AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG032026


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG032026 MtrunA17_Chr6g0463571 98.710 310 4 0 1 310 1 310 0.0 627
MsaG032026 MtrunA17_Chr5g0432701 52.459 244 84 9 26 261 49 268 6.66e-61 197
MsaG032026 MtrunA17_Chr3g0107491 42.857 315 124 14 4 281 14 309 1.85e-52 176
MsaG032026 MtrunA17_Chr4g0036071 57.714 175 66 3 76 243 279 452 1.22e-49 172
MsaG032026 MtrunA17_Chr3g0128781 49.541 218 84 6 28 243 7 200 2.94e-49 166
MsaG032026 MtrunA17_Chr2g0329551 57.143 168 57 4 107 260 168 334 5.01e-47 163
MsaG032026 MtrunA17_Chr1g0156051 45.415 229 98 8 74 282 303 524 4.46e-33 127
MsaG032026 MtrunA17_Chr2g0316551 49.474 95 48 0 149 243 206 300 1.39e-20 90.5
MsaG032026 MtrunA17_Chr4g0040891 43.966 116 58 1 149 257 192 307 1.82e-19 87.0
MsaG032026 MtrunA17_Chr2g0325131 47.000 100 53 0 149 248 189 288 8.84e-19 85.5
MsaG032026 MtrunA17_Chr1g0202051 34.361 227 132 6 31 252 11 225 1.14e-18 84.3
MsaG032026 MtrunA17_Chr2g0306581 65.306 49 17 0 139 187 1 49 2.55e-13 65.9
MsaG032026 MtrunA17_Chr8g0380611 29.771 262 142 11 11 244 75 322 5.82e-13 68.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG032026 AT1G43700.1 45.260 327 121 12 13 287 12 332 3.95e-66 211
MsaG032026 AT2G40620.1 46.559 247 109 7 3 243 11 240 1.85e-50 171
MsaG032026 AT2G31370.5 64.828 145 41 2 109 244 151 294 4.33e-50 171
MsaG032026 AT2G31370.2 59.880 167 56 3 109 265 151 316 1.48e-49 169
MsaG032026 AT2G31370.4 59.880 167 56 3 109 265 151 316 1.48e-49 169
MsaG032026 AT2G31370.1 59.880 167 56 3 109 265 151 316 1.48e-49 169
MsaG032026 AT2G31370.7 59.880 167 56 3 109 265 151 316 1.48e-49 169
MsaG032026 AT2G31370.3 59.880 167 56 3 109 265 151 316 1.48e-49 169
MsaG032026 AT2G31370.6 59.880 167 56 3 109 265 151 316 1.48e-49 169
MsaG032026 AT4G38900.2 55.497 191 62 5 73 243 299 486 4.27e-49 172
MsaG032026 AT4G38900.3 55.497 191 62 5 73 243 299 486 4.27e-49 172
MsaG032026 AT4G38900.1 53.807 197 62 6 73 243 299 492 1.31e-46 165
MsaG032026 AT1G06070.1 54.598 174 63 3 109 273 159 325 7.94e-46 160
MsaG032026 AT1G06850.1 62.791 129 47 1 123 251 121 248 2.54e-45 157
MsaG032026 AT2G21230.4 54.444 180 66 3 76 243 287 462 1.50e-44 159
MsaG032026 AT2G21230.1 54.444 180 66 3 76 243 287 462 1.50e-44 159
