AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036548

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036548 MtrunA17_Chr7g0227511 96.512 172 6 0 1 172 1 172 4.72e-126 351
MsaG036548 MtrunA17_Chr6g0449641 87.273 110 14 0 4 113 2 111 9.37e-69 205
MsaG036548 MtrunA17_Chr3g0117121 85.217 115 16 1 1 115 1 114 1.05e-68 207
MsaG036548 MtrunA17_Chr4g0058651 63.953 172 47 3 1 157 1 172 4.49e-68 205
MsaG036548 MtrunA17_Chr6g0449651 82.609 115 20 0 1 115 57 171 1.62e-67 204
MsaG036548 MtrunA17_Chr5g0437571 53.020 149 66 1 9 157 4 148 2.34e-50 159
MsaG036548 MtrunA17_Chr8g0353981 71.560 109 31 0 6 114 2 110 3.46e-50 161
MsaG036548 MtrunA17_Chr5g0402611 66.364 110 37 0 5 114 2 111 1.99e-49 162
MsaG036548 MtrunA17_Chr3g0115431 66.667 111 37 0 5 115 3 113 3.22e-48 155
MsaG036548 MtrunA17_Chr5g0437401 50.000 150 69 1 8 157 8 151 4.73e-48 154
MsaG036548 MtrunA17_Chr2g0311601 64.078 103 37 0 10 112 12 114 6.19e-48 153
MsaG036548 MtrunA17_Chr4g0043421 64.078 103 37 0 10 112 14 116 2.97e-47 152
MsaG036548 MtrunA17_Chr3g0097221 67.290 107 35 0 8 114 4 110 1.26e-46 154
MsaG036548 MtrunA17_Chr3g0114061 59.829 117 43 1 8 124 5 117 5.46e-46 148
MsaG036548 MtrunA17_Chr3g0106101 55.000 120 50 1 9 128 5 120 1.83e-45 147
MsaG036548 MtrunA17_Chr3g0113891 67.010 97 32 0 8 104 11 107 3.08e-45 147
MsaG036548 MtrunA17_Chr5g0438091 59.821 112 45 0 3 114 31 142 2.12e-44 145
MsaG036548 MtrunA17_Chr3g0129071 61.905 105 40 0 10 114 46 150 3.72e-44 145
MsaG036548 MtrunA17_Chr7g0260971 60.000 115 42 2 1 111 1 115 1.30e-40 136
MsaG036548 MtrunA17_Chr4g0030001 54.464 112 50 1 2 112 15 126 1.50e-40 135
MsaG036548 MtrunA17_Chr5g0432451 63.810 105 38 0 10 114 42 146 1.15e-39 134
MsaG036548 MtrunA17_Chr8g0351701 59.048 105 42 1 11 114 23 127 7.17e-39 132
MsaG036548 MtrunA17_Chr1g0200201 49.219 128 51 2 12 125 73 200 1.17e-38 131
MsaG036548 MtrunA17_Chr1g0184281 57.265 117 45 2 1 112 1 117 2.33e-38 130
MsaG036548 MtrunA17_Chr8g0351721 59.804 102 40 1 11 111 18 119 9.61e-36 124
MsaG036548 MtrunA17_Chr7g0245871 61.053 95 36 1 11 104 27 121 4.98e-35 122
MsaG036548 MtrunA17_Chr7g0225111 50.980 102 50 0 10 111 4 105 1.13e-34 118
MsaG036548 MtrunA17_Chr5g0435641 55.670 97 42 1 10 105 6 102 8.32e-34 118
MsaG036548 MtrunA17_Chr7g0261031 57.143 98 41 1 8 104 5 102 3.79e-33 117
MsaG036548 MtrunA17_Chr8g0374601 50.000 104 52 0 11 114 26 129 3.90e-33 119
MsaG036548 MtrunA17_Chr6g0460951 51.923 104 49 1 10 112 39 142 4.08e-33 117
MsaG036548 MtrunA17_Chr1g0184271 39.877 163 89 2 11 172 12 166 1.43e-32 116
MsaG036548 MtrunA17_Chr5g0444351 46.552 116 58 1 12 127 6 117 2.49e-32 112
