Leu3 gene transcriptions

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Associate Editor(s)-in-Chief: Henry A. Hoff

With HAS1 ending at zero and TDA1 beginning at above 1000 bp, Leu3 is from 536 - 545 nts yielding consensus sequences (C/G)C(G/T)NNNN(A/C)G(C/G), 569 - 574 Mig1 (C/T)(C/T)CC(A/G)G and Sdd4 (A/C/T)CCCAC, 585 - 592 Rgt1 (A/T)(A/T)N(A/T)(C/T)CCG, 610 - 617 Rgt1 (A/T)(A/T)N(A/T)(C/T)CCG, 630 - 637 Rgt CGG(A/G)(A/T)N(A/T)(A/T).[1]

"Leu3, a well-known transcription factor of genes involved in the metabolism of branched amino acids [13], also has a negative effect on UGA4 and UGA1 expression but does not affect UGA2 expression [10, 11, 14]. Even though Leu3 could not be detected bound to the UGA4 promoter, it interferes in the interaction of Dal81 but not of Uga3 with the UGA4 promoter [11]. The transcription factors Uga3, Dal81 and Leu3 belong to the class III family (Zn(II)2Cys6 proteins), and they recognize highly related sequences rich in GGC triplets [15]."[2]

Human genes

Main article: Human genes

Gene expressions

Main article: Gene expressions

Interactions

Main article: Interaction gene transcriptions

"Although there is a putative consensus site for Leu3 within the UASGABA element of UGA4 and UGA1 genes, we were not able to detect any interaction between Leu3 and the UGA4 promoter [11]."[2]

Consensus sequences

Main article: Consensus sequence gene transcriptions

Leu3 is from 536 - 545 nts yielding consensus sequences (C/G)C(G/T)NNNN(A/C)G(C/G).[1]

Binding site for

Complement copies

Main article: Complement copy gene transcriptions

Inverse copies

Main article: Inverse copy gene transcriptions

Complement-inverse copies

Main article: Complement-inverse copy gene transcriptions

Enhancer activity

Main article: Enhancer activity copy gene transcriptions

Promoter occurrences

Main article: Promoter occurrence gene transcriptions

"The regulatory regions of the UGA4 and UGA1 genes contain a UASGABA element (5′-AAAAACCGCCGGCGGCAAT-3′) target of Uga3 and Dal81 factors. Within this element there is a consensus site [CCGCCGGCGG] for Leu3 [8, 10, 11, 35]."[2]

Hypotheses

Main article: Hypotheses
  1. A1BG has no regulatory elements in either promoter.
  2. A1BG is not transcribed by a regulatory element.
  3. No regulatory element participates in the transcription of A1BG.

Leu samplings

Main article: Model samplings

Copying a responsive elements consensus sequence (C/G)C(G/T)NNNN(A/C)G(C/G) and putting the sequence in "⌘F" finds none between ZNF497 and A1BG or none between ZSCAN22 and A1BG as can be found by the computer programs.

For the Basic programs testing consensus sequence (C/G)C(G/T)NNNN(A/C)G(C/G) (starting with SuccessablesLeu.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:

