AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG006576


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006576 MtrunA17_Chr2g0282871 93.831 308 18 1 1 307 1 308 0.0 607
MsaG006576 MtrunA17_Chr4g0046431 62.462 325 86 9 1 301 1 313 1.29e-137 392
MsaG006576 MtrunA17_Chr8g0367761 69.507 223 53 3 1 208 1 223 8.86e-114 329
MsaG006576 MtrunA17_Chr4g0040541 60.662 272 100 6 12 278 5 274 2.39e-110 321
MsaG006576 MtrunA17_Chr2g0324961 58.219 292 108 6 1 289 1 281 1.19e-105 309
MsaG006576 MtrunA17_Chr8g0389661 61.233 227 74 5 8 224 3 225 7.88e-88 271
MsaG006576 MtrunA17_Chr1g0198751 50.000 248 118 4 2 246 7 251 1.66e-73 234
MsaG006576 MtrunA17_Chr5g0422431 58.763 194 77 2 27 220 34 224 1.72e-73 233
MsaG006576 MtrunA17_Chr7g0227071 56.216 185 74 3 31 212 35 215 8.10e-67 217
MsaG006576 MtrunA17_Chr1g0198741 51.969 127 60 1 108 233 7 133 1.58e-34 127
MsaG006576 MtrunA17_Chr6g0484441 32.317 164 92 6 53 213 5 152 3.04e-15 75.1
MsaG006576 MtrunA17_Chr7g0217711 32.075 159 91 4 36 193 2 144 9.99e-15 71.2
MsaG006576 MtrunA17_Chr7g0217721 30.457 197 120 4 36 231 2 182 1.00e-14 73.9
MsaG006576 MtrunA17_Chr4g0060931 34.507 142 76 5 53 193 17 142 2.09e-13 70.1
MsaG006576 MtrunA17_Chr7g0253011 31.111 180 93 9 46 212 10 171 3.03e-13 69.7
MsaG006576 MtrunA17_Chr6g0461661 34.104 173 77 11 53 210 18 168 5.31e-13 68.9
MsaG006576 MtrunA17_Chr3g0091921 33.803 142 77 5 53 193 16 141 5.74e-13 68.2
MsaG006576 MtrunA17_Chr3g0139331 31.429 175 97 7 41 210 1 157 6.78e-13 68.2
MsaG006576 MtrunA17_Chr7g0214071 33.333 147 70 8 53 193 15 139 2.55e-12 65.9
MsaG006576 MtrunA17_Chr5g0398971 25.792 221 136 8 47 259 1 201 8.65e-12 65.1
MsaG006576 MtrunA17_Chr1g0183741 29.101 189 105 8 52 233 9 175 1.00e-11 64.3
MsaG006576 MtrunA17_Chr8g0345701 33.974 156 74 8 52 192 6 147 1.34e-11 62.4
MsaG006576 MtrunA17_Chr2g0316971 32.738 168 86 9 53 210 23 173 1.86e-11 64.3
MsaG006576 MtrunA17_Chr8g0385991 32.000 150 79 8 48 193 9 139 1.90e-11 62.8
MsaG006576 MtrunA17_Chr7g0261411 29.448 163 96 6 52 211 9 155 9.29e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006576 AT4G28500.1 64.192 229 75 3 1 222 1 229 1.73e-106 313
MsaG006576 AT1G28470.1 56.537 283 91 6 1 252 1 282 2.83e-105 310
MsaG006576 AT4G29230.3 61.883 223 70 3 6 217 2 220 2.54e-91 278
MsaG006576 AT4G29230.1 61.883 223 70 3 6 217 2 220 1.17e-90 279
MsaG006576 AT4G29230.2 60.987 223 71 3 6 217 2 219 1.43e-89 276
MsaG006576 AT5G56620.2 62.944 197 59 4 32 217 25 218 1.29e-81 253
MsaG006576 AT5G56620.3 62.944 197 59 4 32 217 25 218 1.69e-81 253
MsaG006576 AT5G56620.1 60.476 210 69 4 19 217 12 218 2.29e-81 251
MsaG006576 AT1G25580.1 56.545 191 74 4 27 217 34 215 5.17e-69 221
MsaG006576 AT5G14490.2 49.756 205 98 4 25 228 29 229 1.61e-56 184
MsaG006576 AT5G14490.1 50.500 200 94 4 30 228 37 232 4.39e-56 185
MsaG006576 AT5G14490.4 50.500 200 94 4 30 228 34 229 4.71e-56 185
MsaG006576 AT5G14490.3 50.500 200 94 4 30 228 37 232 6.21e-56 185
MsaG006576 AT3G01600.1 49.462 186 90 3 30 214 34 216 1.55e-50 171
MsaG006576 AT3G04060.1 32.609 184 98 7 41 215 8 174 4.33e-19 86.7
MsaG006576 AT5G18270.2 33.514 185 94 10 41 215 10 175 2.76e-16 78.6
MsaG006576 AT5G18270.1 33.514 185 94 10 41 215 10 175 4.74e-16 77.8
MsaG006576 AT3G18400.1 33.803 142 77 5 53 193 5 130 1.00e-14 73.9
MsaG006576 AT1G33060.1 30.645 186 94 9 40 212 11 174 1.05e-13 72.0
MsaG006576 AT1G33060.2 30.645 186 94 9 40 212 11 174 1.07e-13 72.0
MsaG006576 AT4G35580.1 31.551 187 93 10 46 219 2 166 6.03e-13 69.3
MsaG006576 AT4G35580.2 31.551 187 93 10 46 219 2 166 7.30e-13 69.3
MsaG006576 AT4G35580.3 31.551 187 93 10 46 219 2 166 7.36e-13 69.3
MsaG006576 AT2G24430.2 29.586 169 97 6 52 214 15 167 2.75e-12 66.6
MsaG006576 AT2G24430.1 29.586 169 97 6 52 214 15 167 2.75e-12 66.6
MsaG006576 AT1G76420.1 29.279 222 128 11 52 265 21 221 1.58e-11 64.7
MsaG006576 AT1G01720.1 30.464 151 83 6 47 194 1 132 1.97e-11 63.9
MsaG006576 AT3G29035.1 32.867 143 77 5 53 193 24 149 2.71e-11 63.9
MsaG006576 AT2G33480.2 29.412 187 98 10 41 221 7 165 5.38e-11 62.4
MsaG006576 AT2G33480.1 29.101 189 98 10 41 221 7 167 6.32e-11 62.4

