AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG014250

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014250 MtrunA17_Chr3g0103181 72.500 280 75 2 1 279 1 279 2.35e-144 406
MsaG014250 MtrunA17_Chr3g0103191 79.365 252 45 3 1 246 1 251 2.10e-138 390
MsaG014250 MtrunA17_Chr3g0103201 79.091 220 41 1 65 279 1 220 5.05e-122 347
MsaG014250 MtrunA17_Chr3g0103171 67.939 262 76 3 25 279 5 265 1.13e-119 343
MsaG014250 MtrunA17_Chr3g0103151 78.846 156 32 1 1 156 1 155 2.17e-85 252
MsaG014250 MtrunA17_Chr3g0103161 67.200 125 41 0 159 283 3 127 1.29e-53 170
MsaG014250 MtrunA17_Chr7g0233561 33.117 308 164 9 7 280 13 312 3.78e-44 152
MsaG014250 MtrunA17_Chr8g0390841 33.333 312 150 11 10 280 37 331 6.29e-43 153
MsaG014250 MtrunA17_Chr8g0390841 47.619 63 32 1 218 280 457 518 7.79e-12 65.5
MsaG014250 MtrunA17_Chr1g0163071 33.106 293 151 8 26 280 2 287 3.73e-42 147
MsaG014250 MtrunA17_Chr1g0208771 32.323 297 146 8 25 282 12 292 3.28e-41 147
MsaG014250 MtrunA17_Chr1g0208771 23.693 287 178 12 12 283 201 461 7.64e-11 62.4
MsaG014250 MtrunA17_Chr3g0131891 31.169 308 156 9 9 280 16 303 4.55e-39 139
MsaG014250 MtrunA17_Chr7g0233521 32.246 276 154 8 25 280 1 263 4.25e-35 127
MsaG014250 MtrunA17_Chr7g0233571 33.178 214 117 6 4 194 2 212 2.57e-31 116
MsaG014250 MtrunA17_Chr7g0233541 29.391 279 173 7 26 280 2 280 7.39e-31 117
MsaG014250 MtrunA17_Chr4g0067431 29.605 304 175 11 10 279 13 311 1.18e-30 117
MsaG014250 MtrunA17_Chr1g0163251 28.522 291 169 8 12 281 9 281 3.28e-30 117
MsaG014250 MtrunA17_Chr1g0163181 29.412 289 172 9 14 278 11 291 7.13e-30 117
MsaG014250 MtrunA17_Chr1g0163131 29.904 311 167 12 2 276 8 303 7.65e-30 114
MsaG014250 MtrunA17_Chr7g0233531 29.924 264 174 6 26 280 2 263 2.33e-29 112
MsaG014250 MtrunA17_Chr5g0419201 35.220 159 86 3 12 160 16 167 5.38e-27 103
MsaG014250 MtrunA17_Chr3g0077451 29.151 271 152 7 15 281 1 235 4.83e-26 102
MsaG014250 MtrunA17_Chr1g0163201 26.715 277 175 8 25 281 18 286 2.24e-25 103
MsaG014250 MtrunA17_Chr1g0163261 26.829 287 188 6 9 281 6 284 1.77e-24 100
MsaG014250 MtrunA17_Chr5g0429931 31.418 261 148 9 25 281 10 243 2.79e-23 95.5
MsaG014250 MtrunA17_Chr1g0163231 25.874 286 182 9 9 278 6 277 1.16e-22 95.1
MsaG014250 MtrunA17_Chr1g0163221 28.669 293 175 10 10 279 9 290 2.83e-22 94.7