MsaG036548 MtrunA17_Chr8g0374591 46.154 104 56 0 11 114 8 111 4.62e-30 106
MsaG036548 MtrunA17_Chr7g0245861 58.889 90 34 2 11 97 12 101 1.24e-29 105
MsaG036548 MtrunA17_Chr4g0059901 37.580 157 86 4 12 161 11 162 3.73e-29 108
MsaG036548 MtrunA17_Chr6g0452661 43.878 98 54 1 9 105 7 104 4.05e-28 105
MsaG036548 MtrunA17_Chr6g0460941 51.136 88 42 1 11 97 7 94 2.42e-27 98.6
MsaG036548 MtrunA17_Chr6g0452671 43.000 100 57 0 8 107 8 107 2.96e-27 101
MsaG036548 MtrunA17_Chr8g0374581 39.716 141 79 2 11 145 8 148 1.10e-26 100
MsaG036548 MtrunA17_Chr6g0452691 48.454 97 45 2 8 103 6 98 3.53e-26 98.2
MsaG036548 MtrunA17_Chr8g0342351 42.000 100 58 0 12 111 13 112 9.37e-25 96.7
MsaG036548 MtrunA17_Chr4g0055441 38.462 104 62 2 12 114 3 105 4.21e-23 89.7
MsaG036548 MtrunA17_Chr4g0040831 44.086 93 52 0 12 104 16 108 1.20e-22 89.7
MsaG036548 MtrunA17_Chr2g0330201 41.667 96 56 0 12 107 20 115 1.89e-21 88.6
MsaG036548 MtrunA17_Chr5g0439111 39.423 104 62 1 9 111 7 110 3.06e-20 84.0
MsaG036548 MtrunA17_Chr2g0326041 62.000 50 19 0 10 59 32 81 1.01e-18 76.3
MsaG036548 MtrunA17_Chr4g0046201 35.556 90 58 0 10 99 5 94 1.03e-18 80.5
MsaG036548 MtrunA17_Chr2g0326051 57.895 57 24 0 56 112 5 61 1.25e-15 69.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036548 AT3G27650.1 84.071 113 18 0 5 117 33 145 6.20e-69 206
MsaG036548 AT5G63090.4 82.203 118 21 0 1 118 1 118 4.89e-67 202
MsaG036548 AT5G63090.3 82.203 118 21 0 1 118 1 118 4.89e-67 202
MsaG036548 AT5G63090.2 82.203 118 21 0 1 118 1 118 4.89e-67 202
MsaG036548 AT5G63090.1 82.203 118 21 0 1 118 1 118 4.89e-67 202
MsaG036548 AT1G65620.1 68.966 116 34 1 1 116 1 114 7.83e-50 159
MsaG036548 AT1G65620.4 68.966 116 34 1 1 116 1 114 7.83e-50 159
MsaG036548 AT1G65620.3 68.966 116 34 1 1 116 1 114 7.83e-50 159
MsaG036548 AT1G65620.5 68.966 116 34 1 1 116 1 114 7.83e-50 159
MsaG036548 AT1G65620.2 68.966 116 34 1 1 116 1 114 7.83e-50 159
MsaG036548 AT5G66870.1 65.217 115 36 1 1 115 1 111 9.56e-50 162
MsaG036548 AT2G30130.1 62.281 114 39 1 9 122 6 115 4.62e-48 155
MsaG036548 AT2G23660.2 59.813 107 43 0 8 114 2 108 3.18e-44 148
MsaG036548 AT2G23660.3 59.813 107 43 0 8 114 2 108 3.18e-44 148
MsaG036548 AT2G23660.1 59.813 107 43 0 8 114 2 108 3.18e-44 148
MsaG036548 AT1G16530.1 61.607 112 42 1 10 120 13 124 3.44e-44 144
MsaG036548 AT1G31320.1 59.322 118 46 1 10 125 12 129 3.56e-44 144
MsaG036548 AT2G30340.1 55.932 118 47 1 10 122 51 168 4.23e-43 144
MsaG036548 AT2G30340.2 55.932 118 47 1 10 122 52 169 4.34e-43 144
MsaG036548 AT3G11090.1 58.333 108 45 0 8 115 8 115 1.12e-42 140
MsaG036548 AT1G07900.1 59.223 103 42 0 10 112 32 134 1.15e-41 138
