AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG043364

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043364 MtrunA17_Chr8g0362751 90.378 291 23 3 1 291 1 286 1.45e-178 493
MsaG043364 MtrunA17_Chr5g0415941 54.354 333 101 10 1 291 1 324 5.16e-106 311
MsaG043364 MtrunA17_Chr4g0060031 40.964 332 137 9 10 291 15 337 5.84e-54 178
MsaG043364 MtrunA17_Chr6g0450991 48.684 152 73 1 43 189 12 163 5.08e-39 138
MsaG043364 MtrunA17_Chr8g0381741 61.261 111 42 1 85 194 45 155 3.48e-38 137
MsaG043364 MtrunA17_Chr3g0123691 57.018 114 49 0 89 202 56 169 2.05e-36 132
MsaG043364 MtrunA17_Chr3g0119291 52.985 134 57 2 64 196 34 162 3.43e-35 127
MsaG043364 MtrunA17_Chr6g0453021 60.909 110 38 2 80 188 86 191 7.48e-34 124
MsaG043364 MtrunA17_Chr5g0416391 63.542 96 35 0 93 188 77 172 1.24e-33 124
MsaG043364 MtrunA17_Chr8g0362151 62.500 96 36 0 93 188 77 172 1.62e-33 124
MsaG043364 MtrunA17_Chr7g0217111 56.250 96 42 0 93 188 80 175 9.66e-26 102
MsaG043364 MtrunA17_Chr8g0346251 41.221 131 64 2 97 227 45 162 1.92e-24 99.0
MsaG043364 MtrunA17_Chr1g0179581 59.722 72 29 0 93 164 28 99 1.73e-23 92.4
MsaG043364 MtrunA17_Chr7g0265521 50.515 97 41 1 93 189 63 152 1.93e-23 95.9
MsaG043364 MtrunA17_Chr3g0127511 50.549 91 45 0 95 185 40 130 2.27e-23 95.9
MsaG043364 MtrunA17_Chr5g0403701 48.454 97 50 0 93 189 53 149 6.72e-20 85.9
MsaG043364 MtrunA17_Chr5g0403691 40.441 136 74 1 93 221 53 188 3.75e-19 84.0
MsaG043364 MtrunA17_Chr4g0071411 46.154 91 42 1 96 186 91 174 1.51e-17 79.7
MsaG043364 MtrunA17_Chr4g0055851 44.681 94 45 1 93 186 120 206 2.19e-16 77.4
MsaG043364 MtrunA17_Chr7g0258831 36.923 130 67 3 57 186 132 246 9.12e-16 75.9
MsaG043364 MtrunA17_Chr5g0400781 43.617 94 46 1 93 186 123 209 1.87e-15 74.7
MsaG043364 MtrunA17_Chr1g0151971 44.792 96 46 1 91 186 128 216 2.03e-15 74.7
MsaG043364 MtrunA17_Chr4g0044091 41.667 96 49 1 91 186 63 151 3.77e-15 72.4
MsaG043364 MtrunA17_Chr2g0308611 37.719 114 64 1 73 186 180 286 5.80e-15 73.9
MsaG043364 MtrunA17_Chr5g0399491 44.681 94 45 1 93 186 136 222 7.08e-15 73.6
MsaG043364 MtrunA17_Chr1g0175651 40.517 116 55 3 71 186 139 240 8.60e-15 73.2
MsaG043364 MtrunA17_Chr4g0054421 44.681 94 45 1 93 186 127 213 9.61e-15 72.8
MsaG043364 MtrunA17_Chr8g0335131 43.617 94 46 1 93 186 146 232 3.67e-14 71.6
MsaG043364 MtrunA17_Chr3g0135331 48.611 72 37 0 93 164 145 216 5.50e-13 68.2
