AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene20709

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20709.t1 MTR_1g088860 88.660 194 13 2 1 185 1 194 2.22e-118 333
MS.gene20709.t1 MTR_4g119500 78.095 105 23 0 24 128 12 116 2.66e-61 186
MS.gene20709.t1 MTR_0392s0020 68.992 129 37 1 24 152 8 133 1.43e-60 185
MS.gene20709.t1 MTR_1g083070 74.000 100 26 0 34 133 4 103 6.69e-53 165
MS.gene20709.t1 MTR_4g133938 64.407 118 39 1 35 152 20 134 1.50e-52 164
MS.gene20709.t1 MTR_2g026710 64.407 118 36 1 33 150 16 127 9.71e-52 164
MS.gene20709.t1 MTR_8g093920 72.277 101 28 0 33 133 39 139 1.77e-51 164
MS.gene20709.t1 MTR_7g061270 62.162 111 42 0 32 142 24 134 9.57e-51 161
MS.gene20709.t1 MTR_7g100650 62.162 111 42 0 32 142 24 134 1.38e-50 160
MS.gene20709.t1 MTR_3g058980 60.504 119 47 0 33 151 26 144 1.68e-50 161
MS.gene20709.t1 MTR_5g095740 71.875 96 27 0 33 128 22 117 1.22e-49 159
MS.gene20709.t1 MTR_8g091720 71.429 98 28 0 33 130 27 124 2.59e-49 159
MS.gene20709.t1 MTR_1g072790 70.526 95 28 0 33 127 28 122 8.84e-49 156
MS.gene20709.t1 MTR_4g133952 63.462 104 37 1 26 128 49 152 5.37e-48 156
MS.gene20709.t1 MTR_1g039040 56.604 106 46 0 32 137 4 109 1.65e-42 141
MS.gene20709.t1 MTR_1g029070 44.954 109 60 0 19 127 37 145 2.99e-28 103
MS.gene20709.t1 MTR_5g095900 44.565 92 51 0 31 122 13 104 3.88e-21 85.9
MS.gene20709.t1 MTR_1g029100 40.000 80 48 0 39 118 7 86 2.01e-18 76.3
MS.gene20709.t1 MTR_2g056000 32.727 110 72 1 3 112 12 119 1.18e-17 77.0
MS.gene20709.t1 MTR_1g028480 46.875 64 34 0 64 127 19 82 3.85e-16 70.9
MS.gene20709.t1 MTR_4g112380 32.051 78 53 0 35 112 12 89 3.64e-13 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20709.t1 AT2G47810 62.121 132 35 1 16 132 18 149 3.43e-58 180
MS.gene20709.t1 AT1G09030 57.143 140 56 1 32 171 1 136 7.45e-53 166
MS.gene20709.t1 AT5G47640 68.468 111 32 1 33 140 26 136 2.09e-52 166
MS.gene20709.t1 AT4G14540 75.000 96 24 0 33 128 20 115 5.63e-52 164
MS.gene20709.t1 AT2G13570 73.267 101 27 0 33 133 35 135 2.65e-51 164
MS.gene20709.t1 AT2G38880 64.865 111 38 1 32 141 19 129 3.18e-51 161
MS.gene20709.t1 AT2G38880 64.865 111 38 1 32 141 19 129 3.87e-51 161
MS.gene20709.t1 AT2G38880 64.865 111 38 1 32 141 19 129 3.87e-51 161
MS.gene20709.t1 AT2G38880 64.865 111 38 1 32 141 19 129 3.87e-51 161
MS.gene20709.t1 AT3G53340 50.336 149 67 1 32 180 27 168 6.10e-51 162
MS.gene20709.t1 AT3G53340 50.336 149 67 1 32 180 27 168 6.10e-51 162
MS.gene20709.t1 AT2G38880 65.455 110 37 1 32 141 19 127 3.26e-50 159
MS.gene20709.t1 AT2G37060 63.063 111 41 0 32 142 28 138 4.76e-50 159
