AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG011822

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011822 MtrunA17_Chr3g0085241 96.532 173 4 1 11 181 76 248 5.07e-122 346
MsaG011822 MtrunA17_Chr3g0119901 79.641 167 27 1 11 177 44 203 5.28e-97 281
MsaG011822 MtrunA17_Chr8g0355091 45.946 148 70 1 11 148 44 191 4.96e-45 150
MsaG011822 MtrunA17_Chr1g0206701 45.946 148 70 1 11 148 44 191 2.13e-44 148
MsaG011822 MtrunA17_Chr1g0206721 45.946 148 70 1 11 148 44 191 3.85e-44 148
MsaG011822 MtrunA17_Chr3g0099421 48.062 129 67 0 11 139 69 197 8.01e-43 145
MsaG011822 MtrunA17_Chr1g0206991 46.565 131 70 0 11 141 44 174 1.31e-42 142
MsaG011822 MtrunA17_Chr2g0292791 44.595 148 72 1 11 148 44 191 2.60e-42 143
MsaG011822 MtrunA17_Chr1g0208561 48.571 140 70 1 11 148 44 183 7.25e-42 142
MsaG011822 MtrunA17_Chr1g0149391 43.919 148 73 1 11 148 44 191 2.71e-41 140
MsaG011822 MtrunA17_Chr3g0089141 47.143 140 72 1 11 148 44 183 1.64e-40 138
MsaG011822 MtrunA17_Chr1g0206691 41.216 148 77 1 11 148 27 174 7.64e-39 134
MsaG011822 MtrunA17_Chr2g0325971 47.143 140 72 1 11 148 44 183 2.93e-38 132
MsaG011822 MtrunA17_Chr1g0208581 45.000 140 75 1 11 148 44 183 7.69e-38 131
MsaG011822 MtrunA17_Chr5g0419601 39.865 148 79 1 11 148 44 191 1.33e-36 128
MsaG011822 MtrunA17_Chr1g0188671 42.568 148 75 1 11 148 82 229 4.65e-36 128
MsaG011822 MtrunA17_Chr2g0317481 40.541 148 78 1 11 148 44 191 1.86e-34 123
MsaG011822 MtrunA17_Chr2g0317451 40.541 148 78 1 11 148 44 191 1.86e-34 123
MsaG011822 MtrunA17_Chr1g0187361 43.243 148 74 2 11 148 44 191 2.01e-34 123
MsaG011822 MtrunA17_Chr2g0300441 40.000 135 81 0 11 145 44 178 2.89e-33 120
MsaG011822 MtrunA17_Chr3g0099411 43.750 144 60 3 11 148 44 172 7.00e-33 118
MsaG011822 MtrunA17_Chr5g0422421 37.838 148 82 1 11 148 44 191 2.55e-32 117
MsaG011822 MtrunA17_Chr7g0238991 41.481 135 79 0 11 145 56 190 9.79e-32 116
MsaG011822 MtrunA17_Chr5g0422941 38.514 148 81 1 11 148 44 191 5.02e-31 114
MsaG011822 MtrunA17_Chr2g0300421 52.941 85 40 0 11 95 44 128 4.10e-27 102
MsaG011822 MtrunA17_Chr3g0089151 51.163 86 42 0 11 96 44 129 3.46e-25 95.9
MsaG011822 MtrunA17_Chr3g0111931 48.148 81 42 0 11 91 25 105 8.51e-22 86.7
MsaG011822 MtrunA17_Chr2g0333981 31.298 131 86 1 11 141 47 173 1.18e-17 77.4
MsaG011822 MtrunA17_Chr4g0018951 31.405 121 71 2 11 131 47 155 5.66e-17 75.5
MsaG011822 MtrunA17_Chr4g0071601 30.496 141 84 3 11 141 47 183 2.18e-14 68.9
MsaG011822 MtrunA17_Chr8g0379021 31.148 122 74 2 11 129 47 161 9.80e-13 64.3
MsaG011822 MtrunA17_Chr1g0187351 53.659 41 19 0 11 51 27 67 2.08e-12 60.8
MsaG011822 MtrunA17_Chr4g0074101 33.333 129 61 4 12 125 38 156 2.87e-12 63.5
MsaG011822 MtrunA17_Chr8g0357771 34.711 121 60 3 12 132 38 139 3.02e-12 63.2
MsaG011822 MtrunA17_Chr1g0180591 35.345 116 61 3 12 126 38 140 5.14e-12 62.4
MsaG011822 MtrunA17_Chr1g0169761 31.304 115 67 2 12 126 38 140 6.25e-11 59.3
MsaG011822 MtrunA17_Chr8g0356071 36.082 97 54 3 12 105 38 129 7.43e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011822 AT5G60440.1 45.695 151 71 4 11 152 42 190 3.97e-34 124
MsaG011822 AT2G24840.1 38.418 177 88 5 11 180 98 260 1.11e-30 114
MsaG011822 AT4G36590.1 30.851 188 109 6 11 181 42 225 1.44e-16 76.6
MsaG011822 AT1G01530.1 29.319 191 118 5 11 186 42 230 4.93e-16 75.1