MsaG043364 MtrunA17_Chr2g0299031 39.362 94 50 1 93 186 82 168 8.80e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043364 AT3G01470.1 61.682 107 41 0 91 197 66 172 1.06e-40 142
MsaG043364 AT4G40060.1 47.403 154 69 4 82 226 45 195 5.93e-38 136
MsaG043364 AT2G22430.1 63.918 97 35 0 93 189 62 158 8.35e-36 130
MsaG043364 AT5G65310.2 64.948 97 34 0 93 189 54 150 1.49e-35 129
MsaG043364 AT5G65310.1 64.948 97 34 0 93 189 72 168 2.22e-35 129
MsaG043364 AT1G69780.1 56.250 112 45 1 77 188 73 180 1.64e-33 124
MsaG043364 AT5G15150.1 45.509 167 72 5 39 188 46 210 1.83e-33 124
MsaG043364 AT1G27045.1 42.073 164 76 1 39 202 33 177 6.15e-31 115
MsaG043364 AT1G27045.5 50.000 122 57 1 85 202 13 134 6.17e-31 114
MsaG043364 AT1G27045.3 50.000 122 57 1 85 202 13 134 6.17e-31 114
MsaG043364 AT1G27045.2 50.000 122 57 1 85 202 5 126 8.27e-31 114
MsaG043364 AT3G01220.1 54.545 110 46 1 93 202 87 192 2.61e-30 115
MsaG043364 AT1G27045.4 43.624 149 65 1 39 187 33 162 1.50e-28 110
MsaG043364 AT1G26960.1 42.857 161 73 3 93 235 71 230 4.27e-28 109
MsaG043364 AT2G46680.1 51.020 98 48 0 89 186 28 125 2.02e-25 102
MsaG043364 AT2G46680.2 53.333 90 42 0 89 178 28 117 1.09e-24 100
MsaG043364 AT3G61890.1 49.505 101 50 1 96 195 33 133 1.14e-24 99.8
MsaG043364 AT4G36740.2 51.429 105 48 1 93 194 56 160 8.12e-23 94.4
MsaG043364 AT4G36740.1 51.429 105 48 1 93 194 55 159 9.00e-23 94.0
MsaG043364 AT5G03790.1 51.724 87 42 0 93 179 77 163 1.77e-21 90.9
MsaG043364 AT5G03790.2 56.944 72 31 0 93 164 77 148 7.45e-21 88.2
MsaG043364 AT2G18550.1 47.619 105 52 1 93 194 61 165 1.23e-20 88.6
MsaG043364 AT5G66700.1 48.889 90 46 0 93 182 71 160 2.78e-19 84.7
MsaG043364 AT2G36610.1 43.564 101 49 1 90 182 68 168 3.41e-19 83.6
MsaG043364 AT5G53980.1 37.097 124 78 0 93 216 11 134 2.93e-17 77.8
MsaG043364 AT5G06710.1 41.964 112 53 2 75 186 177 276 3.08e-17 80.9
MsaG043364 AT4G37790.1 41.441 111 54 2 76 186 113 212 1.12e-16 78.6
MsaG043364 AT4G17460.1 38.655 119 61 3 75 192 121 228 9.32e-15 73.2
MsaG043364 AT2G44910.1 43.617 94 46 1 93 186 163 249 2.20e-14 72.8
MsaG043364 AT2G01430.1 38.462 117 57 3 75 186 119 225 3.03e-14 71.6
MsaG043364 AT2G22800.1 42.553 94 47 1 93 186 113 199 5.41e-14 70.9
MsaG043364 AT5G47370.1 42.553 94 47 1 93 186 130 216 8.93e-14 70.5