  1. negative strand, negative direction, looking for (C/G)C(G/T)NNNN(A/C)G(C/G), 16, GCGAACTCGG at 4297, CCGAGTACGG at 4118, CCGACTCCGC at 3998, CCGTCGTAGG at 3903, CCTGGTCCGG at 3873, CCGACTCCGC at 3089, CCGTGTACGG at 2669, CCGAGTACGG at 2535, CCGACTCCGC at 2230, CCGAGTGCGG at 2208, CCGCCCACGG at 1255, GCTCAAACGC at 1188, CCGTGTGCGG at 964, GCGAGGTCGG at 896, CCTCCAACGC at 864, CCGAGTGCGG at 664.
  2. positive strand, negative direction, looking for (C/G)C(G/T)NNNN(A/C)G(C/G), 18, CCTCAGGAGC at 4439, GCTACTCAGG at 4138, GCTGAGGCGG at 3999, GCTACTCAGG at 3217, GCTGAGGCGG at 3090, GCTACACAGG at 2689, GCTACTCCGG at 2354, CCTGGACAGC at 2273, GCTGAGGCGG at 2231, CCGGGTGCGG at 2197, GCGACAGAGC at 2019, GCTACTCAGG at 1275, GCTAATCAGG at 984, GCGCTCCAGC at 895, GCTACTAAGG at 818, CCTGACCAGC at 737, CCTGGGCCGG at 513, CCGGGTGCGG at 380.
  3. positive strand, positive direction, looking for (C/G)C(G/T)NNNN(A/C)G(C/G), 24, CCTCCCCCGC at 4438, CCTCACTCGC at 4353, CCGTGAGAGG at 4010, CCGAAGTCGG at 3998, CCGATATCGG at 3702, CCGCCAACGG at 3492, CCTTACGAGG at 3370, CCGCACTCGG at 2558, CCGTCCGAGG at 1909, CCGCGGGAGG at 1773, GCGGCCACGC at 1763, CCTCCAGCGC at 1689, GCTCCTGCGG at 1672, CCGCTCACGC at 1589, GCGGAAGCGG at 1308, CCGCGTGCGG at 1302, GCTCACGCGG at 1162, GCTCTCGAGC at 1108, GCGTGTGCGG at 804, GCGCGTGAGC at 688, CCGGAAGCGG at 595, CCTCGCTCGG at 432, CCTTTTGAGG at 295, CCGGTCCAGG at 218.
  4. negative strand, positive direction, looking for (C/G)C(G/T)NNNN(A/C)G(C/G), 25, CCTGGGGCGG at 4429, CCTCAGCAGC at 4026, CCTGGGAAGC at 3763, CCTGGGCAGC at 2896, CCTGGCCAGG at 2574, CCTCCCAAGC at 2399, CCTGTGTAGG at 2255, CCGAGGACGC at 1671, GCGAGTGCGG at 1590, GCTCTTAAGC at 1540, CCGCGGCAGC at 1441, CCTTCCGCGG at 1437, CCGCGGCAGC at 1341, CCTTCCGCGG at 1337, CCTACTGAGC at 1288, CCGAGTGCGG at 1170, CCGCGAGAGC at 1105, CCGAGTGCGG at 1086, CCGACTGCGG at 1002, GCGCACTCGC at 689, CCTTCCGCGC at 681, CCGAGTGCGG at 582, CCGCAGACGG at 399, CCGAGGGAGG at 314, GCTCCAGAGG at 17.

Leu3 (4560-2846) UTRs

  1. Negative strand, negative direction: GCGAACTCGG at 4297, CCGAGTACGG at 4118, CCGACTCCGC at 3998, CCGTCGTAGG at 3903, CCTGGTCCGG at 3873, CCGACTCCGC at 3089.
  2. Positive strand, negative direction: CCTCAGGAGC at 4439, GCTACTCAGG at 4138, GCTGAGGCGG at 3999, GCTACTCAGG at 3217, GCTGAGGCGG at 3090.

Leu3 positive direction (4445-4265) core promoters

  1. Negative strand, positive direction: CCTGGGGCGG at 4429.
  2. Positive strand, positive direction: CCTCCCCCGC at 4438, CCTCACTCGC at 4353.

Leu3 negative direction (2811-2596) proximal promoters

  1. Negative strand, negative direction: CCGTGTACGG at 2669.
  2. Positive strand, negative direction: GCTACACAGG at 2689.

Leu3 negative direction (2596-1) distal promoters

  1. Negative strand, negative direction:CCGAGTACGG at 2535, CCGACTCCGC at 2230, CCGAGTGCGG at 2208, CCGCCCACGG at 1255, GCTCAAACGC at 1188, CCGTGTGCGG at 964, GCGAGGTCGG at 896, CCTCCAACGC at 864, CCGAGTGCGG at 664.
  2. Positive strand, negative direction: GCTACTCCGG at 2354, CCTGGACAGC at 2273, GCTGAGGCGG at 2231, CCGGGTGCGG at 2197, GCGACAGAGC at 2019, GCTACTCAGG at 1275, GCTAATCAGG at 984, GCGCTCCAGC at 895, GCTACTAAGG at 818, CCTGACCAGC at 737, CCTGGGCCGG at 513, CCGGGTGCGG at 380.

