KERA
geneOn this page
Also known as SLRR2B
Summary
KERA (keratocan, HGNC:6309) is a protein-coding gene on chromosome 12q21.33, encoding Keratocan (O60938). May be important in developing and maintaining corneal transparency and for the structure of the stromal matrix.
The protein encoded by this gene is a keratan sulfate proteoglycan that is involved in corneal transparency. Defects in this gene are a cause of autosomal recessive cornea plana 2 (CNA2).
Source: NCBI Gene 11081 — RefSeq curated summary.
At a glance
- Gene–disease (curated): cornea plana (Definitive, GenCC) — +2 more curated relationships
- GWAS associations: 4
- Clinical variants (ClinVar): 97 total — 10 pathogenic, 4 likely-pathogenic
- Phenotypes (HPO): 10
- Dosage sensitivity (ClinGen): haploinsufficiency autosomal recessive, triplosensitivity unscored
- MANE Select transcript:
NM_007035
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:6309 |
| Approved symbol | KERA |
| Name | keratocan |
| Location | 12q21.33 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | SLRR2B |
| Ensembl gene | ENSG00000139330 |
| Ensembl biotype | protein_coding |
| OMIM | 603288 |
| Entrez | 11081 |
Gene structure
Transcript identifiers
Ensembl transcripts: 1 — 1 protein_coding
ENST00000266719
RefSeq mRNA: 1 — MANE Select: NM_007035
NM_007035
CCDS: CCDS9037
Canonical transcript exons
ENST00000266719 — 3 exons
| Exon | Start | End |
|---|---|---|
| ENSE00001143165 | 91057744 | 91058024 |
| ENSE00001151453 | 91050491 | 91051518 |
| ENSE00001380994 | 91055396 | 91056289 |
Expression profiles
Bgee: expression breadth broad, 85 present calls, max score 89.49.
FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.4317 / max 160.6761, expressed in 26 samples.
FANTOM5 promoters (9 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 132537 | 0.2310 | 21 |
| 132541 | 0.0655 | 12 |
| 132534 | 0.0347 | 9 |
| 132539 | 0.0266 | 10 |
| 132536 | 0.0231 | 6 |
| 132542 | 0.0171 | 8 |
| 132538 | 0.0160 | 10 |
| 132540 | 0.0115 | 5 |
| 132535 | 0.0062 | 4 |
Top tissues by expression
274 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| calcaneal tendon | UBERON:0003701 | 89.49 | gold quality |
| male germ line stem cell (sensu Vertebrata) in testis | CL:0000089 ∩ UBERON:0000473 | 87.10 | gold quality |
| tendon | UBERON:0000043 | 78.06 | gold quality |
| cartilage tissue | UBERON:0002418 | 77.70 | gold quality |
| synovial joint | UBERON:0002217 | 62.75 | gold quality |
| tendon of biceps brachii | UBERON:0008188 | 60.76 | silver quality |
| layer of synovial tissue | UBERON:0007616 | 60.51 | silver quality |
| gall bladder | UBERON:0002110 | 60.33 | gold quality |
| lower lobe of lung | UBERON:0008949 | 56.63 | silver quality |
| tibialis anterior | UBERON:0001385 | 55.30 | silver quality |
| trachea | UBERON:0003126 | 54.20 | silver quality |
| penis | UBERON:0000989 | 53.67 | silver quality |
| hair follicle | UBERON:0002073 | 53.28 | gold quality |
| urethra | UBERON:0000057 | 53.16 | silver quality |
| ileal mucosa | UBERON:0000331 | 52.17 | silver quality |
| superior surface of tongue | UBERON:0007371 | 50.71 | silver quality |
| thoracic mammary gland | UBERON:0005200 | 50.51 | gold quality |
| mammary gland | UBERON:0001911 | 50.35 | gold quality |
| Brodmann (1909) area 46 | UBERON:0006483 | 49.30 | gold quality |