Find 56 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAACAAGATGGCACAAAAC+TGG 0.293534 2:+7070960 MsaT006576.1:CDS
TCTAGTACTTCTACATCATT+TGG 0.314489 2:-7069363 None:intergenic
TCCACAAGAGCTACATTGTT+GGG 0.338920 2:-7071266 None:intergenic
CCAACGCTTCAAGGAGATAA+TGG 0.355602 2:+7069450 MsaT006576.1:CDS
ATCACCCAGTTAGTCTTCTC+TGG 0.385881 2:-7071071 None:intergenic
TGTAGAAGTACTAGAGCATT+TGG 0.390413 2:+7069371 MsaT006576.1:CDS
GAAAACCAGAGAAGACTAAC+TGG 0.406375 2:+7071066 MsaT006576.1:CDS
AACTATTATTCGCTTATCAA+TGG 0.414728 2:+7071394 MsaT006576.1:CDS
GGGTGGAGTTAATGAATTGC+CGG 0.417191 2:+7069314 MsaT006576.1:intron
CATGTTGTCTAGGCTGTGTC+TGG 0.424066 2:-7071163 None:intergenic
TCACTTTGAACAGACATGTT+TGG 0.426034 2:-7071368 None:intergenic
CTAGTACTTCTACATCATTT+GGG 0.458512 2:-7069362 None:intergenic
GAGTTCATACCAACGCTTCA+AGG 0.459148 2:+7069441 MsaT006576.1:CDS
CCATTATCTCCTTGAAGCGT+TGG 0.461132 2:-7069450 None:intergenic
GGGTCAAATTTCACTCCAGC+TGG 0.465906 2:-7069342 None:intergenic
GGGCTGCACTGTTATTATCA+TGG 0.468166 2:-7071244 None:intergenic
CTTCTTCATTCATACCAAGA+TGG 0.471328 2:-7071103 None:intergenic
ATATGCATGTTGGTCATAGT+AGG 0.471621 2:+7071321 MsaT006576.1:CDS
GCCGCATGAGGGGCATTCAA+TGG 0.476343 2:-7069019 None:intergenic
TACACCAACTATTGCAAAGA+AGG 0.482059 2:+7071044 MsaT006576.1:CDS
CCTTCAAAAGCATACACAAC+AGG 0.484981 2:+7070894 MsaT006576.1:CDS
TACTATGACCAACATGCATA+TGG 0.492828 2:-7071319 None:intergenic
TGCAAACAAAGTAAGAGTAC+TGG 0.494119 2:+7071421 MsaT006576.1:CDS
GAATTGCCGGGGTTACCAGC+TGG 0.498475 2:+7069327 MsaT006576.1:CDS
GGTGGAGTTAATGAATTGCC+GGG 0.501114 2:+7069315 MsaT006576.1:CDS
AAAATAATCGACAAAGGAAG+TGG 0.506740 2:+7071221 MsaT006576.1:CDS
TTCAATATTATGGCCGCATG+AGG 0.506854 2:-7069031 None:intergenic
AAATCCCTTCACAACACCAT+TGG 0.513981 2:-7071003 None:intergenic
AACATGTCTGTTCAAAGTGA+TGG 0.516868 2:+7071371 MsaT006576.1:CDS
TTCCACAAGAGCTACATTGT+TGG 0.516933 2:-7071267 None:intergenic
TCAATATTATGGCCGCATGA+GGG 0.518397 2:-7069030 None:intergenic
GTTGCAGGAGTTAGCAAAGA+TGG 0.520564 2:+7070846 MsaT006576.1:intron
ATGGAATTACCATGTTGTCT+AGG 0.524147 2:-7071173 None:intergenic
