AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene91350

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91350.t1 MTR_1g105960 94.495 109 6 0 1 109 1 109 2.25e-71 208
MS.gene91350.t1 MTR_1g105955 53.846 117 35 1 2 99 17 133 8.14e-35 118
MS.gene91350.t1 MTR_1g105955 65.217 69 24 0 2 70 96 164 1.62e-24 92.0
MS.gene91350.t1 MTR_8g062700 74.667 75 19 0 2 76 43 117 1.44e-32 119
MS.gene91350.t1 MTR_8g062700 74.667 75 19 0 2 76 43 117 1.47e-32 119
MS.gene91350.t1 MTR_5g036670 66.234 77 26 0 2 78 44 120 4.59e-30 112
MS.gene91350.t1 MTR_6g008970 68.000 75 24 0 2 76 64 138 6.63e-29 109
MS.gene91350.t1 MTR_1g104940 58.974 78 32 0 2 79 15 92 2.97e-26 94.7
MS.gene91350.t1 MTR_6g008995 62.667 75 26 1 2 76 38 110 9.14e-25 97.1
MS.gene91350.t1 MTR_1g104960 52.703 74 35 0 2 75 100 173 4.06e-22 85.5
MS.gene91350.t1 MTR_1g104960 38.017 121 49 1 2 96 14 134 4.64e-18 75.1
MS.gene91350.t1 MTR_3g006065 65.152 66 22 1 2 66 91 156 2.47e-21 84.0
MS.gene91350.t1 MTR_3g006065 41.463 123 43 3 2 98 9 128 4.72e-18 75.5
MS.gene91350.t1 MTR_3g006150 65.152 66 22 1 2 66 91 156 3.16e-21 82.8
MS.gene91350.t1 MTR_3g006150 42.276 123 42 2 2 98 9 128 1.14e-20 81.6
MS.gene91350.t1 MTR_1g109550 41.071 112 48 2 4 98 19 129 3.30e-20 79.7
MS.gene91350.t1 MTR_8g062350 54.286 70 32 0 2 71 15 84 9.67e-20 80.1
MS.gene91350.t1 MTR_3g006125 56.000 75 32 1 2 75 181 255 1.24e-19 80.9
MS.gene91350.t1 MTR_3g006125 38.583 127 46 2 2 96 90 216 4.65e-16 71.2
MS.gene91350.t1 MTR_1g104937 50.000 76 38 0 2 77 13 88 3.16e-19 76.6
MS.gene91350.t1 MTR_4g133300 42.609 115 43 2 2 96 13 124 4.30e-19 79.3
MS.gene91350.t1 MTR_4g133300 54.545 66 30 0 4 69 175 240 2.09e-17 74.7
MS.gene91350.t1 MTR_4g133300 38.655 119 50 1 2 97 90 208 2.92e-17 74.3
MS.gene91350.t1 MTR_4g133470 42.609 115 43 2 2 96 13 124 1.27e-18 78.2
MS.gene91350.t1 MTR_4g133470 54.545 66 30 0 4 69 175 240 1.38e-17 75.5
MS.gene91350.t1 MTR_4g133470 36.975 119 52 1 2 97 90 208 7.55e-15 68.2
MS.gene91350.t1 MTR_1g104980 47.436 78 41 0 4 81 73 150 1.38e-18 76.6
MS.gene91350.t1 MTR_1g104980 40.000 105 52 2 3 96 1 105 7.74e-16 69.3
MS.gene91350.t1 MTR_7g089490 51.429 70 34 0 2 71 17 86 1.39e-18 75.1
MS.gene91350.t1 MTR_7g013410 55.385 65 29 0 5 69 2 66 1.81e-18 75.5
MS.gene91350.t1 MTR_1g105010 43.590 78 44 0 2 79 17 94 2.01e-18 74.7
MS.gene91350.t1 MTR_2g097830 46.067 89 43 2 2 88 71 156 6.56e-18 74.7
MS.gene91350.t1 MTR_6g008995 64.815 54 17 1 23 76 2 53 7.49e-17 74.7
MS.gene91350.t1 MTR_1g023820 74.359 39 10 0 31 69 17 55 2.16e-16 69.3
