AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG011429

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011429 MtrunA17_Chr3g0085241 95.370 216 9 1 1 215 34 249 3.40e-153 424
MsaG011429 MtrunA17_Chr3g0119901 79.245 212 36 2 1 211 2 206 1.95e-123 348
MsaG011429 MtrunA17_Chr8g0355091 47.619 189 88 2 2 179 3 191 6.71e-60 187
MsaG011429 MtrunA17_Chr1g0206991 49.419 172 86 1 2 172 3 174 8.04e-59 183
MsaG011429 MtrunA17_Chr1g0206701 47.619 189 88 2 2 179 3 191 9.73e-59 184
MsaG011429 MtrunA17_Chr1g0206721 47.619 189 88 2 2 179 3 191 2.42e-58 184
MsaG011429 MtrunA17_Chr3g0099421 50.588 170 83 1 2 170 28 197 1.20e-57 182
MsaG011429 MtrunA17_Chr2g0292791 47.090 189 89 2 2 179 3 191 4.65e-57 180
MsaG011429 MtrunA17_Chr1g0208561 49.724 181 88 2 2 179 3 183 3.12e-56 178
MsaG011429 MtrunA17_Chr1g0149391 46.032 189 91 2 2 179 3 191 1.25e-55 177
MsaG011429 MtrunA17_Chr3g0089141 48.619 181 90 2 2 179 3 183 8.65e-55 174
MsaG011429 MtrunA17_Chr2g0325971 49.171 181 89 2 2 179 3 183 1.15e-53 171
MsaG011429 MtrunA17_Chr1g0208581 48.000 175 88 2 8 179 9 183 3.00e-52 168
MsaG011429 MtrunA17_Chr5g0419601 43.386 189 96 2 2 179 3 191 3.55e-52 168
MsaG011429 MtrunA17_Chr1g0188671 45.503 189 92 2 2 179 41 229 1.97e-50 164
MsaG011429 MtrunA17_Chr2g0317451 43.316 187 95 2 4 179 5 191 1.03e-48 159
MsaG011429 MtrunA17_Chr2g0317481 43.316 187 95 2 4 179 5 191 1.16e-48 159
MsaG011429 MtrunA17_Chr1g0187361 45.503 189 92 3 2 179 3 191 1.57e-48 159
MsaG011429 MtrunA17_Chr1g0206691 43.860 171 85 2 20 179 4 174 8.95e-48 156
MsaG011429 MtrunA17_Chr3g0099411 45.946 185 78 4 2 179 3 172 6.90e-47 154
MsaG011429 MtrunA17_Chr5g0422421 40.741 189 101 2 2 179 3 191 1.05e-45 151
MsaG011429 MtrunA17_Chr2g0300441 40.659 182 107 1 1 181 2 183 1.18e-45 151
MsaG011429 MtrunA17_Chr5g0422941 41.799 189 99 2 2 179 3 191 3.10e-45 150
MsaG011429 MtrunA17_Chr2g0300421 51.587 126 60 1 2 126 3 128 1.72e-40 136
MsaG011429 MtrunA17_Chr7g0238991 41.935 155 89 1 23 176 36 190 4.98e-38 132
MsaG011429 MtrunA17_Chr3g0089151 50.413 121 59 1 8 127 9 129 6.05e-37 125
MsaG011429 MtrunA17_Chr2g0333981 35.673 171 105 2 3 172 7 173 9.28e-31 111
MsaG011429 MtrunA17_Chr3g0111931 50.962 104 50 1 20 122 2 105 2.77e-29 105
MsaG011429 MtrunA17_Chr8g0379021 35.802 162 93 3 3 160 7 161 2.68e-26 99.8
MsaG011429 MtrunA17_Chr4g0018951 36.646 161 89 3 3 162 7 155 1.28e-24 95.1
MsaG011429 MtrunA17_Chr4g0071601 34.807 181 103 4 3 172 7 183 5.33e-23 91.7
MsaG011429 MtrunA17_Chr1g0187351 56.250 64 27 1 20 82 4 67 8.32e-21 82.4
MsaG011429 MtrunA17_Chr1g0175601 34.839 155 88 3 7 160 1 143 1.56e-20 84.7
MsaG011429 MtrunA17_Chr1g0180591 35.948 153 83 4 7 157 1 140 3.86e-20 84.0
MsaG011429 MtrunA17_Chr4g0074101 34.783 184 89 7 7 169 1 174 6.02e-20 84.0
MsaG011429 MtrunA17_Chr8g0357771 35.443 158 82 4 7 163 1 139 3.87e-19 81.3
MsaG011429 MtrunA17_Chr1g0169761 33.553 152 88 3 7 157 1 140 1.71e-18 79.3
MsaG011429 MtrunA17_Chr8g0356071 37.313 134 75 4 7 136 1 129 2.53e-18 78.6
MsaG011429 MtrunA17_Chr1g0175611 37.719 114 68 2 7 119 1 112 2.55e-18 79.0
MsaG011429 MtrunA17_Chr4g0052061 34.194 155 84 5 7 160 1 138 3.67e-17 75.5
MsaG011429 MtrunA17_Chr8g0376821 37.719 114 68 2 7 119 1 112 1.01e-16 74.7
MsaG011429 MtrunA17_Chr4g0052081 31.013 158 91 4 7 160 1 144 2.02e-15 71.2
MsaG011429 MtrunA17_Chr3g0111841 49.153 59 29 1 14 71 2 60 7.87e-15 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011429 AT5G60440.1 47.541 183 90 4 4 182 3 183 9.99e-48 159
MsaG011429 AT2G24840.1 44.828 203 91 6 6 204 61 246 4.43e-47 156
MsaG011429 AT4G36590.1 37.368 190 101 6 4 184 3 183 1.12e-29 110
MsaG011429 AT1G01530.1 33.953 215 127 6 1 203 1 212 1.40e-27 105
MsaG011429 AT1G65360.1 36.816 201 98 7 1 185 1 188 8.08e-25 97.8
MsaG011429 AT2G34440.1 33.136 169 105 5 7 169 1 167 2.05e-19 82.0
MsaG011429 AT1G28460.1 30.435 138 93 2 1 135 1 138 8.04e-18 78.2
MsaG011429 AT3G66656.1 35.606 132 79 3 7 132 1 132 1.57e-16 74.7
MsaG011429 AT3G04100.1 27.215 158 110 3 8 160 14 171 1.10e-15 73.2
MsaG011429 AT1G28450.1 30.405 148 92 4 1 139 1 146 3.16e-13 65.9
MsaG011429 AT1G72350.1 29.221 154 75 5 8 160 43 163 4.53e-13 66.2
MsaG011429 AT1G29962.1 28.082 146 98 3 1 139 1 146 1.35e-11 61.6
MsaG011429 AT4G24540.1 29.518 166 99 5 7 171 1 149 1.96e-11 61.6
MsaG011429 AT1G17310.1 31.410 156 70 5 8 162 48 167 2.31e-11 61.2
MsaG011429 AT1G17310.2 31.410 156 70 5 8 162 59 178 2.53e-11 61.6