MsaG036548 AT2G28500.1 59.223 103 42 0 10 112 54 156 3.33e-41 138
MsaG036548 AT2G40470.2 61.905 105 40 0 10 114 19 123 6.49e-40 134
MsaG036548 AT2G40470.1 61.905 105 40 0 10 114 44 148 1.90e-39 134
MsaG036548 AT3G26660.1 51.304 115 55 1 12 125 6 120 2.63e-39 130
MsaG036548 AT3G26620.1 56.000 100 44 0 12 111 6 105 4.96e-39 129
MsaG036548 AT2G42430.1 55.372 121 49 2 1 116 1 121 7.05e-38 130
MsaG036548 AT3G03760.1 57.692 104 43 1 10 112 50 153 2.59e-37 129
MsaG036548 AT4G00220.1 60.606 99 38 1 14 111 20 118 1.20e-36 127
MsaG036548 AT2G45420.1 60.606 99 38 1 14 111 40 138 2.32e-36 127
MsaG036548 AT4G00210.1 55.357 112 49 1 1 111 1 112 2.95e-36 125
MsaG036548 AT5G06080.1 51.402 107 51 1 10 115 6 112 2.62e-34 119
MsaG036548 AT2G45410.1 44.937 158 79 4 14 170 19 169 3.05e-33 117
MsaG036548 AT2G31310.1 55.208 96 42 1 10 104 6 101 3.46e-33 116
MsaG036548 AT3G58190.1 55.660 106 46 1 1 105 1 106 4.18e-33 117
MsaG036548 AT2G42440.1 52.525 99 46 1 8 105 4 102 7.16e-33 117
MsaG036548 AT3G50510.1 47.170 106 56 0 9 114 10 115 8.32e-30 108
MsaG036548 AT3G50510.2 47.170 106 56 0 9 114 10 115 8.32e-30 108
MsaG036548 AT5G35900.1 41.071 112 66 0 12 123 6 117 1.06e-26 100
MsaG036548 AT3G13850.1 40.777 103 61 0 12 114 37 139 1.38e-25 99.4
MsaG036548 AT3G47870.1 37.615 109 68 0 8 116 33 141 1.72e-25 100
MsaG036548 AT1G72980.1 40.541 111 66 0 1 111 3 113 5.86e-24 93.6
MsaG036548 AT1G06280.1 46.753 77 41 0 12 88 25 101 4.71e-20 83.2
MsaG036548 AT4G22700.1 36.937 111 68 2 12 121 6 115 7.19e-18 77.4
MsaG036548 AT2G19820.1 37.363 91 56 1 8 97 9 99 5.56e-16 70.5
MsaG036548 AT5G15060.1 43.243 74 38 2 12 82 18 90 2.05e-14 67.0

Find 39 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAAATGTTCACAAAATATT+TGG 0.149406 7:+37358014 MsaT036548.1:CDS
GCAAATTTCTGTGGCTCTTC+TGG 0.194109 7:-37357993 None:intergenic
AGGATTAAAGATCCAGTTTA+TGG 0.225345 7:+37358125 MsaT036548.1:CDS
GGCTCTTCTGGTGGGAAATA+TGG 0.297872 7:-37357981 None:intergenic
AATCCTTGCCTCGGCTTCAT+AGG 0.305194 7:-37358108 None:intergenic
GGAGCCTAATAACTTGTCTT+TGG 0.306861 7:-37358172 None:intergenic
GCACCAACACAACCATAAAC+TGG 0.396732 7:-37358137 None:intergenic
TCCTCCAAAGACAAGTTATT+AGG 0.401520 7:+37358168 MsaT036548.1:CDS
TAGTAGAATCAAGTTCCCTT+TGG 0.453354 7:-37358193 None:intergenic
TATGGAGCAAATATGCAATC+TGG 0.454516 7:-37357963 None:intergenic
AATTTCTGTGGCTCTTCTGG+TGG 0.462397 7:-37357990 None:intergenic
TTGTCTTTGGAGGACTGAAA+TGG 0.466727 7:-37358159 None:intergenic
ACAAGGATCGGTGGTGAAGA+TGG 0.475213 7:+37358275 MsaT036548.1:CDS
GCCTAATAACTTGTCTTTGG+AGG 0.488921 7:-37358169 None:intergenic
GATGGAAGCGGTTCTTCTCT+CGG 0.503012 7:+37358293 MsaT036548.1:CDS
