Table 3.
BAC sequences of Upland cotton chromosomes 11 and 21 that contain disease resistance encoded protein annotation with associated transposable elements.
| Sequence name | Sequence description | Sequence length | Hit ACC | Mean similarity | #GOs | GOs |
|---|---|---|---|---|---|---|
| 31K15:g127.t1 | Gag-pro-like protein | 555 | EOY21122 | 78.15% | 0 | – |
| 31K15:g128.t1 | Uncharacterized protein tcm_003795 | 1368 | EOX94247 | 49.45% | 0 | – |
| 31K15:g129.t1 | Gag-pol polyprotein | 2775 | ABO36622 | 55.70% | 6 | F:nucleic acid binding; P:DNA integration; F:zinc ion binding; F:exonuclease activity; C:intracellular; F:metal ion binding |
| 31K15:g130.t1 | nbs-containing resistance-like protein | 411 | CAN83754 | 54.20% | 4 | P:defense response; F:ADP binding; F:hydrolase activity; F:phosphoprotein phosphatase activity |
| 31K15:g131.t1 | Retrotransposon unclassified | 3288 | CAN59755 | 60.80% | 3 | F:nucleic acid binding; P:DNA integration; F:zinc ion binding |
| 31K15:g132.t1 | cc-nbs-lrr resistance protein | 594 | XP_002526758 | 55.75% | 1 | F:hydrolase activity |
| 31K15:g133.t1 | Leucine-rich repeat containing protein | 1338 | AAO37645 | 48.25% | 4 | P:defense response; F:ADP binding; F:hydrolase activity; F:phosphoprotein phosphatase activity |
| 31K15:g134.t1 | Retrotransposon unclassified | 4848 | EOY11267 | 63.10% | 2 | F:organic cyclic compound binding; F:heterocyclic compound binding |
| 31K15:g135.t1 | Copia-type polyprotein | 4968 | EOY11267 | 64.50% | 3 | F:heterocyclic compound binding; F:organic cyclic compound binding; P:cellular process |
| 31K15:g136.t1 | Vamp protein sec22 | 633 | EOY08448 | 76.70% | 3 | P:defense response to virus; C:plasmodesma; C:plasma membrane |
| 31K15:g137.t1 | Polyprotein | 3426 | CAN81099 | 63.45% | 7 | P:electron transport chain; P:DNA recombination; C:plastid; F:electron carrier activity; F:DNA binding; F:ion binding; P:electron transport |
| 31K15:g137.t2 | Polyprotein | 3411 | CAN81099 | 63.45% | 7 | P:electron transport chain; P:DNA recombination; C:plastid; F:electron carrier activity; F:DNA binding; F:ion binding; P:electron transport |
| 31K15:g138.t1 | Uncharacterized protein partial(retropepsin-like protein) | 2544 | AFN88198 | 47.95% | 6 | F:RNA binding; F:nucleic acid binding; P:DNA integration; P:RNA-dependent DNA replication; F:zinc ion binding; F:RNA-directed DNA polymerase activity |
| 31K15:g139.t1 | Disease resistance protein | 1797 | CAN74029 | 73.55% | 10 | P:response to stimulus; F:purine ribonucleoside binding; P:single-organism cellular process; F:anion binding; F:zinc ion binding; F:nucleic acid binding; P:ammonium transport; P:DNA integration; C:membrane; F:adenyl ribonucleotide binding |
| 31K15:g140.t1 | Copia-like retrotransposable | 1356 | EOY19734 | 49.20% | 3 | F:nucleic acid binding; P:DNA integration; F:zinc ion binding |
| 31K15:g141.t1 | Mitogen-activated protein kinase kinasekinase | 522 | EOY25694 | 59.40% | 1 | F:transferase activity, transferring phosphorus-containing groups |
| 31K15:g142.t1 | nbs-containing resistance-like protein | 906 | XP_003598563 | 65.80% | 4 | P:defense response; F:ADP binding; F:hydrolase activity; F:phosphoprotein phosphatase activity |
