AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038306

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038306 MtrunA17_Chr7g0244971 90.136 294 19 1 1 284 1 294 0.0 546
MsaG038306 MtrunA17_Chr7g0244981 87.719 285 32 3 1 284 1 283 0.0 506
MsaG038306 MtrunA17_Chr8g0350621 44.541 229 105 5 13 231 5 221 6.30e-61 194
MsaG038306 MtrunA17_Chr8g0334541 41.667 276 135 8 14 278 4 264 4.82e-58 187
MsaG038306 MtrunA17_Chr2g0315371 39.683 252 118 8 11 231 12 260 1.46e-48 163
MsaG038306 MtrunA17_Chr2g0315381 41.803 244 112 6 17 231 17 259 2.49e-45 155
MsaG038306 MtrunA17_Chr2g0315361 36.803 269 132 6 11 243 12 278 2.38e-42 147
MsaG038306 MtrunA17_Chr5g0428351 39.662 237 107 12 5 239 81 283 1.29e-39 140
MsaG038306 MtrunA17_Chr3g0128671 41.530 183 86 6 21 191 23 196 2.15e-37 134
MsaG038306 MtrunA17_Chr8g0350631 67.532 77 24 1 144 220 5 80 1.01e-30 112
MsaG038306 MtrunA17_Chr7g0275531 31.980 197 106 4 12 195 9 190 1.14e-26 106
MsaG038306 MtrunA17_Chr3g0126391 32.995 197 96 5 15 184 7 194 8.55e-26 104
MsaG038306 MtrunA17_Chr8g0347251 34.392 189 98 5 15 182 12 195 2.95e-23 97.4
MsaG038306 MtrunA17_Chr8g0387981 32.212 208 98 8 1 182 1 191 2.45e-21 92.4
MsaG038306 MtrunA17_Chr8g0350641 35.766 137 77 5 14 143 7 139 1.53e-16 74.7
MsaG038306 MtrunA17_Chr7g0224801 51.667 60 26 1 122 181 92 148 1.56e-14 70.1
MsaG038306 MtrunA17_Chr2g0315401 55.000 60 26 1 151 209 19 78 1.79e-14 69.3
MsaG038306 MtrunA17_Chr5g0431811 46.875 64 34 0 121 184 670 733 1.87e-14 73.6
MsaG038306 MtrunA17_Chr8g0383351 40.187 107 48 6 98 203 142 233 2.93e-13 67.8
MsaG038306 MtrunA17_Chr8g0386241 35.088 114 68 3 76 189 59 166 7.35e-13 65.9
MsaG038306 MtrunA17_Chr1g0194481 46.667 60 29 1 122 181 157 213 3.75e-12 65.9
MsaG038306 MtrunA17_Chr3g0129361 41.176 85 37 3 98 181 127 199 3.93e-12 64.3
MsaG038306 MtrunA17_Chr8g0335811 34.109 129 60 5 73 200 113 217 4.44e-12 64.3
MsaG038306 MtrunA17_Chr5g0418781 47.458 59 28 1 122 180 123 178 4.45e-12 65.1
MsaG038306 MtrunA17_Chr2g0322391 34.579 107 67 2 98 204 325 428 5.50e-12 65.9
MsaG038306 MtrunA17_Chr7g0270831 34.483 116 73 2 66 180 158 271 9.68e-12 65.1
MsaG038306 MtrunA17_Chr7g0270191 46.667 60 29 1 122 181 144 200 1.12e-11 63.9
MsaG038306 MtrunA17_Chr3g0099641 36.364 99 60 2 106 204 235 330 1.81e-11 64.3
MsaG038306 MtrunA17_Chr4g0051881 47.458 59 28 1 122 180 177 232 3.35e-11 62.8
MsaG038306 MtrunA17_Chr5g0443131 45.763 59 29 1 122 180 156 211 3.38e-11 62.8
MsaG038306 MtrunA17_Chr8g0348311 39.744 78 43 2 106 181 136 211 4.27e-11 62.8
MsaG038306 MtrunA17_Chr2g0315341 56.863 51 21 1 160 209 2 52 4.65e-11 59.3
