AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG033322

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033322 MtrunA17_Chr6g0474101 87.900 438 3 1 1 388 1 438 0.0 776
MsaG033322 MtrunA17_Chr8g0348461 52.866 314 144 3 71 380 202 515 7.04e-123 365
MsaG033322 MtrunA17_Chr8g0350811 49.544 329 160 3 54 380 576 900 1.02e-114 355
MsaG033322 MtrunA17_Chr8g0350811 44.878 205 104 4 72 269 240 442 3.48e-49 178
MsaG033322 MtrunA17_Chr2g0331341 28.319 226 133 7 99 295 3 228 2.13e-16 78.2
MsaG033322 MtrunA17_Chr3g0140101 29.302 215 127 9 99 288 193 407 2.30e-13 71.2
MsaG033322 MtrunA17_Chr8g0381281 26.316 228 117 6 79 288 232 426 4.67e-13 70.5
MsaG033322 MtrunA17_Chr1g0154301 24.746 295 189 12 93 376 105 377 8.03e-13 69.7
MsaG033322 MtrunA17_Chr1g0154301 28.205 234 140 8 99 307 218 448 1.34e-12 68.9
MsaG033322 MtrunA17_Chr4g0034121 28.125 224 129 9 99 292 245 466 6.58e-12 67.0
MsaG033322 MtrunA17_Chr4g0059031 25.177 282 175 12 96 351 398 669 1.07e-11 66.6
MsaG033322 MtrunA17_Chr2g0284241 25.514 243 150 10 97 316 90 324 1.39e-11 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033322 AT4G25440.2 62.796 422 115 3 1 380 3 424 0.0 563
MsaG033322 AT4G25440.3 62.796 422 115 3 1 380 3 424 0.0 563
MsaG033322 AT4G25440.1 62.796 422 115 3 1 380 3 424 0.0 563
MsaG033322 AT5G51980.1 60.690 435 120 4 1 384 1 435 0.0 558
MsaG033322 AT5G51980.2 60.690 435 120 4 1 384 1 435 0.0 558
MsaG033322 AT5G40880.2 50.462 325 157 3 54 376 114 436 9.15e-115 342
MsaG033322 AT5G40880.1 50.462 325 157 3 54 376 143 465 1.41e-114 342
MsaG033322 AT5G49200.1 49.518 311 152 3 70 375 101 411 2.02e-108 325
MsaG033322 AT1G24530.1 27.143 210 131 7 99 288 194 401 4.03e-14 73.9
MsaG033322 AT3G50390.1 22.581 279 176 8 136 376 93 369 1.70e-13 72.0
MsaG033322 AT3G50390.1 27.602 221 131 8 99 293 210 427 3.91e-11 64.7
MsaG033322 AT1G24130.1 26.606 218 132 7 99 288 191 408 3.37e-13 70.9
MsaG033322 AT1G49040.1 26.820 261 172 7 89 341 888 1137 1.42e-11 67.0
MsaG033322 AT1G47610.1 27.103 214 131 6 99 288 134 346 1.63e-11 65.5
MsaG033322 AT3G18140.1 25.941 239 150 11 97 316 75 305 4.16e-11 63.9
MsaG033322 AT2G26490.1 29.464 224 122 10 99 293 205 421 4.77e-11 64.7
MsaG033322 AT4G32990.1 23.442 337 197 15 89 381 9 328 5.82e-11 63.5
MsaG033322 AT2G26060.1 24.855 346 197 17 93 381 13 352 5.89e-11 63.9
MsaG033322 AT4G15900.1 28.431 204 127 9 96 286 172 369 5.93e-11 64.3

