AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024900

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024900 MtrunA17_Chr5g0395181 95.327 214 5 2 1 211 2 213 1.98e-149 413
MsaG024900 MtrunA17_Chr4g0040071 77.114 201 38 3 18 210 13 213 2.89e-111 317
MsaG024900 MtrunA17_Chr5g0411151 69.340 212 55 3 6 207 21 232 5.63e-105 302
MsaG024900 MtrunA17_Chr8g0366581 67.907 215 59 3 6 210 19 233 7.85e-102 294
MsaG024900 MtrunA17_Chr1g0179781 54.082 196 81 5 20 206 7 202 2.36e-67 205
MsaG024900 MtrunA17_Chr7g0265291 53.431 204 77 5 20 209 7 206 2.06e-66 203
MsaG024900 MtrunA17_Chr2g0308401 49.242 132 57 4 21 142 5 136 6.57e-38 129
MsaG024900 MtrunA17_Chr4g0020811 47.727 132 59 3 21 142 7 138 1.15e-37 128
MsaG024900 MtrunA17_Chr2g0320521 34.667 225 107 5 21 205 7 231 4.26e-37 129
MsaG024900 MtrunA17_Chr2g0297251 34.513 226 105 5 20 206 37 258 1.11e-36 129
MsaG024900 MtrunA17_Chr4g0065041 43.478 138 77 1 20 157 8 144 1.65e-35 125
MsaG024900 MtrunA17_Chr7g0230511 44.715 123 66 2 20 142 9 129 4.61e-34 121
MsaG024900 MtrunA17_Chr2g0320561 47.727 132 59 4 21 142 5 136 8.98e-33 118
MsaG024900 MtrunA17_Chr2g0320551 44.697 132 63 3 21 142 5 136 6.61e-32 114
MsaG024900 MtrunA17_Chr4g0052451 41.558 77 39 1 72 142 11 87 6.05e-17 73.2
MsaG024900 MtrunA17_Chr8g0392151 39.785 93 54 2 22 114 15 105 2.66e-15 72.0
MsaG024900 MtrunA17_Chr8g0386511 29.221 154 98 4 59 205 4 153 4.46e-13 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024900 AT4G17900.1 63.333 210 66 4 6 206 20 227 6.94e-91 266
MsaG024900 AT4G17900.2 65.152 198 58 4 18 206 18 213 2.67e-88 259
MsaG024900 AT1G32700.1 65.094 212 55 6 14 210 4 211 8.27e-87 255
MsaG024900 AT1G21000.1 47.521 242 82 6 9 205 5 246 1.50e-70 215
MsaG024900 AT1G21000.2 47.521 242 82 6 9 205 2 243 1.52e-70 215
MsaG024900 AT5G46710.3 52.427 206 86 5 12 205 4 209 1.40e-68 209
MsaG024900 AT5G46710.1 51.923 208 88 5 10 205 18 225 3.38e-68 209
MsaG024900 AT1G32700.2 64.773 176 45 5 48 210 1 172 1.71e-67 205
MsaG024900 AT1G76590.1 47.368 228 78 4 20 205 18 245 5.22e-66 204
MsaG024900 AT1G43000.2 44.595 222 101 4 6 205 2 223 3.68e-61 191
MsaG024900 AT1G43000.1 45.370 216 96 4 12 205 1 216 8.15e-61 189
MsaG024900 AT5G46710.2 58.955 134 54 1 10 142 18 151 1.12e-55 175
MsaG024900 AT2G27930.1 42.079 202 93 4 17 207 1 189 8.20e-48 155
MsaG024900 AT2G27930.4 42.079 202 93 4 17 207 1 189 8.20e-48 155
MsaG024900 AT2G27930.3 54.135 133 51 2 20 142 4 136 1.26e-44 147
MsaG024900 AT2G27930.2 54.135 133 51 2 20 142 4 136 1.26e-44 147
MsaG024900 AT2G12646.1 46.825 126 66 1 17 142 3 127 3.65e-36 127
MsaG024900 AT2G12646.2 46.825 126 66 1 17 142 3 127 3.65e-36 127
MsaG024900 AT2G12646.3 47.154 123 64 1 20 142 3 124 1.05e-35 126
MsaG024900 AT3G60670.1 41.958 143 82 1 15 157 2 143 3.52e-35 125
MsaG024900 AT1G31040.1 33.186 226 109 6 20 205 19 242 3.24e-32 117
MsaG024900 AT2G27930.5 42.069 145 61 3 73 207 61 192 1.19e-27 103
MsaG024900 AT2G27930.6 42.069 145 61 3 73 207 61 192 1.19e-27 103
MsaG024900 AT2G01818.1 30.769 221 126 6 11 205 2 221 5.83e-21 87.4

