AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005360

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005360 MtrunA17_Chr1g0207311 70.261 306 58 3 1 293 1 286 1.79e-142 402
MsaG005360 MtrunA17_Chr5g0393721 46.291 337 121 14 1 297 1 317 1.58e-71 224
MsaG005360 MtrunA17_Chr1g0207301 40.476 336 152 8 1 295 51 379 1.53e-61 199
MsaG005360 MtrunA17_Chr3g0134741 51.724 174 77 3 119 287 142 313 1.86e-48 164
MsaG005360 MtrunA17_Chr1g0207321 69.231 104 28 1 23 122 24 127 1.96e-42 142
MsaG005360 MtrunA17_Chr1g0152651 81.818 77 14 0 202 278 273 349 2.46e-38 139
MsaG005360 MtrunA17_Chr5g0435021 52.809 89 41 1 183 271 199 286 1.82e-24 100
MsaG005360 MtrunA17_Chr8g0384141 55.072 69 31 0 199 267 110 178 5.30e-18 82.0
MsaG005360 MtrunA17_Chr3g0134001 42.056 107 56 2 193 297 163 265 2.49e-17 80.1
MsaG005360 MtrunA17_Chr4g0074161 56.716 67 29 0 200 266 203 269 2.91e-17 81.3
MsaG005360 MtrunA17_Chr1g0190731 53.425 73 34 0 194 266 184 256 9.13e-17 79.7
MsaG005360 MtrunA17_Chr7g0243041 56.364 55 24 0 210 264 33 87 2.14e-15 72.0
MsaG005360 MtrunA17_Chr1g0193321 47.945 73 31 1 201 266 453 525 5.58e-14 72.4
MsaG005360 MtrunA17_Chr1g0153241 38.824 85 50 1 196 280 80 162 6.79e-14 70.5
MsaG005360 MtrunA17_Chr3g0095391 41.772 79 36 2 199 272 300 373 4.92e-13 68.9
MsaG005360 MtrunA17_Chr7g0234761 47.368 76 39 1 192 266 306 381 1.42e-12 67.8
MsaG005360 MtrunA17_Chr5g0402031 39.706 68 41 0 212 279 114 181 3.37e-12 66.2
MsaG005360 MtrunA17_Chr8g0339091 38.614 101 52 2 192 291 280 371 1.76e-11 64.3
MsaG005360 MtrunA17_Chr1g0182791 38.889 72 44 0 195 266 309 380 5.11e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005360 AT2G14760.1 38.957 326 155 11 10 294 6 328 8.34e-50 168
MsaG005360 AT2G14760.3 37.463 339 155 12 10 294 6 341 4.08e-46 159
MsaG005360 AT4G33880.1 36.494 348 144 13 10 285 6 348 2.66e-44 154
MsaG005360 AT5G43175.1 71.134 97 28 0 189 285 118 214 3.09e-44 150
MsaG005360 AT1G27740.1 73.563 87 23 0 199 285 163 249 1.50e-41 144
MsaG005360 AT5G37800.1 50.000 98 44 2 174 271 177 269 6.69e-23 96.7
MsaG005360 AT1G66470.1 58.333 72 29 1 200 271 193 263 5.66e-22 94.0
MsaG005360 AT2G24260.2 51.852 81 39 0 197 277 29 109 1.82e-19 85.9
MsaG005360 AT2G24260.1 58.571 70 29 0 197 266 132 201 6.36e-19 86.3
MsaG005360 AT4G30980.1 57.143 70 30 0 197 266 124 193 1.31e-18 84.7
MsaG005360 AT4G30980.2 57.143 70 30 0 197 266 172 241 1.54e-18 85.1
MsaG005360 AT5G58010.1 44.898 98 52 1 171 266 65 162 2.61e-17 80.9
MsaG005360 AT3G21330.1 49.383 81 36 2 185 265 256 331 1.82e-16 79.3
MsaG005360 AT5G01305.1 51.613 62 30 0 201 262 35 96 7.12e-16 74.3
