TABLE 1

Summary of 79 gl8-Mu insertion alleles

Allele no.gl8-Mu alleleTagging methodaProgenitor alleleMu insertions sitebMu insertionscMu orientationdGenie regione
175-5074-22RNDAAGATGGCAT::CCATCAGGA::AGTCTTCCTTMu1FExon 3
277-3134-48RNDATCCGCTCTA::CTCCGTCTA::CGCCGCTACCMu1RExon 1
378-1841-47RNDGTCTACGCCG::CTACCAAAG::CGTGAGCTCCMu1RExon 1
483-8123-7RQ67CACCGCACCG::CACTGCATC::GGTCGCCAGCMu1F5′ UTR
587-2250-8RQ66GGCAGGCACA::CCGCACCGC::ACCGCACCCG*Mu1R5′ UTR
688-3142-4RB77TCCTCCAGCT::CCCCAAATC::ACACTCCGCCMu8R5′ UTR
790-2940-ARB79CACCGCACCG::CACTGCATC::GGTCGCCAGC*Mu1R5′ UTR
890-3230-5RB79ATAAGCTCGA::CACAGGGGC::AGGCACACCGMu1F5′ UTR
991-2136-36RB77GCCGAGCCCT::GCTCTCTCC::TCCAGCTCCCMu1F5′ UTR
1091g-6079-25RQ66GGCAGGCACA::CCGCACCGC::ACCGCACCCGMu1F5′ UTR
1192-1205-80RB77CTTATAAGCT::AAGCTCGAC::ACACGGGCAG*Mu1R5′ UTR
1292-1253-64RQ67GCTCGACACA::GGGGCAGGC::ACACCGCACAMu1F5′ UTR
1392g-4908-27RQ66GCTCGACACA::GGGGCAGGC::ACACCGCACC*Mu1F5′ UTR
1494-1480-26RB79TCCACCCACC::ACCGGATAT::AGGTCATGCCMuDRND5′ region*
1594-1641-25RNDNo insertion detected
1691g 157DB77GCTCGACACA::CGGGCAGGC::AGGCACACCG*Mu1R5′ UTR
1791g 159DNDNo insertion detected
1891g 160DB77CCCCAAATCA::CACTCCGCC::ATGGCCGGCAMu1R5′ UTR
1991g 161DQ66ATAAGCTCGA::CACAGGGGC::AGGCACACCG*Mu1R5′ UTR
2091g 163DB77GCTCGACACA::CGGGCAGGC::AGGCACACCGMuDRND5′ UTR
2191g 164DB77TCGGTCGCCA::GCCGAGCCG::AGCCCTGCTC*Mu1R5′ UTR
2291g 168DQ66See Figure 5MuDRND5′ region*
2391g 169DB77See Figure 5MuDRND5′ UTR
2491g 170DB77GTTCCACCCA::CCACCGGAT::ATAGGTCATGMuDRND5′ region*
2591g 171DQ66ACCCGCATCG::GTCGCCAGC::CGAGCCGAGC*Mu1R5′ UTR
2691g 203DQ67CACCGCACCG::CACTGCATC::GGTCGCCAGCMu1F5′ UTR
2791g 204DB77CACCGCA TCG::GTCGCCAGC::CGAGCCGAGC*Mu1R5′ UTR
2891g 205DB77GCTCGACACA::CGGGCAGGC::AGGCACACCGMu1F5′ UTR
2991g 208DB77GCTCGACACA::CGGGCAGGC::AGGCACACCG*Mu1R5′ UTR
3091g 209DQ67TGCCCCTTAT::AAGCTCGAC::ACAGGGGCAGMu10F5′ UTR
3191g 210DB77GCTCGACACA::CGGGCAGGC::AGGCACACCGMu1F5′ UTR
3291g 211DQ67CCCCAAATCA::CACTCCGCC::ATGGCCGGCAMu11F5′ UTR
3391g 212DNDCTTCTGATCC::GCTCTACTC::CGTCTACGCCMu11RExon 1
3491g 213DQ67See Figure 5MuDRND5′ UTR
3591g 214DQ66ATAAGCTCGA::CACAGGGGC::AGGCACACG*Mu1R5′ UTR
3691g 215DQ67No insertion detected
3791g 216DQ67TCCTCCAGCT::CCCCAAATC::ACACTCCGCCMu12ND5′ UTR
3891g 217DQ67TATAAGCTCG::ACACAGGGG::CAGGCACACCMu1F5′ UTR
3991g 219DQ66ACCCGCATCG::GTCGCCAGC::CGAGCCGAGC*Mu1R5′ UTR
4091g 220DB79CACCGCACCG::CACTGCATC::GGTCGCCAGC*Mu1R5′ UTR
4191g 228DB79CACTGCATCG::GTCGCCAGC::CGAGCCGAGCMuDRND5′ UTR
4291g 229DB79CACCGCACCG::CACTGCATC::GGTCGCCAGCMu1R5′ UTR
4391g 230DNDGAGTTCCTCC::GCGCGCAGC::CGGCGTGGGCMu11RExon 1
4491g 231DB77AAGCTCGACA::CACGGGCAG::GCAGGCACACMu1F5′ UTR
4591g 232DB79ATAAGCTCGA::CACAGGGGC::AGGCACACCGMu1F5′ UTR
4691g 233DB79CACTGCATCG::GTCGCCAGC::CGAGCCGAGCMuDRND5′ UTR
4791g 235DQ67CCTTATAAGC::TCGACACAG::GGGCAGGCACMu11R5′ UTR
4891g 238DQ66CCTTATAAGC::TCGACACAG::GGGCAGGCACMu11F5′ UTR
4991g 239DB79See Figure 5Mu4ND5′ UTR
5091g 240DQ66TCGCCAGCCG::AGCCGAGCC::CTGCTCTCTCMuDRND5′ UTR
5191g 241DQ67TCCTCCAGCT::CCCCAAATC::ACACTCCGCCMu12F5′ UTR
5291g 248DB77CAGGCACACC::GCACCGCAC::CGCATCGGTCMuDRND5′ UTR
5393B 141DB79CACCGCACCG::CACTGCATC::GGTCGCCAGCMu1F5′ UTR
5493B 142DB79CACCGCACCG::CACTGCATC::GGTCGCCAGCMuDRND5′ UTR
5593B 144DQ66GCTCGACACA::GGGGCAGGC::ACACCGCACCMu1F5′ UTR
5693B 145DB79CACCGCACCG::CACTGCATC::GGTCGCCAGC*Mu1R5′ UTR
5793B 146DQ66GCAAAAAACT::TTCACTGTA::AGGCGTACTGMu8RIntron 1
5893B 147DB77AGGCACACCG::CACCGCACC::GCATCGGTCGMu1F5′ UTR
5993B 148DNDGGCCGTGCGC::GCCGCCGCC::CGCTTCGCGCMu1FExon 1
6093B 150DB77CACCGCATCG::GTCGCCAGC::CGAGCCGAGCMuDRND5′ UTR
6193B 151DNDCCGAGTCCCT::TATCGACAG::CGTGCGCCTGMu2FExon 3
6293B 152DB79CACCGCACCG::CACTGCATC::GGTCGCCAGCMuDRND5′ UTR
6393B 153DB77CACCGCATCG::GTCGCCAGC::CGAGCCGAGC*Mu1R5′ UTR
6493B 154DQ66CACCGCACCG::CACCCGCAT::CGGTCGCCAGMu1F5′ UTR
6593B 155DNDGATTGGCTCG::ATTCTAGGA::TAGATGGCTTMuDRNDIntron 1
6693B 156DB79CACCGCACCG::CACTGCATC::GGTCGCCAGCMu1F5′ UTR
6793B 158DB79CACCGCACCG::CACTGCATC::GGTCGCCAGCMu1F5′ UTR
6893B 159DB79CACCGCACCG::CACTGCATC::GGTCGCCAGC*Mu1R5′ UTR
6993B 161DB77GCTCGACACA::CGGGCAGGC::AGGCACACCGMu1F5′ UTR
7093B 162DB79CACTGCATCG::GTCGCCAGC::CGAGCCGAGCMuDRND5′ UTR
7193B 164DB77CACCGCATCG::GTCGCCAGC::CGAGCCGAGCMuDRND5′ UTR
7293B 181DB77TCCTCCAGCT::CCCCAAATC::ACACTCCGCCMu8R5′ UTR
7393B 189DB77CACCGCACCG::CACCGCATC::GGTCGCCAGCMu1R5′ UTR
7493B 226DB79CACCGCACCG::CACTGCATC::GGTCGCCAGCMu1R5′ UTR
7593B 227DNDNo insertion detected
7693B 228DNDCTGATGCGCA::CCCTCATCC::GGGTCAACGTMuDRNDExon 1
7793B 606DB77GCTCGACACA::CGGGCAGGC::AGGCACACCGMu1F5′ UTR
7893B 607DQ67CACCGCACCG::CACTGCATC::GGTCGCCAGCMuDRND5′ UTR
7993B 609DB77AGGCACACCG::CACCGCACC::GCATCGGTCGMuDRND5′ UTR
  • a Alleles were generated via either random (R) or direct (D) transposon-tagging experiments.