Find 39 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTTAAGTATTTAGTAAATA+AGG 0.240485 5:-1836769 None:intergenic
TTCACAGACATGGCAAATAT+TGG 0.300856 5:-1835927 None:intergenic
TATTTATTTACTCAGATAGT+TGG 0.359410 5:+1836557 MsaT024900.1:intron
GGGGATGGAGAAGGTGTAGT+TGG 0.392811 5:+1834849 MsaT024900.1:CDS
CTTCATATCATGATGTGATA+AGG 0.416229 5:+1835789 MsaT024900.1:CDS
TTCATTCACCTACTGCTCCT+TGG 0.424536 5:+1835964 MsaT024900.1:CDS
CAAAGATCACAGAGCTATCC+AGG 0.430527 5:+1835046 MsaT024900.1:CDS
TTCTTGTTTGATAGATAAGA+AGG 0.443037 5:+1835765 MsaT024900.1:intron
TTTCTTCTGGAATTTCTTGG+AGG 0.443249 5:-1836582 None:intergenic
TTCATATCATGATGTGATAA+GGG 0.444748 5:+1835790 MsaT024900.1:CDS
AAAAGTTAAGTGAGAGAGAT+GGG 0.446555 5:+1836606 MsaT024900.1:CDS
TTGTAAGGTGGCGGTGTTGA+AGG 0.453737 5:-1836695 None:intergenic
GTTCCACATAGAGCTCCAAT+AGG 0.475327 5:+1836740 MsaT024900.1:CDS
TTCCACATAGAGCTCCAATA+GGG 0.487236 5:+1836741 MsaT024900.1:CDS
AAGAACCTTGCTTGGAGAAG+TGG 0.495841 5:-1834921 None:intergenic
GTGACACCTTTGCCAGGCTT+AGG 0.508847 5:-1835905 None:intergenic
CCTTTGCCAGGCTTAGGCTG+AGG 0.513021 5:-1835899 None:intergenic
ATATTGGTGACACCTTTGCC+AGG 0.513857 5:-1835911 None:intergenic
ATTGAACAAAGAACCTTGCT+TGG 0.519311 5:-1834929 None:intergenic
AGTGAGAGAGATGGGTCAGA+TGG 0.523449 5:+1836614 MsaT024900.1:CDS
CAAAATTGCTAAGAGGAGGA+AGG 0.525337 5:+1836715 MsaT024900.1:CDS
GAAAGGCCTCAGCCTAAGCC+TGG 0.525826 5:+1835893 MsaT024900.1:CDS
AGATTGTGTTCTTGAATGAA+AGG 0.538525 5:+1835876 MsaT024900.1:CDS
TATTGCTTGGACTGTATGAA+TGG 0.540936 5:+1834993 MsaT024900.1:CDS
TGAATGCAATATGTATTGCT+TGG 0.544713 5:+1834980 MsaT024900.1:CDS
CACCTTACAAAATTGCTAAG+AGG 0.547965 5:+1836708 MsaT024900.1:CDS
TGCAACCACTTCTCCAAGCA+AGG 0.549474 5:+1834916 MsaT024900.1:CDS
GAAGGCTTCGTTCACAGACA+TGG 0.567153 5:-1835937 None:intergenic
AAAATTGCTAAGAGGAGGAA+GGG 0.570406 5:+1836716 MsaT024900.1:CDS
TGGAGAAGTGGTTGCAACCA+TGG 0.580919 5:-1834909 None:intergenic
CCTCAGCCTAAGCCTGGCAA+AGG 0.590940 5:+1835899 MsaT024900.1:CDS
CCTTACAACCAAGGAGCAGT+AGG 0.597663 5:-1835972 None:intergenic
AAGAAATCAAGTGGCCACCA+TGG 0.599172 5:+1834892 MsaT024900.1:CDS
TGAATGAAGAAGAAATCAAG+TGG 0.619967 5:+1834883 MsaT024900.1:CDS
CTTACAAAATTGCTAAGAGG+AGG 0.624645 5:+1836711 MsaT024900.1:CDS
AGTAGGTGAATGAATCAAGA+AGG 0.627686 5:-1835955 None:intergenic
TCCACATAGAGCTCCAATAG+GGG 0.638714 5:+1836742 MsaT024900.1:CDS
CCACATAGAGCTCCAATAGG+GGG 0.648093 5:+1836743 MsaT024900.1:CDS
AGAAGTGGTTGCAACCATGG+TGG 0.773987 5:-1834906 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 1834849 1836781 1834849 ID=MsaG024900
Chr5 mRNA 1834849 1836781 1834849 ID=MsaT024900.1;Parent=MsaG024900
Chr5 exon 1834849 1835067 1834849 ID=MsaT024900.1.exon1;Parent=MsaT024900.1
Chr5 CDS 1834849 1835067 1834849 ID=cds.MsaT024900.1;Parent=MsaT024900.1
Chr5 exon 1835779 1835985 1835779 ID=MsaT024900.1.exon2;Parent=MsaT024900.1
Chr5 CDS 1835779 1835985 1835779 ID=cds.MsaT024900.1;Parent=MsaT024900.1
Chr5 exon 1836572 1836781 1836572 ID=MsaT024900.1.exon3;Parent=MsaT024900.1
Chr5 CDS 1836572 1836781 1836572 ID=cds.MsaT024900.1;Parent=MsaT024900.1
Gene Sequence

