AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027604

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027604 MtrunA17_Chr5g0424801 65.072 209 49 3 1 186 1 208 6.98e-86 258
MsaG027604 MtrunA17_Chr5g0425261 65.072 209 49 3 1 186 1 208 5.94e-85 255
MsaG027604 MtrunA17_Chr5g0424791 85.000 140 20 1 40 178 12 151 3.07e-78 230
MsaG027604 MtrunA17_Chr5g0424931 46.789 218 81 6 1 186 8 222 6.67e-52 174
MsaG027604 MtrunA17_Chr5g0424741 44.672 244 77 5 1 186 1 244 2.75e-51 172
MsaG027604 MtrunA17_Chr1g0178011 45.455 220 83 6 1 186 1 217 3.44e-50 168
MsaG027604 MtrunA17_Chr2g0289221 44.298 228 89 9 4 195 12 237 3.41e-46 155
MsaG027604 MtrunA17_Chr2g0277461 40.455 220 91 6 5 187 6 222 4.47e-39 139
MsaG027604 MtrunA17_Chr5g0425661 42.365 203 85 6 12 183 37 238 5.49e-39 133
MsaG027604 MtrunA17_Chr5g0417281 39.269 219 101 5 8 194 7 225 5.56e-39 139
MsaG027604 MtrunA17_Chr2g0277531 37.611 226 107 4 6 197 14 239 6.41e-39 135
MsaG027604 MtrunA17_Chr5g0417211 42.081 221 85 9 1 182 1 217 4.21e-38 135
MsaG027604 MtrunA17_Chr3g0115271 35.577 208 104 5 9 187 16 222 3.77e-30 115
MsaG027604 MtrunA17_Chr5g0436761 36.364 198 90 6 5 168 5 200 1.62e-28 110
MsaG027604 MtrunA17_Chr2g0326761 31.188 202 110 6 9 182 8 208 1.59e-25 103
MsaG027604 MtrunA17_Chr1g0181211 32.524 206 103 6 11 182 26 229 2.46e-24 99.8
MsaG027604 MtrunA17_Chr1g0199681 32.524 206 98 6 12 182 94 293 1.77e-23 97.1
MsaG027604 MtrunA17_Chr4g0028971 31.579 209 116 5 1 182 1 209 3.35e-22 93.6
MsaG027604 MtrunA17_Chr2g0285461 29.680 219 115 8 2 182 10 227 6.06e-21 90.1
MsaG027604 MtrunA17_Chr5g0433301 29.577 213 106 7 9 182 21 228 3.20e-20 87.8
MsaG027604 MtrunA17_Chr7g0264171 32.353 204 108 8 9 182 28 231 3.31e-20 87.8
MsaG027604 MtrunA17_Chr3g0109391 29.108 213 107 7 9 182 23 230 7.39e-20 86.7
MsaG027604 MtrunA17_Chr2g0282961 30.093 216 116 8 2 182 43 258 4.66e-19 84.3
MsaG027604 MtrunA17_Chr7g0239061 27.751 209 119 5 5 181 7 215 3.32e-18 82.0
MsaG027604 MtrunA17_Chr4g0070181 27.962 211 119 5 5 182 16 226 1.23e-17 80.5
MsaG027604 MtrunA17_Chr2g0276781 28.241 216 103 7 9 182 20 225 1.56e-17 80.1
MsaG027604 MtrunA17_Chr8g0376771 29.358 218 116 9 2 182 10 226 1.58e-17 80.1
MsaG027604 MtrunA17_Chr2g0301251 28.708 209 116 5 9 184 20 228 1.71e-17 80.1
MsaG027604 MtrunA17_Chr1g0156321 28.846 208 113 7 9 182 40 246 2.65e-17 79.3
MsaG027604 MtrunA17_Chr8g0385791 28.019 207 116 5 9 182 56 262 5.14e-17 78.6
MsaG027604 MtrunA17_Chr7g0264161 35.443 158 89 6 38 182 35 192 1.02e-16 76.6
MsaG027604 MtrunA17_Chr8g0389081 28.095 210 117 5 7 182 27 236 1.27e-16 77.4
MsaG027604 MtrunA17_Chr8g0346711 28.365 208 113 7 9 182 26 231 1.91e-16 77.0