MsaG005360 AT4G00120.1 53.704 54 25 0 212 265 121 174 2.84e-15 73.2
MsaG005360 AT1G09530.3 43.939 66 37 0 210 275 344 409 2.84e-13 70.5
MsaG005360 AT1G09530.2 43.939 66 37 0 210 275 344 409 2.84e-13 70.5
MsaG005360 AT1G09530.5 43.939 66 37 0 210 275 344 409 2.84e-13 70.5
MsaG005360 AT1G09530.1 43.939 66 37 0 210 275 344 409 2.84e-13 70.5
MsaG005360 AT1G09530.4 43.939 66 37 0 210 275 344 409 2.84e-13 70.5
MsaG005360 AT1G09530.6 43.939 66 37 0 210 275 344 409 2.84e-13 70.5
MsaG005360 AT4G36930.1 37.838 74 46 0 210 283 198 271 1.34e-12 67.8
MsaG005360 AT5G50915.1 33.758 157 92 5 139 287 65 217 3.26e-12 66.2
MsaG005360 AT5G50915.2 33.758 157 92 5 139 287 65 217 3.26e-12 66.2
MsaG005360 AT5G50915.3 33.758 157 92 5 139 287 65 217 4.49e-12 65.5
MsaG005360 AT5G50915.4 33.758 157 92 5 139 287 65 217 4.49e-12 65.5
MsaG005360 AT3G23690.1 44.737 76 41 1 192 266 180 255 1.39e-11 64.7
MsaG005360 AT2G20180.7 47.368 57 30 0 210 266 214 270 1.85e-11 64.7
MsaG005360 AT2G20180.1 47.368 57 30 0 210 266 214 270 1.85e-11 64.7
MsaG005360 AT2G20180.5 47.368 57 30 0 210 266 214 270 1.85e-11 64.7
MsaG005360 AT5G48560.1 46.053 76 40 1 192 266 290 365 1.90e-11 64.7
MsaG005360 AT2G20180.4 47.368 57 30 0 210 266 285 341 2.01e-11 64.7
MsaG005360 AT2G20180.6 47.368 57 30 0 210 266 285 341 2.01e-11 64.7
MsaG005360 AT2G20180.2 47.368 57 30 0 210 266 285 341 2.01e-11 64.7
MsaG005360 AT2G20180.3 47.368 57 30 0 210 266 285 341 2.01e-11 64.7
MsaG005360 AT5G48560.2 46.053 76 40 1 192 266 290 365 2.15e-11 64.7

Find 64 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAATTTAGTCCACAATATT+TGG 0.147520 1:-80540557 MsaT005360.1:CDS
CAAATATTGTGGACTAAATT+TGG 0.154244 1:+80540558 None:intergenic
TTCTCTTCTCCAACTAAATT+AGG 0.240816 1:-80539269 MsaT005360.1:CDS
GCTTACAATGGAATAAATAT+TGG 0.247349 1:-80539305 MsaT005360.1:CDS
TGGAACCCATTCATGTGATT+TGG 0.268183 1:-80540626 MsaT005360.1:CDS
CCCATTCTTCAGAAATCAAT+TGG 0.299308 1:+80540758 None:intergenic
CTACGCAACTTAGGTGCTTC+AGG 0.318498 1:+80540025 None:intergenic
CAGAAAATATAAGGAATGTT+AGG 0.319597 1:-80540189 MsaT005360.1:CDS
CCCAATTGATTTCTGAAGAA+TGG 0.332468 1:-80540759 MsaT005360.1:CDS
TGTAGGTTTCAGAAAATATA+AGG 0.339371 1:-80540198 MsaT005360.1:intron
AAATCTACCTTAGTTCCATT+TGG 0.344620 1:+80539612 None:intergenic
TTTATTCCATTGTAAGCAAT+TGG 0.346999 1:+80539311 None:intergenic
GGAACCCATTCATGTGATTT+GGG 0.350013 1:-80540625 MsaT005360.1:CDS
GACTTCATGGCTCAGTTCCT+TGG 0.360528 1:-80540700 MsaT005360.1:CDS
TGGGTCATAGAACCAGATTT+TGG 0.360913 1:+80540160 None:intergenic
ATTCATCTTCCTAATTTAGT+TGG 0.363312 1:+80539260 None:intergenic
CCAATTGATTTCTGAAGAAT+GGG 0.373736 1:-80540758 MsaT005360.1:CDS