Leu3 positive direction (4050-1) distal promoters

  1. Negative strand, positive direction: CCTCAGCAGC at 4026, CCTGGGAAGC at 3763, CCTGGGCAGC at 2896, CCTGGCCAGG at 2574, CCTCCCAAGC at 2399, CCTGTGTAGG at 2255, CCGAGGACGC at 1671, GCGAGTGCGG at 1590, GCTCTTAAGC at 1540, CCGCGGCAGC at 1441, CCTTCCGCGG at 1437, CCGCGGCAGC at 1341, CCTTCCGCGG at 1337, CCTACTGAGC at 1288, CCGAGTGCGG at 1170, CCGCGAGAGC at 1105, CCGAGTGCGG at 1086, CCGACTGCGG at 1002, GCGCACTCGC at 689, CCTTCCGCGC at 681, CCGAGTGCGG at 582, CCGCAGACGG at 399, CCGAGGGAGG at 314, GCTCCAGAGG at 17.
  2. Positive strand, positive direction: CCGTGAGAGG at 4010, CCGAAGTCGG at 3998, CCGATATCGG at 3702, CCGCCAACGG at 3492, CCTTACGAGG at 3370, CCGCACTCGG at 2558, CCGTCCGAGG at 1909, CCGCGGGAGG at 1773, GCGGCCACGC at 1763, CCTCCAGCGC at 1689, GCTCCTGCGG at 1672, CCGCTCACGC at 1589, GCGGAAGCGG at 1308, CCGCGTGCGG at 1302, GCTCACGCGG at 1162, GCTCTCGAGC at 1108, GCGTGTGCGG at 804, GCGCGTGAGC at 688, CCGGAAGCGG at 595, CCTCGCTCGG at 432, CCTTTTGAGG at 295, CCGGTCCAGG at 218.