| blood vessel layer | UBERON:0004797 | 49.29 | gold quality |
| cervix squamous epithelium | UBERON:0006922 | 49.20 | gold quality |
| epithelial cell of pancreas | CL:0000083 | 49.09 | gold quality |
| olfactory bulb | UBERON:0002264 | 48.92 | gold quality |
| choroid plexus epithelium | UBERON:0003911 | 48.89 | gold quality |
| myocardium | UBERON:0002349 | 48.87 | gold quality |
| type B pancreatic cell | CL:0000169 | 48.83 | gold quality |
| oviduct epithelium | UBERON:0004804 | 48.72 | gold quality |
| vastus lateralis | UBERON:0001379 | 48.68 | gold quality |
| cardiac muscle of right atrium | UBERON:0003379 | 48.55 | gold quality |
| CA1 field of hippocampus | UBERON:0003881 | 48.50 | gold quality |
Single-cell (SCXA)
Detected in 1 experiment(s), a significant marker in 0.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-ANND-3 | no | 2.77 |
Regulation
Is transcription factor: no
miRNA regulators (miRDB)
57 targeting KERA, 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-4282 | 99.99 | 75.36 | 6408 |
| HSA-MIR-6077 | 99.99 | 68.04 | 2299 |
| HSA-MIR-4803 | 99.98 | 71.99 | 3117 |
| HSA-MIR-568 | 99.98 | 69.86 | 2084 |
| HSA-MIR-607 | 99.97 | 73.62 | 5593 |
| HSA-MIR-590-3P | 99.96 | 74.34 | 6478 |
| HSA-MIR-2110 | 99.96 | 66.68 | 1930 |
| HSA-MIR-3658 | 99.96 | 73.87 | 4379 |
| HSA-MIR-1250-3P | 99.96 | 70.04 | 4038 |
| HSA-MIR-10527-5P | 99.91 | 72.28 | 3754 |
| HSA-MIR-5680 | 99.91 | 69.83 | 3421 |
| HSA-MIR-374A-5P | 99.90 | 71.34 | 2923 |
| HSA-MIR-374B-5P | 99.90 | 69.98 | 2734 |
| HSA-MIR-3671 | 99.90 | 73.04 | 3897 |
| HSA-MIR-548E-5P | 99.89 | 72.73 | 4486 |
| HSA-MIR-3133 | 99.81 | 70.92 | 3506 |
| HSA-MIR-4760-5P | 99.80 | 69.88 | 1619 |
| HSA-MIR-5002-5P | 99.76 | 70.84 | 1763 |
| HSA-MIR-4255 | 99.72 | 67.70 | 1541 |
| HSA-MIR-1179 | 99.71 | 68.70 | 1040 |
| HSA-MIR-4677-5P | 99.70 | 70.09 | 1940 |
| HSA-MIR-4729 | 99.69 | 72.18 | 4233 |
| HSA-MIR-586 | 99.65 | 70.40 | 2051 |
| HSA-MIR-10393-5P | 99.65 | 68.01 | 1368 |
| HSA-MIR-5700 | 99.64 | 69.88 | 2280 |
| HSA-MIR-2053 | 99.57 | 69.15 | 1635 |
| HSA-MIR-12117 | 99.50 | 67.57 | 868 |
| HSA-MIR-513C-5P | 99.50 | 68.42 | 1730 |
| HSA-MIR-514B-5P | 99.50 | 68.19 | 1766 |
| HSA-MIR-3128 | 99.50 | 67.85 | 1258 |
Functional genomics
ClinGen dosage: haploinsufficiency 30 (autosomal recessive), triplosensitivity Not yet evaluated (unscored). ClinGen Gene Dosage Map
Literature-anchored findings (GeneRIF, showing 14)
- KERA mutation is associated with autosomal recessive cornea plana (PMID:15370545)
- This is the first report of the identification of a mutation within KERA in a family of Hispanic origin with autosomal recessive cornea plana. (PMID:16157807)
- No evidence that endothelial dysfunction and germline mutation of lumican and keratocan genes participate in the etiology of subepithelial corneal haze. (PMID:16760896)
- Specific for mutation in KERA, the ophthalmic phenotype of recessive cornea plana does not significantly vary with different KERA mutations. (PMID:17011957)
- In addition, no pathogenic sequence variations were found in DCN, DSPG3, LUM, PITX2 and FOXC1, which have also been implicated in corneal and anterior segment dysgenesis. (PMID:17558846)
- This is the first description of recessive cornea plana in a white British family and it is the second report on the p.N247S change in the KERA gene. (PMID:17679937)