MsaG032026 AT2G21230.3 52.688 186 66 4 76 243 287 468 2.85e-42 153
MsaG032026 AT2G21230.2 53.846 169 62 3 76 232 287 451 4.38e-40 146
MsaG032026 AT1G06850.2 72.152 79 21 1 123 201 121 198 7.48e-28 108
MsaG032026 AT2G42380.2 41.880 117 57 1 149 254 184 300 6.92e-19 85.9
MsaG032026 AT2G13150.1 35.503 169 93 4 83 244 83 242 7.15e-19 84.7
MsaG032026 AT3G58120.1 47.368 95 50 0 149 243 200 294 1.21e-18 85.1
MsaG032026 AT2G12940.1 32.597 181 108 5 83 260 82 251 1.90e-17 81.3
MsaG032026 AT2G12900.1 38.235 102 62 1 143 244 109 209 2.91e-16 77.4
MsaG032026 AT2G42380.5 45.238 84 46 0 149 232 184 267 5.21e-15 73.9
MsaG032026 AT3G58120.2 45.679 81 44 0 149 229 200 280 5.29e-14 71.6
MsaG032026 AT1G58110.1 28.571 252 135 7 22 244 87 322 5.43e-13 69.3
MsaG032026 AT1G58110.2 28.571 252 135 7 22 244 87 322 5.43e-13 69.3
MsaG032026 AT2G42380.1 37.607 117 51 2 149 254 184 289 1.21e-12 67.8
MsaG032026 AT2G21235.1 38.235 102 62 1 151 252 359 459 2.65e-12 67.8
MsaG032026 AT2G42380.3 64.444 45 16 0 149 193 184 228 1.85e-11 63.2
MsaG032026 AT2G42380.4 64.444 45 16 0 149 193 184 228 1.85e-11 63.2

Find 94 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCATGCCAGGTTGTGTCTGC+TGG 0.238257 6:-43153691 None:intergenic
CTGAGTGGGAACGGCGGTGG+TGG 0.309521 6:-43148964 None:intergenic
TTTACAGGATTCTTGCTAAT+AGG 0.313599 6:+43150851 MsaT032026.1:intron
TTGATCCTAAGAGAGCTAAA+AGG 0.339939 6:+43149335 MsaT032026.1:CDS
TGATTTGACTGCTCAGAATA+AGG 0.343859 6:+43152979 MsaT032026.1:CDS
CGTCAGAGGGACGGCATCTC+AGG 0.344618 6:+43149122 MsaT032026.1:CDS
GTTTCTAAGTCAATTATAAC+TGG 0.351222 6:-43148920 None:intergenic
GGGTTAGGGTTTGGTGGTGA+AGG 0.352329 6:+43149175 MsaT032026.1:CDS
GAGTCCATCGGGACAGCGTC+AGG 0.359931 6:-43149076 None:intergenic
TGGTTAGCTGTGTAGCAAAT+TGG 0.363370 6:-43153643 None:intergenic
TGTTGTATACGATCTACTTT+TGG 0.365809 6:-43153778 None:intergenic
TTTGATGGGTTAGGGTTTGG+TGG 0.386396 6:+43149169 MsaT032026.1:CDS
CCCATTAAAAGAAGGATTAC+CGG 0.390977 6:-43153612 None:intergenic
TGCACAACTTACAGTCCTTC+AGG 0.397567 6:+43150969 MsaT032026.1:CDS
AGAAAGAACTTCAACGCCTT+AGG 0.400050 6:+43153561 MsaT032026.1:CDS
TCGTGGTCGCTCTAACTTCA+TGG 0.412681 6:+43153745 MsaT032026.1:CDS
GTTTGGTGGTGAAGGGGAAA+AGG 0.416147 6:+43149183 MsaT032026.1:CDS
GTTAGGGTTTGGTGGTGAAG+GGG 0.427763 6:+43149177 MsaT032026.1:CDS
