AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG011187

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011187 MtrunA17_Chr2g0333621 43.046 302 143 11 1 278 15 311 1.15e-59 192
MsaG011187 MtrunA17_Chr2g0333641 42.617 298 142 9 2 277 16 306 1.70e-58 189
MsaG011187 MtrunA17_Chr4g0002801 43.277 238 124 4 50 279 97 331 1.09e-52 174
MsaG011187 MtrunA17_Chr4g0002781 42.324 241 126 3 50 279 112 350 4.27e-51 171
MsaG011187 MtrunA17_Chr8g0336681 48.087 183 87 4 103 279 156 336 1.71e-44 154
MsaG011187 MtrunA17_Chr2g0333611 44.693 179 88 4 104 279 46 216 1.26e-41 142
MsaG011187 MtrunA17_Chr5g0400661 39.785 186 102 2 103 278 149 334 2.47e-34 127
MsaG011187 MtrunA17_Chr5g0400621 39.106 179 106 1 96 274 150 325 1.93e-33 124
MsaG011187 MtrunA17_Chr7g0249811 37.021 235 124 5 54 279 110 329 7.42e-32 120
MsaG011187 MtrunA17_Chr2g0280161 36.364 187 112 3 89 274 166 346 1.20e-31 120
MsaG011187 MtrunA17_Chr5g0400671 34.862 218 132 4 62 278 115 323 6.04e-31 117
MsaG011187 MtrunA17_Chr2g0333541 35.789 285 141 9 8 274 4 264 6.78e-31 116
MsaG011187 MtrunA17_Chr2g0307131 38.202 178 105 3 103 279 179 352 8.96e-31 117
MsaG011187 MtrunA17_Chr4g0049331 36.628 172 106 1 103 274 135 303 3.09e-30 115
MsaG011187 MtrunA17_Chr6g0468491 33.197 244 147 4 43 279 76 310 6.89e-30 114
MsaG011187 MtrunA17_Chr4g0054581 34.746 236 129 7 67 279 142 375 1.36e-29 115
MsaG011187 MtrunA17_Chr2g0307141 37.079 178 107 3 103 279 183 356 1.73e-29 114
MsaG011187 MtrunA17_Chr4g0054561 37.222 180 106 2 99 277 151 324 2.37e-28 110
MsaG011187 MtrunA17_Chr4g0033291 35.149 202 113 5 83 279 137 325 2.41e-28 110
MsaG011187 MtrunA17_Chr4g0033391 34.715 193 118 4 87 279 133 317 3.08e-27 107
MsaG011187 MtrunA17_Chr4g0054621 30.603 232 145 4 49 279 122 338 1.29e-26 106
MsaG011187 MtrunA17_Chr4g0002831 38.323 167 84 4 114 277 53 203 2.74e-26 102
MsaG011187 MtrunA17_Chr7g0233441 41.333 150 63 3 131 274 62 192 5.80e-26 101
MsaG011187 MtrunA17_Chr2g0333631 43.902 164 56 8 1 148 1 144 1.71e-25 99.0
MsaG011187 MtrunA17_Chr4g0054551 36.111 180 108 2 99 277 151 324 2.23e-25 102
MsaG011187 MtrunA17_Chr7g0225901 36.306 157 95 2 103 258 88 240 2.57e-25 101
MsaG011187 MtrunA17_Chr4g0054571 35.079 191 100 3 103 279 150 330 5.03e-23 96.7
MsaG011187 MtrunA17_Chr4g0002851 37.267 161 79 3 114 274 54 192 6.21e-23 93.6
MsaG011187 MtrunA17_Chr5g0400641 35.849 159 99 1 106 264 1 156 1.89e-22 91.3
MsaG011187 MtrunA17_Chr4g0033281 33.668 199 115 3 89 279 133 322 4.21e-22 94.0
MsaG011187 MtrunA17_Chr6g0468461 30.804 224 123 6 43 258 112 311 9.35e-22 93.2
MsaG011187 MtrunA17_Chr8g0386921 24.883 213 123 6 78 258 377 584 7.40e-12 65.5
MsaG011187 MtrunA17_Chr1g0185621 24.615 195 119 5 101 277 473 657 8.17e-12 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011187 AT4G37850.2 39.205 176 103 3 103 277 152 324 5.37e-31 118
MsaG011187 AT4G37850.1 39.205 176 103 3 103 277 152 324 5.37e-31 118
MsaG011187 AT2G22760.1 37.356 174 106 3 103 274 119 291 1.05e-29 114
MsaG011187 AT2G22760.2 36.943 157 97 2 103 258 119 274 1.09e-25 103
MsaG011187 AT2G22770.1 34.783 184 108 2 103 274 132 315 1.11e-25 103
MsaG011187 AT2G22750.2 34.239 184 96 3 103 273 126 297 9.04e-21 90.1
MsaG011187 AT2G22750.5 34.239 184 96 3 103 273 150 321 1.42e-20 90.1
MsaG011187 AT2G22750.3 34.239 184 96 3 103 273 154 325 1.47e-20 90.1
MsaG011187 AT2G22750.1 34.239 184 95 4 103 273 126 296 2.64e-19 86.3
MsaG011187 AT2G22750.4 34.239 184 95 4 103 273 154 324 3.77e-19 86.3
MsaG011187 AT4G09820.1 35.766 137 54 5 102 234 362 468 2.37e-13 70.1
MsaG011187 AT1G63650.3 29.730 148 89 2 103 235 405 552 2.08e-12 67.4
MsaG011187 AT1G63650.1 29.730 148 89 2 103 235 405 552 2.08e-12 67.4
MsaG011187 AT1G63650.2 29.730 148 89 2 103 235 405 552 2.08e-12 67.4
MsaG011187 AT5G41315.3 27.329 161 97 3 95 235 438 598 9.54e-12 65.5
MsaG011187 AT5G41315.2 27.329 161 97 3 95 235 441 601 9.55e-12 65.5
MsaG011187 AT5G41315.1 27.329 161 97 3 95 235 433 593 9.68e-12 65.5