CCCCAACAATGTAGCTCTTG+TGG 0.528333 2:+7071265 MsaT006576.1:CDS
AAGAAGGAATTGAAACAAGA+TGG 0.540463 2:+7070949 MsaT006576.1:CDS
GTGATGCATCAATACCATCT+TGG 0.542364 2:+7071089 MsaT006576.1:CDS
ATGAATGAAGAAGAAAGAGA+TGG 0.549873 2:+7071113 MsaT006576.1:CDS
AAACAAGATGGCACAAAACT+GGG 0.551473 2:+7070961 MsaT006576.1:CDS
TTCACTCCAGCTGGTAACCC+CGG 0.559582 2:-7069333 None:intergenic
AAGGTTCACACTGATGAAGA+AGG 0.564034 2:+7070933 MsaT006576.1:CDS
CAATATTATGGCCGCATGAG+GGG 0.567135 2:-7069029 None:intergenic
AGGAACAAGGAAAAGAAGAA+AGG 0.568088 2:+7070914 MsaT006576.1:CDS
ATGTTTGGTATAATCAGTTG+TGG 0.571913 2:-7071353 None:intergenic
TATGCATGTTGGTCATAGTA+GGG 0.574413 2:+7071322 MsaT006576.1:CDS
CCACAAGAGCTACATTGTTG+GGG 0.578626 2:-7071265 None:intergenic
ACACACCCAGCACAACTACC+AGG 0.587266 2:+7069483 MsaT006576.1:CDS
GGTATGAACTCATCAATAAG+TGG 0.587548 2:-7069429 None:intergenic
CAGACACAGCCTAGACAACA+TGG 0.593480 2:+7071164 MsaT006576.1:CDS
AATTATGACCATATGCATGT+TGG 0.599378 2:+7071311 MsaT006576.1:CDS
ACCATTGAATGCCCCTCATG+CGG 0.616642 2:+7069018 MsaT006576.1:CDS
AGAAGTACTAGAGCATTTGG+AGG 0.620573 2:+7069374 MsaT006576.1:CDS
AAAGATTAAGAACTATGGCA+TGG 0.622011 2:+7068920 None:intergenic
AAGCATACACAACAGGAACA+AGG 0.626885 2:+7070901 MsaT006576.1:CDS
CACAAGAGCTACATTGTTGG+GGG 0.638019 2:-7071264 None:intergenic
GTGGAGTTAATGAATTGCCG+GGG 0.680068 2:+7069316 MsaT006576.1:CDS
AAAACCAGAGAAGACTAACT+GGG 0.696934 2:+7071067 MsaT006576.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 7068934 7071454 7068934 ID=MsaG006576
Chr2 mRNA 7068934 7071454 7068934 ID=MsaT006576.1;Parent=MsaG006576
Chr2 exon 7068934 7069065 7068934 ID=MsaT006576.1.exon1;Parent=MsaT006576.1
Chr2 CDS 7068934 7069065 7068934 ID=cds.MsaT006576.1;Parent=MsaT006576.1
Chr2 exon 7069315 7069504 7069315 ID=MsaT006576.1.exon2;Parent=MsaT006576.1
Chr2 CDS 7069315 7069504 7069315 ID=cds.MsaT006576.1;Parent=MsaT006576.1
Chr2 exon 7070853 7071454 7070853 ID=MsaT006576.1.exon3;Parent=MsaT006576.1
Chr2 CDS 7070853 7071454 7070853 ID=cds.MsaT006576.1;Parent=MsaT006576.1
Gene Sequence

