Skip to main content
. 2003 Apr;23(7):2379–2394. doi: 10.1128/MCB.23.7.2379-2394.2003

TABLE 1.

Induction of DNA methylation in N. crassa by synthetic DNA fragmentsa

Plasmid designation N. crassa strain(s) with targeted sequence(s) Length tested (bp) Insert sequence Repeat unit or feature Methylationb (%)
Mean SD
pHT1 N2301 26 AATAAATAAATAAATTTTTTAAAATA Random, 100% A:T 37.0 1.8
TTATTTATTTATTTAAAAAATTTTAT
pHT2 N2302 25 TTTTTTAATTTTATTTTAAATTTTT Random, 100% A:T 6.6 1.2
AAAAAATTAAAATAAAATTTAAAAA
pHT3 N2303 24 AATTTTTTATTTATTATATAATTT Random, 100% A:T 3.2 1.3
TTAAAAAATAAATAATATATTAAA
pHT4 N2304 23 TAAAAATTAAAATAATTAAAAAA Random, 100% A:T 6.8 1.1
ATTTTTAATTTTATTAATTTTTT
pHT5 N2305 25 ATTTTAAAAAAAATATATTAATAAA Random, 100% A:T 14.5 0.1
TAAAATTTTTTTTATATAATTATTT
pHT6 N2306 24 ATTATATATTTTATTAATTTTTTT Random, 100% A:T 6.3 0.9
TAATATATAAAATAATTAAAAAAA
pHT7 N2307 25 TTATTATTTAAATTTTAAATAAATT Random, 100% A:T 15.2 2.8
AATAATAAATTTAAAATTTATTTAA
pHT8 N2308 25 TAAATTTAATAAATTTATTTTTAAT Random, 100% A:T 27.0 8.1
ATTTAAATTATTTAAATAAAAATTA
pHT9 N2309 23 TAAAAATTAAAATAATTAAAAAA Random, 100% A:T 9.0 2.9
ATTTTTAATTTTATTAATTTTTT
pHT10 N2310 25 TTTATTTAAATTTATAATAATTATA Random, 100% A:T 14.7 0.7
AAATAAATTTAAATATTATTAATAT
pHT11 N2311 25 TATTATAATATTTATAATTATTTTT Random, 100% A:T 8.7 1.1
ATAATATTATAAATATTAATAAAAA
pHT12 N2312 25 TATTATAATATTTATAATTATTTTT Random, 100% A:T 5.7 0.2
ATAATATTATAAATATTAATAAAAA
pHT13 N2313 25 AAATAATAAAAAAATATTTTTTTAA Random, 100% A:T 9.0 1.5
TTTATTATTTTTTTATAAAAAAATT
pHT14 N2314 25 TAAAATATTATTTATATTAATAAAA Random, 100% A:T 7.1 0.7
ATTTTATAATAAATATAATTATTTT
pHT15 N2315 25 AATAAAAAATAAATAATTATAATAA Random, 100% A:T 12.1 3.8
TTATTTTTTATTTATTAATATTATT
pHT16 N2316 25 AAAATTTTAAATATATAATAATAAT Random, 100% A:T 16.2 5.7
TTTTAAAATTTATATATTATTATTA
pHT17 N2317 25 AATAAAAATATTTTTATTTATAAAA Random, 100% A:T 7.4 2.8
TTATTTTTATAAAAATAAATATTTT
pHT18 N2318 25 TAATATATATAAAAAATATAAATTA Random, 100% A:T 6.1 2.3
ATTATATATATTTTTTATATTTAAT
pHT19 N2319 25 TATAAATTTATTTATATAATTAAAA Random, 100% A:T 12.2 0.6
ATATTTAAATAAATATATTAATTTT
pHT20 N2320 25 GTAGGACTTACACCACCTGCGGGTC Random, 50% G:C 0.0
CATCCTGAATGTGGTGGACGCCCAG
pHT21 N2321 23 GGACGACCCGATACCACGCGACA Random, 50% G:C 0.0
CCTGCTGGGCTATGGTGCGCTGT
pHT22 N2322 25 CGCAGTTGCCCCAAATAGGAGGGAT Random, 50% G:C 0.0
GCGTCAACGGGGTTTATCCTCCCTA
pHT23 N2323 25 CACCAGCATCATGGTGCGCCTCAAG Random, 50% G:C 0.0
GTGGTCGTAGTACCACGCGGAGTTC
pHT24 N2324 24 CGGTGACGGTGAACAAGCTCAACA Random, 50% G:C 0.0
GCCACTGCCACTTGTTCGAGTTGT
pHT25 N2325 25 GACTCGTGCCAAGTCTTCAAGGTCC Random, 50% G:C 0.0