Find 59 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATTCCCTTGACAACAAATT+TGG 0.113523 3:+13196394 MsaT011822.1:CDS
GAATGAATTGGTCCAATTAA+AGG 0.214926 3:+13196261 MsaT011822.1:CDS
CCTCAATAGAACCCTTTAAT+TGG 0.231431 3:-13196273 None:intergenic
AAGCTAGGCAAAGGCAATTT+TGG 0.238341 3:+13196209 MsaT011822.1:CDS
TCGACAATCGACTCAACTTC+TGG 0.248625 3:-13196025 None:intergenic
TCCGATCTGGTGCTCATCTT+TGG 0.249154 3:+13197220 MsaT011822.1:CDS
GCCGATAAGGCATTCTCTTT+TGG 0.276540 3:+13195998 MsaT011822.1:CDS
TAATGCGTCTTCATCAAATA+TGG 0.281918 3:+13196348 MsaT011822.1:CDS
TAGATGATCGCGCACGAAAT+TGG 0.286830 3:-13197303 None:intergenic
CTTCCTAATGCCTATTATCT+TGG 0.300883 3:+13196436 MsaT011822.1:CDS
ATTCCGAAAACCAAGATAAT+AGG 0.322370 3:-13196446 None:intergenic
AATGAATTGGTCCAATTAAA+GGG 0.343261 3:+13196262 MsaT011822.1:CDS
CGCAATCCTCCACAAGAATC+TGG 0.345202 3:+13196061 MsaT011822.1:CDS
TTAATTGGACCAATTCATTC+AGG 0.349860 3:-13196258 None:intergenic
AACTCTTTCAAACCCTAGTT+GGG 0.359810 3:+13197263 MsaT011822.1:CDS
GACTCAACTTCTTAACCATT+TGG 0.367151 3:+13196144 MsaT011822.1:CDS
ATTCCCTTGACAACAAATTT+GGG 0.376420 3:+13196395 MsaT011822.1:CDS
ACCAAAAGAGAATGCCTTAT+CGG 0.378813 3:-13195999 None:intergenic
GGTTAAGAAGTTGAGTCAAT+TGG 0.389101 3:-13196138 None:intergenic
ATGTCAAAGAAGACTAGTTT+AGG 0.390216 3:+13195832 MsaT011822.1:CDS
AAACCAAGATAATAGGCATT+AGG 0.392169 3:-13196439 None:intergenic
CAACTCTTTCAAACCCTAGT+TGG 0.397096 3:+13197262 MsaT011822.1:CDS
TTCAGGCCAAGCTCATCAAT+AGG 0.410620 3:-13196241 None:intergenic
GTTTGAAAGAGTTGTTATAG+AGG 0.425653 3:-13197253 None:intergenic
TAGATTTGATAGTAAGTGTA+AGG 0.448043 3:+13197196 MsaT011822.1:CDS
AATCCCAAATTTGTTGTCAA+GGG 0.464932 3:-13196398 None:intergenic
TCAGGCCAAGCTCATCAATA+GGG 0.468826 3:-13196240 None:intergenic
TGAGCTTGGCCTGAATGAAT+TGG 0.470444 3:+13196249 MsaT011822.1:CDS
TAATCCCAAATTTGTTGTCA+AGG 0.470975 3:-13196399 None:intergenic
CCAATTAAAGGGTTCTATTG+AGG 0.473584 3:+13196273 MsaT011822.1:CDS
GATCTGGTGCTCATCTTTGG+AGG 0.481320 3:+13197223 MsaT011822.1:CDS
AGATAATAGGCATTAGGAAG+TGG 0.492343 3:-13196433 None:intergenic
AATGCGTCTTCATCAAATAT+GGG 0.517540 3:+13196349 MsaT011822.1:CDS
AAAGAGAATGCCTTATCGGC+AGG 0.518945 3:-13195995 None:intergenic
TTCTATGAGCCTCGACAAGT+TGG 0.535808 3:-13196090 None:intergenic
TTGAGCACATGAGGAAAGCT+AGG 0.536835 3:+13196194 MsaT011822.1:CDS
ATGATCGCGCACGAAATTGG+TGG 0.548923 3:-13197300 None:intergenic
ATTTGCTAACAAATGCATGA+TGG 0.552348 3:+13196318 MsaT011822.1:CDS
GATAATAGGCATTAGGAAGT+GGG 0.561482 3:-13196432 None:intergenic
GTAAGTGTAAGGTTCCGATC+TGG 0.562972 3:+13197207 MsaT011822.1:CDS
AGCTTGCAACAACCCCAACT+AGG 0.567776 3:-13197276 None:intergenic
TGGTGAGCACCAGATTCTTG+TGG 0.570103 3:-13196070 None:intergenic
GAGAGCCCTATTGATGAGCT+TGG 0.573894 3:+13196235 MsaT011822.1:CDS
TCATCAAATATGGGAGCAAG+TGG 0.574601 3:+13196358 MsaT011822.1:CDS
GCTTGCAACAACCCCAACTA+GGG 0.576235 3:-13197275 None:intergenic
ATAATAGGCATTAGGAAGTG+GGG 0.586123 3:-13196431 None:intergenic
GGGAAGAGATTGAGCACATG+AGG 0.589711 3:+13196185 MsaT011822.1:CDS
GAGGAGCTGAAGAAGAACAT+TGG 0.590030 3:+13196292 MsaT011822.1:CDS
TGAGCACCAGATTCTTGTGG+AGG 0.592210 3:-13196067 None:intergenic
TTGGAGATTGAAAAGAAACA+AGG 0.597369 3:+13196163 MsaT011822.1:CDS
TGGAGATTGAAAAGAAACAA+GGG 0.599308 3:+13196164 MsaT011822.1:CDS
ACATGAGGAAAGCTAGGCAA+AGG 0.608478 3:+13196200 MsaT011822.1:CDS
TGGTGCTCACCAACTTGTCG+AGG 0.609761 3:+13196081 MsaT011822.1:CDS
GGAGATTGAAAAGAAACAAG+GGG 0.615656 3:+13196165 MsaT011822.1:CDS
TCCAAAGATGAGCACCAGAT+CGG 0.625330 3:-13197221 None:intergenic
TAAACTAGTCTTCTTTGACA+TGG 0.648494 3:-13195830 None:intergenic
TAATAGGCATTAGGAAGTGG+GGG 0.649700 3:-13196430 None:intergenic
ACTCTTTCAAACCCTAGTTG+GGG 0.653577 3:+13197264 MsaT011822.1:CDS
CTAGTGAACTTTGCACTCTG+TGG 0.666075 3:+13195944 MsaT011822.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 13195832 13197326 13195832 ID=MsaG011822
Chr3 mRNA 13195832 13197326 13195832 ID=MsaT011822.1;Parent=MsaG011822
Chr3 exon 13195832 13195853 13195832 ID=MsaT011822.1.exon1;Parent=MsaT011822.1
Chr3 CDS 13195832 13195853 13195832 ID=cds.MsaT011822.1;Parent=MsaT011822.1
Chr3 exon 13195948 13196457 13195948 ID=MsaT011822.1.exon2;Parent=MsaT011822.1
Chr3 CDS 13195948 13196457 13195948 ID=cds.MsaT011822.1;Parent=MsaT011822.1
Chr3 exon 13197172 13197326 13197172 ID=MsaT011822.1.exon3;Parent=MsaT011822.1
Chr3 CDS 13197172 13197326 13197172 ID=cds.MsaT011822.1;Parent=MsaT011822.1
Gene Sequence