>MsaT006576.1

ATGGCATGGTGCAATGATAAAGATAACAACAACTCTGATGTCACTAATAACATAAAGCTCAATGAAGAAATTGATCAAAATCAAACCATTGAATGCCCCTCATGCGGCCATAATATTGAAGTAAAAAATCAGGGTGGAGTTAATGAATTGCCGGGGTTACCAGCTGGAGTGAAATTTGACCCAAATGATGTAGAAGTACTAGAGCATTTGGAGGCAAAAGTGATGTCTGATGTTCGCAAGATTCATCCACTTATTGATGAGTTCATACCAACGCTTCAAGGAGATAATGGAATTTGTTATACACACCCAGCACAACTACCAGGAGTTAGCAAAGATGGTCAAATTCGCCACTTTTTTCATAGGCCTTCAAAAGCATACACAACAGGAACAAGGAAAAGAAGAAAGGTTCACACTGATGAAGAAGGAATTGAAACAAGATGGCACAAAACTGGGAAAACTAGAGCAATTTTTTCCAATGGTGTTGTGAAGGGATTTAAGAAGATACTTGTACTCTACACCAACTATTGCAAAGAAGGAAAACCAGAGAAGACTAACTGGGTGATGCATCAATACCATCTTGGTATGAATGAAGAAGAAAGAGATGGAGAATTTGTTGCTTCAAAGATCTTCTACCAGACACAGCCTAGACAACATGGTAATTCCATTAACAACGTAAAAGATTCGTATGAAAAAATAATCGACAAAGGAAGTGGCCATGATAATAACAGTGCAGCCCCCAACAATGTAGCTCTTGTGGAATGCTACAATGCTTGTTATACAAATTATGACCATATGCATGTTGGTCATAGTAGGGAAAGCACTCCACAACTGATTATACCAAACATGTCTGTTCAAAGTGATGGAACTATTATTCGCTTATCAATGGATCATGCAAACAAAGTAAGAGTACTGGAGAGAAAGTAA

Protein sequence

>MsaT006576.1

MAWCNDKDNNNSDVTNNIKLNEEIDQNQTIECPSCGHNIEVKNQGGVNELPGLPAGVKFDPNDVEVLEHLEAKVMSDVRKIHPLIDEFIPTLQGDNGICYTHPAQLPGVSKDGQIRHFFHRPSKAYTTGTRKRRKVHTDEEGIETRWHKTGKTRAIFSNGVVKGFKKILVLYTNYCKEGKPEKTNWVMHQYHLGMNEEERDGEFVASKIFYQTQPRQHGNSINNVKDSYEKIIDKGSGHDNNSAAPNNVALVECYNACYTNYDHMHVGHSRESTPQLIIPNMSVQSDGTIIRLSMDHANKVRVLERK*