Find 98 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTCTTACCTTAACAAAAT+TGG 0.119333 6:-83280418 None:intergenic
CCCACTTTATTGCACGTTAT+TGG 0.189410 6:-83282861 None:intergenic
GAGCCAGCTGCATCACTTAA+AGG 0.244802 6:+83281056 MsaT033322.1:CDS
TGGTGATGTCTGTTCTTTGC+TGG 0.250109 6:+83281308 MsaT033322.1:CDS
AGTGAATTGCCTACTTCTAA+TGG 0.301502 6:+83278834 MsaT033322.1:CDS
CTTGCAGGATGGAGCTATAT+TGG 0.302277 6:+83281001 MsaT033322.1:intron
CTTCTTACCTTAACAAAATT+GGG 0.313002 6:-83280417 None:intergenic
TTATTGGATGTGGCCGGTTC+AGG 0.316183 6:-83282845 None:intergenic
GGAGCTAATAGACTTTATTC+TGG 0.326721 6:+83281110 MsaT033322.1:CDS
ATTGCAAGAGCATAGAAGTA+TGG 0.349106 6:-83282118 None:intergenic
TGTCTAATGAACAAGATATA+AGG 0.355225 6:-83281339 None:intergenic
CACTCTTGGAATGTTGGTGA+TGG 0.368628 6:+83279092 MsaT033322.1:CDS
TCAGCATAAGCCCGTTTAGA+AGG 0.378915 6:-83278867 None:intergenic
GGTTCGGATAAGCTTTATAC+TGG 0.382445 6:+83280105 MsaT033322.1:CDS
GGTGTAAGTTTCTTCACTCT+TGG 0.386356 6:+83279078 MsaT033322.1:CDS
TAGACTTTATTCTGGTTCAA+TGG 0.390656 6:+83281118 MsaT033322.1:CDS
ATGATGAGACTGTAAGGGTT+TGG 0.396519 6:+83280133 MsaT033322.1:CDS
AGGGTTTGGGACTGCCAGTC+TGG 0.408736 6:+83280147 MsaT033322.1:CDS
TGATGAGACTGTAAGGGTTT+GGG 0.409539 6:+83280134 MsaT033322.1:CDS
TGCTACGGAAAGTGGAAATC+TGG 0.412766 6:+83281459 MsaT033322.1:CDS
GTAAACACTGCAAGGTTTCA+AGG 0.414343 6:-83281261 None:intergenic
ATTAATGATATGCTCTTTGC+TGG 0.418363 6:+83280650 MsaT033322.1:CDS
ATTCAAGGGAATTGTAGTTA+TGG 0.419571 6:+83279050 MsaT033322.1:intron
GCCAAGTGAGAGTGTGGAAT+TGG 0.422825 6:+83282819 MsaT033322.1:CDS
TCTTTGTTGACTCAGCTTGA+AGG 0.427109 6:+83279119 MsaT033322.1:CDS
GGAATTGTAGTTATGGAGAT+AGG 0.434741 6:+83279057 MsaT033322.1:CDS
GGTGATGTCTGTTCTTTGCT+GGG 0.435801 6:+83281309 MsaT033322.1:CDS
GAAGTAATGATGAGACTGTA+AGG 0.438934 6:+83280127 MsaT033322.1:CDS
TTTCTTCACTCTTGGAATGT+TGG 0.440764 6:+83279086 MsaT033322.1:CDS
TTGGGACTGCCAGTCTGGAC+AGG 0.443226 6:+83280152 MsaT033322.1:CDS
GTGAATTGCCTACTTCTAAT+GGG 0.444534 6:+83278835 MsaT033322.1:CDS
AGGTAAGATATTCAACAAAC+AGG 0.445583 6:+83282739 MsaT033322.1:CDS
AATTGCTATGCCCTCTGGTT+CGG 0.446239 6:+83280089 MsaT033322.1:CDS
TAGGGTATAATCACCCTTTG+TGG 0.446419 6:+83282072 MsaT033322.1:intron
GGAATGGTGCTCCTTCTAAA+CGG 0.446924 6:+83278856 MsaT033322.1:CDS
TTCTTCACTGGTGATGGAAC+TGG 0.448650 6:+83282797 MsaT033322.1:CDS
GGCAATTCACTATGCAGAAA+AGG 0.455554 6:-83278822 None:intergenic