- Multiple core-protein species were detected for decorin, biglycan, lumican and keratocan in the degenerate osteoarthritic articular cartilage and menisci. (PMID:18620607)
- Linkage and haplotype analyses identified 12q21.33 as a locus for posterior amorphous corneal dystrophy. However, no mutations were identified in the candidate genes (KERA, LUM, DCN, EPYC) within this region. (PMID:20357198)
- Corneal endothelial disorders were found with compound mutations in KERA (PMID:23834557)
- rare variant in KERA was identified in a large kindred with premature atherosclerosis (PMID:24879339)
- The mutation that we report here leads to the deletion of a conserved amino acid (p.Phe125del) from the third LRR motif of the keratocan protein, which might lead to an abnormal tertiary structure of the protein, thereby leading to the disease. (PMID:25967529)
- a novel KERA variant, p.(Ile225Thr), was detected that segregates with Cornea plana in the homozygous form. (PMID:26099342)
- KERA mutation c.740A>G has been identified to date in three different populations, which makes it the most frequently occurring mutation in patients with cornea plana (PMID:28677912)
- We expand the phenotypic spectrum of biallelic KERA mutations in this report of a boy with juvenile corneal ectasia who was found to harbor an underlying novel homozygous mutation in the gene. (PMID:28799822)
Cross-species orthologs
3 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | kera | ENSDARG00000056938 |
| mus_musculus | Kera | ENSMUSG00000019932 |
| rattus_norvegicus | Kera | ENSRNOG00000004635 |
Paralogs (10): EPYC (ENSG00000083782), OGN (ENSG00000106809), ECM2 (ENSG00000106823), FMOD (ENSG00000122176), OMG (ENSG00000126861), OMD (ENSG00000127083), LUM (ENSG00000139329), PRELP (ENSG00000188783), LINGO4 (ENSG00000213171), LINGO3 (ENSG00000220008)
Protein
Protein identifiers
Keratocan — O60938 (reviewed: O60938)
Alternative names: Keratan sulfate proteoglycan keratocan
All UniProt accessions (1): O60938
UniProt curated annotations — full annotation on UniProt →
Function. May be important in developing and maintaining corneal transparency and for the structure of the stromal matrix.
Subcellular location. Secreted. Extracellular space. Extracellular matrix.
Tissue specificity. Cornea (at protein level). Increased expression in the stroma of keratoconus corneas. Also detected in trachea, and in low levels, in intestine, skeletal muscle, ovary, lung and putamen.
Post-translational modifications. Binds keratan sulfate chains.
Disease relevance. Cornea plana 2, autosomal recessive (CNA2) [MIM:217300] A severe form of cornea plana, a rare ocular disorder characterized by flattened corneal curvature leading to a decrease in refraction, reduced visual activity, hyperopia, hazy corneal limbus, opacities in the corneal parenchyma, and marked arcus senilis often detected at an early age. CNA2 patients manifest extreme hyperopia and additional ocular anomalies such as malformations of the iris, a slit-like pupil, and adhesions between iris and cornea. The disease is caused by variants affecting the gene represented in this entry.
Similarity. Belongs to the small leucine-rich proteoglycan (SLRP) family. SLRP class II subfamily.