Leu3 random dataset samplings

  1. Leu3r0: 18, CCTTAACCGC at 4212, CCTTAACAGG at 3996, CCTGCTACGG at 3985, GCGCGCCCGC at 3889, CCGTATCAGG at 3862, GCTCGCCCGC at 3432, GCGCCGCAGG at 3244, CCGGATACGG at 3221, GCTATATAGG at 3012, GCGGATCCGC at 2670, CCTAGCCCGC at 1891, GCTACGAAGG at 1844, GCGGGTAAGG at 975, GCTGCCAAGG at 916, CCTTCTAAGG at 696, CCTGAGCAGC at 519, CCTGATGCGC at 354, CCTCCCCAGC at 32.
  2. Leu3r1: 18, CCGGCATCGG at 4476, GCGCATCCGG at 4304, CCTACCCCGG at 4295, CCGCATGAGC at 4286, CCGGCACAGG at 4140, CCGTTCACGG at 3912, CCTTTTCCGC at 3650, GCTGTATCGG at 3525, CCGAGGCAGC at 2925, CCTTACAAGC at 2889, GCTCAGCAGG at 2808, GCGGTGAAGG at 2557, GCTCGTGCGG at 2551, CCGCATACGC at 1359, CCGACAACGC at 963, CCTGTGCAGG at 644, CCGTGGTCGC at 579, GCGTTTCAGG at 552.
  3. Leu3r2: 16, GCGCCCCCGC at 4508, GCGGAGTAGG at 4455, GCGTCTTCGG at 4265, GCTTTTTAGG at 4107, GCTACGCCGG at 4021, CCTCTTCCGG at 3972, GCGGTAGCGG at 3748, GCGAAAAAGC at 3656, GCTTTCGAGC at 3421, GCTAATACGC at 1962, CCGGCTGAGG at 1913, CCTTCACAGC at 1799, CCGGGTTCGC at 1486, CCGGTTCCGC at 638, CCTGTGGCGG at 462, GCTTAGTCGG at 11.
  4. Leu3r3: 26, CCTACTACGC at 4273, CCGTTGACGC at 3962, GCGGACAAGG at 3931, CCTCGTCAGG at 3525, CCTGAATCGG at 3463, GCTTCGCCGG at 3423, CCTGCGGCGC at 3415, CCTATCTCGC at 3358, GCGATAACGC at 3233, GCTTAGGCGG at 3146, GCTGCACCGC at 3078, CCTCTTAAGG at 3035, CCTTCGCCGG at 2896, CCTGCTGCGG at 2716, CCGGTATAGC at 2372, CCTTCCCCGC at 1865, CCGGTCCAGG at 1588, CCTCAGGAGC at 1527, GCTGGCCAGC at 1498, CCGAACGAGC at 1401, GCGGTTCAGC at 860, CCTTTGGAGG at 738, CCGAACAAGG at 676, GCGGGCCAGG at 524, CCGAAGTAGG at 493, GCTGCCCAGC at 138.
  5. Leu3r4: 26, CCTACCCAGG at 4558, GCGTTTACGC at 4439, CCGGCTACGC at 4016, GCGGTCGCGG at 3555, CCTTGGGCGG at 3549, GCGGTTTAGC at 3472, CCTATTAAGG at 2936, GCGGAGGCGC at 2927, CCGGAGTCGC at 2825, GCTATTAAGC at 2352, CCTGACTCGC at 1983, GCTCGCTAGC at 1889, GCGGGCGAGG at 1880, GCGCTCCAGC at 1241, GCGCCGCCGC at 1091, CCTTTCGCGC at 1085, CCTTATAAGC at 1046, CCGGCGCAGC at 1030, CCGCCGGCGC at 1027, CCGCCGGAGC at 881, CCGCCGGAGG at 507, CCGGGGCCGG at 354, GCTAAAGCGG at 217, CCGCTAAAGC at 215, CCTTTAGCGC at 195, CCGCGCCAGC at 22.
  6. Leu3r5: 23, GCTTTGCCGG at 4446, CCGGGGTAGC at 4431, CCTTGGCCGG at 4425, CCTACCGCGC at 4412, CCTCAGCCGC at 4352, GCTCGGTAGG at 3890, GCGGTTGCGG at 3751, CCTTATAAGG at 3585, CCTGTGTAGG at 3555, GCTTGCACGC at 3471, CCGGACCCGG at 3028, CCTTTTCCGC at 2359, CCGAGAACGC at 2327, CCGGGGGCGG at 2034, GCGCATACGC at 1510, GCGAGGGAGG at 1395, CCTTCACAGC at 1284, CCTGATCAGC at 1122, GCGCTACCGG at 604, GCGGCCGCGC at 598, CCGCGGTAGG at 404, CCGAGTTAGG at 303, CCGAGTAAGC at 16.
  7. Leu3r6: 19, CCGATAAAGG at 3793, CCTAAAAAGC at 3423, CCGACGCCGG at 3412, CCTTGCCAGC at 3403, CCGCCACCGC at 3324, GCGCCCCCGC at 3318, CCTGCTCAGG at 3246, GCTAGACAGC at 2989, GCTTTAGAGC at 2505, GCTTCTGCGC at 1966, GCTGAGGAGG at 1909, GCGGTAGCGG at 1560, GCGCTTTCGG at 1474, GCTGTCCAGG at 1465, CCTCCGGAGG at 1158, GCGCCTCCGG at 1155, GCGATCGCGG at 1016, GCGCGATCGC at 1014, CCTGCCAAGG at 56.
  8. Leu3r7: 16, GCGTTTACGG at 4014, GCGGTGCCGG at 3942, GCGGAAAAGC at 3885, CCGTAATCGG at 3845, CCTAAGTCGC at 3741, GCTACGAAGG at 3706, CCGGATAAGG at 3426, CCTTGGCCGG at 3301, CCGCCCGCGG at 2747, GCGACTCCGC at 2741, GCGAGGAAGG at 2434, GCGGGCGAGG at 2430, CCGACAGCGG at 2424, GCTCGGGAGG at 1918, GCTCGTCCGG at 1385, CCGTTCCAGG at 831.
  9. Leu3r8: 15, CCTAGAAAGG at 4271, CCGGTACCGG at 3734, CCGGGACCGG at 3728, CCTTCTTCGG at 3296, CCTTAAGAGG at 3272, CCTACTGAGC at 3026, CCTATAGCGG at 2753, CCGCCCCAGG at 2478, CCGAGGGAGG at 2021, CCGCCCGAGG at 2017, GCGCTTTCGG at 1654, CCGCTTGAGG at 1630, CCTGAAGCGG at 1190, CCTGGGCAGG at 1020, GCGCTGCCGG at 682.
  10. Leu3r9: 19, GCGGTATCGG at 4459, CCGCCCGAGC at 4451, GCTAGAAAGG at 4317, CCGCTACAGC at 4109, GCTAGTCAGC at 3360, CCGTAGTCGG at 2936, GCTCCTACGC at 2879, CCGACTTCGG at 2772, GCGCTTGAGG at 2168, CCTGACGAGG at 1593, CCTAGAGAGG at 1577, CCTTTGTCGG at 1271, GCTGGTACGG at 1217, CCTACTAAGC at 988, GCGCCGACGG at 978, GCTAAAACGG at 895, GCGAAAGCGG at 886, CCGGGTTAGG at 602, CCTAGGCCGC at 568.