MS.gene91350.t1 MTR_3g006185 50.667 75 36 1 2 75 99 173 3.64e-16 70.1
MS.gene91350.t1 MTR_3g006185 38.889 126 46 2 2 96 9 134 5.40e-16 69.7
MS.gene91350.t1 MTR_1g093310 52.239 67 26 1 3 69 11 71 4.01e-16 67.8
MS.gene91350.t1 MTR_3g006105 37.795 127 47 2 2 96 9 135 1.28e-15 68.9
MS.gene91350.t1 MTR_3g006105 50.000 72 35 1 2 72 100 171 1.60e-13 63.5
MS.gene91350.t1 MTR_1g091047 50.000 64 31 1 3 65 11 74 1.06e-14 63.9
MS.gene91350.t1 MTR_5g055670 60.000 50 19 1 20 68 74 123 2.16e-13 62.0
MS.gene91350.t1 MTR_3g006000 50.685 73 33 3 2 72 8 79 7.60e-13 59.3
MS.gene91350.t1 MTR_3g006010 51.471 68 32 1 2 68 9 76 3.73e-12 61.6
MS.gene91350.t1 MTR_7g013380 37.662 77 46 1 2 76 186 262 8.61e-12 60.1
MS.gene91350.t1 MTR_7g013380 29.231 130 57 3 15 109 115 244 2.57e-11 58.9
MS.gene91350.t1 MTR_5g073430 46.154 78 37 4 2 74 12 89 1.12e-11 57.0
MS.gene91350.t1 MTR_7g083950 45.333 75 38 2 4 75 16 90 1.14e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91350.t1 AT1G70060 69.333 75 23 0 2 76 15 89 5.24e-30 112
MS.gene91350.t1 AT1G70060 69.333 75 23 0 2 76 15 89 5.24e-30 112
MS.gene91350.t1 AT1G24190 69.863 73 22 0 2 74 15 87 1.10e-29 111
MS.gene91350.t1 AT1G24190 69.863 73 22 0 2 74 15 87 1.30e-29 111
MS.gene91350.t1 AT1G24190 69.863 73 22 0 2 74 15 87 1.37e-29 111
MS.gene91350.t1 AT3G01320 68.919 74 23 0 2 75 58 131 2.00e-28 107
MS.gene91350.t1 AT3G01320 68.919 74 23 0 2 75 58 131 2.00e-28 107
MS.gene91350.t1 AT5G15020 70.588 68 20 0 2 69 53 120 3.51e-27 104
MS.gene91350.t1 AT5G15020 70.588 68 20 0 2 69 53 120 3.90e-27 104
MS.gene91350.t1 AT1G59890 62.667 75 28 0 2 76 46 120 1.87e-26 102
MS.gene91350.t1 AT1G59890 62.667 75 28 0 2 76 46 120 1.96e-26 102
MS.gene91350.t1 AT1G59890 62.667 75 28 0 2 76 46 120 1.96e-26 102
MS.gene91350.t1 AT1G59890 63.514 74 27 0 2 75 46 119 2.38e-26 102
MS.gene91350.t1 AT1G10450 66.176 68 23 0 2 69 34 101 4.65e-25 98.6
MS.gene91350.t1 AT1G10450 66.176 68 23 0 2 69 34 101 4.65e-25 98.6
MS.gene91350.t1 AT1G10450 66.176 68 23 0 2 69 85 152 4.89e-25 98.2
MS.gene91350.t1 AT1G27250 56.716 67 29 0 2 68 22 88 3.90e-22 84.7
MS.gene91350.t1 AT1G70030 48.780 82 40 1 2 83 23 102 4.52e-22 84.0
MS.gene91350.t1 AT1G24200 50.649 77 38 0 2 78 15 91 9.52e-22 85.1
MS.gene91350.t1 AT1G70030 48.780 82 40 1 2 83 23 102 1.09e-21 83.6
MS.gene91350.t1 AT5G15025 55.128 78 32 1 2 79 48 122 2.18e-21 82.4
MS.gene91350.t1 AT1G70030 48.780 82 40 1 2 83 12 91 2.72e-21 83.2
MS.gene91350.t1 AT1G27220 52.941 68 32 0 2 69 15 82 3.45e-21 83.6
MS.gene91350.t1 AT4G12020 55.405 74 32 1 2 75 309 381 7.89e-21 86.3
