AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene93796

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene93796.t1 MTR_1g105960 93.578 109 7 0 1 109 1 109 2.54e-70 205
MS.gene93796.t1 MTR_1g105955 54.701 117 34 1 2 99 17 133 2.02e-35 119
MS.gene93796.t1 MTR_1g105955 65.217 69 24 0 2 70 96 164 1.66e-24 92.0
MS.gene93796.t1 MTR_8g062700 74.667 75 19 0 2 76 43 117 2.29e-32 119
MS.gene93796.t1 MTR_8g062700 74.667 75 19 0 2 76 43 117 2.31e-32 119
MS.gene93796.t1 MTR_5g036670 57.292 96 36 1 2 92 44 139 9.34e-31 114
MS.gene93796.t1 MTR_6g008970 68.000 75 24 0 2 76 64 138 6.69e-29 109
MS.gene93796.t1 MTR_1g104940 58.974 78 32 0 2 79 15 92 2.72e-26 94.7
MS.gene93796.t1 MTR_6g008995 62.667 75 26 1 2 76 38 110 3.50e-25 98.2
MS.gene93796.t1 MTR_1g104960 52.703 74 35 0 2 75 100 173 2.69e-22 86.3
MS.gene93796.t1 MTR_1g104960 37.190 121 50 1 2 96 14 134 2.59e-17 73.2
MS.gene93796.t1 MTR_3g006065 63.636 66 23 1 2 66 91 156 4.04e-21 83.2
MS.gene93796.t1 MTR_3g006065 39.837 123 45 3 2 98 9 128 9.84e-17 72.0
MS.gene93796.t1 MTR_3g006150 63.636 66 23 1 2 66 91 156 4.41e-21 82.4
MS.gene93796.t1 MTR_3g006150 40.650 123 44 2 2 98 9 128 2.14e-19 78.2
MS.gene93796.t1 MTR_8g062350 55.714 70 31 0 2 71 15 84 1.73e-20 82.0
MS.gene93796.t1 MTR_3g006125 54.667 75 33 1 2 75 181 255 2.81e-19 80.1
MS.gene93796.t1 MTR_3g006125 39.344 122 42 2 2 91 90 211 2.09e-16 72.4
MS.gene93796.t1 MTR_1g109550 40.179 112 49 2 4 98 19 129 3.41e-19 77.4
MS.gene93796.t1 MTR_7g013410 56.923 65 28 0 5 69 2 66 5.12e-19 76.6
MS.gene93796.t1 MTR_1g104937 50.000 76 38 0 2 77 13 88 6.39e-19 75.5
MS.gene93796.t1 MTR_1g104980 47.436 78 41 0 4 81 73 150 7.27e-19 77.0
MS.gene93796.t1 MTR_1g104980 40.000 105 52 2 3 96 1 105 6.81e-16 69.3
MS.gene93796.t1 MTR_7g089490 51.429 70 34 0 2 71 17 86 1.07e-18 75.5
MS.gene93796.t1 MTR_4g133300 41.739 115 44 2 2 96 13 124 1.34e-18 78.2
MS.gene93796.t1 MTR_4g133300 56.061 66 29 0 4 69 175 240 8.61e-18 75.9
MS.gene93796.t1 MTR_4g133300 37.815 119 51 1 2 97 90 208 7.31e-17 73.6
MS.gene93796.t1 MTR_1g105010 43.590 78 44 0 2 79 17 94 1.39e-18 75.1
MS.gene93796.t1 MTR_2g097830 47.191 89 42 2 2 88 71 156 2.15e-18 75.9
MS.gene93796.t1 MTR_4g133470 41.739 115 44 2 2 96 13 124 3.29e-18 77.0
MS.gene93796.t1 MTR_4g133470 56.061 66 29 0 4 69 175 240 5.10e-18 76.6
MS.gene93796.t1 MTR_4g133470 36.134 119 53 1 2 97 90 208 1.62e-14 67.0
MS.gene93796.t1 MTR_6g008995 64.815 54 17 1 23 76 2 53 2.90e-17 75.9
