Table 1 EpiTEome-identified non-reference TE insertions in maize Oh43 genes compared to the B73 reference
Gene ID | Gene annotation | Chromosome | Insertion site | Genic location | TE family | TE superfamily | Supporting spit reads |
|---|---|---|---|---|---|---|---|
GRMZM2G127717 | Phosphofructokinase 5 (PFK5) | 2 | 181762712 | Intron | LTR_AC200606 | Unknown LTR | 9 |
GRMZM2G343360 | SAUR-like auxin-responsive protein family | 2 | 197668412 | Exon | LTR_AC191075 | Unknown LTR | 5 |
GRMZM2G014994 | GPI-anchored protein | 4 | 163300669 | Intron | Gypsy-173_ZM-LTR | Gypsy LTR | 7 |
GRMZM2G178753 | Kinase-like protein | 5 | 19547332 | Exon | Gypsy-143_ZM-LTR | Gypsy LTR | 5 |
GRMZM2G330684 | Ring Zinc Finger | 5 | 30857925 | Intron | HARB-N3_ZM | Harbinger | 5 |
GRMZM2G148229 | SNARE associated Golgi protein family | 7 | 170575334 | Intron | GYZMA1_LTR | Gypsy LTR | 5 |
GRMZM5G871262 | LIMR family protein | 9 | 24960353 | Intron | Gypsy29-ZM_LTR | Gypsy LTR | 7 |
GRMZM2G111066 | Protein SIP5 isoform X1 | 9 | 105921345 | exon | Gypsy29-ZM_LTR | Gypsy LTR | 6 |