TABLE 4.
Lists of 79 genes functionally annotated in three QTLs and functional description based on Arabidopsis thaliana homologues with KEGG orthology.
| Gene ID | 1 kb upstream | CDS | Intron | 1 kb downstream | A.thaliana gene ID | Gene description a | KO b | |||
|---|---|---|---|---|---|---|---|---|---|---|
| Synonymous | Missense | Nonsense | Frameshift | |||||||
| SIN_1023526 | 0 | 0 | 0 | 0 | 0 | 11 | 0 | AT2G41830 | Uncharacterized protein | |
| SIN_1015666 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | AT2G14095 | unknown protein | |
| SIN_1015667 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | AT5G55230 | microtubule-associated proteins 65-1 | |
| SIN_1015668 | 0 | 3 | 1 | 0 | 0 | 1 | 0 | AT1G12420 | ACT domain repeat 8 (ACR8) | |
| SIN_1015669 | 0 | 0 | 0 | 0 | 0 | 0 | 6 | AT4G12080 | AT-hook motif nuclear-localized protein 1 (AHL1) | |
| SIN_1015671 | 1 | 0 | 0 | 0 | 0 | 0 | 3 | AT1G12410 | CLP protease proteolytic subunit 2 | |
| SIN_1015672 | 0 | 0 | 1 | 0 | 0 | 0 | 2 | AT3G05100 | S-adenosyl-L-methionine-dependent methyltransferases superfamily protein | |
| SIN_1015673 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | AT4G22790 | MATE efflux family protein | |
| SIN_1015674 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | AT1G04110 | Subtilase family protein | |
| SIN_1015676 | 2 | 0 | 0 | 0 | 0 | 0 | 1 | AT2G27830 | unknown protein | |
| SIN_1015679 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | AT1G12370 | photolyase 1 (PHR1) | |
| SIN_1015680 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | AT1G12360 | Sec1/munc18-like (SM) proteins superfamily | |
| SIN_1015683 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | AT4G22740 | glycine-rich protein | |
| SIN_1015687 | 0 | 2 | 0 | 0 | 0 | 10 | 0 | AT4G12230 | alpha/beta-Hydrolases superfamily protein | K19367 |
| SIN_1015688 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | AT1G02000 | UDP-D-glucuronate 4-epimerase 2 (GAE2) | K08679 |
| SIN_1015689 | 1 | 0 | 0 | 0 | 0 | 16 | 0 | AT4G12290 | Copper amine oxidase family protein | K00276 |
| SIN_1015690 | 1 | 1 | 0 | 0 | 0 | 4 | 0 | AT4G12290 | Copper amine oxidase family protein | K00276 |
| SIN_1015691 | 2 | 0 | 2 | 0 | 0 | 0 | 0 | AT4G12300 | polypeptide 4 (CYP706A4) | |
| SIN_1015692 | 0 | 0 | 0 | 0 | 0 | 7 | 0 | AT4G12320 | polypeptide 6 (CYP706A6) | |
| SIN_1015693 | 0 | 0 | 3 | 0 | 0 | 8 | 3 | AT2G30370 | CHALLAH (CHAL) | |
| SIN_1018396 | 6 | 0 | 0 | 0 | 0 | 0 | 2 | AT4G12300 | polypeptide 4 (CYP706A4) | |
| SIN_1018406 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | AT2G26900 | Sodium Bile acid symporter family | |
| SIN_1018407 | 9 | 1 | 0 | 0 | 0 | 11 | 1 | AT4G12350 | myb domain protein 42 (MYB42) | |
| SIN_1018408 | 3 | 2 | 1 | 1 | 0 | 0 | 2 | AT3G24255 | RNA-directed DNA polymerase (reverse transcriptase)-related family protein | |
| SIN_1018409 | 2 | 0 | 0 | 0 | 0 | 0 | 7 | AT5G64880 | unknown protein | |