MsaG038306 MtrunA17_Chr1g0150801 31.746 126 69 3 67 181 38 157 7.33e-11 59.7
MsaG038306 MtrunA17_Chr4g0068541 37.838 74 42 2 108 180 192 262 9.54e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038306 AT3G56400.1 41.758 182 81 5 14 182 10 179 2.64e-37 134
MsaG038306 AT2G40750.1 37.500 200 92 7 14 182 14 211 2.94e-28 111
MsaG038306 AT1G66550.1 34.016 244 133 11 14 250 8 230 1.91e-26 104
MsaG038306 AT5G01900.1 34.921 189 95 5 10 187 3 174 5.66e-26 103
MsaG038306 AT2G46400.1 34.783 184 90 5 15 189 8 170 1.13e-25 103
MsaG038306 AT1G66550.2 32.377 244 132 10 14 250 8 225 6.05e-25 100
MsaG038306 AT5G22570.1 31.489 235 130 9 14 232 9 228 1.71e-24 100
MsaG038306 AT1G66560.1 36.047 172 94 6 15 185 9 165 4.32e-24 98.2
MsaG038306 AT4G11070.1 31.443 194 109 4 12 182 8 200 3.19e-22 94.4
MsaG038306 AT1G66600.1 34.091 176 94 6 14 185 8 165 4.40e-22 92.8
MsaG038306 AT2G40740.1 30.244 205 115 6 16 195 44 245 1.61e-20 89.4
MsaG038306 AT2G40740.3 30.244 205 115 6 16 195 53 254 1.87e-20 89.4
MsaG038306 AT4G11070.2 32.275 189 82 5 12 182 8 168 2.41e-19 85.9
MsaG038306 AT5G24110.1 32.370 173 91 3 24 182 12 172 8.66e-19 84.7
MsaG038306 AT1G80590.1 29.798 198 104 5 13 210 7 169 3.73e-18 81.6
MsaG038306 AT4G23810.1 45.882 85 38 1 106 182 133 217 1.19e-17 82.0
MsaG038306 AT1G69310.4 36.585 123 71 4 70 188 90 209 1.21e-13 70.1
MsaG038306 AT1G69310.2 36.585 123 71 4 70 188 90 209 1.21e-13 70.1
MsaG038306 AT1G69310.1 36.585 123 71 4 70 188 90 209 1.21e-13 70.1
MsaG038306 AT5G45260.1 52.632 57 27 0 124 180 1209 1265 1.97e-13 70.9
MsaG038306 AT5G13080.1 41.667 84 45 2 122 205 66 145 1.30e-12 64.7
MsaG038306 AT5G41570.1 40.964 83 44 2 98 180 75 152 1.48e-12 65.1
MsaG038306 AT2G37260.1 45.833 72 35 2 117 188 344 411 2.03e-12 67.4
MsaG038306 AT2G37260.2 45.833 72 35 2 117 188 262 329 2.53e-12 66.6
MsaG038306 AT2G37260.3 45.833 72 35 2 117 188 264 331 2.68e-12 66.6
MsaG038306 AT2G46130.1 45.763 59 29 1 122 180 29 84 4.38e-12 62.0
MsaG038306 AT5G49520.1 41.791 67 36 1 122 188 220 283 4.41e-12 66.2
MsaG038306 AT1G64000.1 43.077 65 34 1 116 180 107 168 5.98e-12 63.9
MsaG038306 AT3G01970.1 38.202 89 44 2 122 210 64 141 7.26e-12 62.4
MsaG038306 AT4G04450.2 33.929 112 71 2 94 204 168 277 2.35e-11 64.3
MsaG038306 AT2G47260.1 46.667 60 29 1 122 181 173 229 2.44e-11 63.9
MsaG038306 AT4G39410.1 38.542 96 44 4 93 188 201 281 3.15e-11 63.2
MsaG038306 AT4G18170.1 36.538 104 54 4 80 180 132 226 3.55e-11 63.2
MsaG038306 AT4G04450.1 33.929 112 71 2 94 204 262 371 3.56e-11 63.9
MsaG038306 AT2G44745.1 42.857 84 41 3 98 180 122 199 3.92e-11 62.0