GACAAGTTATTAGGCTCCAA+AGG 0.508039 7:+37358177 MsaT036548.1:CDS
TCTCGGTCAATCTCCTCCTC+CGG 0.512178 7:+37358310 MsaT036548.1:CDS
TGGATCTTTAATCCTTGCCT+CGG 0.516855 7:-37358117 None:intergenic
GTAGCTGTGATATCATGATT+CGG 0.523254 7:-37358254 None:intergenic
TCATTATTGTTCCAAGGAGA+AGG 0.524865 7:-37358344 None:intergenic
TGAAGTGCAACAACATCAAA+GGG 0.528377 7:+37358064 MsaT036548.1:CDS
ACAAGTTATTAGGCTCCAAA+GGG 0.549638 7:+37358178 MsaT036548.1:CDS
GATCCAGTTTATGGTTGTGT+TGG 0.554848 7:+37358134 MsaT036548.1:CDS
ATGAAGTGCAACAACATCAA+AGG 0.561125 7:+37358063 MsaT036548.1:CDS
ATTTCTGTGGCTCTTCTGGT+GGG 0.562695 7:-37357989 None:intergenic
GATGGTTATCACACAGGAGG+AGG 0.570284 7:+37358377 MsaT036548.1:CDS
CTCTCTTGCCTATGAAGCCG+AGG 0.570500 7:+37358100 MsaT036548.1:CDS
AGTGGATCATTATTGTTCCA+AGG 0.579950 7:-37358350 None:intergenic
TGAACATTTGCAAATTTCTG+TGG 0.582165 7:-37358002 None:intergenic
TTGCCTATGAAGCCGAGGCA+AGG 0.591021 7:+37358105 MsaT036548.1:CDS
AATAATGATCCACTTGGCGA+TGG 0.592711 7:+37358359 MsaT036548.1:CDS
TGGAACAATAATGATCCACT+TGG 0.604864 7:+37358353 MsaT036548.1:CDS
ATCATGATATCACAGCTACA+AGG 0.605340 7:+37358258 MsaT036548.1:CDS
ATCGGTGGTGAAGATGGAAG+CGG 0.616830 7:+37358281 MsaT036548.1:CDS
GATATCACAGCTACAAGGAT+CGG 0.621778 7:+37358263 MsaT036548.1:CDS
ATCACAGCTACAAGGATCGG+TGG 0.651340 7:+37358266 MsaT036548.1:CDS
GTGTGATAACCATCGCCAAG+TGG 0.657231 7:-37358368 None:intergenic
GGCGATGGTTATCACACAGG+AGG 0.663949 7:+37358374 MsaT036548.1:CDS
CTTGGCGATGGTTATCACAC+AGG 0.665211 7:+37358371 MsaT036548.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 37357894 37358412 37357894 ID=MsaG036548
Chr7 mRNA 37357894 37358412 37357894 ID=MsaT036548.1;Parent=MsaG036548
Chr7 exon 37357894 37358412 37357894 ID=MsaT036548.1.exon1;Parent=MsaT036548.1
Chr7 CDS 37357894 37358412 37357894 ID=cds.MsaT036548.1;Parent=MsaT036548.1
Gene Sequence

>MsaT036548.1

ATGGCATCTTCAAGCGCTTACTCAAATTCACCATGTGCTGCGTGCAAGTTTTTGAGAAGGAAGTGCATGCCAGATTGCATATTTGCTCCATATTTCCCACCAGAAGAGCCACAGAAATTTGCAAATGTTCACAAAATATTTGGTGCAAGCAATGTGAGTAAACTTCTGAATGAAGTGCAACAACATCAAAGGGAAGATGCAGTAAACTCTCTTGCCTATGAAGCCGAGGCAAGGATTAAAGATCCAGTTTATGGTTGTGTTGGTGCCATTTCAGTCCTCCAAAGACAAGTTATTAGGCTCCAAAGGGAACTTGATTCTACTAACGCTGATTTGATTCGCTATACTACTTGCACTGAAATTCCGAATCATGATATCACAGCTACAAGGATCGGTGGTGAAGATGGAAGCGGTTCTTCTCTCGGTCAATCTCCTCCTCCGGCTTTTTACTATCCTTCTCCTTGGAACAATAATGATCCACTTGGCGATGGTTATCACACAGGAGGAGGTGACAATATATAA
Protein sequence

>MsaT036548.1

MASSSAYSNSPCAACKFLRRKCMPDCIFAPYFPPEEPQKFANVHKIFGASNVSKLLNEVQQHQREDAVNSLAYEAEARIKDPVYGCVGAISVLQRQVIRLQRELDSTNADLIRYTTCTEIPNHDITATRIGGEDGSGSSLGQSPPPAFYYPSPWNNNDPLGDGYHTGGGDNI*