CTGAGCACGGTTCAGAAGTTCCAGG
pHT26 N2326 21 TAGCGGAGATCACCCCCAATC Random, 50% G:C 0.0
ATCGCCTCTAGTGGGGGTTAG
pHT27 N2327 25 GGTAGCCACGGGCCTTGCCAAGCTT Random, 50% G:C 0.0
CCATCGGTGCCCGGAACGGTTCGAA
pHT28 N2328 25 TATCCAGACGGACACACGGCAACTT Random, 50% G:C 0.0
ATAGGTCTGCCTGTGTGCCGTTGAA
pHT29 N2329 24 TTTCGCTCTGCGCGGCTCATAAAT Random, 50% G:C 0.0
AAAGCGAGACGCGCCGAGTATTTA
pHT30 N2330 25 TGGGCCGGCGAAGTTGGTAGAGGGT Random, 50% G:C 0.0
ACCCGGCCGCTTCAACCATCTCCCA
pHT31 N2331 25 CTGCACACGTCATAATCCTGGGAGG Random, 50% G:C 0.0
GACGTGTGCAGTATTAGGACCCTCC
pHT32 N2332 25 AAAAAAAAAAAAAAAAAAAAAAAAA A 2.1 0.6
N2333 TTTTTTTTTTTTTTTTTTTTTTTTT T
pHT33 N2334 25 AATAAAAAATAAAAAATAAAAAATA TAAAAAA 10.2 0.7
N2335 TTATTTTTTATTTTTTATTTTTTAT ATTTTTT
pHT34 N2336 25 AATAAAAATAAAAATAAAAATAAAA TAAAAA 10.4 1.3
N2337 TTATTTTTATTTTTATTTTTATTTT ATTTTT
pHT35 N2338 25 AATAAAATAAAATAAAATAAAATAA TAAAA 12.8 1.6
N2339 TTATTTTATTTTATTTTATTTTATT ATTTT
pHT36 N2340 25 AATAAATAAATAAATAAATAAATAA TAAA 29.7 4.3
N2341 TTATTTATTTATTTATTTATTTATT ATTT /PICK>
Plasmid designation N. crassa strain(s) with targeted sequence(s) Length tested (bp) Insert sequence Repeat unit or feature Methylationb (%)
Mean SD
pHT37 N2342 25 AATTAATTAATTAATTAATTAATTA AATT 24.9 1.8
N2343 TTAATTAATTAATTAATTAATTAAT TTAA
pHT38 N2344 25 AATAATAATAATAATAATAATAATA TAA 10.8 1.0
N2345 TTATTATTATTATTATTATTATTAT ATT
pHT39 N2346 25 AATATATATATATATATATATATAT TA 5.8 2.2
N2347 TTATATATATATATATATATATATATATA AT
pHT40 N2348 20 TAAATAAATAAATAAATAAA TAAA 11.4 5.2
N2349 ATTTATTTATTTATTTATTT ATTT
pHT41 N2350 40 TAAATAAATAAATAAATAAA... TAAA 74.4 5.9
N2351 ATTTATTTATTTATTTATTT... ATTT
pHT42 N2352 80 TAAATAAATAAATAAATAAATAAAT... TAAA 81.4 1.3
N2353 ATTTATTTATTTATTTATTTATTTA... ATTT
pHT43 N2354 25 TAAAATAAAATAAAATAAAATAAAA TAAAA 11.6 0.2
N2355 ATTTTATTTTTATTTTATTTTTATTTT ATTTT
pHT44 N2356 25 CTAAACTAAACTAAACTAAACTAAA CTAAA 1.5 0.2
N2357 GATTTGATTTGATTTGATTTGATTT GATTT
pHT45 N2358 25 CAAATCAAATCAAATCAAATCAAAT TCAAA 1.2 0.1
N2359 GTTTAGTTTAGTTTAGTTTAGTTTA AGTTT
pHT46 N2360 25 CAATACAATACAATACAATACAATA TACAA 0.5 0.1
N2361 GTTATGTTATGTTATGTTATGTTAT ATGTT
pHT47 N2362 25 CATAACATAACATAACATAACATAA TAACA 0.3 0.2
N2363 GTATTGTATTGTATTGTATTGTATT ATTGT
pHT48 N2364 100 CAAAACAAAACAAAACAAAACAAAA... CAAAA 4.2 1.3
N2365 GTTTTGTTTTGTTTTGTTTTGTTTT... GTTTT
pHT49 N2366 100 CTAAACTAAACTAAACTAAACTAAA... CTAAA 63.7 6.6
N2367 GATTTGATTTGATTTGATTTGATTT... GATTT
pHT50 N2368 100 CAAATCAAATCAAATCAAATCAAAT... TCAAA 86.2 6.2
N2369 GTTAGTTTAGTTTAGTTTAGTTTA... AGTTT
pHT51 N2370 100 GAAATGAAATGAAATGAAATGAAAT... TGAAA 8.0 1.2
N2371 CTTTACTTTACTTTACTTTACTTTA... ACTTT
