Table 2 Candidate genes located in the upstream and downstream region of linkage disequilibrium to trait-associated SNPs based on the NCBI blast.
Associated SNP | Chr | Position | Associated Trait | r2 | p value | Candidate gene | E value | Total Score |
|---|---|---|---|---|---|---|---|---|
S5_10776122 | 5 | 10,776,122 | LipYel | 0.26 | 7.41E−06 | Phalaenopsis equestris putative amidase C869.01 (LOC110029361), mRNA Phalaenopsis equestris flavanone 3-hydroxylase (F3H) gene, promoter region and 5' UTR | 0 1.00E−50 | 3334 334 |
S5_23606179 | 5 | 23,606,179 | LipYel | 0.33 | 8.91E−06 | Phalaenopsis equestris ammonium transporter 1 member 2-like (LOC110038906), mRNA Phalaenopsis equestris MADS box protein (SOC1) gene, complete cds | 0 0 | 4556 2726 |
S5_24984925 | 5 | 24,984,925 | LipYel | 0.51 | 2.19E−08 | Phalaenopsis equestris sulfoquinovosyl transferase SQD2-like (LOC110027696), transcript variant X2, mRNA Phalaenopsis equestris phosphoenolpyruvate carboxykinase (ATP) (LOC110027691), mRNA Phalaenopsis equestris ABC transporter B family member 26, chloroplastic (LOC110027673), mRNA | 0 0 3.00E−57 | 1593 4899 1452 |
S9_14147427 | 9 | 1,414,742 7 | LipYel | 0.36 | 1.77E−06 | Phalaenopsis equestris GEM-like protein 5 (LOC110032887), mRNA Phalaenopsis equestris cysteine-rich and transmembrane domain-containing protein A-like | 0.00E+0 0 6E-114 | 2215 587 |
S2_195281745 | 2 | 195,281,745 | PetalMagAre a | 0.35 | 3.43E−06 | Phalaenopsis equestris histone H2B.1-like (LOC110024163), mRNA Phalaenopsis equestris transcription factor MYB52-like (LOC110024256), mRNA Phalaenopsis equestris agamous-like MADS-box protein AGL65 (LOC110024229), transcript variant X6, mRNA Phalaenopsis equestris MADS box protein (SOC1) gene, complete cds | 0 0 0 4E−175 | 1031 2298 2879 2416 |
S5_43813578 | 5 | 43,813,578 | PetalMagAre a | 0.38 | 4.88E−06 | Phalaenopsis equestris subtilisin-like protease SBT1.4 (LOC110018389), mRNA Phalaenopsis equestris keratin-associated protein 4–6-like (LOC110018400), mRNA Phalaenopsis equestris MADS box protein (SOC1) gene, complete cds Phalaenopsis equestris uncharacterized LOC110025306 (LOC110025306), mRNA Phalaenopsis equestris sugar transport protein 8-like (LOC110025176), mRNA Phalaenopsis equestris MYB11 promoter region Phalaenopsis equestris retrotransposon HORT1 hypothetical protein gene, complete cds | 0 0 0 0 6E−34 2.00E−13 2.00E−13 | 5451 2572 4336 802 165 194 194 |
S5_45647571 | 5 | 45,647,571 | PetalMag | 0.41 | 9.59E−07 | Phalaenopsis equestris 40S ribosomal protein S3-3-like (LOC110023171), mRNA Phalaenopsis equestris eukaryotic peptide chain release factor GTP-binding subunit ERF3A (LOC110023165), mRNA Phalaenopsis equestris MADS box transcription factor 5 (MADS5) gene, promoter region and 5' UTR Phalaenopsis equestris flavanone 3-hydroxylase (F3H) gene, promoter region and 5' UTR | 0 5E−139 3.00E−42 1.00E−30 | 2132 3574 193 154 |
S5_45345022 | 5 | 45,345,022 | PetalMagAre a PetalMag | 0.39 0.37 | 4.00E−06 9.26E−06 | Phalaenopsis equestris uncharacterized protein At4g06744-like (LOC110023166), mRNA Phalaenopsis equestris auxin-binding protein ABP19a-like (LOC110023170), mRNA Phalaenopsis equestris MADS box transcription factor 4 (MADS4) gene, promoter region and complete cds | 0 0 2E-124 | 3827 3510 466 |
S5_43867748 | 5 | 43,867,748 | LipMag PetalMagAre PetalMag | 0.31 0.32 0.35 | 2.89E−06 2.80E−06 2.91E−06 | Phalaenopsis equestris cytochrome P450 71A1-like (LOC110018390), mRNA Phalaenopsis equestris serine/threonine-protein kinase RIPK-like (LOC110018387), mRNA Phalaenopsis equestris MADS box protein (SOC1) gene, complete cds Phalaenopsis equestris keratin-associated protein 4–6-like (LOC110018400), mRNA Phalaenopsis equestris probable serine/threonine-protein kinase PBL23 (LOC110037276), mRNA | 0 0 0 0 1E−164 | 3333 2651 4336 1119 599 |
S5_46455357 | 5 | 46,455,357 | LipMag PetalMagAre PetalMag | 0.30 0.31 0.38 | 4.36E−06 3.57E−06 3.93E−07 | Phalaenopsis equestris digalactosyldiacylglycerol synthase 1, chloroplastic (LOC110019456), mRNA Phalaenopsis equestris monoacylglycerol lipase-like (LOC110019459), mRNA Phalaenopsis equestris tubby-like F-box protein 1 (LOC110029707), mRNA | 0.00E+00 0.00E+00 4.00E−31 | 5407 3513 156 |