TGAGTGGGAACGGCGGTGGT+GGG 0.433218 6:-43148963 None:intergenic
CATGCCAGGTTGTGTCTGCT+GGG 0.434483 6:-43153690 None:intergenic
GGTTGTGTCTGCTGGGGTTG+AGG 0.447864 6:-43153683 None:intergenic
GAGATGGGGTTGTTTGAAGT+TGG 0.453490 6:+43149259 MsaT032026.1:CDS
GGTTAGGGTTTGGTGGTGAA+GGG 0.457604 6:+43149176 MsaT032026.1:CDS
GAACGAGAAGGCGGCATGCC+AGG 0.461441 6:-43153704 None:intergenic
ACAGCGTCAGGGGATGGAAG+AGG 0.465529 6:-43149064 None:intergenic
GAAAGAACTTCAACGCCTTA+GGG 0.472203 6:+43153562 MsaT032026.1:CDS
TCGATGGATGGGTCTGAGAT+GGG 0.474377 6:+43149244 MsaT032026.1:CDS
TTCGATGGATGGGTCTGAGA+TGG 0.478441 6:+43149243 MsaT032026.1:CDS
AGGGGATGGAAGAGGGAGGT+TGG 0.483008 6:-43149056 None:intergenic
GGTTAGCTGTGTAGCAAATT+GGG 0.483849 6:-43153642 None:intergenic
GTGAACATCCCATTAAAAGA+AGG 0.490376 6:-43153620 None:intergenic
ATCCCCTGACGCTGTCCCGA+TGG 0.491064 6:+43149072 MsaT032026.1:CDS
GGAAAAGGTTGAAGAGAGGA+AGG 0.492873 6:+43149198 MsaT032026.1:CDS
GGTCCCACGTGATGGTGGCA+TGG 0.493635 6:-43148942 None:intergenic
AAGTCAATTATAACTGGTGG+TGG 0.495733 6:-43148914 None:intergenic
ATCGGGACAGCGTCAGGGGA+TGG 0.496167 6:-43149070 None:intergenic
AGAGGAAGGTGAGTAGACAT+AGG 0.498750 6:+43149212 MsaT032026.1:CDS
CGTCGAAGTTTGCTGCGAAA+CGG 0.501035 6:-43148997 None:intergenic
AATCATTTGACTGCCGTCGC+CGG 0.508575 6:+43153593 MsaT032026.1:CDS
CGGTGGTGGGTCCCACGTGA+TGG 0.512907 6:-43148950 None:intergenic
AGAGCGACCACGACCGTTGA+AGG 0.516566 6:-43153735 None:intergenic
GATCAACCCTTCAACGGTCG+TGG 0.516911 6:+43153728 MsaT032026.1:CDS
CAACCCCAGCAGACACAACC+TGG 0.516981 6:+43153686 MsaT032026.1:CDS
AACTCGATATACAAGTGAGC+TGG 0.519563 6:+43150903 MsaT032026.1:CDS
CAGCGTCAGGGGATGGAAGA+GGG 0.521431 6:-43149063 None:intergenic
TGTCTGAGTGGGAACGGCGG+TGG 0.521835 6:-43148967 None:intergenic
AGGATTACTCATTTGTTGCA+TGG 0.522341 6:-43153663 None:intergenic
GGGTTGTTTGAAGTTGGTGA+TGG 0.524705 6:+43149265 MsaT032026.1:CDS
GTCGAAGTCGGACGGGTCAA+AGG 0.527145 6:-43149029 None:intergenic
TGGACTCATCAGAGTCCATC+GGG 0.530528 6:-43149087 None:intergenic
AGGTGGTGTCTGAGTGGGAA+CGG 0.531088 6:-43148973 None:intergenic
CATCGGGAAGTCAGCGTCAG+AGG 0.531841 6:+43149108 MsaT032026.1:CDS
AAGGGGAAAAGGTTGAAGAG+AGG 0.535836 6:+43149194 MsaT032026.1:CDS
AGTTCAGCAAGTTTCTCAGC+CGG 0.541555 6:-43149304 None:intergenic
TGGACTCTGATGAGTCCATC+GGG 0.544487 6:+43149092 MsaT032026.1:CDS