pHT52 N2372 100 CAATACAATACAATACAATACAATA... TACAA 34.8 8.3
N2373 GTTATGTTATGTTATGTTATGTTAT... ATGTT
pHT53 N2374 100 CATAACATAACATAACATAACATAA... TAACA 5.2 0.3
N2375 GTATTGTATTGTATTGTATTGTATT... ATTGT
pHT54 N2376 100 CTAATCTAATCTAATCTAATCTAAT... CTAAT 24.4 10.5
N2377 GATTAGATTAGATTAGATTAGATTA... GATTA
pHT55 N2378 100 CTAAAACTAAAACTAAAACTAAAAA... CTAAAA 74.7 1.3
N2379 GATTTTGATTTTGATTTTGATTTTT... GATTTT
pHT56 N2380 100 TCAAAATCAAAATCAAAATCAAAAT... TCAAAA 70.6 4.9
N2381 AGTTTTAGTTTTAGTTTTAGTTTTA... AGTTTT
pHT57 N2382 100 CAAACAAACAAACAAACAAACAAAC... CAAA 1.33 0.7
N2383 GTTTGTTTGTTTGTTTGTTTGTTTG... GTTT
pHT58 N2384 100 CTAACTAACTAACTAACTAACTAAC... CTAA 22.2 3.4
N2385 GATTGATTGATTGATTGATTGATTG... GATT
pHT59 N2386 100 CAATCAATCAATCAATCAATCAATC... TCAA 45.3 6.7
N2387 GTTAGTTAGTTAGTTAGTTAGTTAG... AGTT
pHT60 N2388 100 CTTACTTACTTACTTACTTACTTAC... GTAA 10.9 1.5
N2389 GAATGAATGAATGAATGAATGAATG... CATT
pHT61 N2390 100 CATTCATTCATTCATTCATTCATTC... TGAA 0.7 0.4
N2391 GTAAGTAAGTAAGTAAGTAAGTAAG... ACTT
pHT62 N2392 100 CTATCTATCTATCTATCTATCTATC... CTAT 9.1 1.6
N2393 GATAGATAGATAGATAGATAGATAG... GATA
pHT63 N2394 100 CAACAACAACAACAACAACAACAAC... CAA 0.0
N2395 GTTGTTGTTGTTGTTGTTGTTGTTG... GTT
pHT64 N2396 100 CTTCTTCTTCTTCTTCTTCTTCTTC... GAA 0.2 0.1
N2397 GAAGAAGAAGAAGAAGAAGAAGAAG... CTT
pHT65 N2398 100 CTACTACTACTACTACTACTACTAC... CTA 32.3 6.0
N2399 GATGATGATGATGATGATGATGATG... GAT
pHT66 N2400 100 CATCATCATCATCATCATCATCATC... CAT 0.0
N2401 GTAGTAGTAGTAGTAGTAGTAGTAG... GTA
pHT67 N2402 100 GATCGATCGATCGATCGATCGATCG... GATC 5.7 0.8
N2403 CTAGCTAGCTAGCTAGCTAGCTAGC... CTAG
pHT68 N2404 100 CATGCATGCATGCATGCATGCATGC... CATG 0.0
N2405 GTACGTACGTACGTACGTACGTACG... GTAC
pHT69 N2406 100 CTAGCTAGCTAGCTAGCTAGCTAGC... CTAG 1.7 0.4
N2407 GATCGATCGATCGATCGATCGATCG... GATC
a

Sequences tested are presented 5′ to 3′ on the top strand and 3′ to 5′ on the bottom strand. For sequences longer than 25 bp, three dots indicate that part of the test sequence is not shown. Sequences that were synthesized by incorporating a nucleotide at random from a 1:1 mixture of dATP and dTTP or from a 1:1:1:1 mixture of dGTP, dCTP, dATP, and dTTP are designated random 100% A:T and random 50% A:T, respectively.

b

Means and standard deviations are shown. In the case of plasmids pHT1 to pHT31, these values were based on two or more independent Southern hybridizations from each of two independent cultures of the corresponding targeted transformant. All others were based on two or more independent targeted transformants (two cultures each). 0.0, no methylation detected.