Leu3r arbitrary (evens) (4560-2846) UTRs

  1. Leu3r0: CCTTAACCGC at 4212, CCTTAACAGG at 3996, CCTGCTACGG at 3985, GCGCGCCCGC at 3889, CCGTATCAGG at 3862, GCTCGCCCGC at 3432, GCGCCGCAGG at 3244, CCGGATACGG at 3221, GCTATATAGG at 3012.
  2. Leu3r2: GCGCCCCCGC at 4508, GCGGAGTAGG at 4455, GCGTCTTCGG at 4265, GCTTTTTAGG at 4107, GCTACGCCGG at 4021, CCTCTTCCGG at 3972, GCGGTAGCGG at 3748, GCGAAAAAGC at 3656, GCTTTCGAGC at 3421.
  3. Leu3r4: CCTACCCAGG at 4558, GCGTTTACGC at 4439, CCGGCTACGC at 4016, GCGGTCGCGG at 3555, CCTTGGGCGG at 3549, GCGGTTTAGC at 3472, CCTATTAAGG at 2936, GCGGAGGCGC at 2927.
  4. Leu3r6: 19, CCGATAAAGG at 3793, CCTAAAAAGC at 3423, CCGACGCCGG at 3412, CCTTGCCAGC at 3403, CCGCCACCGC at 3324, GCGCCCCCGC at 3318, CCTGCTCAGG at 3246, GCTAGACAGC at 2989, GCTTTAGAGC at 2505, GCTTCTGCGC at 1966, GCTGAGGAGG at 1909, GCGGTAGCGG at 1560, GCGCTTTCGG at 1474, GCTGTCCAGG at 1465, CCTCCGGAGG at 1158, GCGCCTCCGG at 1155, GCGATCGCGG at 1016, GCGCGATCGC at 1014, CCTGCCAAGG at 56.
  5. Leu3r8: CCTAGAAAGG at 4271, CCGGTACCGG at 3734, CCGGGACCGG at 3728, CCTTCTTCGG at 3296, CCTTAAGAGG at 3272, CCTACTGAGC at 3026.

Leu3r alternate (odds) (4560-2846) UTRs

  1. Leu3r1: CCGGCATCGG at 4476, GCGCATCCGG at 4304, CCTACCCCGG at 4295, CCGCATGAGC at 4286, CCGGCACAGG at 4140, CCGTTCACGG at 3912, CCTTTTCCGC at 3650, GCTGTATCGG at 3525, CCGAGGCAGC at 2925, CCTTACAAGC at 2889.
  2. Leu3r3: CCTACTACGC at 4273, CCGTTGACGC at 3962, GCGGACAAGG at 3931, CCTCGTCAGG at 3525, CCTGAATCGG at 3463, GCTTCGCCGG at 3423, CCTGCGGCGC at 3415, CCTATCTCGC at 3358, GCGATAACGC at 3233, GCTTAGGCGG at 3146, GCTGCACCGC at 3078, CCTCTTAAGG at 3035, CCTTCGCCGG at 2896.
  3. Leu3r5: GCTTTGCCGG at 4446, CCGGGGTAGC at 4431, CCTTGGCCGG at 4425, CCTACCGCGC at 4412, CCTCAGCCGC at 4352, GCTCGGTAGG at 3890, GCGGTTGCGG at 3751, CCTTATAAGG at 3585, CCTGTGTAGG at 3555, GCTTGCACGC at 3471, CCGGACCCGG at 3028.
  4. Leu3r7: GCGTTTACGG at 4014, GCGGTGCCGG at 3942, GCGGAAAAGC at 3885, CCGTAATCGG at 3845, CCTAAGTCGC at 3741, GCTACGAAGG at 3706, CCGGATAAGG at 3426, CCTTGGCCGG at 3301.
  5. Leu3r9: GCGGTATCGG at 4459, CCGCCCGAGC at 4451, GCTAGAAAGG at 4317, CCGCTACAGC at 4109, GCTAGTCAGC at 3360, CCGTAGTCGG at 2936, GCTCCTACGC at 2879.

Leu3r arbitrary negative direction (evens) (2846-2811) core promoters

  1. Leu3r4: CCGGAGTCGC at 2825.

Leu3r arbitrary positive direction (odds) (4445-4265) core promoters

  1. Leu3r1: GCGCATCCGG at 4304, CCTACCCCGG at 4295, CCGCATGAGC at 4286.
  2. Leu3r3: CCTACTACGC at 4273.
  3. Leu3r5: CCGGGGTAGC at 4431, CCTTGGCCGG at 4425, CCTACCGCGC at 4412, CCTCAGCCGC at 4352.
  4. Leu3r9: GCTAGAAAGG at 4317.