MsaG027604 MtrunA17_Chr4g0009751 35.220 159 76 7 42 182 72 221 6.17e-15 72.4
MsaG027604 MtrunA17_Chr4g0046371 29.384 211 109 8 12 182 38 248 7.54e-15 72.4
MsaG027604 MtrunA17_Chr4g0029671 23.789 227 103 7 12 182 54 266 4.94e-12 63.9
MsaG027604 MtrunA17_Chr5g0419861 34.188 117 72 3 29 140 12 128 1.55e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027604 AT1G77850.2 34.146 205 105 6 8 182 15 219 3.43e-29 113
MsaG027604 AT1G77850.1 34.146 205 105 6 8 182 15 219 3.44e-29 113
MsaG027604 AT2G28350.2 32.367 207 105 7 11 182 9 215 8.30e-26 104
MsaG027604 AT2G28350.1 32.367 207 105 7 11 182 9 215 9.28e-26 103
MsaG027604 AT4G30080.1 31.707 205 109 6 9 182 16 220 3.83e-23 96.7
MsaG027604 AT1G30330.1 30.045 223 109 8 2 182 10 227 2.48e-22 94.4
MsaG027604 AT1G30330.3 29.778 225 107 8 4 182 10 229 6.99e-22 93.2
MsaG027604 AT1G30330.2 29.778 225 107 8 4 182 10 229 6.99e-22 93.2
MsaG027604 AT1G34390.1 31.731 208 101 7 9 182 24 224 1.45e-21 92.0
MsaG027604 AT5G37020.1 28.837 215 109 7 9 184 19 228 6.63e-20 87.4
MsaG027604 AT5G37020.2 28.837 215 109 7 9 184 19 228 6.89e-20 87.4
MsaG027604 AT1G34310.1 30.952 210 102 8 9 182 24 226 2.14e-19 85.9
MsaG027604 AT1G35520.1 29.808 208 107 7 9 182 24 226 3.72e-19 85.1
MsaG027604 AT2G46530.1 29.717 212 106 7 9 182 18 224 3.81e-19 85.1
MsaG027604 AT2G46530.3 31.481 216 97 9 9 182 39 245 4.20e-19 85.1
MsaG027604 AT3G61830.1 28.169 213 110 6 8 182 21 228 2.23e-18 82.8
MsaG027604 AT1G34410.1 30.000 210 104 8 9 182 24 226 3.00e-18 82.4
MsaG027604 AT5G62000.4 27.189 217 105 7 9 182 58 264 4.16e-18 82.0
MsaG027604 AT5G62000.2 27.189 217 105 7 9 182 58 264 5.09e-18 82.0
MsaG027604 AT5G62000.5 27.189 217 105 7 9 182 58 264 5.09e-18 82.0
MsaG027604 AT5G62000.3 27.189 217 105 7 9 182 58 264 5.09e-18 82.0
MsaG027604 AT5G62000.1 27.189 217 105 7 9 182 58 264 5.09e-18 82.0
MsaG027604 AT1G35240.1 28.846 208 109 7 9 182 24 226 1.31e-17 80.5
MsaG027604 AT1G19220.1 27.962 211 119 5 5 182 16 226 1.44e-17 80.5
MsaG027604 AT1G59750.4 29.268 205 111 6 12 183 22 225 1.66e-17 80.5
MsaG027604 AT1G59750.2 29.268 205 111 6 12 183 22 225 1.81e-17 80.1
MsaG027604 AT1G59750.1 29.268 205 111 6 12 183 22 225 1.81e-17 80.1
MsaG027604 AT1G59750.3 29.268 205 111 6 12 183 22 225 1.81e-17 80.1
MsaG027604 AT2G33860.1 30.734 218 108 8 7 185 49 262 2.72e-17 79.7
MsaG027604 AT1G19850.1 27.885 208 116 5 9 182 51 258 3.58e-17 79.3
MsaG027604 AT1G19850.2 27.885 208 116 5 9 182 40 247 3.75e-17 79.3
MsaG027604 AT4G23980.1 27.404 208 117 5 9 182 9 216 1.57e-16 77.4
MsaG027604 AT4G23980.2 27.404 208 117 5 9 182 9 216 1.61e-16 77.4
MsaG027604 AT1G43950.1 27.670 206 109 8 9 181 24 222 1.62e-16 75.1