| 31K15:g143.t1 | Copia-like retrotransposable | 3780 | EOY11267 | 62.20% | 3 | F:heterocyclic compound binding; F:organic cyclic compound binding; P:cellular process |
| 31K15:g144.t1 | nbs-lrr resistance protein rgh2 | 1470 | AAO37645 | 59.40% | 1 | F:hydrolase activity |
| AC190836:g35.t1 | cc-nbs-lrr class disease resistance | 1308 | EOY13112 | 65.15% | 2 | P:defense response; F:ADP binding |
| AC190836:g36.t1 | cc-nbs-lrr class disease resistance protein | 1737 | EOY13110 | 62.35% | 7 | P:defense response; F:ADP binding; F:hydrolase activity; F:phosphoprotein phosphatase activity; F:ATP binding; F:nucleotide binding; F:nucleoside-triphosphatase activity |
| AC190836:g37.t1 | Gag-pol polyprotein | 1758 | CAN64972 | 71.80% | 1 | F:binding |
| AC190836:g38.t1 | cc-nbs-lrr class disease resistance | 543 | EOY13112 | 70.63% | 0 | – |
| AC190836:g39.t1 | Retrotransposon unclassified | 1848 | AAG50698 | 66.95% | 1 | F:binding |
| AC190836:g40.t1 | Retrotransposon ty1-copia subclass | 3408 | AAM91886 | 61.90% | 2 | P:DNA recombination; F:DNA binding |
| AC190836:g42.t1 | Leucine-rich repeat protein kinase family | 906 | EOY13449 | 63.30% | 0 | – |
| AC190836:g43.t1 | cc-nbs-lrr class disease resistance | 852 | EOY13112 | 64.20% | 2 | P:defense response; F:ADP binding |
| AC202830:g44.t1 | tmv resistance protein | 2512 | EOY25754 | 68.00% | 1 | F:nucleotide binding |
| AC202830:g45.t1 | Disease resistance | 768 | EOY25754 | 52.85% | 6 | P:defense response; F:ADP binding; P:signal transduction; F:ATP binding; F:nucleotide binding; F:nucleoside-triphosphatase activity |
| AC202830:g46.t1 | Serine threonine-protein phosphatase 7 long form homolog | 333 | XP_004490229 | 69.40% | 2 | F:nucleic acid binding; F:zinc ion binding |
| AC202830:g48.t1 | Probable adp-ribosylation factor gtpase-activating protein agd14-like | 2676 | EOY10412 | 67.30% | 2 | F:metal ion binding; P:nucleobase-containing compound metabolic process |
| AC202830:g48.t2 | gtpase activating isoform 4 | 2553 | EOY10413 | 72.00% | 4 | F:nucleoside-triphosphatase activity; F:ion binding; P:nucleobase-containing compound metabolic process; F:nucleotide binding |
| AC202830:g49.t1 | tmv resistance protein | 2553 | EOY25754 | 69.85% | 1 | F:nucleotide binding |
| AC202830:g49.t2 | tmv resistance protein | 2991 | EOY25754 | 69.40% | 1 | F:nucleotide binding |
| AC202830:g49.t3 | tmv resistance protein | 5583 | EOY25754 | 69.25% | 1 | F:nucleotide binding |
| AC202830:g50.t1 | Strong similarity to gi | 2205 | CAN81099 | 58.65% | 5 | F:nucleic acid binding; P:DNA integration; F:zinc ion binding; P:oxidation-reduction process; F:oxidoreductase activity |
| AC202830:g51.t1 | Retrotransposon ty1-copia sub-class | 1368 | CAN83392 | 70.05% | 3 | F:DNA binding; C:plastid; P:DNA recombination |
| AC202830:g52.t1 | Cysteine-rich rlk (receptor-like protein kinase) 8 | 594 | CAN75536 | 76.00% | 7 | F:DNA binding; F:peroxidase activity; F:zinc ion binding; P:DNA integration; P:DNA recombination; P:peroxidase reaction; P:response to oxidative stress |
| AC202830:g53.t1 | chromo domain-containing protein lhp1-like | 581 | EOY10373 | 62.35% | 5 | P:single-organism cellular process; P:cellular macromolecule metabolic process; P:negative regulation of gene expression; P:primary metabolic process; P:regulation of gene expression, epigenetic |