AATCTACCTTAGTTCCATTT+GGG 0.385383 1:+80539613 None:intergenic
GTTAGGAAATGTCCAAAATC+TGG 0.392760 1:-80540172 MsaT005360.1:CDS
GAAGAATGGGATTCTCTTAG+TGG 0.394320 1:-80540745 MsaT005360.1:CDS
TTGTTCCCAAATCACATGAA+TGG 0.399061 1:+80540620 None:intergenic
GCTCAGTTCCTTGGTTGTAA+TGG 0.403811 1:-80540691 MsaT005360.1:CDS
TCTTGTTGAAAACAATTTGC+GGG 0.406671 1:-80540473 MsaT005360.1:CDS
AGCCGAGGAAGCTGACTTCA+TGG 0.435912 1:-80540713 MsaT005360.1:CDS
TGTTCCCAAATCACATGAAT+GGG 0.437898 1:+80540621 None:intergenic
CGTTAGGCCCTCTTCATTGT+GGG 0.448797 1:+80540141 None:intergenic
TGTTGGAGCCATGCCACGTT+AGG 0.453646 1:+80540125 None:intergenic
TTGCAAACTCTTGTCCCAAA+TGG 0.455826 1:-80539627 MsaT005360.1:CDS
ACTAAATTTGGCATCTTCCA+TGG 0.457758 1:+80540570 None:intergenic
TCTTGTCCCAAATGGAACTA+AGG 0.473754 1:-80539619 MsaT005360.1:intron
GAATGGGTTCCATTACTTGA+AGG 0.488758 1:+80540637 None:intergenic
TATGAATGCATTAATCATGA+AGG 0.497393 1:-80540508 MsaT005360.1:CDS
ATGCTTTGTGCATCAGTGGC+AGG 0.503605 1:+80539980 None:intergenic
TTCTTGTTGAAAACAATTTG+CGG 0.503995 1:-80540474 MsaT005360.1:CDS
TGCATTAATCATGAAGGGCC+GGG 0.507871 1:-80540502 MsaT005360.1:CDS
AACCTGTGGAAAACAGTTGT+TGG 0.508340 1:+80540108 None:intergenic
ACGTTAGGCCCTCTTCATTG+TGG 0.513197 1:+80540140 None:intergenic
GAAGAGAAAGAATAAATGAA+AGG 0.522466 1:-80539659 MsaT005360.1:CDS
ATGCATTAATCATGAAGGGC+CGG 0.525603 1:-80540503 MsaT005360.1:CDS
CCATTCTTCAGAAATCAATT+GGG 0.537373 1:+80540759 None:intergenic
TTACTTGAAGGAAAATAAGA+TGG 0.542752 1:+80540649 None:intergenic
AGCCATGAAGTCAGCTTCCT+CGG 0.543459 1:+80540711 None:intergenic
AAGTTATGATCCAAATATTG+TGG 0.544900 1:+80540547 None:intergenic
ATGAATGCATTAATCATGAA+GGG 0.569600 1:-80540507 MsaT005360.1:CDS
TGAAGGAAAATAAGATGGCA+TGG 0.574425 1:+80540654 None:intergenic
AAACAATTTGCGGGATGAGA+GGG 0.575684 1:-80540464 MsaT005360.1:CDS
GAAGAGGGCCTAACGTGGCA+TGG 0.579675 1:-80540133 MsaT005360.1:CDS
AAAACAATTTGCGGGATGAG+AGG 0.581008 1:-80540465 MsaT005360.1:CDS
AGAAAATCGAAGGCAGGAAG+TGG 0.581938 1:-80540004 MsaT005360.1:CDS
TTGCGTAGAAAATCGAAGGC+AGG 0.583966 1:-80540010 MsaT005360.1:CDS
AATGATGATGACTTCAGAAG+AGG 0.597972 1:-80540434 MsaT005360.1:CDS
TATGCTCCAATTGCTTACAA+TGG 0.606083 1:-80539317 MsaT005360.1:CDS
GGATATTAGTACCATGCTTG+AGG 0.607564 1:-80539500 MsaT005360.1:CDS
TAGTTGGAGAAGAGAAGCTG+AGG 0.609048 1:+80539276 None:intergenic
TCTATGACCCACAATGAAGA+GGG 0.609432 1:-80540148 MsaT005360.1:CDS
TTCTATGACCCACAATGAAG+AGG 0.610453 1:-80540149 MsaT005360.1:CDS
TTGGACAGCTTCCTCAAGCA+TGG 0.619471 1:+80539489 None:intergenic
TAAGTTGCGTAGAAAATCGA+AGG 0.620676 1:-80540014 MsaT005360.1:CDS