Find 47 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:-3144286 MsaT011429.1:CDS
GAATGAATTGGTCCAATTAA+AGG 0.214926 3:-3144419 MsaT011429.1:CDS
CCTCAATAGAACCCTTTAAT+TGG 0.231431 3:+3144407 None:intergenic
AAGCTAGGCAAAGGCAATTT+TGG 0.238341 3:-3144471 MsaT011429.1:CDS
GCTGATAAGGCATTCTCTTT+TGG 0.255568 3:-3144682 MsaT011429.1:CDS
TTGAGAAAGTAACTTGTAAA+TGG 0.273210 3:+3144785 None:intergenic
TAATGCGTCTTCATCAAATA+TGG 0.281918 3:-3144332 MsaT011429.1:CDS
CTTCCTAATGCCTATTATCT+TGG 0.300883 3:-3144244 MsaT011429.1:CDS
TCGACGATTGACTCAACTTC+TGG 0.321408 3:+3144655 None:intergenic
ATTCCGAAAACCAAGATAAT+AGG 0.322370 3:+3144234 None:intergenic
AATGAATTGGTCCAATTAAA+GGG 0.343261 3:-3144418 MsaT011429.1:CDS
CGCAATCCTCCACAAGAATC+TGG 0.345202 3:-3144619 MsaT011429.1:CDS
TTAATTGGACCAATTCATTC+AGG 0.349860 3:+3144422 None:intergenic
GACTCAACTTCTTAACCATT+TGG 0.367151 3:-3144536 MsaT011429.1:CDS
ATTCCCTTGACAACAAATTT+GGG 0.376420 3:-3144285 MsaT011429.1:CDS
GGTTAAGAAGTTGAGTCAAT+TGG 0.389101 3:+3144542 None:intergenic
ATGTCAAAGAAGACTAGTTT+AGG 0.390216 3:-3144847 MsaT011429.1:CDS
AAACCAAGATAATAGGCATT+AGG 0.392169 3:+3144241 None:intergenic
TTCAGGCCAAGCTCATCAAT+AGG 0.410620 3:+3144439 None:intergenic
AATCCCAAATTTGTTGTCAA+GGG 0.464932 3:+3144282 None:intergenic
TCAGGCCAAGCTCATCAATA+GGG 0.468826 3:+3144440 None:intergenic
TGAGCTTGGCCTGAATGAAT+TGG 0.470444 3:-3144431 MsaT011429.1:CDS
TAATCCCAAATTTGTTGTCA+AGG 0.470975 3:+3144281 None:intergenic
CCAATTAAAGGGTTCTATTG+AGG 0.473584 3:-3144407 MsaT011429.1:CDS
AGATAATAGGCATTAGGAAG+TGG 0.492343 3:+3144247 None:intergenic
AAAGAGAATGCCTTATCAGC+AGG 0.516649 3:+3144685 None:intergenic
AATGCGTCTTCATCAAATAT+GGG 0.517540 3:-3144331 MsaT011429.1:CDS
ATCTGGTGCTCACCAACTTG+TGG 0.521102 3:-3144602 MsaT011429.1:CDS
TTCTATGAGCCTCCACAAGT+TGG 0.531501 3:+3144590 None:intergenic
TTGAGCACATGAGGAAAGCT+AGG 0.536835 3:-3144486 MsaT011429.1:CDS
ATTTGCTAACAAATGCATGA+TGG 0.552348 3:-3144362 MsaT011429.1:CDS
GATAATAGGCATTAGGAAGT+GGG 0.561482 3:+3144248 None:intergenic
TGGTGAGCACCAGATTCTTG+TGG 0.570103 3:+3144610 None:intergenic
GAGAGCCCTATTGATGAGCT+TGG 0.573894 3:-3144445 MsaT011429.1:CDS
TCATCAAATATGGGAGCAAG+TGG 0.574601 3:-3144322 MsaT011429.1:CDS
ATAATAGGCATTAGGAAGTG+GGG 0.586123 3:+3144249 None:intergenic
GGGAAGAGATTGAGCACATG+AGG 0.589711 3:-3144495 MsaT011429.1:CDS
GAGGAGCTGAAGAAGAACAT+TGG 0.590030 3:-3144388 MsaT011429.1:CDS
TGAGCACCAGATTCTTGTGG+AGG 0.592210 3:+3144613 None:intergenic
TTGGAGATTGAAAAGAAACA+AGG 0.597369 3:-3144517 MsaT011429.1:CDS
TGGAGATTGAAAAGAAACAA+GGG 0.599308 3:-3144516 MsaT011429.1:CDS
TGGTGCTCACCAACTTGTGG+AGG 0.604131 3:-3144599 MsaT011429.1:CDS
ACATGAGGAAAGCTAGGCAA+AGG 0.608478 3:-3144480 MsaT011429.1:CDS
GGAGATTGAAAAGAAACAAG+GGG 0.615656 3:-3144515 MsaT011429.1:CDS
TAAACTAGTCTTCTTTGACA+TGG 0.648494 3:+3144849 None:intergenic
TAATAGGCATTAGGAAGTGG+GGG 0.649700 3:+3144250 None:intergenic
AGTGAACTTTGCACTCTGTG+TGG 0.662014 3:-3144736 MsaT011429.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 3144222 3144869 3144222 ID=MsaG011429
Chr3 mRNA 3144222 3144869 3144222 ID=MsaT011429.1;Parent=MsaG011429
Chr3 exon 3144222 3144869 3144222 ID=MsaT011429.1.exon1;Parent=MsaT011429.1
Chr3 CDS 3144222 3144869 3144222 ID=cds.MsaT011429.1;Parent=MsaT011429.1
Gene Sequence