MsaG043364 AT3G60390.1 42.553 94 47 1 93 186 162 248 9.13e-14 70.9
MsaG043364 AT4G16780.1 38.739 111 54 2 76 186 119 215 1.62e-13 69.7
MsaG043364 AT5G06710.4 47.887 71 32 1 75 145 177 242 9.44e-13 67.4
MsaG043364 AT1G70920.1 37.931 116 60 3 93 201 69 179 6.69e-11 61.2
MsaG043364 AT2G01430.2 50.909 55 27 0 91 145 137 191 6.75e-11 61.2
MsaG043364 AT1G70920.2 36.441 118 59 2 93 201 39 149 8.69e-11 60.1

Find 37 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAAGTTGAACTTTCCTTTC+AGG 0.151314 8:-43959716 None:intergenic
GGATTCAGGTTCCAATTCTA+TGG 0.265364 8:+43959496 MsaT043364.1:intron
CATCCAACATCTTCAACTTT+TGG 0.274660 8:-43961061 None:intergenic
ATGGAACATTCAAGATGTTT+TGG 0.287450 8:-43961033 None:intergenic
CACAACATTAACCATAGAAT+TGG 0.312837 8:-43959507 None:intergenic
AGCCAAGACAAGTGGCTATA+TGG 0.377381 8:+43959756 MsaT043364.1:CDS
TGAGCTTGTCGAGTCTCTCT+TGG 0.402134 8:+43958763 MsaT043364.1:CDS
TGTGAAAATTCTGACTGGTT+TGG 0.408830 8:-43960986 None:intergenic
CTGGTTTGGTTCCACAACTA+AGG 0.419648 8:-43960972 None:intergenic
ATTGGTCCCAAGAGAAGAAC+AGG 0.425883 8:+43960850 MsaT043364.1:CDS
AAACAACAAATTAAAAGAAC+AGG 0.438846 8:+43959889 MsaT043364.1:CDS
ATGGTTAATGTTGTGAATGT+TGG 0.445460 8:+43959515 MsaT043364.1:CDS
TAATTCTCTCAAGAAAAGAT+TGG 0.468281 8:+43960832 MsaT043364.1:CDS
ATACCAAAAGTTGAAGATGT+TGG 0.475759 8:+43961058 MsaT043364.1:CDS
AAACAGCTAGAAAAGGACTA+TGG 0.477186 8:+43959809 MsaT043364.1:CDS
CATCTTGTGAAAATTCTGAC+TGG 0.483181 8:-43960991 None:intergenic
AATGAATCACCTTGACAAGA+AGG 0.485040 8:-43958806 None:intergenic
GGTTTCCATCAGTGTTCTGT+AGG 0.486402 8:-43960946 None:intergenic
AACCATATAGCCACTTGTCT+TGG 0.489367 8:-43959758 None:intergenic
TTCTTTCTCAAAAGCTTGAA+AGG 0.511197 8:-43959564 None:intergenic
CAAAACCAAACAGCTAGAAA+AGG 0.514734 8:+43959802 MsaT043364.1:CDS
TTGGTTCCACAACTAAGGAT+TGG 0.517249 8:-43960967 None:intergenic
AGCTCAAAACCTTCTTGTCA+AGG 0.547348 8:+43958797 MsaT043364.1:CDS
GCTGTGAAATGATATCATCA+AGG 0.555248 8:-43960895 None:intergenic
AAAACAAGCTTGAACCTGAA+AGG 0.570250 8:+43959702 MsaT043364.1:CDS
CTGTGAAATGATATCATCAA+GGG 0.573406 8:-43960894 None:intergenic
GAGGTTTGCTTGCACCAACC+CGG 0.579797 8:+43959620 MsaT043364.1:CDS
GAATTCCTACAGAACACTGA+TGG 0.586974 8:+43960941 MsaT043364.1:CDS
TTACGATGATGAGAACTATG+AGG 0.588316 8:+43959601 MsaT043364.1:CDS
TGTTGTGAATGTTGGTGACA+TGG 0.591929 8:+43959523 MsaT043364.1:CDS