RefSeq proteins (1): NP_008966* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR000372 | LRRNT | Domain |
| IPR001611 | Leu-rich_rpt | Repeat |
| IPR003591 | Leu-rich_rpt_typical-subtyp | Repeat |
| IPR032675 | LRR_dom_sf | Homologous_superfamily |
| IPR050333 | SLRP | Family |
Pfam: PF01462, PF13516, PF13855
UniProt features (23 total): repeat 10, glycosylation site 4, disulfide bond 3, sequence variant 3, signal peptide 1, chain 1, domain 1
Structure
Experimental structures (PDB)
0 structures.
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-O60938-F1 | 87.42 | 0.75 |
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 (3): 42–48, 46–58, 303–343
Glycosylation sites (4): 93, 167, 222, 298
Function
Pathways and Gene Ontology
Reactome pathways
13 pathways
| ID | Pathway |
|---|---|
| R-HSA-2022854 | Keratan sulfate biosynthesis |
| R-HSA-2022857 | Keratan sulfate degradation |
| R-HSA-3656225 | Defective CHST6 causes MCDC1 |
| R-HSA-3656243 | Defective ST3GAL3 causes MCT12 and EIEE15 |
| R-HSA-3656244 | Defective B4GALT1 causes B4GALT1-CDG (CDG-2d) |
| R-HSA-1430728 | Metabolism |
| R-HSA-1630316 | Glycosaminoglycan metabolism |
| R-HSA-1638074 | Keratan sulfate/keratin metabolism |
| R-HSA-1643685 | Disease |
| R-HSA-3560782 | Diseases associated with glycosaminoglycan metabolism |
| R-HSA-3781865 | Diseases of glycosylation |
| R-HSA-5668914 | Diseases of metabolism |
| R-HSA-71387 | Metabolism of carbohydrates and carbohydrate derivatives |
MSigDB gene sets: 104 (showing top):
TAL1ALPHAE47_01, MARTINEZ_RB1_TARGETS_DN, YY1_02, chr12q21, GOBP_SENSORY_PERCEPTION_OF_LIGHT_STIMULUS, TGGNNNNNNKCCAR_UNKNOWN, GOBP_SENSORY_PERCEPTION, GOBP_SENSORY_ORGAN_DEVELOPMENT, SOX5_01, NKX3A_01, TAL1BETAE47_01, REACTOME_METABOLISM_OF_CARBOHYDRATES_AND_CARBOHYDRATE_DERIVATIVES, TGGAAA_NFAT_Q4_01, GOCC_LYSOSOMAL_LUMEN, GOCC_VACUOLAR_LUMEN
GO Biological Process (2): visual perception (GO:0007601), cornea development in camera-type eye (GO:0061303)
GO Molecular Function (1): protein binding (GO:0005515)
GO Cellular Component (5): extracellular region (GO:0005576), obsolete extracellular space (GO:0005615), Golgi lumen (GO:0005796), extracellular matrix (GO:0031012), lysosomal lumen (GO:0043202)
Reactome top-level categories
Rollup of top-8 pathways:
| Category | Pathways |
|---|---|
| Diseases associated with glycosaminoglycan metabolism | 3 |
| Keratan sulfate/keratin metabolism | 2 |
| Metabolism of carbohydrates and carbohydrate derivatives | 1 |
| Glycosaminoglycan metabolism | 1 |
| Diseases of glycosylation | 1 |