MsaG014250 MtrunA17_Chr4g0033961 36.364 132 75 2 12 134 6 137 1.15e-21 94.0
MsaG014250 MtrunA17_Chr1g0162441 34.783 138 79 3 8 134 1 138 5.56e-20 89.0
MsaG014250 MtrunA17_Chr3g0077461 30.827 266 139 8 12 273 237 461 6.29e-20 89.4
MsaG014250 MtrunA17_Chr3g0077461 40.476 84 50 0 25 108 22 105 2.90e-14 72.4
MsaG014250 MtrunA17_Chr3g0077421 31.004 229 117 7 57 280 4 196 7.17e-20 85.5
MsaG014250 MtrunA17_Chr3g0077441 31.004 229 117 7 57 280 4 196 7.17e-20 85.5
MsaG014250 MtrunA17_Chr1g0163191 35.000 120 69 3 12 131 9 119 1.08e-19 84.0
MsaG014250 MtrunA17_Chr1g0162161 35.000 140 84 3 26 161 4 140 7.89e-19 81.6
MsaG014250 MtrunA17_Chr1g0171611 25.090 279 181 10 9 278 6 265 9.16e-19 84.3
MsaG014250 MtrunA17_Chr1g0154131 25.939 293 198 8 10 283 182 474 1.12e-18 85.5
MsaG014250 MtrunA17_Chr1g0163161 44.118 102 49 3 38 134 1 99 2.00e-18 79.7
MsaG014250 MtrunA17_Chr1g0163101 34.043 141 83 4 2 135 7 144 1.03e-17 79.0
MsaG014250 MtrunA17_Chr3g0077411 25.694 288 165 7 10 279 260 516 1.99e-17 82.0
MsaG014250 MtrunA17_Chr3g0077411 28.625 269 134 8 12 273 25 242 2.63e-17 81.6
MsaG014250 MtrunA17_Chr1g0163241 35.238 105 60 2 12 116 15 111 2.74e-17 77.4
MsaG014250 MtrunA17_Chr1g0163061 40.196 102 58 2 10 108 13 114 2.84e-17 79.7
MsaG014250 MtrunA17_Chr1g0162411 38.596 114 65 3 6 117 2 112 4.00e-17 80.9
MsaG014250 MtrunA17_Chr6g0467351 38.182 110 64 3 10 116 13 121 9.27e-17 77.4
MsaG014250 MtrunA17_Chr3g0077431 28.384 229 124 7 57 281 4 196 1.40e-16 76.3
MsaG014250 MtrunA17_Chr6g0476181 32.948 173 98 6 26 192 2 162 1.74e-16 75.1
MsaG014250 MtrunA17_Chr1g0154161 23.611 288 192 8 13 281 30 308 4.12e-16 77.0
MsaG014250 MtrunA17_Chr1g0163121 38.793 116 62 4 24 134 9 120 4.64e-16 73.6
MsaG014250 MtrunA17_Chr1g0163081 39.130 115 61 4 26 135 6 116 1.03e-15 72.8
MsaG014250 MtrunA17_Chr3g0077381 35.043 117 75 1 13 128 23 139 5.50e-15 74.7
MsaG014250 MtrunA17_Chr3g0077381 36.111 108 66 2 16 120 251 358 1.42e-12 67.4
MsaG014250 MtrunA17_Chr1g0163141 38.776 147 62 6 24 160 9 137 3.95e-14 69.3
MsaG014250 MtrunA17_Chr4g0009491 37.383 107 64 2 16 119 229 335 6.93e-14 71.2
MsaG014250 MtrunA17_Chr4g0009491 28.571 112 80 0 16 127 3 114 2.68e-11 63.5
MsaG014250 MtrunA17_Chr1g0154191 21.136 317 184 8 26 278 38 352 1.05e-13 70.5