  • b Mu insertion sites are shown as they would appear in the corresponding progenitor allele (see Figure 6A). The sequence of the 9-bp TSD is enclosed by double colons flanked on either side by 10 nucleotides immediately upstream and downstream of the TSD. For alleles in which only one side of the Mu transposon was sequenced, the TSD represents a predicted duplication. For these alleles, gl8 sequences from the nonsequenced side of the Mu transposon are based on the progenitor sequence for that allele and are shown in italics. For insertions in which transposons inserted in the coding region (and intronic insertion allele no. 65) progenitor alleles were not determined and flanking sequences are derived from the G18-B73 allele. Underlined TSDs indicate sequences that were obtained from both sides of a Mu transposon and were confirmed to be exact duplications.

  • c The terminal 39 nucleotides of the left TIR of Mu1 and the right TIR of Mu2 are identical. Hence it was not possible to distinguish between Mu1 and Mu2 insertions in gl8-Mu alleles in which only the Mu1 left TIR sequence was obtained. Such alleles are designated *Mu1 in Table 1. Since Mu1 transposons are present in considerably higher numbers than Mu2 transposons in Mu stocks (reviewed by Bennetzen et al. 1993), the orientation of *Mu1 insertions is given with respect to Mu1.

  • d Terminal Mu TIR sequences allowed for determination of transposon orientation for most transposons. Orientation was defined as forward (F) if the transposon inserted with TIR arranged left to right with respect to gl8 and reverse (R) if the transposon inserted in the opposite direction.

  • e Three alleles (allele nos. 14, 22, and 24), marked by asterisks, have Mu insertions 4–11 nucleotides 5′ of the transcription start site of the B73 allele. Because transcription start sites were not determined for each of the progenitor alleles, the insertions in these three alleles may be in the 5′ UTR.