| Diseases of metabolism | 1 |
| Disease | 1 |
| Metabolism | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| sensory perception of light stimulus | 1 |
| camera-type eye development | 1 |
| anatomical structure development | 1 |
| binding | 1 |
| cellular anatomical structure | 1 |
| Golgi apparatus | 1 |
| intracellular organelle lumen | 1 |
| external encapsulating structure | 1 |
| lysosome | 1 |
| vacuolar lumen | 1 |
Protein interactions and networks
STRING
1146 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| KERA | CXCL1 | P09341 | 839 |
| KERA | PPP3CA | Q08209 | 800 |
| KERA | ALDH3A1 | P30838 | 760 |
| KERA | CHST6 | Q9GZX3 | 728 |
| KERA | CHST1 | O43916 | 727 |
| KERA | CHST3 | Q7LGC8 | 691 |
| KERA | KRT12 | Q99456 | 680 |
| KERA | OGN | P20774 | 626 |
| KERA | ACAN | P16112 | 605 |
| KERA | SULT1C3 | Q6IMI6 | 602 |
| KERA | SULT1C4 | O75897 | 599 |
| KERA | SULT1B1 | O43704 | 595 |
| KERA | KRT3 | P12035 | 595 |
| KERA | CACNA1F | O60840 | 591 |
| KERA | B3GNT7 | Q8NFL0 | 590 |
IntAct
7 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| EMILIN1 | METTL15 | psi-mi:“MI:0914”(association) | 0.530 |
| KERA | FBXO21 | psi-mi:“MI:0914”(association) | 0.530 |
| KERA | Dlg4 | psi-mi:“MI:0407”(direct interaction) | 0.440 |
| CDC37 | KERA | psi-mi:“MI:0915”(physical association) | 0.400 |
| KERA | VWA8 | psi-mi:“MI:0914”(association) | 0.350 |
BioGRID (31): NUDT12 (Affinity Capture-MS), CNPY4 (Affinity Capture-MS), VWA8 (Affinity Capture-MS), EID2 (Affinity Capture-MS), FBXO21 (Affinity Capture-MS), BLMH (Affinity Capture-MS), SQSTM1 (Affinity Capture-MS), MAP3K7 (Affinity Capture-MS), B4GALT5 (Affinity Capture-MS), PRKCI (Affinity Capture-MS), STK11IP (Affinity Capture-MS), LRRC40 (Affinity Capture-MS), ABHD14A (Affinity Capture-MS), KERA (Positive Genetic), ITIH2 (Affinity Capture-MS)
ESM2 similar proteins: C0STK7, C3YZ59, O00206, O15455, O42235, O60938, O62702, O93233, P58727, Q0PV50, Q2V898, Q45R42, Q58A48, Q5BK65, Q5M7S9, Q5TJ59, Q62192, Q65YW8, Q65Z91, Q68Y56, Q6AXL3, Q6DF55, Q6R5N8, Q6R5P0, Q7Z2Q7, Q80X72, Q8BMT4, Q8BZT5, Q8C031, Q8N6Y2, Q8R5M3, Q8SPE8, Q8SPE9, Q965M2, Q99467, Q99MB1, Q99PH1, Q9CQ76, Q9CXD9, Q9DE66
Diamond homologs: A3KNN3, A6H789, A6H793, A6NJW4, A8WHP9, E7FE13, F1MLX5, G5EFX6, O02678, O02833, O35367, O46378, O46379, O46542, O60938, O62702, O75093, O75094, O88279, O88280, O94813, P07359, P07585, P21793, P24014, P28654, P28675, P35858, P35859, P51884, P51885, P51886, P51888, P51890, P58874, P59034, P59035, P70186, P70389, P83286
SIGNOR signaling
0 interactions.