MsaG014250 MtrunA17_Chr3g0077361 24.176 273 145 7 11 273 39 259 3.36e-13 69.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014250 AT3G18990.1 25.074 339 185 7 8 280 1 336 3.64e-30 116
MsaG014250 AT3G18990.2 25.074 339 185 7 8 280 1 336 1.01e-29 115
MsaG014250 AT1G49475.1 37.143 140 73 4 11 137 33 170 7.19e-19 82.8
MsaG014250 AT4G01580.1 30.719 153 92 5 2 149 19 162 2.24e-16 75.9
MsaG014250 AT3G18960.1 34.545 110 69 2 2 108 19 128 1.87e-15 73.9
MsaG014250 AT3G18960.2 34.545 110 69 2 2 108 19 128 2.74e-15 73.2
MsaG014250 AT4G33280.1 22.924 301 202 9 10 282 23 321 1.87e-14 72.8
MsaG014250 AT3G18960.3 38.095 84 52 0 25 108 8 91 9.66e-13 65.5
MsaG014250 AT1G49480.3 28.346 127 85 2 157 280 98 221 1.96e-11 62.8
MsaG014250 AT1G49480.1 28.346 127 85 2 157 280 98 221 1.96e-11 62.8
MsaG014250 AT1G49480.2 28.346 127 85 2 157 280 98 221 1.96e-11 62.8

Find 60 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATGAATCAGTTGAGATTT+TGG 0.207341 3:+69746963 MsaT014250.1:CDS
GCTCTAAATGGAAAGTTTAT+TGG 0.210456 3:+69746731 MsaT014250.1:CDS
CTCTCTTGGACATGGCTCTT+TGG 0.220059 3:+69746813 MsaT014250.1:CDS
AAAGAACTTCATCAATAAAT+TGG 0.265159 3:+69747462 MsaT014250.1:CDS
CAGTCTGTACCAGATTTAAA+AGG 0.279755 3:+69747735 MsaT014250.1:intron
CAATCCTATGAAGATTAGTT+TGG 0.289306 3:-69746347 None:intergenic
AGCCTCCTGATGGCTCTAAA+TGG 0.299943 3:+69746719 MsaT014250.1:CDS
AGTCTATTTCTACTGCATTC+TGG 0.324981 3:-69746885 None:intergenic
TCTTTGGTTGTATTTGAATA+TGG 0.328557 3:+69746829 MsaT014250.1:CDS
ATTGATAAACAAGAAAGATT+TGG 0.351442 3:+69747926 MsaT014250.1:CDS
TTTACTGAAAATTACTCTCT+TGG 0.354240 3:+69746799 MsaT014250.1:CDS
TCCTGAGCTCTAGCATCCTT+TGG 0.372162 3:-69747485 None:intergenic
TGGTGAGATTTGGTTTGAAA+AGG 0.373936 3:+69746765 MsaT014250.1:CDS
CAGTCTGCAGTATTACATTC+TGG 0.389979 3:-69747776 None:intergenic
GCTCATAAAGCCAATTAATC+TGG 0.407944 3:+69747550 MsaT014250.1:CDS
GAAATTACTTCGTTGTTATG+AGG 0.407954 3:+69747818 MsaT014250.1:CDS
AGTAAGTTTACAAGGAGATA+TGG 0.410176 3:+69746667 MsaT014250.1:CDS
TAATCTGGTAGAAAATTATC+TGG 0.419946 3:+69747565 MsaT014250.1:CDS
TATCTCCTTGTAAACTTACT+TGG 0.426107 3:-69746664 None:intergenic
AGTGGAAGTGGACTGAAATC+AGG 0.429019 3:+69747885 MsaT014250.1:CDS
