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Table 2 Chromosomal locations of duplications and their distribution among strains

From: Widespread duplications in the genomes of laboratory stocks of Dictyostelium discoideum

Duplication Chromosome Start (gene) Start (position) Stop (gene) Stop (position) Length, bp (estimated) Strain
1A 1 DDB0216544 597,838 DDB0202121 630,646 32,808 NP81, HU32
1B 1 DDB0190413 3,180,718 DDB0190424 3,207,169 26,451 Ax2(all)
1C 1 DDB0190683 3,902,919 DDB0190710 3,958,366 55,447 KAx3(U)
1D 1 DDB0190972 4,651,366 end 4,923,596 272,230 Ax2(I)
2A 2 end 1 DDB0216807 200,951 200,950 NP81
2B 2 DDB0217042 1,829,463 DDB0167938 3,760,461 1,930,998 Ax2(Wee)
2C 2 DDB0168867 1,848,568 DDB0217158 3,002,504 1,153,936 Ax2-214
2D 2 DDB0168894 1,898,568 DDB0231868 3,020,328 1,121,760 Ax2(M)
2E 2 DDB0185119 2,249,563 DDB0217157 3,002,134 752,571 Ax3/Ax4(all), NC4A2(both), JH10, DH1, HU32, NP81
2F 2 DDB0203552 6,131,391 DDB0217791 6,752,329 620,938 Ax2-206
2G 2 DDB0169405 6,623,914 DDB0217791 6,752,329 128,415 JH10
2H 2 DDB0217974 7,981,227 end 8,470,628 489,401 NC4(L), NC4(Kn)
2I 2 DDB0203385 8,080,299 DDB0217992 8,181,086 100,787 DH1, Ax3(D)
3A 3 DDB0206361 2,898,815 DDB0206368 2,915,972 17,157 NP81, HU32
3B 3 DDB0206089 3,595,775 DDB0206091 3,599,648 3,873 all non-NC4, some NC4s, X22
4A 4 DDB0186951 4,413,680 DDB0186970 4,474,299 60,619 NC28.2
4B 4 DDB0218826 4,572,845 end 5,450,249 877,404 NC4(B)
5A 5 DDB0219507 3,476,579 DDB0188678 3,531,501 54,922 DH1, Ax3(C), Ax3(D), Ax4(F), XP99, HU32, NP81
6A 6 DDB0183998 578,375 DDB0184007 595,296 16,921 NP81, HU32
6B 6 DDB0184069 763,797 DDB0184181 1,066,872 303,075 XP99
6C 6 DDB0219696 767,768 DDB0219699 787,282 19,514 NP81, HU32
6D 6 DDB0191606 838,926 DDB0184104 858,379 19,453 NP81, HU32
6E 6 DDB0184203 1,144,841 end 3,602,379 2,457,538 Ax2-206
6F 6 DDB0184511 1,919,891 DDB0219875 3,055,147 1,135,256 Ax2-206
6G 6 DDB0191998 3,022,031 DDB0219875 3,055,147 33,116 NP81, HU32
6H 6 DDB0192115 3,311,430 end 3,602,379 290,949 NC4(Wi)
6I 6 DDB0192193 3,468,862 end 3,602,379 133,517 NC4(S)
  1. Breakpoints were estimated by eye, and their map locations determined by aligning the probe sequence with the dictyBase assembly version 2.5. The duplication in the sequenced strain is given as the breakpoints and size revealed by the sequence itself. As noted in the text there appears to be variation in this duplication among the different strains that inherited it. The putative duplications in Ax2-214 and Ax2(M) are atypical in that the average log2 ratio across their lengths is considerably lower than 0.5. The larger duplication of chromosome 6 sequence in Ax2-206 may be similar in this respect. We do not understand why these features differ from the more typical duplications we observe.