MsaG038306 AT1G29860.1 44.444 63 32 1 122 184 135 194 6.40e-11 62.0
MsaG038306 AT1G62300.1 44.595 74 38 2 108 180 296 367 6.68e-11 63.2

Find 49 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCAAGAAAGTGGGCAATTA+AGG 0.196874 7:+74834300 None:intergenic
CTTGATTCTCATGATCATTT+AGG 0.206318 7:-74834356 MsaT038306.1:CDS
GGTGATAATGATAACATTAA+TGG 0.242855 7:-74836091 MsaT038306.1:CDS
TGCTTTGCAGGAACTATTAC+AGG 0.282092 7:-74834715 MsaT038306.1:intron
TCTAATTAATTTCAAGAAAG+TGG 0.298885 7:+74834290 None:intergenic
CAAGAGTACTTCCATTGTTA+AGG 0.344618 7:-74835924 MsaT038306.1:CDS
CTTTACAAAACAACCTACTA+TGG 0.350539 7:-74834623 MsaT038306.1:CDS
TTAAATATACCTTGGAAAAT+CGG 0.363581 7:+74835109 None:intergenic
ACATCATCATACATGATATC+AGG 0.372411 7:+74834323 None:intergenic
TTTAAAAGATCTTCAGCAAC+TGG 0.373083 7:+74836058 None:intergenic
GGTCATCAATGGAGAAAGTA+TGG 0.401550 7:-74835152 MsaT038306.1:CDS
GGAGAATCCTCTATGATCTC+AGG 0.407384 7:+74834572 None:intergenic
CCTTCAAATGATTACCTCTC+TGG 0.419974 7:-74834425 MsaT038306.1:CDS
AAAGGAGGAGTGCAAGGAAG+AGG 0.462606 7:-74834465 MsaT038306.1:CDS
CCAGAGAGGTAATCATTTGA+AGG 0.470477 7:+74834425 None:intergenic
TAATCATTTGAAGGAGGAGG+AGG 0.475507 7:+74834434 None:intergenic
CAGAAAAGTTTCACAAACAT+GGG 0.477292 7:-74835204 MsaT038306.1:CDS
GTGATTGATGAATTACTAAG+AGG 0.485264 7:-74836157 MsaT038306.1:CDS
AGAAATATTCTCAATGAAAG+TGG 0.485810 7:-74836112 MsaT038306.1:CDS
ACCTTGGAAAATCGGTGTGC+AGG 0.494320 7:+74835117 None:intergenic
TCAGAAAAGTTTCACAAACA+TGG 0.494934 7:-74835205 MsaT038306.1:intron
AGGTAATCATTTGAAGGAGG+AGG 0.500051 7:+74834431 None:intergenic
ACAAGTGTGATGGCCATAGT+AGG 0.510474 7:+74834610 None:intergenic
GAAAATATAGCTCATGGTAG+TGG 0.513286 7:-74836190 MsaT038306.1:CDS
AAATCAGAGCCCTCTGAAGT+TGG 0.514167 7:+74835986 None:intergenic
CTGTGGAAGATGGTCATCAA+TGG 0.520430 7:-74835163 MsaT038306.1:CDS
ATAGCTCATGGTAGTGGTCG+TGG 0.522895 7:-74836184 MsaT038306.1:CDS
CTAATTAATTTCAAGAAAGT+GGG 0.523136 7:+74834291 None:intergenic
AGCTAAGGAACATGGAAGAC+TGG 0.529377 7:+74834543 None:intergenic
GTAGAGGCTGTTACAAAAGA+AGG 0.531049 7:-74835898 MsaT038306.1:intron
GTTGTCAAAGCTAAGGAACA+TGG 0.540400 7:+74834535 None:intergenic
TCTGATCGTCCTGTGGAAGA+TGG 0.541946 7:-74835173 MsaT038306.1:CDS
GGAAAGAGTTGTCAAAGCTA+AGG 0.561012 7:+74834528 None:intergenic
TGCACTCACAAACATGATCA+AGG 0.563442 7:-74834692 MsaT038306.1:CDS
GAGAATCCTCTATGATCTCA+GGG 0.568526 7:+74834573 None:intergenic
GAACAAGAGAGAATTAGTAA+AGG 0.575911 7:+74836021 None:intergenic
GCAAGATTCTACAAGTGTGA+TGG 0.576779 7:+74834600 None:intergenic