TTCATTAGACAAAACAGTAA+AGG 0.464680 6:+83281351 MsaT033322.1:CDS
CGTGTTTACAATCGTCTTGG+TGG 0.467498 6:+83278723 MsaT033322.1:CDS
TCAATGGAGATAAGTCTAGA+TGG 0.468495 6:+83280596 MsaT033322.1:CDS
TTGAATGAACAGGTTGTAAG+TGG 0.476227 6:+83280066 MsaT033322.1:intron
GAATGGTGCTCCTTCTAAAC+GGG 0.477698 6:+83278857 MsaT033322.1:CDS
TGTATAGCTGTGATCAATCT+TGG 0.477996 6:+83280342 MsaT033322.1:CDS
TTATTGCACGTTATTGGATG+TGG 0.479439 6:-83282855 None:intergenic
ACTCTTGGAATGTTGGTGAT+GGG 0.480654 6:+83279093 MsaT033322.1:CDS
AGTGGAATTGCTATGCCCTC+TGG 0.484501 6:+83280084 MsaT033322.1:CDS
AGCATATTCTTCACTGGTGA+TGG 0.496351 6:+83282791 MsaT033322.1:CDS
GGTGTTGTTTCGTTAGTTGT+TGG 0.496526 6:+83281089 MsaT033322.1:CDS
AATCGTCTTGGTGGGTCAAA+CGG 0.497281 6:+83278732 MsaT033322.1:CDS
CGAGCAATTCAGACTGGTCC+TGG 0.502735 6:+83282767 MsaT033322.1:CDS
CCTGGTAGCATATTCTTCAC+TGG 0.512028 6:+83282785 MsaT033322.1:CDS
GTGTGGTATGCTACGGAAAG+TGG 0.514044 6:+83281451 MsaT033322.1:CDS
TGCATCATGCATCCCACAAA+GGG 0.514045 6:-83282085 None:intergenic
AGGGTATAATCACCCTTTGT+GGG 0.517484 6:+83282073 MsaT033322.1:intron
TCCAATTCCACACTCTCACT+TGG 0.520959 6:-83282820 None:intergenic
GTATGATCAGTGAAGGTCCC+TGG 0.528209 6:+83280379 MsaT033322.1:CDS
AAGCGTGTTTACAATCGTCT+TGG 0.534374 6:+83278720 MsaT033322.1:CDS
AGTGCATAAACTTGTCCGAC+AGG 0.541835 6:-83280620 None:intergenic
TTGGAACACGCAAAATTCAA+TGG 0.543770 6:+83280580 MsaT033322.1:CDS
TTTGTTTCTATGGATTTCGA+CGG 0.545744 6:+83278690 None:intergenic
GTGGAATTGGATACCTGAAC+CGG 0.547100 6:+83282832 MsaT033322.1:CDS
TGCACGTTATTGGATGTGGC+CGG 0.547273 6:-83282851 None:intergenic
TCAGCTTGAAGGACATAAGA+AGG 0.550026 6:+83279130 MsaT033322.1:CDS
TTGTAACAACCTGTCCAGAC+TGG 0.550382 6:-83280161 None:intergenic
TTGCAAGAGCATAGAAGTAT+GGG 0.552250 6:-83282117 None:intergenic
ACTGACAGAGCACACGGCTG+TGG 0.553338 6:+83281288 MsaT033322.1:CDS
TATGCTCTTTGCTGGTACGC+AGG 0.562187 6:+83280658 MsaT033322.1:CDS
GCACCATTCCCATTAGAAGT+AGG 0.568465 6:-83278843 None:intergenic
TTGTTCAGATTTGCAGAGAG+AGG 0.570280 6:+83282719 MsaT033322.1:intron
GTTTCTATGGATTTCGACGG+TGG 0.572025 6:+83278693 None:intergenic
GTGTTTACAATCGTCTTGGT+GGG 0.574992 6:+83278724 MsaT033322.1:CDS
AACTAACGAAACAACACCAC+GGG 0.575189 6:-83281084 None:intergenic
ATCAATCTTGGCGGTGAAGT+AGG 0.580144 6:+83280354 MsaT033322.1:CDS
TATGCAGGTGTGGTATGCTA+CGG 0.582090 6:+83281444 MsaT033322.1:intron
ATAAAGCTTATCCGAACCAG+AGG 0.585965 6:-83280100 None:intergenic