MS.gene20709.t1 AT2G37060 63.063 111 41 0 32 142 28 138 4.76e-50 159
MS.gene20709.t1 AT2G37060 63.063 111 41 0 32 142 28 138 4.76e-50 159
MS.gene20709.t1 AT2G38880 73.118 93 25 0 32 124 19 111 2.20e-49 155
MS.gene20709.t1 AT2G38880 73.118 93 25 0 32 124 19 111 6.14e-49 156
MS.gene20709.t1 AT2G38880 73.118 93 25 0 32 124 19 111 6.14e-49 156
MS.gene20709.t1 AT3G53340 72.043 93 26 0 32 124 27 119 6.78e-49 155
MS.gene20709.t1 AT3G53340 69.697 99 29 1 32 130 27 124 8.81e-49 155
MS.gene20709.t1 AT3G53340 69.697 99 29 1 32 130 27 124 8.81e-49 155
MS.gene20709.t1 AT2G38880 73.118 93 25 0 32 124 19 111 8.98e-49 155
MS.gene20709.t1 AT2G38880 73.118 93 25 0 32 124 19 111 8.98e-49 155
MS.gene20709.t1 AT2G38880 73.118 93 25 0 32 124 19 111 8.98e-49 155
MS.gene20709.t1 AT5G47670 62.626 99 37 0 31 129 26 124 5.76e-46 150
MS.gene20709.t1 AT5G47670 62.626 99 37 0 31 129 55 153 1.14e-45 150
MS.gene20709.t1 AT5G47670 62.626 99 37 0 31 129 55 153 1.14e-45 150
MS.gene20709.t1 AT1G21970 50.862 116 57 0 19 134 44 159 4.89e-41 139
MS.gene20709.t1 AT5G23090 35.052 97 61 1 35 129 12 108 1.32e-17 76.3
MS.gene20709.t1 AT5G23090 38.462 78 48 0 35 112 12 89 1.20e-16 73.6
MS.gene20709.t1 AT5G23090 38.462 78 48 0 35 112 12 89 1.20e-16 73.6
MS.gene20709.t1 AT5G23090 38.462 78 48 0 35 112 12 89 1.20e-16 73.6
MS.gene20709.t1 AT5G08190 32.292 96 63 1 35 128 12 107 5.06e-16 72.0
MS.gene20709.t1 AT5G08190 34.615 78 51 0 35 112 12 89 6.70e-15 69.3

Find 34 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTCTTCTATGTTCAATAAT+AGG 0.214525 1.2:-66507529 MS.gene20709:CDS
GATGATGTTTGTTGGGCTTT+GGG 0.221205 1.2:-66507749 MS.gene20709:CDS
TGATGTTGTTACCCTTATTT+TGG 0.229982 1.2:+66507645 None:intergenic
TGATGATGTTTGTTGGGCTT+TGG 0.269661 1.2:-66507750 MS.gene20709:CDS
GGAAAGAGGGAACCAAAATA+AGG 0.312778 1.2:-66507657 MS.gene20709:CDS
TGTTGGGCTTTGGGGACACT+AGG 0.347462 1.2:-66507740 MS.gene20709:CDS
AAAGGTATTTGTATAAGTAT+AGG 0.352771 1.2:-66507691 MS.gene20709:CDS
TTTGTATAAGTATAGGGAAT+TGG 0.359649 1.2:-66507684 MS.gene20709:CDS
GAAGCAACATTCACTTTCCT+TGG 0.401544 1.2:+66507551 None:intergenic
ATCCGACCAACATTAGCTAT+TGG 0.403010 1.2:+66507917 None:intergenic
AAGGTATTTGTATAAGTATA+GGG 0.417767 1.2:-66507690 MS.gene20709:CDS
GAATGGTGATGATGTTTGTT+GGG 0.429389 1.2:-66507756 MS.gene20709:CDS
GAAACATATGATTATGAAGA+TGG 0.453321 1.2:-66507587 MS.gene20709:CDS
ACATGGGTGATAACAACAAA+GGG 0.487792 1.2:-66508036 MS.gene20709:CDS
GAAAGAGGGAACCAAAATAA+GGG 0.501997 1.2:-66507656 MS.gene20709:CDS
GTTGGGCTTTGGGGACACTA+GGG 0.503961 1.2:-66507739 MS.gene20709:CDS