Disease & clinical
Clinical variants and AI predictions
ClinVar
97 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 10 |
| Likely pathogenic | 4 |
| Uncertain significance | 55 |
| Likely benign | 15 |
| Benign | 5 |
Top pathogenic / likely-pathogenic (14)
| Variant ID | HGVS | Classification |
|---|---|---|
| 1940458 | NM_007035.4(KERA):c.55_56del (p.Trp19fs) | Pathogenic |
| 225521 | NM_007035.4(KERA):c.320T>G (p.Ile107Arg) | Pathogenic |
| 2735921 | NM_007035.4(KERA):c.209C>T (p.Pro70Leu) | Pathogenic |
| 3609569 | NM_007035.4(KERA):c.809C>A (p.Ser270Ter) | Pathogenic |
| 4767828 | NM_007035.4(KERA):c.748_757del (p.Ser250fs) | Pathogenic |
| 56550 | NM_007035.4(KERA):c.835C>T (p.Arg279Ter) | Pathogenic |
| 6519 | NM_007035.4(KERA):c.740A>G (p.Asn247Ser) | Pathogenic |
| 6520 | NM_007035.4(KERA):c.520C>T (p.Gln174Ter) | Pathogenic |
| 6521 | NM_007035.4(KERA):c.644C>A (p.Thr215Lys) | Pathogenic |
| 6522 | NM_007035.4(KERA):c.937C>T (p.Arg313Ter) | Pathogenic |
| 3779786 | NM_007035.4(KERA):c.242A>G (p.Asn81Ser) | Likely pathogenic |
| 4087749 | NM_007035.4(KERA):c.38_41del (p.Leu12_Phe13insTer) | Likely pathogenic |
| 4531440 | NM_007035.4(KERA):c.528C>G (p.Asn176Lys) | Likely pathogenic |
| 56549 | NM_007035.4(KERA):c.391A>G (p.Asn131Asp) | Likely pathogenic |
SpliceAI
281 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 12:91051514:CACAC:C | acceptor_gain | 0.9900 |
| 12:91051516:CAC:C | acceptor_gain | 0.9900 |
| 12:91051517:ACCTA:A | acceptor_loss | 0.9900 |
| 12:91051519:CT:C | acceptor_loss | 0.9900 |
| 12:91051520:T:A | acceptor_loss | 0.9900 |
| 12:91055394:A:AC | donor_gain | 0.9900 |
| 12:91055395:C:CC | donor_gain | 0.9900 |
| 12:91056289:CCTA:C | acceptor_loss | 0.9900 |
| 12:91056290:C:CG | acceptor_loss | 0.9900 |
| 12:91056291:T:A | acceptor_loss | 0.9900 |
| 12:91055390:ACTT:A | donor_loss | 0.9800 |
| 12:91055391:CT:C | donor_loss | 0.9800 |
| 12:91055392:TT:T | donor_loss | 0.9800 |
| 12:91055393:TA:T | donor_loss | 0.9800 |
| 12:91055394:AC:A | donor_loss | 0.9800 |
| 12:91055395:C:CT | donor_loss | 0.9800 |
| 12:91055395:CT:C | donor_gain | 0.9800 |
| 12:91056287:CAC:C | acceptor_gain | 0.9800 |
| 12:91056290:C:CC | acceptor_gain | 0.9800 |
| 12:91051519:C:CC | acceptor_gain | 0.9700 |
| 12:91055387:GTTAC:G | donor_loss | 0.9700 |
| 12:91055388:TTACT:T | donor_loss | 0.9700 |
| 12:91055389:TAC:T | donor_loss | 0.9700 |
| 12:91057747:G:A | donor_gain | 0.9700 |
| 12:91057804:A:T | acceptor_gain | 0.9600 |
| 12:91057955:GCTTA:G | donor_loss | 0.9600 |
| 12:91057956:CTTA:C | donor_loss | 0.9600 |
| 12:91057957:TTACC:T | donor_loss | 0.9600 |
| 12:91057958:TA:T | donor_loss | 0.9600 |
| 12:91057959:A:AG | donor_loss | 0.9600 |
AlphaMissense
2332 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 12:91055482:A:G | L267P | 0.998 |
| 12:91055764:A:G | L173P | 0.998 |
| 12:91055770:A:T | L171H | 0.998 |
| 12:91055826:A:C | N152K | 0.998 |
| 12:91055826:A:T | N152K | 0.998 |
| 12:91055827:T:A | N152I | 0.998 |
| 12:91055842:A:G | L147S | 0.998 |
| 12:91055889:A:C | N131K | 0.998 |
| 12:91055889:A:T | N131K | 0.998 |
| 12:91055914:A:C | L123W | 0.998 |
| 12:91055967:G:C | N105K | 0.998 |
| 12:91055967:G:T | N105K | 0.998 |
| 12:91055968:T:A | N105I | 0.998 |
| 12:91055969:T:A | N105Y | 0.998 |
| 12:91055977:A:G | L102P | 0.998 |
| 12:91056108:A:C | C58W | 0.998 |
| 12:91056109:C:T | C58Y | 0.998 |