MS.gene91350.t1 AT4G12020 55.405 74 32 1 2 75 309 381 7.93e-21 86.3
MS.gene91350.t1 AT4G12020 55.405 74 32 1 2 75 309 381 8.01e-21 86.3
MS.gene91350.t1 AT4G12020 55.405 74 32 1 2 75 309 381 8.65e-21 86.3
MS.gene91350.t1 AT4G12020 55.405 74 32 1 2 75 309 381 8.98e-21 86.3
MS.gene91350.t1 AT4G12020 55.405 74 32 1 2 75 309 381 8.98e-21 86.3
MS.gene91350.t1 AT4G12020 55.405 74 32 1 2 75 309 381 8.99e-21 86.3
MS.gene91350.t1 AT4G12020 55.405 74 32 1 2 75 242 314 9.34e-21 86.3
MS.gene91350.t1 AT4G12020 55.405 74 32 1 2 75 309 381 1.02e-20 85.9
MS.gene91350.t1 AT4G12020 55.405 74 32 1 2 75 309 381 1.13e-20 85.9
MS.gene91350.t1 AT4G12020 55.405 74 32 1 2 75 309 381 1.13e-20 85.9
MS.gene91350.t1 AT5G15040 48.052 77 38 1 4 80 6 80 3.20e-19 75.9
MS.gene91350.t1 AT5G15040 48.052 77 38 1 4 80 6 80 3.20e-19 75.9
MS.gene91350.t1 AT5G15040 48.052 77 38 1 4 80 6 80 3.20e-19 75.9
MS.gene91350.t1 AT5G35610 52.113 71 34 0 5 75 14 84 2.83e-17 72.8
MS.gene91350.t1 AT1G24250 41.758 91 49 1 2 88 121 211 9.35e-17 73.2
MS.gene91350.t1 AT1G23810 39.560 91 51 1 2 88 110 200 5.28e-16 70.9
MS.gene91350.t1 AT1G27260 32.800 125 54 2 2 96 4 128 3.79e-14 65.9
MS.gene91350.t1 AT1G27260 40.984 61 36 0 2 62 94 154 9.41e-11 56.6
MS.gene91350.t1 AT1G24230 36.449 107 56 3 2 96 15 121 4.02e-14 66.2
MS.gene91350.t1 AT1G24230 34.211 76 50 0 4 79 89 164 1.25e-12 62.0
MS.gene91350.t1 AT1G24210 42.857 63 36 0 2 64 15 77 6.64e-12 58.5
MS.gene91350.t1 AT1G27280 42.857 63 36 0 2 64 82 144 9.13e-12 59.3

Find 15 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTACTGATTTCATATCCTTT+TGG 0.331804 1.3:+72483327 None:intergenic
AGAGTGAAGGAGCTGTTTAA+AGG 0.388525 1.3:-72483387 MS.gene91350:CDS
AAATGTTATGAAAGAATTCA+AGG 0.402015 1.3:-72483442 MS.gene91350:CDS
GAAAGTTATGAGGGATTTCA+AGG 0.411631 1.3:-72483262 MS.gene91350:CDS
ACAGCTCCTTCACTCTTTCG+AGG 0.437658 1.3:+72483394 None:intergenic
TCTAGGAATTGACAATGAAA+TGG 0.498347 1.3:-72483238 MS.gene91350:CDS
GAGTGAAGGAGCTGTTTAAA+GGG 0.499135 1.3:-72483386 MS.gene91350:CDS
TTCAACACCTTCCTGCCAAA+AGG 0.512524 1.3:-72483342 MS.gene91350:CDS
AAACGTTGATGATGATGAAA+GGG 0.527843 1.3:-72483304 MS.gene91350:CDS
ATGAGGGATTTCAAGGCTCT+AGG 0.538407 1.3:-72483255 MS.gene91350:CDS
CAAACGTTGATGATGATGAA+AGG 0.538856 1.3:-72483305 MS.gene91350:CDS
AGTCGAGTTTCAAGATGAGA+TGG 0.542797 1.3:-72483484 MS.gene91350:CDS
TTATGAAAGAATTCAAGGCT+AGG 0.608401 1.3:-72483437 MS.gene91350:CDS
TGGTGTCCTCGAAAGAGTGA+AGG 0.637601 1.3:-72483400 MS.gene91350:CDS