TGGTGGGTCCCACGTGATGG+TGG 0.546686 6:-43148947 None:intergenic
AAGCTTTGCTTGTTGCTCGA+AGG 0.549248 6:-43153023 None:intergenic
AGGTATAGTAGTTCGATGGA+TGG 0.550518 6:+43149232 MsaT032026.1:CDS
GTCCATCGGGACAGCGTCAG+GGG 0.553104 6:-43149074 None:intergenic
TGGAGATGTCGAAGTCGGAC+GGG 0.554791 6:-43149036 None:intergenic
CGTTCTGATCAACCCTTCAA+CGG 0.556715 6:+43153722 MsaT032026.1:CDS
TTGGAGATGTCGAAGTCGGA+CGG 0.562969 6:-43149037 None:intergenic
ATCGGGAAGTCAGCGTCAGA+GGG 0.565138 6:+43149109 MsaT032026.1:CDS
GGAAGTCAGCGTCAGAGGGA+CGG 0.567008 6:+43149113 MsaT032026.1:CDS
GAGCGACCACGACCGTTGAA+GGG 0.569915 6:-43153734 None:intergenic
AGTCCATCGGGACAGCGTCA+GGG 0.578916 6:-43149075 None:intergenic
GGTATAGTAGTTCGATGGAT+GGG 0.582990 6:+43149233 MsaT032026.1:CDS
ATGGACTCTGATGAGTCCAT+CGG 0.585619 6:+43149091 MsaT032026.1:CDS
CTCTGACGCTGACTTCCCGA+TGG 0.585973 6:-43149107 None:intergenic
ACGGAAGGTGGTGTCTGAGT+GGG 0.588249 6:-43148978 None:intergenic
ATGGACTCATCAGAGTCCAT+CGG 0.588783 6:-43149088 None:intergenic
TCTAAGTCAATTATAACTGG+TGG 0.588904 6:-43148917 None:intergenic
CTGCTGCACGATCGAAAGAG+AGG 0.598234 6:+43150878 MsaT032026.1:CDS
GATATACAAGTGAGCTGGAG+AGG 0.598508 6:+43150908 MsaT032026.1:CDS
ACATAGGTATAGTAGTTCGA+TGG 0.599361 6:+43149228 MsaT032026.1:CDS
CGATGGATGGGTCTGAGATG+GGG 0.601831 6:+43149245 MsaT032026.1:CDS
GCATCTCAGGAGTTTGTCCG+TGG 0.602284 6:+43149135 MsaT032026.1:CDS
CAACAAGCAAAGCTTAGAGA+AGG 0.603588 6:+43153031 MsaT032026.1:CDS
AGTCGGACGGGTCAAAGGTG+AGG 0.615884 6:-43149024 None:intergenic
AACGGAAGGTGGTGTCTGAG+TGG 0.626499 6:-43148979 None:intergenic
GAGGTTGGAGATGTCGAAGT+CGG 0.627116 6:-43149041 None:intergenic
GAAGTTTGCTGCGAAACGGA+AGG 0.630495 6:-43148993 None:intergenic
TGGTGTCTGAGTGGGAACGG+CGG 0.631875 6:-43148970 None:intergenic
GAAACCATGCCACCATCACG+TGG 0.635172 6:+43148938 MsaT032026.1:CDS
TGGTGTGAAGAAATCTATGC+CGG 0.640871 6:+43149285 MsaT032026.1:CDS
AAAAGAAGGATTACCGGCGA+CGG 0.660514 6:-43153606 None:intergenic
AAGGGTTGATCAGAACGAGA+AGG 0.660536 6:-43153716 None:intergenic
GGTTGATCAGAACGAGAAGG+CGG 0.661757 6:-43153713 None:intergenic
ATGCCAGGTTGTGTCTGCTG+GGG 0.664418 6:-43153689 None:intergenic
CGTCAGGGGATGGAAGAGGG+AGG 0.669132 6:-43149060 None:intergenic
GTTTGCTGCGAAACGGAAGG+TGG 0.671587 6:-43148990 None:intergenic
