AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG011181

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011181 MtrunA17_Chr2g0333541 68.581 296 73 4 1 296 1 276 4.51e-125 358
MsaG011181 MtrunA17_Chr8g0368371 80.986 142 25 2 1 142 1 140 8.20e-74 223
MsaG011181 MtrunA17_Chr2g0333621 41.608 286 146 6 13 286 33 309 4.52e-58 189
MsaG011181 MtrunA17_Chr4g0002801 38.436 307 153 8 14 286 24 328 7.38e-55 181
MsaG011181 MtrunA17_Chr8g0336681 44.255 235 115 5 65 284 98 331 1.51e-51 172
MsaG011181 MtrunA17_Chr2g0333641 39.161 286 149 8 13 286 33 305 8.72e-51 169
MsaG011181 MtrunA17_Chr4g0002781 41.702 235 122 5 65 286 115 347 1.39e-48 165
MsaG011181 MtrunA17_Chr5g0400621 46.842 190 95 3 99 287 144 328 2.43e-47 161
MsaG011181 MtrunA17_Chr2g0333611 43.939 198 89 6 96 284 27 211 2.69e-43 147
MsaG011181 MtrunA17_Chr5g0400661 43.367 196 99 4 103 286 137 332 8.53e-43 149
MsaG011181 MtrunA17_Chr4g0054561 40.541 185 96 4 107 286 148 323 2.06e-41 145
MsaG011181 MtrunA17_Chr4g0054581 39.303 201 119 3 90 287 173 373 7.95e-41 145
MsaG011181 MtrunA17_Chr2g0280161 42.614 176 98 2 110 284 173 346 1.35e-40 144
MsaG011181 MtrunA17_Chr5g0400671 39.796 196 109 3 97 290 137 325 3.22e-39 140
MsaG011181 MtrunA17_Chr2g0307131 36.564 227 130 5 59 284 134 347 9.37e-39 139
MsaG011181 MtrunA17_Chr4g0033391 32.770 296 171 10 10 286 28 314 5.35e-38 137
MsaG011181 MtrunA17_Chr4g0049331 42.045 176 98 3 114 288 135 307 7.28e-38 136
MsaG011181 MtrunA17_Chr2g0307141 40.698 172 98 2 114 284 183 351 1.08e-37 137
MsaG011181 MtrunA17_Chr4g0033291 41.622 185 101 4 103 286 144 322 1.10e-37 136
MsaG011181 MtrunA17_Chr7g0249811 38.306 248 135 5 39 284 93 324 2.03e-37 135
MsaG011181 MtrunA17_Chr4g0054551 38.919 185 99 4 107 286 148 323 5.99e-37 134
MsaG011181 MtrunA17_Chr6g0468491 39.801 201 114 5 90 287 112 308 3.51e-36 132
MsaG011181 MtrunA17_Chr5g0400641 40.881 159 90 3 117 274 1 156 5.26e-35 124
MsaG011181 MtrunA17_Chr4g0033281 33.225 307 163 8 10 287 27 320 1.02e-34 128
MsaG011181 MtrunA17_Chr4g0054571 39.691 194 105 5 100 285 137 326 1.14e-32 122
MsaG011181 MtrunA17_Chr7g0225901 38.690 168 97 3 103 268 77 240 2.13e-32 120
MsaG011181 MtrunA17_Chr4g0054621 31.687 243 143 6 51 287 111 336 3.33e-29 114
MsaG011181 MtrunA17_Chr4g0002831 40.341 176 89 6 117 290 45 206 2.32e-28 108
MsaG011181 MtrunA17_Chr4g0002851 38.506 174 84 4 118 290 47 198 2.52e-27 105
MsaG011181 MtrunA17_Chr7g0233441 35.057 174 95 4 118 290 42 198 4.16e-26 102
MsaG011181 MtrunA17_Chr6g0468461 37.017 181 95 4 90 268 148 311 6.22e-26 105
MsaG011181 MtrunA17_Chr5g0411341 25.478 157 104 3 111 254 490 646 2.28e-12 67.4
MsaG011181 MtrunA17_Chr8g0365711 24.664 223 143 7 65 265 179 398 2.81e-12 66.6