GTTGTGAATGTTGGTGACAT+GGG 0.593413 8:+43959524 MsaT043364.1:CDS
TAGCTTGCAGCCAAGACAAG+TGG 0.597298 8:+43959748 MsaT043364.1:CDS
TTCACAGCATAGAAGTGATG+TGG 0.600185 8:+43960910 MsaT043364.1:CDS
TGGAAACCAATCCTTAGTTG+TGG 0.606983 8:+43960961 MsaT043364.1:CDS
AAGGAAAGTTCAACTTGCAA+AGG 0.607696 8:+43959721 MsaT043364.1:CDS
TCGACAAGCTCAGAAGAGCA+TGG 0.620607 8:-43958752 None:intergenic
AAGCTACAGCAACTTTCATG+TGG 0.654541 8:-43961094 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 43958683 43961162 43958683 ID=MsaG043364
Chr8 mRNA 43958683 43961162 43958683 ID=MsaT043364.1;Parent=MsaG043364
Chr8 exon 43958683 43958818 43958683 ID=MsaT043364.1.exon1;Parent=MsaT043364.1
Chr8 CDS 43958683 43958818 43958683 ID=cds.MsaT043364.1;Parent=MsaT043364.1
Chr8 exon 43959504 43959910 43959504 ID=MsaT043364.1.exon2;Parent=MsaT043364.1
Chr8 CDS 43959504 43959910 43959504 ID=cds.MsaT043364.1;Parent=MsaT043364.1
Chr8 exon 43960830 43961162 43960830 ID=MsaT043364.1.exon3;Parent=MsaT043364.1
Chr8 CDS 43960830 43961162 43960830 ID=cds.MsaT043364.1;Parent=MsaT043364.1
Gene Sequence

>MsaT043364.1

ATGGAAGATGAGAAGCTTTATGAGAAATCAAGTTCAAGCATGACTATTCTACTTCAAAGTCAAAAGCTTCCATGCTCTTCTGAGCTTGTCGAGTCTCTCTTGGTTCACAATCAAAGCTCAAAACCTTCTTGTCAAGGTTCCAATTCTATGGTTAATGTTGTGAATGTTGGTGACATGGGAGTCAAAAGTAGTTCTACCTTTCAAGCTTTTGAGAAAGAAGAGAACAATGATGATTACGATGATGAGAACTATGAGGTTTGCTTGCACCAACCCGGTAAAAAAAGGAGGCTCACAAACAAACAAGTTCATTTTCTTGAAAGCAATTTTGAGATAGAAAACAAGCTTGAACCTGAAAGGAAAGTTCAACTTGCAAAGGAGCTTAGCTTGCAGCCAAGACAAGTGGCTATATGGTTCCAAAATAAAAGAGCAAGATTCAAAACCAAACAGCTAGAAAAGGACTATGGTTCATTGAAAGCTAGCTATGATATGCTCAAAGTTGACTATGACAATCTCATTCAAGAAAACAACAAATTAAAAGAACAGGTTAATTCTCTCAAGAAAAGATTGGTCCCAAGAGAAGAACAGGAAAATAATTTAGTTGACAAGTCCCTTGATGATATCATTTCACAGCATAGAAGTGATGTGGTTGATTCAGAATTCCTACAGAACACTGATGGAAACCAATCCTTAGTTGTGGAACCAAACCAGTCAGAATTTTCACAAGATGAAGAAGACATCATCCTAAGCCAAAACATCTTGAATGTTCCATTCATACCAAAAGTTGAAGATGTTGGATGTTATGATGAACCACATGAAAGTTGCTGTAGCTTTCAGTTCCCATTTGAAGATCAAACTTTTTACTTTTGGTCTTATTGA
Protein sequence

>MsaT043364.1

MEDEKLYEKSSSSMTILLQSQKLPCSSELVESLLVHNQSSKPSCQGSNSMVNVVNVGDMGVKSSSTFQAFEKEENNDDYDDENYEVCLHQPGKKRRLTNKQVHFLESNFEIENKLEPERKVQLAKELSLQPRQVAIWFQNKRARFKTKQLEKDYGSLKASYDMLKVDYDNLIQENNKLKEQVNSLKKRLVPREEQENNLVDKSLDDIISQHRSDVVDSEFLQNTDGNQSLVVEPNQSEFSQDEEDIILSQNILNVPFIPKVEDVGCYDEPHESCCSFQFPFEDQTFYFWSY*