| AC187810:g54.t1 | t-complex protein 1 subunit theta-like | 564 | EOY11214 | 84.05% | 16 | P:cytoskeleton organization; P:gluconeogenesis; P:protein folding; C:membrane; P:pyrimidine ribonucleotide biosynthetic process; P:RNA methylation; P:proteasomal protein catabolic process; P:cullin deneddylation; P:photomorphogenesis; C:cytosol; P:G2 phase of mitotic cell cycle; F:unfolded protein binding; C:plasmodesma; P:regulation of flower development; P:histone lysine methylation; F:ATP binding |
| AC187810:g54.t2 | t-complex protein 1 subunit theta-like | 663 | EOY11214 | 85.10% | 16 | P:cytoskeleton organization; P:gluconeogenesis; P:protein folding; C:membrane; P:pyrimidine ribonucleotide biosynthetic process; P:RNA methylation; P:proteasomal protein catabolic process; P:cullin deneddylation; P:photomorphogenesis; C:cytosol; P:G2 phase of mitotic cell cycle; F:unfolded protein binding; C:plasmodesma; P:regulation of flower development; P:histone lysine methylation; F:ATP binding |
| AC187810:g55.t1 | Disease resistance | 2697 | EOY25762 | 64.05% | 1 | F:binding |
| AC187810:g56.t1 | Uncharacterized protein tcm_026511 | 2757 | CAN74029 | 70.20% | 2 | F:binding; P:cellular process |
| AC187810:g57.t1 | Retrotransposon ty1-copia subclass | 303 | CAN71828 | 76.50% | 5 | F:DNA binding; F:zinc ion binding; P:DNA integration; P:DNA recombination; C:mitochondrion |
| AC187810:g58.t1 | Disease resistance | 2370 | EOY25754 | 64.35% | 3 | P:defense response; F:ADP binding; P:signal transduction |
| AC187810:g58.t2 | Disease resistance protein | 1695 | ERP57954 | 56.50% | 3 | P:defense response; F:ADP binding; P:signal transduction |
| AC187810:g59.t1 | Retrotransposon unclassified | 2748 | EOY32548 | 57.45% | 1 | F:binding |
| AC187810:g59.t2 | Retrotransposon unclassified | 2226 | CAN59755 | 58.70% | 3 | F:nucleic acid binding; P:DNA integration; F:zinc ion binding |
| AC187810:g60.t1 | tmv resistance protein | 2316 | EOY25760 | 65.15% | 6 | P:defense response; F:ADP binding; P:signal transduction; F:ATP binding; F:nucleotide binding; F:nucleoside-triphosphatase activity |
| AC187810:g60.t2 | tmv resistance protein | 2439 | EOY25760 | 65.10% | 6 | P:defense response; F:ADP binding; P:signal transduction; F:ATP binding; F:nucleotide binding; F:nucleoside-triphosphatase activity |
| AC187810:g61.t1 | tmv resistance protein | 1827 | EOY25760 | 66.90% | 1 | F:nucleotide binding |
| AC187810:g61.t2 | Disease resistance | 2334 | EOY25754 | 62.00% | 3 | P:defense response; F:ADP binding; P:signal transduction |
| AC187810:g62.t1 | Uncharacterized protein tcm_026511 | 3936 | EOY11267 | 63.30% | 2 | F:organic cyclic compound binding; F:heterocyclic compound binding |
| AC187810:g63.t1 | Retrotransposon unclassified | 2271 | CAN64779 | 66.05% | 4 | F:transition metal ion binding; F:heterocyclic compound binding; P:nucleobase-containing compound metabolic process; F:organic cyclic compound binding |
| AC187810:g64.t1 | arm repeat protein interacting with abf2-like | 498 | XP_003522041 | 79.20% | 3 | F:nucleic acid binding; F:zinc ion binding; P:DNA integration |
Yellow color means disease resistance protein and blue color means disease receptor protein and transposable elements (TE).