MS.gene93796.t1 MTR_1g023820 74.359 39 10 0 31 69 17 55 7.99e-17 70.5
MS.gene93796.t1 MTR_1g093310 53.731 67 25 1 3 69 11 71 1.33e-16 68.9
MS.gene93796.t1 MTR_3g006105 38.525 122 43 2 2 91 9 130 6.82e-16 69.7
MS.gene93796.t1 MTR_3g006105 48.611 72 36 1 2 72 100 171 3.13e-13 62.8
MS.gene93796.t1 MTR_3g006185 49.333 75 37 1 2 75 99 173 7.75e-16 69.3
MS.gene93796.t1 MTR_3g006185 38.525 122 44 2 2 92 9 130 1.10e-15 68.9
MS.gene93796.t1 MTR_1g091047 50.000 64 31 1 3 65 11 74 1.25e-14 63.5
MS.gene93796.t1 MTR_3g006000 52.055 73 32 3 2 72 8 79 7.96e-14 62.0
MS.gene93796.t1 MTR_5g055670 60.000 50 19 1 20 68 74 123 1.84e-13 62.4
MS.gene93796.t1 MTR_3g006010 51.471 68 32 1 2 68 9 76 2.61e-12 62.0
MS.gene93796.t1 MTR_5g073430 46.154 78 37 4 2 74 12 89 7.68e-12 57.8
MS.gene93796.t1 MTR_7g083950 45.333 75 38 2 4 75 16 90 1.03e-11 60.1
MS.gene93796.t1 MTR_7g013380 38.961 77 45 1 2 76 186 262 1.05e-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.gene93796.t1 AT1G70060 69.333 75 23 0 2 76 15 89 5.39e-30 112
MS.gene93796.t1 AT1G70060 69.333 75 23 0 2 76 15 89 5.39e-30 112
MS.gene93796.t1 AT1G24190 69.863 73 22 0 2 74 15 87 1.91e-29 110
MS.gene93796.t1 AT1G24190 69.863 73 22 0 2 74 15 87 2.02e-29 110
MS.gene93796.t1 AT1G24190 69.863 73 22 0 2 74 15 87 2.04e-29 110
MS.gene93796.t1 AT3G01320 68.919 74 23 0 2 75 58 131 1.29e-28 108
MS.gene93796.t1 AT3G01320 68.919 74 23 0 2 75 58 131 1.34e-28 108
MS.gene93796.t1 AT1G59890 64.000 75 27 0 2 76 46 120 2.02e-27 105
MS.gene93796.t1 AT1G59890 64.000 75 27 0 2 76 46 120 2.08e-27 105
MS.gene93796.t1 AT1G59890 64.000 75 27 0 2 76 46 120 2.21e-27 105
MS.gene93796.t1 AT1G59890 64.865 74 26 0 2 75 46 119 2.25e-27 105
MS.gene93796.t1 AT5G15020 69.118 68 21 0 2 69 53 120 6.04e-27 103
MS.gene93796.t1 AT5G15020 69.118 68 21 0 2 69 53 120 6.47e-27 103
MS.gene93796.t1 AT1G10450 67.647 68 22 0 2 69 34 101 5.23e-26 101
MS.gene93796.t1 AT1G10450 67.647 68 22 0 2 69 34 101 5.23e-26 101
MS.gene93796.t1 AT1G10450 67.647 68 22 0 2 69 85 152 5.88e-26 100
MS.gene93796.t1 AT1G27250 56.716 67 29 0 2 68 22 88 1.26e-22 85.9
MS.gene93796.t1 AT1G27220 54.412 68 31 0 2 69 15 82 3.53e-22 85.9
MS.gene93796.t1 AT1G70030 44.898 98 48 2 2 94 23 119 4.57e-22 84.0
MS.gene93796.t1 AT1G70030 48.780 82 40 1 2 83 23 102 9.17e-22 83.6
MS.gene93796.t1 AT1G24200 49.351 77 39 0 2 78 15 91 2.37e-21 84.3
MS.gene93796.t1 AT1G70030 48.780 82 40 1 2 83 12 91 2.84e-21 83.2
MS.gene93796.t1 AT5G15025 53.846 78 33 1 2 79 48 122 4.71e-21 81.3