>MsaT024900.1

GGGGATGGAGAAGGTGTAGTTGGAGTGAGAAGTCTGAATGAAGAAGAAATCAAGTGGCCACCATGGTTGCAACCACTTCTCCAAGCAAGGTTCTTTGTTCAATGCAAAGTGCATGCAGATTCCAACAAAAGTGAATGCAATATGTATTGCTTGGACTGTATGAATGGAGCACTTTGTTCTTCTTGTCTAGCTTCTCACAAAGATCACAGAGCTATCCAGATAAGAAGGTCTTCATATCATGATGTGATAAGGGTGTCTGAGATACAGAAATTTTTGGACATAACAGGGGTTCAAACATACGTCATAAACAGTGCAAAGATTGTGTTCTTGAATGAAAGGCCTCAGCCTAAGCCTGGCAAAGGTGTCACCAATATTTGCCATGTCTGTGAACGAAGCCTTCTTGATTCATTCACCTACTGCTCCTTGATAGTTGGAACCTCCAAGAAATTCCAGAAGAAAAAAAAGTTAAGTGAGAGAGATGGGTCAGATGGTGAAGAATCAAATAGTAATGAAAATGACATAAACATAAACAAAATTCAGAGCTTCACACCTTCAACACCGCCACCTTACAAAATTGCTAAGAGGAGGAAGGGAGTTCCACATAGAGCTCCAATAGGGGGAGGCCTTATTTACTAA
Protein sequence

>MsaT024900.1

GDGEGVVGVRSLNEEEIKWPPWLQPLLQARFFVQCKVHADSNKSECNMYCLDCMNGALCSSCLASHKDHRAIQIRRSSYHDVIRVSEIQKFLDITGVQTYVINSAKIVFLNERPQPKPGKGVTNICHVCERSLLDSFTYCSLIVGTSKKFQKKKKLSERDGSDGEESNSNENDININKIQSFTPSTPPPYKIAKRRKGVPHRAPIGGGLIY*