Correspondence of Cotton Nuclear Repetitive Elements to Other Organisms’ Genes or DNA Sequences
| Clone[i] | Copy number | Blast score | Longest ORF | Corresponding DNA sequences from other organisms (database/acc.no.) |
| Tandem repeats | ||||
| A-genome specific | ||||
| pXP060(T7) | M | 168 | 156 | Plasmodium falciparum DNA polymerase α (GB:L18785) |
| Common to AD genome | ||||
| pXP158(F) | M | 170 | 123 | Internal theronine–glutamic acid–threonine–proline repeat from a Dictyosteliumspore-germination-specific protein family (GB:M33861) |
| Partially interspersed repeats | ||||
| A-genome specific | ||||
| pXP050(T3) | M | 195 | ⩾177 | Plasmodium crk-1 mRNA for cdc-2 related protein kinase (EMB:X80759) |
| pXP067(T7) | H | 419 | 357 | Lilium henryi del transposon (EMB:X13886) |
| pXP180(T3) | M | 172 | ⩾195 | P. falciparumgenome clone (GB:T09917) |
| pXP187(F) | L | 183 | ⩾210 | Homo sapiens cDNA (GB:T65782) |
| pXP3-58(F) | M | 176 | ⩾297 | S. cerevisiae mitochondrial 21S R2 rRNA, 3‘ end (GB:L36894) |
| Common to AD genome | ||||
| pXP108(T3) | H | 629 | 78 | 18S rRNA (GB:L24772) |
| pXP163(F) | M | 310 | ⩾93 | Arabidopsis thaliana cyclin 2b mRNA (EMB:Z31401) |
| pXP226(T3) | L | 160 | 180 | Rickettsia prowazekiigyrase A subunit gene (GB:U02931) |
| pXP3-39(T3) | M | 167 | 231 | Vibrio parahaemolyticus BB22 hook-associated protein (GB:U12817) |
| Interspersed repeats | ||||
| A-genome specific | ||||
| pXP006(T7) | H | 152 | 207 | Tetrahymena thermophila RR internal deletion sequence (GB:U23442) |
| pXP019(T7) | M | 160 | 225 | Herpetomonas mariadeanei kinetoplast 12S rRNA gene (GB:U01009) |
| pXP030(T3) | M | 203 | 231 | B. napus DNA fragment with retrotransposon integrase motif (EMB:X99804) |
| pXP059(T7) | M | 395 | 192 | B. napus homeodomain hd1 mRNA for homeodomain-containing protein (EMB:Z29073) |
| pXP1-13(T7) | M | 160 | 252 | D. melanogastertransposable element HeT-A-RT394 gene sequence |
| pXP1-16(T7) | M | 155 | 213 | Tetrahymena thermophila surface antigen (temperature-regulated) mRNA (GB:M60425) |
| pXP1-58(F) | M | 377 | 210 | L. henryidel transposon (EMB:X13886) |
| pXP111(T3) | L | 153 | 336 | Hansenula wingeimitochondrial DNA (DBJ:D31785) |
| Common to AD genome | ||||
| pXP1-46(T7) | L | 170 | 198 | H. sapiens apolipoprotein B gene hypervariable region (GB:J05157) |
| pXP1-8(T7) | L | 163 | D. melanogaster DNA sequence (GB:L35707) | |
| pXP2-22(T7) | L | 204 | 282 | H. sapiens STS WI-2 (GB:G03682) |
| pXP2-26(T3) | M | 223 | 201 | Nicotiana tabacum Str 246N (EMB:X80830) |
| pXP2-54(F) | L | 181 | 84 | Dictyostelium discoideum α-mannosidase gene (GB:M82822) |
[i] T3, T7, or F (M13F) indicates sequencing primer used.