MS.gene93796.t1 AT4G12020 54.054 74 33 1 2 75 309 381 1.51e-20 85.5
MS.gene93796.t1 AT4G12020 54.054 74 33 1 2 75 309 381 1.51e-20 85.5
MS.gene93796.t1 AT4G12020 54.054 74 33 1 2 75 309 381 1.62e-20 85.5
MS.gene93796.t1 AT4G12020 54.054 74 33 1 2 75 242 314 1.69e-20 85.5
MS.gene93796.t1 AT4G12020 54.054 74 33 1 2 75 309 381 1.71e-20 85.5
MS.gene93796.t1 AT4G12020 54.054 74 33 1 2 75 309 381 1.71e-20 85.5
MS.gene93796.t1 AT4G12020 54.054 74 33 1 2 75 309 381 1.71e-20 85.5
MS.gene93796.t1 AT4G12020 54.054 74 33 1 2 75 309 381 1.72e-20 85.5
MS.gene93796.t1 AT4G12020 54.054 74 33 1 2 75 309 381 1.77e-20 85.5
MS.gene93796.t1 AT4G12020 54.054 74 33 1 2 75 309 381 2.20e-20 85.1
MS.gene93796.t1 AT4G12020 54.054 74 33 1 2 75 309 381 2.20e-20 85.1
MS.gene93796.t1 AT5G15040 45.977 87 42 2 4 90 6 87 1.77e-19 76.3
MS.gene93796.t1 AT5G15040 45.977 87 42 2 4 90 6 87 1.77e-19 76.3
MS.gene93796.t1 AT5G15040 45.977 87 42 2 4 90 6 87 1.77e-19 76.3
MS.gene93796.t1 AT5G35610 50.704 71 35 0 5 75 14 84 1.14e-16 71.2
MS.gene93796.t1 AT1G24250 40.659 91 50 1 2 88 121 211 6.73e-16 70.9
MS.gene93796.t1 AT1G23810 38.462 91 52 1 2 88 110 200 4.19e-15 68.6
MS.gene93796.t1 AT1G24230 37.864 103 52 3 2 92 15 117 1.36e-13 64.7
MS.gene93796.t1 AT1G24230 35.526 76 49 0 4 79 89 164 4.91e-13 63.2
MS.gene93796.t1 AT1G27260 33.058 121 51 2 2 92 4 124 5.37e-13 62.8
MS.gene93796.t1 AT1G24210 42.857 63 36 0 2 64 15 77 4.88e-12 58.9
MS.gene93796.t1 AT1G27280 42.857 63 36 0 2 64 82 144 1.76e-11 58.5

Find 14 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTACTGATTTCATATCCTTT+TGG 0.331804 1.2:+78765462 None:intergenic
AGAGTGAAGGAGCTGTTTAA+AGG 0.388525 1.2:-78765522 MS.gene93796:CDS
AAATGTTATGAAAGAATTCA+AGG 0.402015 1.2:-78765577 MS.gene93796:CDS
GAAAGTTGTGAGGGATTTCA+AGG 0.430137 1.2:-78765397 MS.gene93796:CDS
TCTCGGAATTGAAAATGAAA+TGG 0.486789 1.2:-78765373 MS.gene93796:CDS
GCTAGGAGAATTGATACAAA+TGG 0.496735 1.2:-78765555 MS.gene93796:CDS
GAGTGAAGGAGCTGTTTAAA+GGG 0.499135 1.2:-78765521 MS.gene93796:CDS
TTCAACACCTTCCTGCCAAA+AGG 0.512524 1.2:-78765477 MS.gene93796:CDS
GTGAGGGATTTCAAGGCTCT+CGG 0.520760 1.2:-78765390 MS.gene93796:CDS
AAACGTTGATGATGATGAAA+GGG 0.527843 1.2:-78765439 MS.gene93796:CDS
CAAACGTTGATGATGATGAA+AGG 0.538856 1.2:-78765440 MS.gene93796:CDS
AGTCGAGTTTCAAGATGAGA+TGG 0.542797 1.2:-78765619 MS.gene93796:CDS
TTATGAAAGAATTCAAGGCT+AGG 0.608401 1.2:-78765572 MS.gene93796:CDS
