AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG020635

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020635 MtrunA17_Chr4g0028961 88.750 320 15 1 1 299 1 320 0.0 545
MsaG020635 MtrunA17_Chr2g0326771 55.700 307 113 6 1 297 8 301 5.06e-103 303
MsaG020635 MtrunA17_Chr1g0199671 64.894 94 28 1 207 295 238 331 2.00e-36 132
MsaG020635 MtrunA17_Chr1g0213161 78.462 65 14 0 211 275 152 216 5.63e-34 124
MsaG020635 MtrunA17_Chr1g0169431 72.222 72 20 0 211 282 172 243 1.33e-32 120
MsaG020635 MtrunA17_Chr4g0035891 72.059 68 19 0 210 277 210 277 1.73e-32 121
MsaG020635 MtrunA17_Chr3g0145121 69.444 72 22 0 206 277 210 281 5.87e-32 120
MsaG020635 MtrunA17_Chr8g0340401 65.432 81 28 0 197 277 212 292 1.79e-31 120
MsaG020635 MtrunA17_Chr8g0372291 68.000 75 22 1 211 285 218 290 1.91e-31 119
MsaG020635 MtrunA17_Chr6g0461591 58.333 96 40 0 180 275 161 256 2.19e-31 117
MsaG020635 MtrunA17_Chr7g0253101 71.831 71 20 0 208 278 185 255 2.40e-31 117
MsaG020635 MtrunA17_Chr1g0146231 73.134 67 18 0 211 277 234 300 2.68e-31 119
MsaG020635 MtrunA17_Chr5g0395391 66.279 86 28 1 192 277 252 336 2.73e-31 119
MsaG020635 MtrunA17_Chr5g0395391 63.750 80 29 0 195 274 152 231 1.05e-27 109
MsaG020635 MtrunA17_Chr5g0404981 68.000 75 22 1 211 285 300 372 1.09e-30 119
MsaG020635 MtrunA17_Chr3g0140331 73.134 67 18 0 211 277 253 319 9.66e-30 115
MsaG020635 MtrunA17_Chr7g0232671 35.374 147 86 1 126 272 111 248 4.81e-23 95.5
MsaG020635 MtrunA17_Chr7g0232701 53.247 77 36 0 196 272 58 134 6.38e-23 92.0
MsaG020635 MtrunA17_Chr7g0232681 51.948 77 37 0 196 272 117 193 6.08e-22 91.3
MsaG020635 MtrunA17_Chr5g0404131 36.145 83 47 2 165 243 144 224 1.06e-12 67.4
MsaG020635 MtrunA17_Chr7g0271861 57.500 40 17 0 207 246 18 57 5.03e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020635 AT1G08010.2 36.014 286 166 7 8 281 10 290 6.97e-51 170
MsaG020635 AT1G08010.1 36.014 286 166 7 8 281 10 290 6.97e-51 170
MsaG020635 AT1G08010.3 36.014 286 166 7 8 281 10 290 6.97e-51 170
MsaG020635 AT1G08000.2 36.713 286 160 7 8 280 10 287 4.42e-46 158
MsaG020635 AT1G08000.1 36.713 286 160 7 8 280 10 287 4.42e-46 158
MsaG020635 AT2G28340.1 34.737 285 149 7 5 281 6 261 8.10e-38 135
MsaG020635 AT3G54810.1 77.778 72 16 0 206 277 224 295 1.22e-34 128
MsaG020635 AT3G54810.2 77.778 72 16 0 206 277 224 295 1.22e-34 128
MsaG020635 AT4G36240.1 42.767 159 69 4 117 275 92 228 9.09e-32 118
MsaG020635 AT3G24050.1 71.429 70 20 0 208 277 191 260 1.77e-31 119
MsaG020635 AT4G32890.1 54.167 96 41 1 182 277 171 263 3.47e-31 119
MsaG020635 AT3G60530.1 69.014 71 22 0 211 281 158 228 4.87e-31 116
MsaG020635 AT5G25830.1 71.642 67 19 0 211 277 219 285 1.30e-30 117
MsaG020635 AT5G66320.2 66.216 74 25 0 204 277 242 315 2.81e-30 117
MsaG020635 AT5G66320.1 66.216 74 25 0 204 277 242 315 2.81e-30 117
MsaG020635 AT2G45050.1 53.000 100 44 1 181 277 146 245 3.45e-30 115
