseases Utilizing Alpha/Beta T Cell and CD19+ B Cell Depletion |
| NCT04965597 | PHASE2 | COMPLETED | Treosulfan-Based Conditioning Regimen Before a Blood or Bone Marrow Transplant for the Treatment of Bone Marrow Failure Diseases (BMT CTN 1904) |
| NCT01586455 | PHASE1 | COMPLETED | Human Placental-Derived Stem Cell Transplantation |
| NCT01917708 | PHASE1 | COMPLETED | Bone Marrow Transplant With Abatacept for Non-Malignant Diseases |
| NCT00176852 | PHASE2/PHASE3 | COMPLETED | Stem Cell Transplant for Hemoglobinopathy |
| NCT00176878 | PHASE2/PHASE3 | COMPLETED | Stem Cell Transplant for Bone Marrow Failure Syndromes |
| NCT00305708 | PHASE1/PHASE2 | COMPLETED | Busulfan, Antithymocyte Globulin, and Fludarabine Followed By a Donor Stem Cell Transplant in Treating Young Patients With Blood Disorders, Bone Marrow Disorders, Chronic Myelogenous Leukemia in First Chronic Phase, or Acute Myeloid Leukemia in First Remission |
| NCT01362595 | PHASE1/PHASE2 | COMPLETED | Pilot Phase I/II Study of Amino Acid Leucine in Treatment of Patients With Transfusion-Dependent Diamond Blackfan Anemia |
| NCT01419704 | PHASE1/PHASE2 | WITHDRAWN | Phase I/II Pilot Study of Mixed Chimerism to Treat Hemoglobinopathies |
| NCT01464164 | PHASE1/PHASE2 | TERMINATED | Safety and Efficacy Study of Sotatercept in Adults With Transfusion Dependent Diamond Blackfan Anemia |
| NCT01966367 | PHASE1/PHASE2 | ACTIVE_NOT_RECRUITING | CD34+ (Non-Malignant) Stem Cell Selection for Patients Receiving Allogeneic Stem Cell Transplantation |
| NCT02065869 | PHASE1/PHASE2 | TERMINATED | Safety Study of Gene Modified Donor T-cells Following TCRαβ+ Depleted Stem Cell Transplant |
| NCT03513328 | PHASE1/PHASE2 | COMPLETED | Conditioning Regimen for Allogeneic Hematopoietic Stem-Cell Transplantation |
| NCT03653338 | PHASE1/PHASE2 | RECRUITING | T-Cell Depleted Alternative Donor Bone Marrow Transplant for Sickle Cell Disease (SCD) and Other Anemias |
| NCT03733249 | PHASE1/PHASE2 | TERMINATED | Long Term Follow-up Study for Patients Enrolled on the BP-004 Clinical Study |
| NCT03966053 | PHASE1/PHASE2 | TERMINATED | The Use of Trifluoperazine in Transfusion Dependent DBA |
| NCT00027274 | Not specified | RECRUITING | Cancer in Inherited Bone Marrow Failure Syndromes |
| NCT00244010 | Not specified | COMPLETED | Partially Matched Stem Cell Transplantation for Patients With Refractory Severe Aplastic Anemia or Refractory Cytopenias |
| NCT00290628 | Not specified | TERMINATED | Donor Umbilical Cord Blood Transplant in Treating Patients With Hematologic Cancer |
| NCT01114776 | Not specified | COMPLETED | Multi-Center Study of Iron Overload: Pilot Study |
| NCT01319851 | Not specified | TERMINATED | Alefacept and Allogeneic Hematopoietic Stem Cell Transplantation |
| NCT01758042 | Not specified | COMPLETED | Bone Marrow and Kidney Transplant for Patients With Chronic Kidney Disease and Blood Disorders |
| NCT01913548 | Not specified | COMPLETED | Multi-Center Study of Iron Overload: Survey Study (MCSIO) |
| NCT02179359 | Not specified | TERMINATED | Hematopoietic Stem Cell Transplant for High Risk Hemoglobinopathies |
| NCT02720679 | Not specified | RECRUITING | Investigation of the Genetics of Hematologic Diseases |
| NCT03050268 | Not specified | RECRUITING | Familial Investigations of Childhood Cancer Predisposition |
| NCT05687474 | Not specified | COMPLETED | Baby Detect : Genomic Newborn Screening |
| NCT07186179 | Not specified | RECRUITING | Mobilization of CD34+ Peripheral Blood Stem Cells in Patients With Diamond Blackfan Anemia Syndrome (DBAS) |
Related Atlas pages
- Associated diseases: Diamond-Blackfan anemia 21, Diamond-Blackfan anemia
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): carcinoma of esophagus, central nervous system cancer, Diamond-Blackfan anemia, Diamond-Blackfan anemia 1, Diamond-Blackfan anemia 21, glioblastoma, glioma, squamous cell carcinoma, testicular cancer, testicular germ cell tumor, uterine corpus leiomyoma