TTGCCTACTTCTAATGGGAA+TGG 0.590538 6:+83278840 MsaT033322.1:CDS
CAGTGTCTGTAAACACTGCA+AGG 0.596655 6:-83281269 None:intergenic
TGCAGCTGGCTCGAAACAGT+TGG 0.597581 6:-83281045 None:intergenic
TGACCTTTAAGTGATGCAGC+TGG 0.606030 6:-83281059 None:intergenic
CCAGTGAAGAATATGCTACC+AGG 0.618179 6:-83282785 None:intergenic
AGGATGGAGCTATATTGGTA+TGG 0.618970 6:+83281006 MsaT033322.1:intron
TCACTATGCAGAAAAGGACA+TGG 0.619738 6:-83278816 None:intergenic
GTGCATCATGCATCCCACAA+AGG 0.625754 6:-83282086 None:intergenic
ATAAGTCTAGATGGCCCTGT+CGG 0.630869 6:+83280605 MsaT033322.1:CDS
GTAGGTTGTATGATCAGTGA+AGG 0.632803 6:+83280372 MsaT033322.1:CDS
AAGTAATGATGAGACTGTAA+GGG 0.635516 6:+83280128 MsaT033322.1:CDS
GAGGTGCGAGCAATTCAGAC+TGG 0.636091 6:+83282761 MsaT033322.1:CDS
CTTACGATGGCAGATCATAG+AGG 0.639029 6:-83282155 None:intergenic
GAACTGGCCAAGTGAGAGTG+TGG 0.646364 6:+83282813 MsaT033322.1:CDS
GTGCATAAACTTGTCCGACA+GGG 0.646937 6:-83280619 None:intergenic
ATAGCTGTGATCAATCTTGG+CGG 0.647484 6:+83280345 MsaT033322.1:CDS
CGTCTTGGTGGGTCAAACGG+TGG 0.651247 6:+83278735 MsaT033322.1:CDS
ACAGACACTGACAGAGCACA+CGG 0.654604 6:+83281282 MsaT033322.1:CDS
TAAGATATTCAACAAACAGG+AGG 0.665359 6:+83282742 MsaT033322.1:CDS
TCACTTAAAGGTCATACCCG+TGG 0.682929 6:+83281068 MsaT033322.1:CDS
TGTGGGATGCATGATGCACA+AGG 0.684145 6:+83282090 MsaT033322.1:CDS
TAAAGCTTATCCGAACCAGA+GGG 0.687572 6:-83280099 None:intergenic
CAACTAACGAAACAACACCA+CGG 0.703335 6:-83281085 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 83278699 83282877 83278699 ID=MsaG033322
Chr6 mRNA 83278699 83282877 83278699 ID=MsaT033322.1;Parent=MsaG033322
Chr6 exon 83278699 83278906 83278699 ID=MsaT033322.1.exon1;Parent=MsaT033322.1
Chr6 CDS 83278699 83278906 83278699 ID=cds.MsaT033322.1;Parent=MsaT033322.1
Chr6 exon 83279057 83279151 83279057 ID=MsaT033322.1.exon2;Parent=MsaT033322.1
Chr6 CDS 83279057 83279151 83279057 ID=cds.MsaT033322.1;Parent=MsaT033322.1
Chr6 exon 83280078 83280173 83280078 ID=MsaT033322.1.exon3;Parent=MsaT033322.1
Chr6 CDS 83280078 83280173 83280078 ID=cds.MsaT033322.1;Parent=MsaT033322.1
Chr6 exon 83280342 83280431 83280342 ID=MsaT033322.1.exon4;Parent=MsaT033322.1
Chr6 CDS 83280342 83280431 83280342 ID=cds.MsaT033322.1;Parent=MsaT033322.1
Chr6 exon 83280578 83280679 83280578 ID=MsaT033322.1.exon5;Parent=MsaT033322.1
Chr6 CDS 83280578 83280679 83280578 ID=cds.MsaT033322.1;Parent=MsaT033322.1