MsaG011181 MtrunA17_Chr1g0185621 24.000 175 117 4 82 248 448 614 1.80e-11 64.7
MsaG011181 MtrunA17_Chr7g0275821 22.727 176 119 2 111 283 249 410 6.75e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011181 AT4G37850.2 42.784 194 108 2 93 284 129 321 3.42e-42 148
MsaG011181 AT4G37850.1 42.784 194 108 2 93 284 129 321 3.42e-42 148
MsaG011181 AT2G22750.2 46.667 180 94 1 106 283 118 297 7.50e-40 141
MsaG011181 AT2G22750.5 46.667 180 94 1 106 283 142 321 1.13e-39 141
MsaG011181 AT2G22750.3 46.667 180 94 1 106 283 146 325 1.29e-39 141
MsaG011181 AT2G22750.1 46.667 180 93 2 106 283 118 296 2.35e-38 137
MsaG011181 AT2G22750.4 46.667 180 93 2 106 283 146 324 3.36e-38 137
MsaG011181 AT2G22770.1 37.297 185 103 3 114 285 132 316 7.95e-31 118
MsaG011181 AT2G22760.1 30.769 221 149 4 69 286 74 293 2.67e-30 116
MsaG011181 AT2G22760.2 30.198 202 138 3 69 268 74 274 1.05e-25 103
MsaG011181 AT4G29930.1 24.887 221 143 6 72 271 11 229 9.08e-16 75.9
MsaG011181 AT4G29930.3 25.229 218 140 6 72 268 11 226 1.08e-15 75.9
MsaG011181 AT4G29930.7 25.229 218 140 6 72 268 11 226 1.08e-15 75.9
MsaG011181 AT4G29930.6 26.699 206 132 6 72 271 11 203 1.65e-15 74.7
MsaG011181 AT4G09820.1 33.333 153 75 4 102 253 351 477 3.52e-15 75.9
MsaG011181 AT4G29930.2 26.214 206 130 5 72 271 11 200 7.17e-15 72.8
MsaG011181 AT4G17880.1 26.512 215 110 7 69 254 363 558 7.54e-15 75.1
MsaG011181 AT4G29930.5 26.601 203 127 5 72 268 11 197 1.02e-14 72.4
MsaG011181 AT5G57150.5 24.020 204 147 4 72 268 12 214 1.10e-14 72.0
MsaG011181 AT5G57150.1 24.138 203 146 4 72 267 12 213 2.95e-14 71.2
MsaG011181 AT5G46760.1 28.659 164 83 5 111 254 412 561 6.51e-14 72.4
MsaG011181 AT5G57150.3 23.415 205 149 4 72 269 13 216 2.74e-13 68.2
MsaG011181 AT1G32640.1 27.044 159 103 3 104 254 442 595 4.13e-13 70.1
MsaG011181 AT5G57150.2 23.415 205 149 4 72 269 13 216 4.32e-13 67.8
MsaG011181 AT5G57150.4 23.611 216 157 4 72 280 13 227 5.21e-13 68.2
MsaG011181 AT1G63650.3 28.289 152 92 3 111 246 402 552 1.10e-11 65.5
MsaG011181 AT1G63650.1 28.289 152 92 3 111 246 402 552 1.10e-11 65.5
MsaG011181 AT1G63650.2 28.289 152 92 3 111 246 402 552 1.10e-11 65.5
MsaG011181 AT5G41315.3 27.564 156 93 3 111 246 443 598 2.30e-11 64.7
MsaG011181 AT5G41315.1 27.564 156 93 3 111 246 438 593 2.52e-11 64.7
MsaG011181 AT5G41315.2 27.564 156 93 3 111 246 446 601 2.70e-11 64.3
MsaG011181 AT2G46510.1 28.689 122 66 3 104 225 385 485 7.40e-11 63.2

Find 58 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGCTTGAAGTGAGGGTTCT+AGG 0.256835 2:-82290399 MsaT011181.1:CDS
ACTAGGCCAGTTGTGAAAAT+AGG 0.274393 2:+82291066 None:intergenic
TGGCACTGTCATTGTAATTA+AGG 0.295958 2:+82290472 None:intergenic