GCTAGGAGAATTGATACAAG+TGG 0.644745 1.3:-72483420 MS.gene91350:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATGTTATGAAAGAATTCA+AGG - chr1.3:72483277-72483296 MS.gene91350:CDS 20.0%
!!! ATGAATTTTTGAAAGTTATG+AGG - chr1.3:72483447-72483466 MS.gene91350:CDS 20.0%
!!! TGAATTTTTGAAAGTTATGA+GGG - chr1.3:72483448-72483467 MS.gene91350:CDS 20.0%
! AGGGCATAAAAATTTAATCT+TGG - chr1.3:72483352-72483371 MS.gene91350:CDS 25.0%
! GGGCATAAAAATTTAATCTT+GGG - chr1.3:72483353-72483372 MS.gene91350:CDS 25.0%
TCTAGGAATTGACAATGAAA+TGG - chr1.3:72483481-72483500 MS.gene91350:CDS 30.0%
TTATGAAAGAATTCAAGGCT+AGG - chr1.3:72483282-72483301 MS.gene91350:CDS 30.0%
!! AAACGTTGATGATGATGAAA+GGG - chr1.3:72483415-72483434 MS.gene91350:CDS 30.0%
!!! GTACTGATTTCATATCCTTT+TGG + chr1.3:72483395-72483414 None:intergenic 30.0%
GAAAGTTATGAGGGATTTCA+AGG - chr1.3:72483457-72483476 MS.gene91350:CDS 35.0%
! TGATTTCATATCCTTTTGGC+AGG + chr1.3:72483391-72483410 None:intergenic 35.0%
!! CAAACGTTGATGATGATGAA+AGG - chr1.3:72483414-72483433 MS.gene91350:CDS 35.0%
AGAGTGAAGGAGCTGTTTAA+AGG - chr1.3:72483332-72483351 MS.gene91350:CDS 40.0%
AGTCGAGTTTCAAGATGAGA+TGG - chr1.3:72483235-72483254 MS.gene91350:CDS 40.0%
GAGTGAAGGAGCTGTTTAAA+GGG - chr1.3:72483333-72483352 MS.gene91350:CDS 40.0%
GCTAGGAGAATTGATACAAG+TGG - chr1.3:72483299-72483318 MS.gene91350:CDS 40.0%
! TTCATATCCTTTTGGCAGGA+AGG + chr1.3:72483387-72483406 None:intergenic 40.0%
ATGAGGGATTTCAAGGCTCT+AGG - chr1.3:72483464-72483483 MS.gene91350:CDS 45.0%
TTCAACACCTTCCTGCCAAA+AGG - chr1.3:72483377-72483396 MS.gene91350:CDS 45.0%
ACAGCTCCTTCACTCTTTCG+AGG + chr1.3:72483328-72483347 None:intergenic 50.0%
TGGTGTCCTCGAAAGAGTGA+AGG - chr1.3:72483319-72483338 MS.gene91350:CDS 50.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 72483206 72483535 72483206 ID=MS.gene91350
chr1.3 mRNA 72483206 72483535 72483206 ID=MS.gene91350.t1;Parent=MS.gene91350
chr1.3 exon 72483206 72483535 72483206 ID=MS.gene91350.t1.exon1;Parent=MS.gene91350.t1
chr1.3 CDS 72483206 72483535 72483206 ID=cds.MS.gene91350.t1;Parent=MS.gene91350.t1
Gene Sequence

>MS.gene91350

ATGGCACTAGCATATCTGAAAGCAGTAAGAGTCGAGTTTCAAGATGAGATGGAAAAGTATGATGAATTTTTAAATGTTATGAAAGAATTCAAGGCTAGGAGAATTGATACAAGTGGTGTCCTCGAAAGAGTGAAGGAGCTGTTTAAAGGGCATAAAAATTTAATCTTGGGATTCAACACCTTCCTGCCAAAAGGATATGAAATCAGTACAAACGTTGATGATGATGAAAGGGAAAATTATGATGAATTTTTGAAAGTTATGAGGGATTTCAAGGCTCTAGGAATTGACAATGAAATGGAGCAGATTGTTCAACTTTTGTCACGTCTATGA
Protein sequence

>MS.gene91350.t1

MALAYLKAVRVEFQDEMEKYDEFLNVMKEFKARRIDTSGVLERVKELFKGHKNLILGFNTFLPKGYEISTNVDDDERENYDEFLKVMRDFKALGIDNEMEQIVQLLSRL