Leu3r alternate positive direction (evens) (4445-4265) core promoters

  1. Leu3r2: GCGTCTTCGG at 4265.
  2. Leu3r4: GCGTTTACGC at 4439.
  3. Leu3r8: CCTAGAAAGG at 4271.

Leu3r arbitrary negative direction (evens) (2811-2596) proximal promoters

  1. Leu3r0: GCGGATCCGC at 2670.
  2. Leu3r8: CCTATAGCGG at 2753.

Leu3r alternate negative direction (odds) (2811-2596) proximal promoters

  1. Leu3r1: GCTCAGCAGG at 2808.
  2. Leu3r7: CCGCCCGCGG at 2747, GCGACTCCGC at 2741.
  3. Leu3r9: CCGACTTCGG at 2772.

Leu3r arbitrary positive direction (odds) (4265-4050) proximal promoters

  1. Leu3r1: CCGGCACAGG at 4140.
  2. Leu3r9: CCGCTACAGC at 4109.

Leu3r alternate positive direction (evens) (4265-4050) proximal promoters

  1. Leu3r0: CCTTAACCGC at 4212.
  2. Leu3r2: GCGTCTTCGG at 4265, GCTTTTTAGG at 4107.

Leu3r arbitrary negative direction (evens) (2596-1) distal promoters

  1. Leu3r0: CCTAGCCCGC at 1891, GCTACGAAGG at 1844, GCGGGTAAGG at 975, GCTGCCAAGG at 916, CCTTCTAAGG at 696, CCTGAGCAGC at 519, CCTGATGCGC at 354, CCTCCCCAGC at 32.
  2. Leu3r2: GCTAATACGC at 1962, CCGGCTGAGG at 1913, CCTTCACAGC at 1799, CCGGGTTCGC at 1486, CCGGTTCCGC at 638, CCTGTGGCGG at 462, GCTTAGTCGG at 11.
  3. Leu3r4: GCTATTAAGC at 2352, CCTGACTCGC at 1983, GCTCGCTAGC at 1889, GCGGGCGAGG at 1880, GCGCTCCAGC at 1241, GCGCCGCCGC at 1091, CCTTTCGCGC at 1085, CCTTATAAGC at 1046, CCGGCGCAGC at 1030, CCGCCGGCGC at 1027, CCGCCGGAGC at 881, CCGCCGGAGG at 507, CCGGGGCCGG at 354, GCTAAAGCGG at 217, CCGCTAAAGC at 215, CCTTTAGCGC at 195, CCGCGCCAGC at 22.
  4. Leu3r8: CCGCCCCAGG at 2478, CCGAGGGAGG at 2021, CCGCCCGAGG at 2017, GCGCTTTCGG at 1654, CCGCTTGAGG at 1630, CCTGAAGCGG at 1190, CCTGGGCAGG at 1020, GCGCTGCCGG at 682.

Leu3r alternate negative direction (odds) (2596-1) distal promoters

  1. Leu3r1: GCGGTGAAGG at 2557, GCTCGTGCGG at 2551, CCGCATACGC at 1359, CCGACAACGC at 963, CCTGTGCAGG at 644, CCGTGGTCGC at 579, GCGTTTCAGG at 552.
  2. Leu3r3: CCGGTATAGC at 2372, CCTTCCCCGC at 1865, CCGGTCCAGG at 1588, CCTCAGGAGC at 1527, GCTGGCCAGC at 1498, CCGAACGAGC at 1401, GCGGTTCAGC at 860, CCTTTGGAGG at 738, CCGAACAAGG at 676, GCGGGCCAGG at 524, CCGAAGTAGG at 493, GCTGCCCAGC at 138.
  3. Leu3r5: CCTTTTCCGC at 2359, CCGAGAACGC at 2327, CCGGGGGCGG at 2034, GCGCATACGC at 1510, GCGAGGGAGG at 1395, CCTTCACAGC at 1284, CCTGATCAGC at 1122, GCGCTACCGG at 604, GCGGCCGCGC at 598, CCGCGGTAGG at 404, CCGAGTTAGG at 303, CCGAGTAAGC at 16.
  4. Leu3r7: GCGAGGAAGG at 2434, GCGGGCGAGG at 2430, CCGACAGCGG at 2424, GCTCGGGAGG at 1918, GCTCGTCCGG at 1385, CCGTTCCAGG at 831.
  5. Leu3r9: GCGCTTGAGG at 2168, CCTGACGAGG at 1593, CCTAGAGAGG at 1577, CCTTTGTCGG at 1271, GCTGGTACGG at 1217, CCTACTAAGC at 988, GCGCCGACGG at 978, GCTAAAACGG at 895, GCGAAAGCGG at 886, CCGGGTTAGG at 602, CCTAGGCCGC at 568.