Find 51 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTAACTCCTTCACTCGTTTC+TGG 0.173101 2:-82383293 None:intergenic
TAGAGCTTGCATTATCTCTT+TGG 0.266677 2:+82382393 MsaT011187.1:CDS
ATCAATTGTGAGAAGGAAAA+TGG 0.286777 2:+82383489 MsaT011187.1:CDS
ACAACGTGGTGGTTTGGATT+TGG 0.302005 2:-82382452 None:intergenic
CTGGAGTTGCTCCACGTAAT+TGG 0.302982 2:-82383274 None:intergenic
TGGCATTCAACACAAAATAT+TGG 0.325928 2:+82383509 MsaT011187.1:CDS
CAAAATGACACTGCTGGATT+TGG 0.327464 2:+82384295 MsaT011187.1:CDS
AGAGATCTAATAATTGCTTT+TGG 0.331987 2:-82382517 None:intergenic
ATGAATCTTGACAATTATCT+TGG 0.345786 2:+82383405 MsaT011187.1:CDS
AGACTTCCTTTGTGACTTCA+TGG 0.350365 2:+82382276 MsaT011187.1:CDS
GCAATGGCAGCTCCAGCTAC+TGG 0.359273 2:-82382304 None:intergenic
GACAAAGCTTCTATCGTTGC+TGG 0.389114 2:+82383246 MsaT011187.1:CDS
CCGTTTGGCAATTCAACTCT+TGG 0.391384 2:+82383579 MsaT011187.1:CDS
ACATCAGGAAGCAATTCATT+TGG 0.411022 2:-82383429 None:intergenic
ATCATGTTGCATCTTTCAAC+AGG 0.411699 2:-82384337 None:intergenic
TTCTTATTGAGAAGTATCAT+TGG 0.433422 2:-82383345 None:intergenic
AATGACACTGCTGGATTTGG+CGG 0.437820 2:+82384298 MsaT011187.1:CDS
GACACTTTCACTTTGACATC+AGG 0.450201 2:-82383444 None:intergenic
TGGATTTGGCGGACAACATA+AGG 0.452584 2:+82384309 MsaT011187.1:CDS
TGTGGGACAACGTGGTGGTT+TGG 0.461838 2:-82382458 None:intergenic
AGCACTAGCACATTGCCGTT+TGG 0.467143 2:+82383564 MsaT011187.1:CDS
TTCATGGCACAGCCAGTAGC+TGG 0.474815 2:+82382292 MsaT011187.1:CDS
ACGCAATGGGAGAGAGGAAA+AGG 0.480162 2:+82382545 MsaT011187.1:CDS
TTGGATTTGGACATCACAGC+TGG 0.517868 2:-82382439 None:intergenic
GTGGACGGAGGAAGAAGCTC+CGG 0.531427 2:-82382364 None:intergenic
AATGCAAGCTCTAGAGGATG+TGG 0.535694 2:-82382383 None:intergenic
AGATCTCTAGATCACGCAAT+GGG 0.542864 2:+82382532 MsaT011187.1:CDS
AAAGGAAGTCTTCATCTTCG+TGG 0.550705 2:-82382264 None:intergenic
AAGATTCATTTCACTAGATG+TGG 0.558723 2:-82383391 None:intergenic
AGAGATAATGCAAGCTCTAG+AGG 0.565903 2:-82382389 None:intergenic
ACGCTCGGTAGCAGCAGCAA+TGG 0.570572 2:-82382320 None:intergenic
CCAAGAGTTGAATTGCCAAA+CGG 0.575048 2:-82383579 None:intergenic
TGTAGTCTCTGATGAGTCAC+CGG 0.575944 2:+82382345 MsaT011187.1:CDS
ATTAGTACCTTGTTTGAGCG+AGG 0.577779 2:-82382613 None:intergenic
AGCTGGTAACAGTATCTTCG+CGG 0.585382 2:-82382422 None:intergenic
ATCAGAGACTACAATACGCT+CGG 0.591680 2:-82382335 None:intergenic
CATTTACATCAATTGTGAGA+AGG 0.601314 2:+82383482 MsaT011187.1:CDS
AAACGGCAATGTGCTAGTGC+TGG 0.603776 2:-82383562 None:intergenic
TGCATACAAAATGACACTGC+TGG 0.605032 2:+82384289 MsaT011187.1:CDS
TATTATTCCTCGCTCAAACA+AGG 0.615369 2:+82382606 MsaT011187.1:CDS
TAGATCACGCAATGGGAGAG+AGG 0.615416 2:+82382539 MsaT011187.1:CDS
TAGATCTCTAGATCACGCAA+TGG 0.625523 2:+82382531 MsaT011187.1:CDS
TGGCATAACTATCATCGCCA+AGG 0.626059 2:+82383599 MsaT011187.1:CDS
GAAGTACAACAAAACAAGAG+AGG 0.647529 2:+82383315 MsaT011187.1:CDS
TGCTGGCGCAACCAATTACG+TGG 0.650808 2:+82383263 MsaT011187.1:CDS
GACTTCTGAGAATCGAAACA+TGG 0.657951 2:+82382492 MsaT011187.1:CDS
TGATGTCAAAGTGAAAGTGT+CGG 0.659461 2:+82383446 MsaT011187.1:CDS
GCAACTCCAGAAACGAGTGA+AGG 0.675689 2:+82383287 MsaT011187.1:CDS
CAAGCTCTAGAGGATGTGGA+CGG 0.686043 2:-82382379 None:intergenic
GCTCTAGAGGATGTGGACGG+AGG 0.694196 2:-82382376 None:intergenic
GCTGTGCCATGAAGTCACAA+AGG 0.700598 2:-82382282 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 82382235 82384358 82382235 ID=MsaG011187
Chr2 mRNA 82382235 82384358 82382235 ID=MsaT011187.1;Parent=MsaG011187
Chr2 exon 82382235 82382627 82382235 ID=MsaT011187.1.exon1;Parent=MsaT011187.1
Chr2 CDS 82382235 82382627 82382235 ID=cds.MsaT011187.1;Parent=MsaT011187.1
Chr2 exon 82383243 82383620 82383243 ID=MsaT011187.1.exon2;Parent=MsaT011187.1
Chr2 CDS 82383243 82383620 82383243 ID=cds.MsaT011187.1;Parent=MsaT011187.1
Chr2 exon 82384281 82384358 82384281 ID=MsaT011187.1.exon3;Parent=MsaT011187.1
Chr2 CDS 82384281 82384358 82384281 ID=cds.MsaT011187.1;Parent=MsaT011187.1
Gene Sequence