>MsaT011822.1

ATGTCAAAGAAGACTAGTTTAGTGAACTTTGCACTCTGTGGTGTTGAGATTGCAATCGTTGTTTTCTCTCCTGCCGATAAGGCATTCTCTTTTGGTCATCCAGAAGTTGAGTCGATTGTCGATCGTTATTTGACTCGCAATCCTCCACAAGAATCTGGTGCTCACCAACTTGTCGAGGCTCATAGAAATGCTAATGTGCGCGATCTCAACATCCAATTGACTCAACTTCTTAACCATTTGGAGATTGAAAAGAAACAAGGGGAAGAGATTGAGCACATGAGGAAAGCTAGGCAAAGGCAATTTTGGTGGGAGAGCCCTATTGATGAGCTTGGCCTGAATGAATTGGTCCAATTAAAGGGTTCTATTGAGGAGCTGAAGAAGAACATTGGAAAATTTGCTAACAAATGCATGATGGAACAGTCTAATGCGTCTTCATCAAATATGGGAGCAAGTGGATTTGTACGTTATGATTCCCTTGACAACAAATTTGGGATTAATATTGCTCCCCCACTTCCTAATGCCTATTATCTTGTGAATGGTTATGCTGTAATAAAGCTAGATTTGATAGTAAGTGTAAGGTTCCGATCTGGTGCTCATCTTTGGAGGTATCTCTCCTCTATAACAACTCTTTCAAACCCTAGTTGGGGTTGTTGCAAGCTGCCACCAATTTCGTGCGCGATCATCTAA
Protein sequence

>MsaT011822.1

MSKKTSLVNFALCGVEIAIVVFSPADKAFSFGHPEVESIVDRYLTRNPPQESGAHQLVEAHRNANVRDLNIQLTQLLNHLEIEKKQGEEIEHMRKARQRQFWWESPIDELGLNELVQLKGSIEELKKNIGKFANKCMMEQSNASSSNMGASGFVRYDSLDNKFGINIAPPLPNAYYLVNGYAVIKLDLIVSVRFRSGAHLWRYLSSITTLSNPSWGCCKLPPISCAII*