Leu3r arbitrary positive direction (odds) (4050-1) distal promoters

  1. Leu3r1: CCGTTCACGG at 3912, CCTTTTCCGC at 3650, GCTGTATCGG at 3525, CCGAGGCAGC at 2925, CCTTACAAGC at 2889, GCTCAGCAGG at 2808, GCGGTGAAGG at 2557, GCTCGTGCGG at 2551, CCGCATACGC at 1359, CCGACAACGC at 963, CCTGTGCAGG at 644, CCGTGGTCGC at 579, GCGTTTCAGG at 552.
  2. Leu3r3: CCGTTGACGC at 3962, GCGGACAAGG at 3931, CCTCGTCAGG at 3525, CCTGAATCGG at 3463, GCTTCGCCGG at 3423, CCTGCGGCGC at 3415, CCTATCTCGC at 3358, GCGATAACGC at 3233, GCTTAGGCGG at 3146, GCTGCACCGC at 3078, CCTCTTAAGG at 3035, CCTTCGCCGG at 2896, CCTGCTGCGG at 2716, CCGGTATAGC at 2372, CCTTCCCCGC at 1865, CCGGTCCAGG at 1588, CCTCAGGAGC at 1527, GCTGGCCAGC at 1498, CCGAACGAGC at 1401, GCGGTTCAGC at 860, CCTTTGGAGG at 738, CCGAACAAGG at 676, GCGGGCCAGG at 524, CCGAAGTAGG at 493, GCTGCCCAGC at 138.
  3. Leu3r5: GCTCGGTAGG at 3890, GCGGTTGCGG at 3751, CCTTATAAGG at 3585, CCTGTGTAGG at 3555, GCTTGCACGC at 3471, CCGGACCCGG at 3028, CCTTTTCCGC at 2359, CCGAGAACGC at 2327, CCGGGGGCGG at 2034, GCGCATACGC at 1510, GCGAGGGAGG at 1395, CCTTCACAGC at 1284, CCTGATCAGC at 1122, GCGCTACCGG at 604, GCGGCCGCGC at 598, CCGCGGTAGG at 404, CCGAGTTAGG at 303, CCGAGTAAGC at 16.
  4. Leu3r7: GCGTTTACGG at 4014, GCGGTGCCGG at 3942, GCGGAAAAGC at 3885, CCGTAATCGG at 3845, CCTAAGTCGC at 3741, GCTACGAAGG at 3706, CCGGATAAGG at 3426, CCTTGGCCGG at 3301, CCGCCCGCGG at 2747, GCGACTCCGC at 2741, GCGAGGAAGG at 2434, GCGGGCGAGG at 2430, CCGACAGCGG at 2424, GCTCGGGAGG at 1918, GCTCGTCCGG at 1385, CCGTTCCAGG at 831.
  5. Leu3r9: GCTAGTCAGC at 3360, CCGTAGTCGG at 2936, GCTCCTACGC at 2879, CCGACTTCGG at 2772, GCGCTTGAGG at 2168, CCTGACGAGG at 1593, CCTAGAGAGG at 1577, CCTTTGTCGG at 1271, GCTGGTACGG at 1217, CCTACTAAGC at 988, GCGCCGACGG at 978, GCTAAAACGG at 895, GCGAAAGCGG at 886, CCGGGTTAGG at 602, CCTAGGCCGC at 568.