CAAGACATTGGTAGTTGTTA+TGG 0.303801 2:+82290290 None:intergenic
ACTACCAATGTCTTGCCATT+TGG 0.326554 2:-82290282 MsaT011181.1:CDS
AAGAGTAGTGGCTACGTTGC+AGG 0.356620 2:-82290013 MsaT011181.1:CDS
ATTACTTGCCTGAGCAATAA+TGG 0.372110 2:+82290242 None:intergenic
AGTATATAAGTTGTTGGTAT+TGG 0.379293 2:+82290973 None:intergenic
AAGGAGATGGGATCTTGTTA+TGG 0.404519 2:+82290491 None:intergenic
ACATAATAACAGAGAGGAAC+AGG 0.423437 2:-82290816 MsaT011181.1:CDS
CTCTTCATCAAATATGTTGT+TGG 0.428970 2:+82291137 None:intergenic
CTAGGCCAGTTGTGAAAATA+GGG 0.436339 2:+82291067 None:intergenic
TAAGACAGTATATAAGTTGT+TGG 0.443854 2:+82290967 None:intergenic
ATGAACACTAAAGAATGTTA+TGG 0.445823 2:-82290441 MsaT011181.1:CDS
AGCTTGAAGTGAGGGTTCTA+GGG 0.452434 2:-82290398 MsaT011181.1:CDS
TCTGATTCATGATATCTTTG+AGG 0.462411 2:+82291112 None:intergenic
ATTTATACCTGGATTGAAGA+AGG 0.472752 2:-82290755 MsaT011181.1:intron
TAACATCACCATTATTGCTC+AGG 0.473971 2:-82290250 MsaT011181.1:intron
TCTTCTTTGAATTCGACCCT+TGG 0.481461 2:+82290866 None:intergenic
TGTCATTGTAATTAAGGAGA+TGG 0.484205 2:+82290478 None:intergenic
AGAACCCTCACTTCAAGCTC+TGG 0.495246 2:+82290402 None:intergenic
GAAGAAGACATCAAGAAGAA+AGG 0.507699 2:-82290531 MsaT011181.1:CDS
GACATCAAGAAGAAAGGTGC+AGG 0.512048 2:-82290525 MsaT011181.1:CDS
TTTGCCTTTGTCATCATCAA+AGG 0.512672 2:-82290896 MsaT011181.1:CDS
TGTTGAATGAGAGACATTGA+TGG 0.516688 2:+82291029 None:intergenic
GATTCGCTGTGGGAAGCAAA+AGG 0.520238 2:-82290358 MsaT011181.1:CDS
AGACTAACCTTCTTCAATCC+AGG 0.524279 2:+82290748 None:intergenic
ATTTCCAGAGCTTGAAGTGA+GGG 0.525230 2:-82290406 MsaT011181.1:CDS
ATGACAAAGGCAAAGAATCA+TGG 0.529186 2:+82290905 None:intergenic
ATGTTAAGAGTGTTTCCAAA+TGG 0.530024 2:+82290267 None:intergenic
GTCATTGTAATTAAGGAGAT+GGG 0.530056 2:+82290479 None:intergenic
GAACTTTCAGCATTTATACC+TGG 0.532111 2:-82290766 MsaT011181.1:CDS
TTTAGTGTTCATTTCACCCA+TGG 0.540015 2:+82290452 None:intergenic
AGTTGTGAAAATAGGGACAC+TGG 0.546854 2:+82291074 None:intergenic
ACGGACAAGGTTCATGTACT+AGG 0.549231 2:-82290603 MsaT011181.1:CDS
TGGACGAGTTGTTGTTGACT+AGG 0.551791 2:+82291049 None:intergenic
TGTTGGTATTGGTAATGAGC+TGG 0.555632 2:+82290984 None:intergenic
GAATCATGGTGTTGTTCAGT+TGG 0.556807 2:+82290919 None:intergenic
AATTACAATGACAGTGCCAT+GGG 0.574092 2:-82290468 MsaT011181.1:CDS
AGTTGGTGGTAACAATGTAG+TGG 0.574871 2:+82290936 None:intergenic
GTTTCCAAATGGCAAGACAT+TGG 0.577033 2:+82290278 None:intergenic
TGAAGTGAGGGTTCTAGGGA+AGG 0.581565 2:-82290394 MsaT011181.1:CDS
TAATTACAATGACAGTGCCA+TGG 0.581993 2:-82290469 MsaT011181.1:CDS
GGGACACTGGGTTGATCTTG+TGG 0.587098 2:+82291087 None:intergenic
CATTTCCAGAGCTTGAAGTG+AGG 0.591406 2:-82290407 MsaT011181.1:CDS
TCATCAAAGGCTAACAACCA+AGG 0.608148 2:-82290883 MsaT011181.1:CDS