MsaG027604 AT5G20730.2 28.169 213 116 7 5 182 17 227 3.94e-16 76.6
MsaG027604 AT5G20730.1 28.169 213 116 7 5 182 17 227 3.94e-16 76.6
MsaG027604 AT5G20730.3 28.169 213 116 7 5 182 17 227 4.72e-16 76.3
MsaG027604 AT1G34170.2 31.280 211 102 8 9 182 22 226 8.46e-16 75.1
MsaG027604 AT1G34170.3 31.280 211 102 8 9 182 22 226 1.06e-15 75.1
MsaG027604 AT1G34170.1 31.280 211 102 8 9 182 22 226 1.09e-15 75.1
MsaG027604 AT3G61830.2 33.333 159 87 5 38 182 24 177 1.62e-15 74.3
MsaG027604 AT5G60450.1 25.926 216 118 6 9 182 62 277 1.97e-15 74.3
MsaG027604 AT5G60450.2 25.926 216 118 6 9 182 38 253 2.03e-15 74.3
MsaG027604 AT2G33860.2 33.981 103 58 3 92 184 2 104 6.57e-11 60.8
MsaG027604 AT5G37020.3 32.824 131 75 4 64 184 6 133 7.93e-11 60.8

Find 50 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTTTCCATCTTCGTCTTCT+TGG 0.210312 5:+48716172 None:intergenic
CCTGAAAACAACAGAATCTT+TGG 0.226595 5:+48715927 None:intergenic
TAAACTTTAGAGTGAATCTT+TGG 0.250754 5:+48716408 None:intergenic
GTCTTCTCCATGTCAAGATT+TGG 0.285225 5:+48716063 None:intergenic
AGAGTGAATCTTTGGAATCT+TGG 0.293882 5:+48716416 None:intergenic
CGTAGGTGCAACCCCATTCT+TGG 0.311998 5:+48716010 None:intergenic
TCCATCTTCGTCTTCTTGGC+CGG 0.332884 5:+48716176 None:intergenic
CTGCTCCTCACTCCGGTAAC+TGG 0.333359 5:-48716228 MsaT027604.1:CDS
ATCTTTGGAATCTTGGCATC+GGG 0.374014 5:+48716423 None:intergenic
CCATCTTCGTCTTCTTGGCC+GGG 0.390410 5:+48716177 None:intergenic
GGAGGTTCTTGGCCAGTTAC+CGG 0.390862 5:+48716216 None:intergenic
GCCATGCCTCTGCCTGAGCC+AGG 0.396403 5:-48716483 MsaT027604.1:CDS
CTTTCACCCGCTTCAGCTGC+AGG 0.397203 5:+48715854 None:intergenic
GTACTGGCTGGTCTCACTTT+CGG 0.420748 5:-48715969 MsaT027604.1:CDS
CAGTAGGAGGAGGAGGTTCT+TGG 0.423692 5:+48716205 None:intergenic
CGACCTTAAAAGCCAAGAAT+GGG 0.432454 5:-48716022 MsaT027604.1:CDS
CCTCCTCCTACTGTTGTTCC+CGG 0.432625 5:-48716195 MsaT027604.1:CDS
GCCGTGTCCACCCTAAAATA+TGG 0.440684 5:-48716461 MsaT027604.1:CDS
GGGTGGACACGGCCTGGCTC+AGG 0.447654 5:+48716471 None:intergenic
TCTGCTGGAAAGATATTAGT+TGG 0.452740 5:-48715898 MsaT027604.1:CDS
CCGCACTCTCAGTTAAATTC+CGG 0.457010 5:+48715828 None:intergenic
TACCGGAGTGAGGAGCAGTT+TGG 0.479172 5:+48716233 None:intergenic
ACACGGCCTGGCTCAGGCAG+AGG 0.496843 5:+48716477 None:intergenic
GCAGCTGAAGCGGGTGAAAG+AGG 0.499828 5:-48715851 MsaT027604.1:CDS
AGCATCAACAAAGAGATTAA+CGG 0.500852 5:+48716275 None:intergenic
CCGACCTTAAAAGCCAAGAA+TGG 0.501034 5:-48716023 MsaT027604.1:CDS
AGATATTAGTTGGAATTCGC+AGG 0.508600 5:-48715888 MsaT027604.1:CDS
CTGAAGCGGGTGAAAGAGGC+CGG 0.516670 5:-48715847 MsaT027604.1:CDS
TAACTTCCTGCAGCTGAAGC+GGG 0.521248 5:-48715860 MsaT027604.1:CDS