Leu3r alternate positive direction (evens) (4050-1) distal promoters

  1. Leu3r0: CCTTAACAGG at 3996, CCTGCTACGG at 3985, GCGCGCCCGC at 3889, CCGTATCAGG at 3862, GCTCGCCCGC at 3432, GCGCCGCAGG at 3244, CCGGATACGG at 3221, GCTATATAGG at 3012, GCGGATCCGC at 2670, CCTAGCCCGC at 1891, GCTACGAAGG at 1844, GCGGGTAAGG at 975, GCTGCCAAGG at 916, CCTTCTAAGG at 696, CCTGAGCAGC at 519, CCTGATGCGC at 354, CCTCCCCAGC at 32.
  2. Leu3r2: GCTACGCCGG at 4021, CCTCTTCCGG at 3972, GCGGTAGCGG at 3748, GCGAAAAAGC at 3656, GCTTTCGAGC at 3421, GCTAATACGC at 1962, CCGGCTGAGG at 1913, CCTTCACAGC at 1799, CCGGGTTCGC at 1486, CCGGTTCCGC at 638, CCTGTGGCGG at 462, GCTTAGTCGG at 11.
  3. Leu3r4: CCGGCTACGC at 4016, GCGGTCGCGG at 3555, CCTTGGGCGG at 3549, GCGGTTTAGC at 3472, CCTATTAAGG at 2936, GCGGAGGCGC at 2927, CCGGAGTCGC at 2825, GCTATTAAGC at 2352, CCTGACTCGC at 1983, GCTCGCTAGC at 1889, GCGGGCGAGG at 1880, GCGCTCCAGC at 1241, GCGCCGCCGC at 1091, CCTTTCGCGC at 1085, CCTTATAAGC at 1046, CCGGCGCAGC at 1030, CCGCCGGCGC at 1027, CCGCCGGAGC at 881, CCGCCGGAGG at 507, CCGGGGCCGG at 354, GCTAAAGCGG at 217, CCGCTAAAGC at 215, CCTTTAGCGC at 195, CCGCGCCAGC at 22.
  4. Leu3r8: CCGGTACCGG at 3734, CCGGGACCGG at 3728, CCTTCTTCGG at 3296, CCTTAAGAGG at 3272, CCTACTGAGC at 3026, CCTATAGCGG at 2753, CCGCCCCAGG at 2478, CCGAGGGAGG at 2021, CCGCCCGAGG at 2017, GCGCTTTCGG at 1654, CCGCTTGAGG at 1630, CCTGAAGCGG at 1190, CCTGGGCAGG at 1020, GCGCTGCCGG at 682.

Response element analysis and results

Main article: Complex locus A1BG and ZNF497 § Leu3s

Leu3 is from 536 - 545 nts yielding consensus sequences (C/G)C(G/T)NNNN(A/C)G(C/G)".[1]

Reals or randoms Promoters direction Numbers Strands Occurrences Averages (± 0.1)
Reals UTR negative 11 2 5.5 5.5 ± 0.5 (--6,+-5)
Randoms UTR arbitrary negative 51 10 5.1 5.0
Randoms UTR alternate negative 49 10 4.9 5.0
Reals Core negative 0 2 0 0
Randoms Core arbitrary negative 1 10 0.1 0.05
Randoms Core alternate negative 0 10 0 0.05
Reals Core positive 3 2 1.5 1.5 ± 0.5 (-+1,++2)
Randoms Core arbitrary positive 9 10 0.9 0.6
Randoms Core alternate positive 3 10 0.3 0.6
Reals Proximal negative 2 2 1 1 ± 0 (--1,+-1)
Randoms Proximal arbitrary negative 2 10 0.2 0.3
Randoms Proximal alternate negative 4 10 0.4 0.3
Reals Proximal positive 0 2 0 0
Randoms Proximal arbitrary positive 2 10 0.2 0.25
Randoms Proximal alternate positive 3 10 0.3 0.25
Reals Distal negative 21 2 10.5 10.5 ± 1.5 (--9,+-12)
Randoms Distal arbitrary negative 40 10 4.0 4.4
Randoms Distal alternate negative 48 10 4.8 4.4
Reals Distal positive 46 2 23 23 ± 1 (-+24,++22)
Randoms Distal arbitrary positive 87 10 8.7 7.7
Randoms Distal alternate positive 67 10 6.7 7.7

Comparison:

The occurrences of real Leu3 UTRs overlap the high randoms, cores, proximals, and distals are greater than the randoms. This suggests that the real Leu3s are likely active or activable.

Acknowledgements

The content on this page was first contributed by: Henry A. Hoff.

See also

References

  1. ↑ 1.0 1.1 1.2 Seungsoo Kim, Maitreya J Dunham, Jay Shendure (13 May 2019). "A combination of transcription factors mediates inducible interchromosomal contacts" (PDF). eLife. 8: e42499. doi:10.7554/eLife.42499.001. Retrieved 20 February 2021.
  2. ↑ 2.0 2.1 2.2 Marcos Palavecino-Ruiz, Mariana Bermudez-Moretti, Susana Correa-Garcia (1 November 2017). "Unravelling the transcriptional regulation of Saccharomyces cerevisiae UGA genes: the dual role of transcription factor LEU3" (PDF). Microbiology. doi:10.1099/mic.0.000560. Retrieved 21 February 2021.

External links

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