ATGATGTTTGTTGGGCTTTG+GGG 0.505210 1.2:-66507748 MS.gene20709:CDS
TGAATGGTGATGATGTTTGT+TGG 0.510123 1.2:-66507757 MS.gene20709:CDS
CTCTGAGACACACTCTTGCA+TGG 0.513185 1.2:+66507841 None:intergenic
GAGAAGCGCAAGACAGTGAA+TGG 0.520201 1.2:-66507773 MS.gene20709:CDS
AGGGAATTGGATGCGGAAAG+AGG 0.523773 1.2:-66507671 MS.gene20709:CDS
TTGCTTCCAATAGCTAATGT+TGG 0.538809 1.2:-66507923 MS.gene20709:CDS
TTCAAAATCCCCTTGACTGA+AGG 0.540445 1.2:+66507498 None:intergenic
GGGAATTGGATGCGGAAAGA+GGG 0.541973 1.2:-66507670 MS.gene20709:CDS
CCTATTATTGAACATAGAAG+AGG 0.550260 1.2:+66507529 None:intergenic
TAAGTATAGGGAATTGGATG+CGG 0.557603 1.2:-66507678 MS.gene20709:CDS
ATTACGCTGAGCCACTCAAA+AGG 0.563009 1.2:-66507709 MS.gene20709:CDS
GAACAGTGACCTTCAGTCAA+GGG 0.574883 1.2:-66507507 MS.gene20709:CDS
TTCCAATAGCTAATGTTGGT+CGG 0.585707 1.2:-66507919 MS.gene20709:CDS
ATGGTAAGTCACAAACTCCA+AGG 0.613914 1.2:-66507568 MS.gene20709:CDS
AACAGTGACCTTCAGTCAAG+GGG 0.614235 1.2:-66507506 MS.gene20709:CDS
AACATGGGTGATAACAACAA+AGG 0.619511 1.2:-66508037 MS.gene20709:CDS
GGAACAGTGACCTTCAGTCA+AGG 0.622121 1.2:-66507508 MS.gene20709:CDS
AGCATCTGACAAGTGTCACA+AGG 0.642405 1.2:-66507795 MS.gene20709:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAGGTATTTGTATAAGTAT+AGG - chr1.2:66507842-66507861 MS.gene20709:CDS 20.0%
!!! AAGGTATTTGTATAAGTATA+GGG - chr1.2:66507843-66507862 MS.gene20709:CDS 20.0%
! GAAACATATGATTATGAAGA+TGG - chr1.2:66507946-66507965 MS.gene20709:CDS 25.0%
! TTTGTATAAGTATAGGGAAT+TGG - chr1.2:66507849-66507868 MS.gene20709:CDS 25.0%
!! TTATACAAATACCTTTTGAG+TGG + chr1.2:66507838-66507857 None:intergenic 25.0%
!!! TCTTTAGAGATTTTTGCATT+TGG + chr1.2:66507661-66507680 None:intergenic 25.0%
CCTATTATTGAACATAGAAG+AGG + chr1.2:66508007-66508026 None:intergenic 30.0%
CCTCTTCTATGTTCAATAAT+AGG - chr1.2:66508004-66508023 MS.gene20709:CDS 30.0%
! TTAGAGATTTTTGCATTTGG+TGG + chr1.2:66507658-66507677 None:intergenic 30.0%
!! TGATGTTGTTACCCTTATTT+TGG + chr1.2:66507891-66507910 None:intergenic 30.0%
!!! GAGTTTGTTAGTTTTGTAAC+TGG - chr1.2:66507712-66507731 MS.gene20709:CDS 30.0%
GAAAGAGGGAACCAAAATAA+GGG - chr1.2:66507877-66507896 MS.gene20709:CDS 35.0%
TAAGTATAGGGAATTGGATG+CGG - chr1.2:66507855-66507874 MS.gene20709:CDS 35.0%
TTCCAATAGCTAATGTTGGT+CGG - chr1.2:66507614-66507633 MS.gene20709:CDS 35.0%
TTGCTTCCAATAGCTAATGT+TGG - chr1.2:66507610-66507629 MS.gene20709:CDS 35.0%
! GAATGGTGATGATGTTTGTT+GGG - chr1.2:66507777-66507796 MS.gene20709:CDS 35.0%
! TGAATGGTGATGATGTTTGT+TGG - chr1.2:66507776-66507795 MS.gene20709:CDS 35.0%