ATTCTGAGCAGTCAAATCAG+TGG 0.697438 6:-43152975 None:intergenic
GGACTGTAAGTTGTGCAGAG+AGG 0.716589 6:-43150963 None:intergenic
AAACCATGCCACCATCACGT+GGG 0.740666 6:+43148939 MsaT032026.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 43148887 43153787 43148887 ID=MsaG032026
Chr6 mRNA 43148887 43153787 43148887 ID=MsaT032026.1;Parent=MsaG032026
Chr6 exon 43148887 43149356 43148887 ID=MsaT032026.1.exon1;Parent=MsaT032026.1
Chr6 CDS 43148887 43149356 43148887 ID=cds.MsaT032026.1;Parent=MsaT032026.1
Chr6 exon 43150858 43150990 43150858 ID=MsaT032026.1.exon2;Parent=MsaT032026.1
Chr6 CDS 43150858 43150990 43150858 ID=cds.MsaT032026.1;Parent=MsaT032026.1
Chr6 exon 43152968 43153052 43152968 ID=MsaT032026.1.exon3;Parent=MsaT032026.1
Chr6 CDS 43152968 43153052 43152968 ID=cds.MsaT032026.1;Parent=MsaT032026.1
Chr6 exon 43153543 43153787 43153543 ID=MsaT032026.1.exon4;Parent=MsaT032026.1
Chr6 CDS 43153543 43153787 43153543 ID=cds.MsaT032026.1;Parent=MsaT032026.1
Gene Sequence

>MsaT032026.1

ATGGAACAAAACAACTTCACAAGAAAACCACCACCAGTTATAATTGACTTAGAAACCATGCCACCATCACGTGGGACCCACCACCGCCGTTCCCACTCAGACACCACCTTCCGTTTCGCAGCAAACTTCGACGATCTCCTCACCTTTGACCCGTCCGACTTCGACATCTCCAACCTCCCTCTTCCATCCCCTGACGCTGTCCCGATGGACTCTGATGAGTCCATCGGGAAGTCAGCGTCAGAGGGACGGCATCTCAGGAGTTTGTCCGTGGATTCTGAGTTTTTTGATGGGTTAGGGTTTGGTGGTGAAGGGGAAAAGGTTGAAGAGAGGAAGGTGAGTAGACATAGGTATAGTAGTTCGATGGATGGGTCTGAGATGGGGTTGTTTGAAGTTGGTGATGGTGTGAAGAAATCTATGCCGGCTGAGAAACTTGCTGAACTTGCTCTTATTGATCCTAAGAGAGCTAAAAGGATTCTTGCTAATAGGCAATCTGCTGCACGATCGAAAGAGAGGAAAACTCGATATACAAGTGAGCTGGAGAGGAAAGTGCAGACGCTTCAAACTGAAGCAACTAACCTCTCTGCACAACTTACAGTCCTTCAGAGAGACACCACTGATTTGACTGCTCAGAATAAGGAGCTCAAAATGAAGTTAGATGCCTTCGAGCAACAAGCAAAGCTTAGAGAAGATCTCAATGAAGCATTGAAGAAAGAACTTCAACGCCTTAGGGCGCAAAAGAATCATTTGACTGCCGTCGCCGGTAATCCTTCTTTTAATGGGATGTTCACCCAATTTGCTACACAGCTAACCATGCAACAAATGAGTAATCCTCAACCCCAGCAGACACAACCTGGCATGCCGCCTTCTCGTTCTGATCAACCCTTCAACGGTCGTGGTCGCTCTAACTTCATGGACTTCAATTACCAAAAGTAG

Protein sequence

>MsaT032026.1

MEQNNFTRKPPPVIIDLETMPPSRGTHHRRSHSDTTFRFAANFDDLLTFDPSDFDISNLPLPSPDAVPMDSDESIGKSASEGRHLRSLSVDSEFFDGLGFGGEGEKVEERKVSRHRYSSSMDGSEMGLFEVGDGVKKSMPAEKLAELALIDPKRAKRILANRQSAARSKERKTRYTSELERKVQTLQTEATNLSAQLTVLQRDTTDLTAQNKELKMKLDAFEQQAKLREDLNEALKKELQRLRAQKNHLTAVAGNPSFNGMFTQFATQLTMQQMSNPQPQQTQPGMPPSRSDQPFNGRGRSNFMDFNYQK*