AATCTTTGGAATCTTGGCAT+CGG 0.536986 5:+48716422 None:intergenic
CGCCAAACTGCTCCTCACTC+CGG 0.538251 5:-48716235 MsaT027604.1:CDS
AAAATATGGCAGATATGTGC+AGG 0.539162 5:-48716447 MsaT027604.1:CDS
GCCTGGCTCAGGCAGAGGCA+TGG 0.543238 5:+48716482 None:intergenic
CTAACTTCCTGCAGCTGAAG+CGG 0.553187 5:-48715861 MsaT027604.1:CDS
CCCGGCCAAGAAGACGAAGA+TGG 0.565421 5:-48716177 MsaT027604.1:CDS
GAAATGATGCATGGAAAGGA+TGG 0.568677 5:+48716300 None:intergenic
GGAACAACAGTAGGAGGAGG+AGG 0.574344 5:+48716198 None:intergenic
TCTTGGCCGGGAACAACAGT+AGG 0.588215 5:+48716189 None:intergenic
CTTGGCCAGTTACCGGAGTG+AGG 0.591769 5:+48716223 None:intergenic
TGTTGATGCTCTCACTGACG+AGG 0.594122 5:-48716262 MsaT027604.1:CDS
TTAACGGCTGAAATGATGCA+TGG 0.595581 5:+48716291 None:intergenic
CCGGGAACAACAGTAGGAGG+AGG 0.601910 5:+48716195 None:intergenic
ACAGTAGACTACGTACTGGC+TGG 0.603214 5:-48715981 MsaT027604.1:CDS
TGGCCGGGAACAACAGTAGG+AGG 0.609021 5:+48716192 None:intergenic
GATCTTTCCAAATCTTGACA+TGG 0.610819 5:-48716070 MsaT027604.1:CDS
ATCAAGTCAGCGCATTCATG+AGG 0.615421 5:+48716090 None:intergenic
GGCTGAAATGATGCATGGAA+AGG 0.633559 5:+48716296 None:intergenic
TCTTTGGAATCTTGGCATCG+GGG 0.654059 5:+48716424 None:intergenic
TGATGCATGGAAAGGATGGA+CGG 0.656958 5:+48716304 None:intergenic
GACCTTAAAAGCCAAGAATG+GGG 0.680749 5:-48716021 MsaT027604.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 48715840 48716502 48715840 ID=MsaG027604
Chr5 mRNA 48715840 48716502 48715840 ID=MsaT027604.1;Parent=MsaG027604
Chr5 exon 48715840 48716343 48715840 ID=MsaT027604.1.exon2;Parent=MsaT027604.1
Chr5 CDS 48715840 48716343 48715840 ID=cds.MsaT027604.1;Parent=MsaT027604.1
Chr5 exon 48716413 48716502 48716413 ID=MsaT027604.1.exon1;Parent=MsaT027604.1
Chr5 CDS 48716413 48716502 48716413 ID=cds.MsaT027604.1;Parent=MsaT027604.1
Gene Sequence

>MsaT027604.1

ATGCCTCTGCCTGAGCCAGGCCGTGTCCACCCTAAAATATGGCAGATATGTGCAGGCCCCGATGCCAAGATTCCAAAGATTCACTCTAAATTTCTTTATGATCGTTACCGTCCATCCTTTCCATGCATCATTTCAGCCGTTAATCTCTTTGTTGATGCTCTCACTGACGAGGTTTTCGCCAAACTGCTCCTCACTCCGGTAACTGGCCAAGAACCTCCTCCTCCTACTGTTGTTCCCGGCCAAGAAGACGAAGATGGAAACCATCTTGTTTCCTATGTCAAAACTCTCACAATAACTGATACTAAATCTGTATTGAAGATACCTCATGAATGCGCTGACTTGATCTTTCCAAATCTTGACATGGAGAAGACTCAAAACATCACTGTCACCGACCTTAAAAGCCAAGAATGGGGTTGCACCTACGTGAAAAACAGTAGACTACGTACTGGCTGGTCTCACTTTCGGAAAGAGAAGAAACTCGTAGCCAAAGATTCTGTTGTTTTCAGGAAAAACTCTGCTGGAAAGATATTAGTTGGAATTCGCAGGAACACTAACTTCCTGCAGCTGAAGCGGGTGAAAGAGGCCGGAATTTAA
Protein sequence

>MsaT027604.1

MPLPEPGRVHPKIWQICAGPDAKIPKIHSKFLYDRYRPSFPCIISAVNLFVDALTDEVFAKLLLTPVTGQEPPPPTVVPGQEDEDGNHLVSYVKTLTITDTKSVLKIPHECADLIFPNLDMEKTQNITVTDLKSQEWGCTYVKNSRLRTGWSHFRKEKKLVAKDSVVFRKNSAGKILVGIRRNTNFLQLKRVKEAGI*