| SIN_1018410 | 3 | 0 | 0 | 0 | 0 | 4 | 2 | AT1G62780 | unknown protein | |
| SIN_1018411 | 9 | 0 | 0 | 0 | 0 | 0 | 1 | AT4G12390 | pectin methylesterase inhibitor 1 (PME1) | |
| SIN_1018412 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | AT5G62360 | Plant invertase/pectin methylesterase inhibitor superfamily protein | |
| SIN_1018413 | 10 | 2 | 0 | 0 | 0 | 1 | 2 | AT1G62750 | Translation elongation factor EFG/EF2 protein | |
| SIN_1018414 | 3 | 0 | 0 | 0 | 0 | 2 | 1 | AT3G10195 | Putative membrane lipoprotein | |
| SIN_1018415 | 2 | 0 | 0 | 0 | 0 | 1 | 1 | AT4G12400 | stress-inducible protein, putative | |
| SIN_1018416 | 0 | 0 | 0 | 0 | 0 | 0 | 10 | AT4G22620 | SAUR-like auxin-responsive protein family | K14488 |
| SIN_1018417 | 0 | 0 | 0 | 0 | 0 | 12 | 7 | AT1G12250 | Pentapeptide repeat-containing protein | |
| SIN_1018420 | 0 | 5 | 1 | 0 | 0 | 4 | 0 | AT1G12240 | Glycosyl hydrolases family 32 protein | K01193 |
| SIN_1018421 | 1 | 0 | 0 | 0 | 0 | 5 | 5 | AT1G12230 | Aldolase superfamily protein | K00616 |
| SIN_1018422 | 1 | 1 | 0 | 0 | 0 | 1 | 5 | AT4G22590 | Haloacid dehalogenase-like hydrolase (HAD) superfamily protein | K01087 |
| SIN_1018423 | 2 | 0 | 0 | 0 | 0 | 0 | 2 | AT5G55550 | RNA-binding (RRM/RBD/RNP motifs) family protein | K14411 |
| SIN_1018424 | 0 | 0 | 0 | 0 | 0 | 0 | 4 | AT4G22600 | unknown protein | |
| SIN_1018425 | 2 | 0 | 0 | 0 | 0 | 0 | 6 | AT4G22580 | Exostosin family protein | |
| SIN_1018426 | 6 | 0 | 3 | 0 | 0 | 0 | 2 | AT1G63370 | Flavin-binding monooxygenase family protein | |
| SIN_1018427 | 0 | 0 | 1 | 0 | 0 | 5 | 0 | AT1G63370 | Flavin-binding monooxygenase family protein | |
| SIN_1018428 | 1 | 0 | 0 | 0 | 0 | 0 | 4 | AT1G62530 | Plant protein of unknown function (DUF863) | |
| SIN_1018429 | 6 | 0 | 1 | 0 | 0 | 0 | 2 | AT4G12440 | adenine phosphoribosyl transferase 4 (APT4) | K00759 |
| SIN_1018430 | 5 | 0 | 0 | 0 | 0 | 0 | 2 | AT1G62520 | unknown protein | |
| SIN_1018431 | 7 | 0 | 1 | 0 | 0 | 0 | 2 | AT5G49500 | Signal recognition particle, SRP54 subunit protein | K03106 |
| SIN_1018432 | 2 | 3 | 0 | 0 | 0 | 8 | 2 | AT4G22540 | OSBP(oxysterol binding protein)-related protein 2A (ORP2A) | |
| SIN_1018433 | 8 | 2 | 1 | 0 | 0 | 3 | 2 | AT1G12110 | nitrate transporter 1 | |
| SIN_1018434 | 0 | 0 | 0 | 0 | 0 | 6 | 0 | AT3G12810 | SNF2 domain-containing protein/helicase domain-containing protein | K11661 |
| SIN_1018435 | 7 | 0 | 0 | 0 | 0 | 0 | 11 | AT1G12100 | Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein | |
| SIN_1018437 | 2 | 0 | 0 | 0 | 0 | 0 | 6 | AT1G12100 | Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein | |
| SIN_1018438 | 2 | 0 | 0 | 0 | 0 | 5 | 3 | AT2G13620 | cation/hydrogen exchanger 15 (CHX15) | |
| SIN_1018440 | 1 | 5 | 4 | 0 | 0 | 0 | 3 | AT4G15550 | indole-3-acetate beta-D-glucosyltransferase (IAGLU) | |
| SIN_1018441 | 0 | 1 | 0 | 0 | 0 | 0 | 6 | AT4G12490 | Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein | |
| SIN_1018442 | 2 | 0 | 0 | 0 | 0 | 0 | 3 | AT2G45180 | Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein | |
| SIN_1018443 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | AT2G45180 | Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein | |
| SIN_1018444 | 5 | 0 | 5 | 1 | 0 | 0 | 3 | AT3G26120 | terminal EAR1-like 1 | |
| SIN_1018446 | 1 | 1 | 0 | 0 | 0 | 1 | 7 | AT4G17260 | Lactate/malate dehydrogenase family protein | K00016 |
| SIN_1018447 | 0 | 2 | 1 | 0 | 0 | 22 | 1 | AT4G16510 | YbaK/aminoacyl-tRNA synthetase-associated domain | |
| SIN_1018448 | 7 | 0 | 0 | 0 | 0 | 0 | 1 | AT4G16515 | root meristem growth factor 6 (RGF6) | |
| SIN_1018492 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | AT4G16600 | Nucleotide-diphospho-sugar transferases superfamily protein | |
| SIN_1018493 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | AT2G30575 | los glycosyltransferase 5 (LGT5) | K13648 |
| SIN_1005674 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | AT1G16760 | Protein kinase protein with adenine nucleotide alpha hydrolases-like domain | |
| SIN_1005676 | 1 | 0 | 0 | 0 | 0 | 0 | 1 | AT4G01250 | WRKY family transcription factor22 | K13425 |
| SIN_1005696 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | AT4G18020 | CheY-like two-component responsive regulator family protein | |
| SIN_1009908 | 2 | 0 | 0 | 0 | 0 | 14 | 0 | AT2G45650 | AGAMOUS-like 6 (AGL6) | |
| SIN_1009909 | 0 | 3 | 4 | 0 | 0 | 4 | 21 | AT4G00230 | xylem serine peptidase 1 (XSP1) | |
| SIN_1009910 | 0 | 3 | 0 | 0 | 1 | 4 | 0 | AT4G00230 | xylem serine peptidase 1 (XSP1) | |
| SIN_1009911 | 21 | 0 | 0 | 0 | 0 | 6 | 0 | AT1G01910 | P-loop containing nucleoside triphosphate hydrolases superfamily protein | |
| SIN_1009951 | 1 | 0 | 0 | 0 | 0 | 1 | 1 | AT3G53740 | Ribosomal protein L36e family protein | K02920 |
| SIN_1009952 | 3 | 2 | 0 | 0 | 0 | 12 | 0 | AT2G45880 | beta-amylase 7 | K01177 |
| SIN_1009953 | 2 | 4 | 7 | 0 | 0 | 5 | 12 | AT4G00440 | Protein of unknown function (DUF3741) | |
| SIN_1009954 | 21 | 0 | 0 | 0 | 0 | 2 | 1 | AT1G01650 | SIGNAL PEPTIDE PEPTIDASE-LIKE 4 (SPPL4) | |
| SIN_1009955 | 0 | 1 | 0 | 0 | 0 | 6 | 1 | AT3G61415 | SKP1-like 21 (SK21) | |
| SIN_1009956 | 6 | 0 | 0 | 0 | 0 | 0 | 0 | AT1G01610 | glycerol-3-phosphate acyltransferase 4 (GPAT4) | K13508 |
| SIN_1009957 | 4 | 0 | 0 | 0 | 0 | 3 | 3 | AT4G00370 | Major facilitator superfamily protein | |
| SIN_1009958 | 2 | 0 | 1 | 0 | 0 | 1 | 1 | AT2G46020 | transcription regulatory protein SNF2, putative | |
| SIN_1009959 | 1 | 1 | 0 | 0 | 0 | 8 | 1 | AT1G63800 | ubiquitin-conjugating enzyme 5 (UBC5) | K10576 |
| SIN_1009960 | 2 | 1 | 1 | 0 | 0 | 2 | 6 | AT4G00335 | RING-H2 finger B1A (RHB1A) | |
| SIN_1009961 | 7 | 1 | 1 | 0 | 0 | 7 | 3 | AT1G01580 | ferric reduction oxidase 2 | |
a
The description follows Arabidopsis thaliana genes of TAIR, version10.
b
KO: Kyoto Encyclopedia of Genes and Genomes (KEGG) orthology.