MsaG020635 AT3G51080.1 65.789 76 24 1 211 286 221 294 1.03e-29 115
MsaG020635 AT4G34680.1 60.976 82 30 1 208 287 177 258 2.15e-29 113
MsaG020635 AT4G34680.2 60.976 82 30 1 208 287 177 258 2.15e-29 113
MsaG020635 AT3G45170.1 62.857 70 26 0 208 277 112 181 2.21e-28 108
MsaG020635 AT2G18380.1 54.545 44 19 1 200 243 82 124 4.01e-11 62.0

Find 65 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCCATTGAAGGAGACATTT+TGG 0.217499 4:-55867458 None:intergenic
GAGAAATTGTTCACAAGATT+TGG 0.237962 4:-55865744 None:intergenic
TATTTATCATCAAACCTTTC+AGG 0.244075 4:+55868035 MsaT020635.1:CDS
CAAGCATTGCATAGGGTCTT+AGG 0.290975 4:-55867858 None:intergenic
CTAGCTGCAGGCCGATATTC+AGG 0.293194 4:-55867912 None:intergenic
GTTAATCAGGAGACTGTTAA+AGG 0.309270 4:+55867999 MsaT020635.1:CDS
CAGGCCGATATTCAGGAAAT+AGG 0.331499 4:-55867905 None:intergenic
GGTCTTGGAAATCAGGAAAA+AGG 0.338584 4:+55867977 MsaT020635.1:CDS
ACAAGAAGGTCTTGGAAATC+AGG 0.346966 4:+55867970 MsaT020635.1:CDS
TCTCAATGCTATTAGAGAAC+TGG 0.370943 4:-55867740 None:intergenic
GTCGCCTATTTCCTGAATAT+CGG 0.393892 4:+55867901 MsaT020635.1:CDS
GCGTAAATTTGTTCCATTGA+AGG 0.400336 4:-55867469 None:intergenic
CTGAAACTGGGCTGTAGGTT+CGG 0.407286 4:-55867497 None:intergenic
TGGGAGATATTGTCTTTCCT+TGG 0.411929 4:-55867720 None:intergenic
TACCACGAGGACGCTTTGTC+GGG 0.437518 4:-55867578 None:intergenic
AAATTCTCACAAGAAGGTCT+TGG 0.447787 4:+55867962 MsaT020635.1:CDS
TGCACTGATGCTTCAAAGGT+TGG 0.449929 4:-55867936 None:intergenic
TCAAAGGTTGGGCTAGCTGC+AGG 0.450155 4:-55867924 None:intergenic
GGCGCCTCTCAAGCTTCGAC+AGG 0.458075 4:+55867607 MsaT020635.1:CDS
ATCCAAAATGTCTCCTTCAA+TGG 0.458572 4:+55867456 MsaT020635.1:CDS
ATGCTTGTGGAGTTCGATAC+AGG 0.460657 4:+55867874 MsaT020635.1:CDS
CATAGGGTCTTAGGACCCTT+AGG 0.477379 4:-55867849 None:intergenic
GGACGCTTTGTCGGGATCAC+TGG 0.489854 4:-55867570 None:intergenic
CTCAATGCTATTAGAGAACT+GGG 0.490838 4:-55867739 None:intergenic
GGAAACTGATGGTGTGGAAC+AGG 0.492036 4:+55865626 MsaT020635.1:CDS
CATCTTGAAGAACCATCTCT+TGG 0.497623 4:+55865669 MsaT020635.1:CDS
AAGACTGCTGGACCTGCATA+TGG 0.501903 4:+55867420 MsaT020635.1:CDS
TTACCACGAGGACGCTTTGT+CGG 0.503422 4:-55867579 None:intergenic
GCACTGATGCTTCAAAGGTT+GGG 0.507344 4:-55867935 None:intergenic
CAATGGAGAGAGGGGCCTAA+GGG 0.517972 4:+55867834 MsaT020635.1:CDS
CTGCTAATATGAAGAACAGC+TGG 0.521475 4:+55865520 None:intergenic
AAACAGCTTGGAAAGACTGC+TGG 0.521813 4:+55867408 MsaT020635.1:intron
TGTGGAGTTCGATACAGGTC+TGG 0.526380 4:+55867879 MsaT020635.1:CDS
ACAATGGAGAGAGGGGCCTA+AGG 0.527062 4:+55867833 MsaT020635.1:CDS
TGAAAGCAGTAGTTATTCCT+CGG 0.529501 4:+55867524 MsaT020635.1:CDS
GGTGTGTCGGATGAGATTCT+TGG 0.532775 4:+55865564 MsaT020635.1:CDS
AAACCTTTCAGGAATTCTCT+AGG 0.536952 4:+55868046 MsaT020635.1:CDS
CTGATGGTGTGGAACAGGAT+TGG 0.558249 4:+55865631 MsaT020635.1:CDS