GCCTCTACGTTCCTTAACAA+TGG 0.594370 7:+74835913 None:intergenic
AGTTTCACAAACATGGGAGA+AGG 0.598123 7:-74835198 MsaT038306.1:CDS
ACAAGTGCAACAAATTCAAG+AGG 0.601952 7:-74834654 MsaT038306.1:CDS
CATTGATGACCATCTTCCAC+AGG 0.609995 7:+74835164 None:intergenic
AACATGGAAGACTGGTCACA+AGG 0.611016 7:+74834551 None:intergenic
TTTGCAACTCACTAAATCTG+AGG 0.627298 7:-74835966 MsaT038306.1:CDS
GCAAAGCCCTGAGATCATAG+AGG 0.632964 7:-74834579 MsaT038306.1:CDS
TGATTGATGAATTACTAAGA+GGG 0.634644 7:-74836156 MsaT038306.1:CDS
GAGAGGTAATCATTTGAAGG+AGG 0.645608 7:+74834428 None:intergenic
GAAGGAGTCTGATCGTCCTG+TGG 0.654687 7:-74835180 MsaT038306.1:CDS
TCCATTGTTAAGGAACGTAG+AGG 0.656442 7:-74835914 MsaT038306.1:CDS
CATCAAAAGTGAGTCCAGAG+AGG 0.707648 7:+74834411 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 74834301 74836221 74834301 ID=MsaG038306
Chr7 mRNA 74834301 74836221 74834301 ID=MsaT038306.1;Parent=MsaG038306
Chr7 exon 74834301 74834727 74834301 ID=MsaT038306.1.exon3;Parent=MsaT038306.1
Chr7 CDS 74834301 74834727 74834301 ID=cds.MsaT038306.1;Parent=MsaT038306.1
Chr7 exon 74835119 74835223 74835119 ID=MsaT038306.1.exon2;Parent=MsaT038306.1
Chr7 CDS 74835119 74835223 74835119 ID=cds.MsaT038306.1;Parent=MsaT038306.1
Chr7 exon 74835899 74836221 74835899 ID=MsaT038306.1.exon1;Parent=MsaT038306.1
Chr7 CDS 74835899 74836221 74835899 ID=cds.MsaT038306.1;Parent=MsaT038306.1
Gene Sequence

>MsaT038306.1

ATGAAAAATGAAAATATAGCTCATGGTAGTGGTCGTGGAAAAGTGATTGATGAATTACTAAGAGGGCGTGAACTTGCAAACAAACTTAGAAATATTCTCAATGAAAGTGGTGATAATGATAACATTAATGGATCAACTACACCAGTTGCTGAAGATCTTTTAAAGGAAGTGCTTACAACCTTTACTAATTCTCTCTTGTTCTTGAAAAATAATCCAACTTCAGAGGGCTCTGATTTGCAACTCACTAAATCTGAGGATTCTTTAGAGAGTAATTGCAAGAGTACTTCCATTGTTAAGGAACGTAGAGGCTGTTACAAAAGAAGAAAAGTTTCACAAACATGGGAGAAGGAGTCTGATCGTCCTGTGGAAGATGGTCATCAATGGAGAAAGTATGGCCAAAAAAAGATCCTGCACACCGATTTTCCAAGGAACTATTACAGGTGCACTCACAAACATGATCAAGGTTGCAAAGCAACAAAACAAGTGCAACAAATTCAAGAGGAACCACCTCTTTACAAAACAACCTACTATGGCCATCACACTTGTAGAATCTTGCAAAGCCCTGAGATCATAGAGGATTCTCCTTGTGACCAGTCTTCCATGTTCCTTAGCTTTGACAACTCTTTCCCAACACCAGCCAAAAAAGACTGTCCTTTTCTCTCAGTGAAAAAGGAGGAGTGCAAGGAAGAGGTTGTTCATCCTCCTCCTCCTTCAAATGATTACCTCTCTGGACTCACTTTTGATGATCCAGAAAAGGATGTCACACTATCATCAACACTTGATTCTCATGATCATTTAGGTGTCAACATTCCTGATATCATGTATGATGATGTCCTTAATTGCCCACTTTCTTGA
Protein sequence

>MsaT038306.1

MKNENIAHGSGRGKVIDELLRGRELANKLRNILNESGDNDNINGSTTPVAEDLLKEVLTTFTNSLLFLKNNPTSEGSDLQLTKSEDSLESNCKSTSIVKERRGCYKRRKVSQTWEKESDRPVEDGHQWRKYGQKKILHTDFPRNYYRCTHKHDQGCKATKQVQQIQEEPPLYKTTYYGHHTCRILQSPEIIEDSPCDQSSMFLSFDNSFPTPAKKDCPFLSVKKEECKEEVVHPPPPSNDYLSGLTFDDPEKDVTLSSTLDSHDHLGVNIPDIMYDDVLNCPLS*