AAGATTTAGGAGCTCACTAG+AGG 0.634903 1:-80540380 MsaT005360.1:intron
TAGTGTTTCCATTACAACCA+AGG 0.635141 1:+80540683 None:intergenic
ATAAATGCTTTGTGCATCAG+TGG 0.654510 1:+80539976 None:intergenic
AAAGGATTAGAGTTAACCTG+TGG 0.678724 1:+80540094 None:intergenic
TAGTGGACAGTACACAGCCG+AGG 0.694851 1:-80540728 MsaT005360.1:CDS
ACAATGAAGAGGGCCTAACG+TGG 0.694867 1:-80540138 MsaT005360.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 80539262 80540791 80539262 ID=MsaG005360
Chr1 mRNA 80539262 80540791 80539262 ID=MsaT005360.1;Parent=MsaG005360
Chr1 exon 80539262 80539366 80539262 ID=MsaT005360.1.exon5;Parent=MsaT005360.1
Chr1 CDS 80539262 80539366 80539262 ID=cds.MsaT005360.1;Parent=MsaT005360.1
Chr1 exon 80539459 80539524 80539459 ID=MsaT005360.1.exon4;Parent=MsaT005360.1
Chr1 CDS 80539459 80539524 80539459 ID=cds.MsaT005360.1;Parent=MsaT005360.1
Chr1 exon 80539620 80539685 80539620 ID=MsaT005360.1.exon3;Parent=MsaT005360.1
Chr1 CDS 80539620 80539685 80539620 ID=cds.MsaT005360.1;Parent=MsaT005360.1
Chr1 exon 80539970 80540215 80539970 ID=MsaT005360.1.exon2;Parent=MsaT005360.1
Chr1 CDS 80539970 80540215 80539970 ID=cds.MsaT005360.1;Parent=MsaT005360.1
Chr1 exon 80540381 80540791 80540381 ID=MsaT005360.1.exon1;Parent=MsaT005360.1
Chr1 CDS 80540381 80540791 80540381 ID=cds.MsaT005360.1;Parent=MsaT005360.1
Gene Sequence

>MsaT005360.1

ATGGAATCTGCCCAATTGATTTCTGAAGAATGGGATTCTCTTAGTGGACAGTACACAGCCGAGGAAGCTGACTTCATGGCTCAGTTCCTTGGTTGTAATGGAAACACTAGTTTTGCCATGCCATCTTATTTTCCTTCAAGTAATGGAACCCATTCATGTGATTTGGGAACAAATATTGATTCCTTGTCCATGTTTTTTTCCATGGAAGATGCCAAATTTAGTCCACAATATTTGGATCATAACTTAACCAAAAAGATAAACTATGAATGCATTAATCATGAAGGGCCGGGTTTAGTTCTTGTTGAAAACAATTTGCGGGATGAGAGGGAGCATGAAATGATGATGACTTCAGAAGAGGATAAAAGCAAAAACTTGGGAAACCCTGCAAAAAGATTTAGGAGCTCACTAGAGGTTTCAGAAAATATAAGGAATGTTAGGAAATGTCCAAAATCTGGTTCTATGACCCACAATGAAGAGGGCCTAACGTGGCATGGCTCCAACAACTGTTTTCCACAGGTTAACTCTAATCCTTTTCTGGAGCAAAATGGAGGAAAACCTTCAATTCTAAGCCTAAAAGAACCTGAAGCACCTAAGTTGCGTAGAAAATCGAAGGCAGGAAGTGGTCCTGCCACTGATGCACAAAGCATTTATGCAAGAAGGAGAAGAGAAAGAATAAATGAAAGGTTGAGAATCTTGCAAACTCTTGTCCCAAATGGAACTAAGGTGGATATTAGTACCATGCTTGAGGAAGCTGTCCAATATGTGAAGTTTTTGCAGCTTCAAATTAAGCTTTTGAGCTCTGAAGATATGTGGATGTATGCTCCAATTGCTTACAATGGAATAAATATTGGATTAGACCTCAGCTTCTCTTCTCCAACTAAATTAGGAAGATGA
Protein sequence

>MsaT005360.1

MESAQLISEEWDSLSGQYTAEEADFMAQFLGCNGNTSFAMPSYFPSSNGTHSCDLGTNIDSLSMFFSMEDAKFSPQYLDHNLTKKINYECINHEGPGLVLVENNLRDEREHEMMMTSEEDKSKNLGNPAKRFRSSLEVSENIRNVRKCPKSGSMTHNEEGLTWHGSNNCFPQVNSNPFLEQNGGKPSILSLKEPEAPKLRRKSKAGSGPATDAQSIYARRRRERINERLRILQTLVPNGTKVDISTMLEEAVQYVKFLQLQIKLLSSEDMWMYAPIAYNGINIGLDLSFSSPTKLGR*