| 12:91055422:A:G | L287P | 0.997 |
| 12:91055466:A:C | N272K | 0.997 |
| 12:91055466:A:T | N272K | 0.997 |
| 12:91055476:A:G | L269P | 0.997 |
| 12:91055551:A:G | L244P | 0.997 |
| 12:91055770:A:G | L171P | 0.997 |
| 12:91055779:A:G | L168P | 0.997 |
| 12:91055828:T:A | N152Y | 0.997 |
| 12:91055890:T:A | N131I | 0.997 |
| 12:91055891:T:A | N131Y | 0.997 |
| 12:91056039:G:C | N81K | 0.997 |
| 12:91056039:G:T | N81K | 0.997 |
| 12:91056049:A:G | L78P | 0.997 |
dbSNP variants (sampled 300 via entrez): RS1000377132 (12:91054076 A>G), RS1000679087 (12:91052293 G>C,T), RS1000828568 (12:91058809 G>A,C), RS1001290845 (12:91056635 C>T), RS1001574220 (12:91054887 C>T), RS1002270095 (12:91059657 T>A), RS1002408949 (12:91059348 G>A), RS1002942726 (12:91059616 T>C), RS1002994160 (12:91053587 C>T), RS1003210732 (12:91054431 C>G,T), RS1003288601 (12:91053783 T>A), RS1003590589 (12:91054133 C>T), RS1003725500 (12:91058241 G>A,T), RS1003844265 (12:91052858 T>A,G), RS1004325815 (12:91053401 T>C,G)
Disease associations
OMIM: gene MIM:603288 | disease phenotypes: MIM:217300
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| cornea plana | Definitive | Autosomal recessive |
| cornea plana 2 | Strong | Autosomal recessive |
| congenital cornea plana | Supportive | Autosomal dominant |
Mondo (3): cornea plana 2 (MONDO:0009014), (MONDO:0018888), cornea plana (MONDO:0000733)
Orphanet (1): Congenital cornea plana (Orphanet:53691)
HPO phenotypes
10 total (10 of 10 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000007 | Autosomal recessive inheritance |
| HP:0000540 | Hypermetropia |
| HP:0000568 | Microphthalmia |
| HP:0000647 | Sclerocornea |
| HP:0001084 | Corneal arcus |
| HP:0007663 | Reduced visual acuity |
| HP:0007720 | Flat cornea |
| HP:0007957 | Corneal opacity |
| HP:0011463 | Childhood onset |
| HP:0100689 | Decreased corneal thickness |
GWAS associations
4 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST001784_42 | Pulmonary function (smoking interaction) | 5.000000e-07 |
| GCST002307_11 | Systolic blood pressure (alcohol consumption interaction) | 2.000000e-07 |
| GCST002307_4 | Systolic blood pressure (alcohol consumption interaction) | 2.000000e-07 |
| GCST008758_18 | Pre-treatment viral load in HIV-1 infection | 8.000000e-17 |
EFO canonical traits (5, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0003892 | pulmonary function measurement |
| EFO:0004713 | FEV/FVC ratio |
| EFO:0004329 | alcohol drinking |
| EFO:0006335 | systolic blood pressure |
| EFO:0010125 | viral load |
MeSH disease descriptors (1)
| Descriptor | Name | Tree numbers |
|---|---|---|
| C565677 | Cornea Plana 2 (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (VIP=true, CPIC=false)
CTD chemical–gene interactions
6 total (human), top 6 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| 2-palmitoylglycerol | increases expression | 1 |
| Vorinostat | increases expression | 1 |
| Benzo(a)pyrene | decreases methylation, increases methylation | 1 |
| Valproic Acid | affects expression | 1 |
| Aflatoxin B1 | decreases methylation | 1 |
| Antirheumatic Agents | increases expression | 1 |
Clinical trials (associated diseases)
0 trials via MONDO — disease-level, not drug-specific.
Related Atlas pages
- Associated diseases: cornea plana 2, cornea plana
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): cornea plana, cornea plana 2