TGGTGTCGTCGAAAGAGTGA+AGG 0.650232 1.2:-78765535 MS.gene93796:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATGTTATGAAAGAATTCA+AGG - chr1.2:78765412-78765431 MS.gene93796:CDS 20.0%
! AGGGCATAAAAATTTAATCT+TGG - chr1.2:78765487-78765506 MS.gene93796:CDS 25.0%
! GGGCATAAAAATTTAATCTT+GGG - chr1.2:78765488-78765507 MS.gene93796:CDS 25.0%
!!! ATGAATTTTTGAAAGTTGTG+AGG - chr1.2:78765582-78765601 MS.gene93796:CDS 25.0%
!!! TGAATTTTTGAAAGTTGTGA+GGG - chr1.2:78765583-78765602 MS.gene93796:CDS 25.0%
TCTCGGAATTGAAAATGAAA+TGG - chr1.2:78765616-78765635 MS.gene93796:CDS 30.0%
TTATGAAAGAATTCAAGGCT+AGG - chr1.2:78765417-78765436 MS.gene93796:CDS 30.0%
!! AAACGTTGATGATGATGAAA+GGG - chr1.2:78765550-78765569 MS.gene93796:CDS 30.0%
!!! GTACTGATTTCATATCCTTT+TGG + chr1.2:78765530-78765549 None:intergenic 30.0%
GCTAGGAGAATTGATACAAA+TGG - chr1.2:78765434-78765453 MS.gene93796:CDS 35.0%
! TGATTTCATATCCTTTTGGC+AGG + chr1.2:78765526-78765545 None:intergenic 35.0%
!! CAAACGTTGATGATGATGAA+AGG - chr1.2:78765549-78765568 MS.gene93796:CDS 35.0%
AGAGTGAAGGAGCTGTTTAA+AGG - chr1.2:78765467-78765486 MS.gene93796:CDS 40.0%
AGTCGAGTTTCAAGATGAGA+TGG - chr1.2:78765370-78765389 MS.gene93796:CDS 40.0%
GAAAGTTGTGAGGGATTTCA+AGG - chr1.2:78765592-78765611 MS.gene93796:CDS 40.0%
GAGTGAAGGAGCTGTTTAAA+GGG - chr1.2:78765468-78765487 MS.gene93796:CDS 40.0%
! TTCATATCCTTTTGGCAGGA+AGG + chr1.2:78765522-78765541 None:intergenic 40.0%
TTCAACACCTTCCTGCCAAA+AGG - chr1.2:78765512-78765531 MS.gene93796:CDS 45.0%
GTGAGGGATTTCAAGGCTCT+CGG - chr1.2:78765599-78765618 MS.gene93796:CDS 50.0%
!! TGGTGTCGTCGAAAGAGTGA+AGG - chr1.2:78765454-78765473 MS.gene93796:CDS 50.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 78765341 78765670 78765341 ID=MS.gene93796
chr1.2 mRNA 78765341 78765670 78765341 ID=MS.gene93796.t1;Parent=MS.gene93796
chr1.2 exon 78765341 78765670 78765341 ID=MS.gene93796.t1.exon1;Parent=MS.gene93796.t1
chr1.2 CDS 78765341 78765670 78765341 ID=cds.MS.gene93796.t1;Parent=MS.gene93796.t1
Gene Sequence

>MS.gene93796

ATGGCACTAGCATATCTGAAAGCAGTAAGAGTCGAGTTTCAAGATGAGATGGAAAAGTATGATGAATTTTTAAATGTTATGAAAGAATTCAAGGCTAGGAGAATTGATACAAATGGTGTCGTCGAAAGAGTGAAGGAGCTGTTTAAAGGGCATAAAAATTTAATCTTGGGATTCAACACCTTCCTGCCAAAAGGATATGAAATCAGTACAAACGTTGATGATGATGAAAGGGAAAATTATGATGAATTTTTGAAAGTTGTGAGGGATTTCAAGGCTCTCGGAATTGAAAATGAAATGGAGCAGATTGTTCAACTTTTGTCACGTCTATGA
Protein sequence

>MS.gene93796.t1

MALAYLKAVRVEFQDEMEKYDEFLNVMKEFKARRIDTNGVVERVKELFKGHKNLILGFNTFLPKGYEISTNVDDDERENYDEFLKVVRDFKALGIENEMEQIVQLLSRL