>MsaT011187.1

ATGGATGTGGAATATTTGTTAGAGATGTGCCACGAAGATGAAGACTTCCTTTGTGACTTCATGGCACAGCCAGTAGCTGGAGCTGCCATTGCTGCTGCTACCGAGCGTATTGTAGTCTCTGATGAGTCACCGGAGCTTCTTCCTCCGTCCACATCCTCTAGAGCTTGCATTATCTCTTTGGATAATTCCGCGAAGATACTGTTACCAGCTGTGATGTCCAAATCCAAACCACCACGTTGTCCCACAAAAAAGATGATGACTTCTGAGAATCGAAACATGGAACCAAAAGCAATTATTAGATCTCTAGATCACGCAATGGGAGAGAGGAAAAGGAGACTTGAACTTGCACACAAATTCATAGAGCTTTCAGCTATTATTCCTCGCTCAAACAAGACAGACAAAGCTTCTATCGTTGCTGGCGCAACCAATTACGTGGAGCAACTCCAGAAACGAGTGAAGGAGTTAGAAGTACAACAAAACAAGAGAGGTAAAGAACCAATGATACTTCTCAATAAGAAAAATTCTTGTGGAGTTTCACGTACCACATCTAGTGAAATGAATCTTGACAATTATCTTGGACCAAATGAATTGCTTCCTGATGTCAAAGTGAAAGTGTCGGAGAATAATATACTCATTTACATCAATTGTGAGAAGGAAAATGGCATTCAACACAAAATATTGGACATGCTTCAAAATCTTCATTTGTTTGTCACCAGCACTAGCACATTGCCGTTTGGCAATTCAACTCTTGGCATAACTATCATCGCCAAGATGGGTGATGCATACAAAATGACACTGCTGGATTTGGCGGACAACATAAGGCAATTCCTGTTGAAAGATGCAACATGA
Protein sequence

>MsaT011187.1

MDVEYLLEMCHEDEDFLCDFMAQPVAGAAIAAATERIVVSDESPELLPPSTSSRACIISLDNSAKILLPAVMSKSKPPRCPTKKMMTSENRNMEPKAIIRSLDHAMGERKRRLELAHKFIELSAIIPRSNKTDKASIVAGATNYVEQLQKRVKELEVQQNKRGKEPMILLNKKNSCGVSRTTSSEMNLDNYLGPNELLPDVKVKVSENNILIYINCEKENGIQHKILDMLQNLHLFVTSTSTLPFGNSTLGITIIAKMGDAYKMTLLDLADNIRQFLLKDAT*