TCATGGTGTTGTTCAGTTGG+TGG 0.611030 2:+82290922 None:intergenic
TTAGCCTTTGATGATGACAA+AGG 0.628673 2:+82290892 None:intergenic
AATGGCTGTGTAGACGGACA+AGG 0.629049 2:-82290616 MsaT011181.1:intron
TGTTAATCAAGATTCGCTGT+GGG 0.635001 2:-82290368 MsaT011181.1:CDS
GTTGTGAAAATAGGGACACT+GGG 0.635399 2:+82291075 None:intergenic
CATCAAAGGCTAACAACCAA+GGG 0.638491 2:-82290882 MsaT011181.1:CDS
GTGTTAATCAAGATTCGCTG+TGG 0.639073 2:-82290369 MsaT011181.1:CDS
TAAATACAAGTTGACCGTGA+AGG 0.646419 2:-82290052 MsaT011181.1:CDS
TGGGAAGCAAAAGGAAATTG+TGG 0.662297 2:-82290349 MsaT011181.1:CDS
GCTCTGGAAATGTTTCATTG+TGG 0.678911 2:+82290418 None:intergenic
AGGAGAAGCTGTCAAGTACG+TGG 0.701643 2:-82290583 MsaT011181.1:CDS
TAGATCACATAATAACAGAG+AGG 0.731708 2:-82290822 MsaT011181.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 82289990 82291181 82289990 ID=MsaG011181
Chr2 mRNA 82289990 82291181 82289990 ID=MsaT011181.1;Parent=MsaG011181
Chr2 exon 82289990 82290082 82289990 ID=MsaT011181.1.exon3;Parent=MsaT011181.1
Chr2 CDS 82289990 82290082 82289990 ID=cds.MsaT011181.1;Parent=MsaT011181.1
Chr2 exon 82290251 82290625 82290251 ID=MsaT011181.1.exon2;Parent=MsaT011181.1
Chr2 CDS 82290251 82290625 82290251 ID=cds.MsaT011181.1;Parent=MsaT011181.1
Chr2 exon 82290756 82291181 82290756 ID=MsaT011181.1.exon1;Parent=MsaT011181.1
Chr2 CDS 82290756 82291181 82290756 ID=cds.MsaT011181.1;Parent=MsaT011181.1
Gene Sequence

>MsaT011181.1

ATGGAAGAATGTTTAAGTCACACCAACAACATATTTGATGAAGAGTTCCTCAAAGATATCATGAATCAGACACCACAAGATCAACCCAGTGTCCCTATTTTCACAACTGGCCTAGTCAACAACAACTCGTCCATCAATGTCTCTCATTCAACACAACATGCTGCAGAAAAGTTAACCAGCTCATTACCAATACCAACAACTTATATACTGTCTTATGACAAATCCACTACATTGTTACCACCAACTGAACAACACCATGATTCTTTGCCTTTGTCATCATCAAAGGCTAACAACCAAGGGTCGAATTCAAAGAAGACTCGAAGCGCTTCTGAGACGCTAGATCACATAATAACAGAGAGGAACAGGAGACGCGAACTTACAAGAAAGTTCATAGAACTTTCAGCATTTATACCTGGATTGAAGAAGACGGACAAGGTTCATGTACTAGGAGAAGCTGTCAAGTACGTGGCACAACTTCAAGAACGTGTGAAAGAGCTAGAAGAAGACATCAAGAAGAAAGGTGCAGGATCATTGATCGCCATAACAAGATCCCATCTCCTTAATTACAATGACAGTGCCATGGGTGAAATGAACACTAAAGAATGTTATGGCCACAATGAAACATTTCCAGAGCTTGAAGTGAGGGTTCTAGGGAAGGAAGTGTTAATCAAGATTCGCTGTGGGAAGCAAAAGGAAATTGTGGTCGATATAATGTTGCAGCTTCAAATTCTTCATCTCTCCATAACAACTACCAATGTCTTGCCATTTGGAAACACTCTTAACATCACCATTATTGCTCAGATGGGTGATAAATACAAGTTGACCGTGAAGGATCTAGTGAAAAAACTAAGAGTAGTGGCTACGTTGCAGGCATGTGATGATGTGCAACAATGA
Protein sequence

>MsaT011181.1

MEECLSHTNNIFDEEFLKDIMNQTPQDQPSVPIFTTGLVNNNSSINVSHSTQHAAEKLTSSLPIPTTYILSYDKSTTLLPPTEQHHDSLPLSSSKANNQGSNSKKTRSASETLDHIITERNRRRELTRKFIELSAFIPGLKKTDKVHVLGEAVKYVAQLQERVKELEEDIKKKGAGSLIAITRSHLLNYNDSAMGEMNTKECYGHNETFPELEVRVLGKEVLIKIRCGKQKEIVVDIMLQLQILHLSITTTNVLPFGNTLNITIIAQMGDKYKLTVKDLVKKLRVVATLQACDDVQQ*