>MsaT011429.1

ATGTCAAAGAAGACTAGTTTAGGTAGACAAAAAATCCCTATTGAAAAAATACCCAAAAAAAGCCATTTACAAGTTACTTTCTCAAACGCTGCTCGTGACTATTCAAAAGCTAGTGAACTTTGCACTCTGTGTGGTGTTGAGATTGCAATCGTTGTTTTCTCTCCTGCTGATAAGGCATTCTCTTTTGGTCATCCAGAAGTTGAGTCAATCGTCGATCGTTATTTGACTCGCAATCCTCCACAAGAATCTGGTGCTCACCAACTTGTGGAGGCTCATAGAAATGCTAATGTGCGCGATCTCAACATCCAATTGACTCAACTTCTTAACCATTTGGAGATTGAAAAGAAACAAGGGGAAGAGATTGAGCACATGAGGAAAGCTAGGCAAAGGCAATTTTGGTGGGAGAGCCCTATTGATGAGCTTGGCCTGAATGAATTGGTCCAATTAAAGGGTTCTATTGAGGAGCTGAAGAAGAACATTGGAAAATTTGCTAACAAATGCATGATGGAACAGTCTAATGCGTCTTCATCAAATATGGGAGCAAGTGGATTTGTACGTTATGATTCCCTTGACAACAAATTTGGGATTAATATTGCTCCCCCACTTCCTAATGCCTATTATCTTGGTTTTCGGAATGGGTATCTTTGA
Protein sequence

>MsaT011429.1

MSKKTSLGRQKIPIEKIPKKSHLQVTFSNAARDYSKASELCTLCGVEIAIVVFSPADKAFSFGHPEVESIVDRYLTRNPPQESGAHQLVEAHRNANVRDLNIQLTQLLNHLEIEKKQGEEIEHMRKARQRQFWWESPIDELGLNELVQLKGSIEELKKNIGKFANKCMMEQSNASSSNMGASGFVRYDSLDNKFGINIAPPLPNAYYLGFRNGYL*