GTCGTCGCCTTTCTGCGGGC+TGG 0.452484 3:+69747850 MsaT014250.1:CDS
AGTCTGTACCAGATTTAAAA+GGG 0.454675 3:+69747736 MsaT014250.1:intron
ACTTTCCATTTAGAGCCATC+AGG 0.456300 3:-69746724 None:intergenic
TCCTCCAAACTAATCTTCAT+AGG 0.457688 3:+69746343 MsaT014250.1:CDS
AATCGTCGTCGCCTTTCTGC+GGG 0.468936 3:+69747846 MsaT014250.1:CDS
AGATTTGGTTTGAAAAGGGT+TGG 0.470784 3:+69746770 MsaT014250.1:CDS
AAGTTTGATGTACACATACT+TGG 0.471543 3:+69746862 MsaT014250.1:CDS
GGAGGATGATCTTGAAGAAA+CGG 0.484427 3:-69746326 None:intergenic
GGTGAGATTTGGTTTGAAAA+GGG 0.495938 3:+69746766 MsaT014250.1:CDS
TCCTATGAAGATTAGTTTGG+AGG 0.495980 3:-69746344 None:intergenic
AAATTACTTCGTTGTTATGA+GGG 0.499744 3:+69747819 MsaT014250.1:CDS
TAATACTGCAGACTGGGAAA+AGG 0.505142 3:+69747784 MsaT014250.1:CDS
GCCAAAGGATGCTAGAGCTC+AGG 0.513948 3:+69747484 MsaT014250.1:CDS
AAATCGTCGTCGCCTTTCTG+CGG 0.517538 3:+69747845 MsaT014250.1:CDS
CGGACTTTCTTATGTGGTCG+AGG 0.535878 3:-69747036 None:intergenic
AAAAGGGGTTATTGAGAACA+AGG 0.540140 3:+69747752 MsaT014250.1:CDS
CAGAATGTAATACTGCAGAC+TGG 0.541899 3:+69747777 MsaT014250.1:CDS
TTGGTTGTATTTGAATATGG+AGG 0.544853 3:+69746832 MsaT014250.1:CDS
GGGAAGGATAGGATTTCCTC+TGG 0.551524 3:-69746301 None:intergenic
AAGAAACGGATGGGAAGGAT+AGG 0.554094 3:-69746312 None:intergenic
AAGTATGTGTACATCAAACT+TGG 0.555627 3:-69746860 None:intergenic
GTGTTGATCAAGCCTCCTGA+TGG 0.557163 3:+69746709 MsaT014250.1:CDS
AAATACCAAGTAAGTTTACA+AGG 0.564024 3:+69746659 MsaT014250.1:CDS
TGCAGACTGGGAAAAGGTCA+TGG 0.566532 3:+69747790 MsaT014250.1:CDS
AAACCTCGGACTTTCTTATG+TGG 0.566984 3:-69747042 None:intergenic
TGAATGGCTGAATCGGAAGA+AGG 0.567649 3:+69746987 MsaT014250.1:CDS
ACAAGTTCCAGCCCGCAGAA+AGG 0.569012 3:-69747857 None:intergenic
TCAGGAGGCTTGATCAACAC+TGG 0.572588 3:-69746706 None:intergenic
TCTTGAAGAAACGGATGGGA+AGG 0.589415 3:-69746317 None:intergenic
TTCATCAATAAATTGGCCAA+AGG 0.589930 3:+69747469 MsaT014250.1:CDS
GATGATCTTGAAGAAACGGA+TGG 0.597527 3:-69746322 None:intergenic
AGAATGTAATACTGCAGACT+GGG 0.606512 3:+69747778 MsaT014250.1:CDS
AATGATGAAAATGACAATGT+TGG 0.613196 3:+69746928 MsaT014250.1:CDS
TTTACAAGGAGATATGGAGT+TGG 0.615306 3:+69746673 MsaT014250.1:CDS
ATGATCTTGAAGAAACGGAT+GGG 0.618403 3:-69746321 None:intergenic
GAAAATTACTCTCTTGGACA+TGG 0.632483 3:+69746805 MsaT014250.1:CDS