Chr6 exon 83281008 83281154 83281008 ID=MsaT033322.1.exon6;Parent=MsaT033322.1
Chr6 CDS 83281008 83281154 83281008 ID=cds.MsaT033322.1;Parent=MsaT033322.1
Chr6 exon 83281253 83281372 83281253 ID=MsaT033322.1.exon7;Parent=MsaT033322.1
Chr6 CDS 83281253 83281372 83281253 ID=cds.MsaT033322.1;Parent=MsaT033322.1
Chr6 exon 83281451 83281510 83281451 ID=MsaT033322.1.exon8;Parent=MsaT033322.1
Chr6 CDS 83281451 83281510 83281451 ID=cds.MsaT033322.1;Parent=MsaT033322.1
Chr6 exon 83282075 83282172 83282075 ID=MsaT033322.1.exon9;Parent=MsaT033322.1
Chr6 CDS 83282075 83282172 83282075 ID=cds.MsaT033322.1;Parent=MsaT033322.1
Chr6 exon 83282727 83282877 83282727 ID=MsaT033322.1.exon10;Parent=MsaT033322.1
Chr6 CDS 83282727 83282877 83282727 ID=cds.MsaT033322.1;Parent=MsaT033322.1
Gene Sequence

>MsaT033322.1

ATGGATTTCGACGGTGGTAATAAGCGTGTTTACAATCGTCTTGGTGGGTCAAACGGTGGCGATTCAAAGAATCAGAAAGTGTGTTTTCAATGGCAAGCAGGAAAGTGTAATCGTTATCCATGTCCTTTTCTGCATAGTGAATTGCCTACTTCTAATGGGAATGGTGCTCCTTCTAAACGGGCTTATGCTGATAATTCGAGTTTTTCTGGGAATTGTAGTTATGGAGATAGGTGTAAGTTTCTTCACTCTTGGAATGTTGGTGATGGGTTTTCTTTGTTGACTCAGCTTGAAGGACATAAGAAGGTTGTAAGTGGAATTGCTATGCCCTCTGGTTCGGATAAGCTTTATACTGGAAGTAATGATGAGACTGTAAGGGTTTGGGACTGCCAGTCTGGACAGTGTATAGCTGTGATCAATCTTGGCGGTGAAGTAGGTTGTATGATCAGTGAAGGTCCCTGGCTTTTTGTTGGCATACCCAATTTTGTTAAGGCTTGGAACACGCAAAATTCAATGGAGATAAGTCTAGATGGCCCTGTCGGACAAGTTTATGCACTTGTTGTGATTAATGATATGCTCTTTGCTGGTACGCAGGATGGAGCTATATTGGTATGGAAATTCAATGTTGCTGCCAACTGTTTCGAGCCAGCTGCATCACTTAAAGGTCATACCCGTGGTGTTGTTTCGTTAGTTGTTGGAGCTAATAGACTTTATTCTGGTTCAATGGACAATACAGTCAGAGTGTGGAACCTTGAAACCTTGCAGTGTTTACAGACACTGACAGAGCACACGGCTGTGGTGATGTCTGTTCTTTGCTGGGATCAGTTCCTTATATCTTGTTCATTAGACAAAACAGTAAAGGTGTGGTATGCTACGGAAAGTGGAAATCTGGAAGTGACATATACTCACACTGAAGAACATGGTATAATCACCCTTTGTGGGATGCATGATGCACAAGGCAAGCCCATACTTCTATGCTCTTGCAATGATAACACTGTTCGCCTCTATGATCTGCCATCATTTGCAGAGAGAGGTAAGATATTCAACAAACAGGAGGTGCGAGCAATTCAGACTGGTCCTGGTAGCATATTCTTCACTGGTGATGGAACTGGCCAAGTGAGAGTGTGGAATTGGATACCTGAACCGGCCACATCCAATAACGTGCAATAA
Protein sequence

>MsaT033322.1

MDFDGGNKRVYNRLGGSNGGDSKNQKVCFQWQAGKCNRYPCPFLHSELPTSNGNGAPSKRAYADNSSFSGNCSYGDRCKFLHSWNVGDGFSLLTQLEGHKKVVSGIAMPSGSDKLYTGSNDETVRVWDCQSGQCIAVINLGGEVGCMISEGPWLFVGIPNFVKAWNTQNSMEISLDGPVGQVYALVVINDMLFAGTQDGAILVWKFNVAANCFEPAASLKGHTRGVVSLVVGANRLYSGSMDNTVRVWNLETLQCLQTLTEHTAVVMSVLCWDQFLISCSLDKTVKVWYATESGNLEVTYTHTEEHGIITLCGMHDAQGKPILLCSCNDNTVRLYDLPSFAERGKIFNKQEVRAIQTGPGSIFFTGDGTGQVRVWNWIPEPATSNNVQ*