ATCCGACCAACATTAGCTAT+TGG + chr1.2:66507619-66507638 None:intergenic 40.0%
ATGGTAAGTCACAAACTCCA+AGG - chr1.2:66507965-66507984 MS.gene20709:CDS 40.0%
GAAGCAACATTCACTTTCCT+TGG + chr1.2:66507985-66508004 None:intergenic 40.0%
GGAAAGAGGGAACCAAAATA+AGG - chr1.2:66507876-66507895 MS.gene20709:CDS 40.0%
! ATGATGTTTGTTGGGCTTTG+GGG - chr1.2:66507785-66507804 MS.gene20709:CDS 40.0%
! GATGATGTTTGTTGGGCTTT+GGG - chr1.2:66507784-66507803 MS.gene20709:CDS 40.0%
! TGATGATGTTTGTTGGGCTT+TGG - chr1.2:66507783-66507802 MS.gene20709:CDS 40.0%
AACAGTGACCTTCAGTCAAG+GGG - chr1.2:66508027-66508046 MS.gene20709:CDS 45.0%
AGCATCTGACAAGTGTCACA+AGG - chr1.2:66507738-66507757 MS.gene20709:CDS 45.0%
ATTACGCTGAGCCACTCAAA+AGG - chr1.2:66507824-66507843 MS.gene20709:CDS 45.0%
GAACAGTGACCTTCAGTCAA+GGG - chr1.2:66508026-66508045 MS.gene20709:CDS 45.0%
AGGGAATTGGATGCGGAAAG+AGG - chr1.2:66507862-66507881 MS.gene20709:CDS 50.0%
GGAACAGTGACCTTCAGTCA+AGG - chr1.2:66508025-66508044 MS.gene20709:CDS 50.0%
GGGAATTGGATGCGGAAAGA+GGG - chr1.2:66507863-66507882 MS.gene20709:CDS 50.0%
! GAGAAGCGCAAGACAGTGAA+TGG - chr1.2:66507760-66507779 MS.gene20709:CDS 50.0%
!! CTCTGAGACACACTCTTGCA+TGG + chr1.2:66507695-66507714 None:intergenic 50.0%
!! GTTGGGCTTTGGGGACACTA+GGG - chr1.2:66507794-66507813 MS.gene20709:CDS 55.0%
!! TGTTGGGCTTTGGGGACACT+AGG - chr1.2:66507793-66507812 MS.gene20709:CDS 55.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 66507499 66508056 66507499 ID=MS.gene20709
chr1.2 mRNA 66507499 66508056 66507499 ID=MS.gene20709.t1;Parent=MS.gene20709
chr1.2 exon 66507499 66508056 66507499 ID=MS.gene20709.t1.exon1;Parent=MS.gene20709.t1
chr1.2 CDS 66507499 66508056 66507499 ID=cds.MS.gene20709.t1;Parent=MS.gene20709.t1
Gene Sequence

>MS.gene20709

ATGGGTGATAACAACAAAGGGAAACTAGTCTCAGATAGAGAAGTCTTTAAGTACAACACAAATTTCTCATCTCATGAGCAAGATCATGAAGTAATCAAAGAGCAAGATCGTTTGCTTCCAATAGCTAATGTTGGTCGGATCATGAAACAAATCTTGCCACCAAATGCAAAAATCTCTAAAGATGCTAAAGAAACCATGCAAGAGTGTGTCTCAGAGTTTGTTAGTTTTGTAACTGGTGAAGCATCTGACAAGTGTCACAAGGAGAAGCGCAAGACAGTGAATGGTGATGATGTTTGTTGGGCTTTGGGGACACTAGGGTTTGATGATTACGCTGAGCCACTCAAAAGGTATTTGTATAAGTATAGGGAATTGGATGCGGAAAGAGGGAACCAAAATAAGGGTAACAACATCAACAACAACAGTGATGAAATTGAAAACAATATTAATGAAACATATGATTATGAAGATGGTAAGTCACAAACTCCAAGGAAAGTGAATGTTGCTTCCTCTTCTATGTTCAATAATAGGAACAGTGACCTTCAGTCAAGGGGATTTTGA
Protein sequence

>MS.gene20709.t1

MGDNNKGKLVSDREVFKYNTNFSSHEQDHEVIKEQDRLLPIANVGRIMKQILPPNAKISKDAKETMQECVSEFVSFVTGEASDKCHKEKRKTVNGDDVCWALGTLGFDDYAEPLKRYLYKYRELDAERGNQNKGNNINNNSDEIENNINETYDYEDGKSQTPRKVNVASSSMFNNRNSDLQSRGF