ACTCTTTCATTCATGGCCAG+AGG 0.635124 3:+69746285 None:intergenic
TTCCATTTAGAGCCATCAGG+AGG 0.635302 3:-69746721 None:intergenic
TGTGGTCGAGGAGAATCAGA+AGG 0.646974 3:-69747024 None:intergenic
GTCTGTACCAGATTTAAAAG+GGG 0.654961 3:+69747737 MsaT014250.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 69746297 69747983 69746297 ID=MsaG014250
Chr3 mRNA 69746297 69747983 69746297 ID=MsaT014250.1;Parent=MsaG014250
Chr3 exon 69746297 69746368 69746297 ID=MsaT014250.1.exon1;Parent=MsaT014250.1
Chr3 CDS 69746297 69746368 69746297 ID=cds.MsaT014250.1;Parent=MsaT014250.1
Chr3 exon 69746658 69747053 69746658 ID=MsaT014250.1.exon2;Parent=MsaT014250.1
Chr3 CDS 69746658 69747053 69746658 ID=cds.MsaT014250.1;Parent=MsaT014250.1
Chr3 exon 69747449 69747586 69747449 ID=MsaT014250.1.exon3;Parent=MsaT014250.1
Chr3 CDS 69747449 69747586 69747449 ID=cds.MsaT014250.1;Parent=MsaT014250.1
Chr3 exon 69747738 69747983 69747738 ID=MsaT014250.1.exon4;Parent=MsaT014250.1
Chr3 CDS 69747738 69747983 69747738 ID=cds.MsaT014250.1;Parent=MsaT014250.1
Gene Sequence

>MsaT014250.1

ATGGCCAGAGGAAATCCTATCCTTCCCATCCGTTTCTTCAAGATCATCCTCCAAACTAATCTTCATAGGATTCAAATACCAAGTAAGTTTACAAGGAGATATGGAGTTGGTCTATCAAATCCAGTGTTGATCAAGCCTCCTGATGGCTCTAAATGGAAAGTTTATTGGAAAAAAATCAATGGTGAGATTTGGTTTGAAAAGGGTTGGAAAACTTTTACTGAAAATTACTCTCTTGGACATGGCTCTTTGGTTGTATTTGAATATGGAGGAACTTCCAAGTTTGATGTACACATACTTGGCCAGAATGCAGTAGAAATAGACTATGATTCTTTAAGTGATACTAATGATGAAAATGACAATGTTGGTCATAGTGATGATGATGAATCAGTTGAGATTTTGGATGAATGGCTGAATCGGAAGAAGGCTAAACAAAGATCACCTTCTGATTCTCCTCGACCACATAAGAAAAAGACTACTAATAAAAGAACTTCATCAATAAATTGGCCAAAGGATGCTAGAGCTCAGGAAGTAGCTCAAAATTTCATATCATGCAATCCTTTTTTCACAATGCTCATAAAGCCAATTAATCTGGTAGAAAATTATCTGTCTGTACCAGATTTAAAAGGGGTTATTGAGAACAAGGACCAGAATGTAATACTGCAGACTGGGAAAAGGTCATGGAATGTGAAATTACTTCGTTGTTATGAGGGCGAAAATCGTCGTCGCCTTTCTGCGGGCTGGAACTTGTTTTTAAGTGGAAGTGGACTGAAATCAGGAGATGTTTGTGTCTTTGAATTGATAAACAAGAAAGATTTGGTTTTTAAAGTTCGTGTTTTCAAAAGCGACAGTTAA
Protein sequence

>MsaT014250.1

MARGNPILPIRFFKIILQTNLHRIQIPSKFTRRYGVGLSNPVLIKPPDGSKWKVYWKKINGEIWFEKGWKTFTENYSLGHGSLVVFEYGGTSKFDVHILGQNAVEIDYDSLSDTNDENDNVGHSDDDESVEILDEWLNRKKAKQRSPSDSPRPHKKKTTNKRTSSINWPKDARAQEVAQNFISCNPFFTMLIKPINLVENYLSVPDLKGVIENKDQNVILQTGKRSWNVKLLRCYEGENRRRLSAGWNLFLSGSGLKSGDVCVFELINKKDLVFKVRVFKSDS*