GAACTCCACAAGCATTGCAT+AGG 0.559486 4:-55867866 None:intergenic
TGAAACGCCACAATGGAGAG+AGG 0.562131 4:+55867824 MsaT020635.1:CDS
GCACTCAAATTCTCACAAGA+AGG 0.564610 4:+55867956 MsaT020635.1:CDS
TGAGTGCACTGATGCTTCAA+AGG 0.568513 4:-55867940 None:intergenic
CAATCGGATAAACAGCGTGC+TGG 0.568743 4:+55867669 MsaT020635.1:CDS
TGTCGAAGCTTGAGAGGCGC+CGG 0.571004 4:-55867605 None:intergenic
AGAGCCTGTCGAAGCTTGAG+AGG 0.571997 4:-55867611 None:intergenic
TCAGTTTCCACATCTTCAAG+TGG 0.590091 4:-55865612 None:intergenic
AACTCCACAAGCATTGCATA+GGG 0.590903 4:-55867865 None:intergenic
TATCCTAGAGAATTCCTGAA+AGG 0.593357 4:-55868049 None:intergenic
AAGACCCTATGCAATGCTTG+TGG 0.595397 4:+55867861 MsaT020635.1:CDS
TTAGGCCCCTCTCTCCATTG+TGG 0.615985 4:-55867831 None:intergenic
GAAACGCCACAATGGAGAGA+GGG 0.617261 4:+55867825 MsaT020635.1:CDS
TAGAAAATGTACGCATTGTG+AGG 0.619646 4:+55867797 MsaT020635.1:CDS
TCGCCGCGTAGCTCAAATGC+CGG 0.621988 4:-55865705 None:intergenic
AGCGTCCTCGTGGTAAACGC+CGG 0.626063 4:+55867586 MsaT020635.1:CDS
CTTGAAGATGTGGAAACTGA+TGG 0.650171 4:+55865615 MsaT020635.1:CDS
ACTGAGAAAACACCAAGAGA+TGG 0.656666 4:-55865681 None:intergenic
AAAGTTGTAATTCTCAACCG+AGG 0.667884 4:-55867541 None:intergenic
ATCCCGACAAAGCGTCCTCG+TGG 0.667975 4:+55867576 MsaT020635.1:CDS
AGATGTGGAAACTGATGGTG+TGG 0.668716 4:+55865620 MsaT020635.1:CDS
GTTTGATGATAAATACAACA+TGG 0.669284 4:-55868027 None:intergenic
AAACGCCACAATGGAGAGAG+GGG 0.674715 4:+55867826 MsaT020635.1:CDS
TTCAATGGAACAAATTTACG+CGG 0.676345 4:+55867471 MsaT020635.1:CDS
AGGTAACTGAAACGCCACAA+TGG 0.680689 4:+55867817 MsaT020635.1:CDS
AGGCGCCGGCGTTTACCACG+AGG 0.716581 4:-55867591 None:intergenic
GTACCGGCATTTGAGCTACG+CGG 0.750665 4:+55865702 MsaT020635.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 55865528 55868067 55865528 ID=MsaG020635
Chr4 mRNA 55865528 55868067 55865528 ID=MsaT020635.1;Parent=MsaG020635
Chr4 exon 55865528 55865773 55865528 ID=MsaT020635.1.exon1;Parent=MsaT020635.1
Chr4 CDS 55865528 55865773 55865528 ID=cds.MsaT020635.1;Parent=MsaT020635.1
Chr4 exon 55867414 55868067 55867414 ID=MsaT020635.1.exon2;Parent=MsaT020635.1
Chr4 CDS 55867414 55868067 55867414 ID=cds.MsaT020635.1;Parent=MsaT020635.1
Gene Sequence

>MsaT020635.1

ATGAAGAACAGCTGGTTTTTTGACAAGAATTTTAATGGTGTGTCGGATGAGATTCTTGGTGACGTCGTTGAGTTTTTTGATTTTCCACTTGAAGATGTGGAAACTGATGGTGTGGAACAGGATTGGAATGATCAATTCAAACATCTTGAAGAACCATCTCTTGGTGTTTTCTCAGTACCGGCATTTGAGCTACGCGGCGAAACTCAAGACGAGAAACCAAATCTTGTGAACAATTTCTCTGCTGCTCTTGGAAAGACTGCTGGACCTGCATATGGCAAAACTATTCCCATCCAAAATGTCTCCTTCAATGGAACAAATTTACGCGGATGCCGAACCTACAGCCCAGTTTCAGTTTTTGAAAGCAGTAGTTATTCCTCGGTTGAGAATTACAACTTTGAATTACCAGTGATCCCGACAAAGCGTCCTCGTGGTAAACGCCGGCGCCTCTCAAGCTTCGACAGGCTCTTCTCAATTCCATTCATACCTCCTTTTCAAAAGCAGCAATCGGATAAACAGCGTGCTGGTAAATCATTATGCAGAGCCCAAAAAAGGCCAAGGAAAGACAATATCTCCCAGTTCTCTAATAGCATTGAGATGAAGAGATCATCGTTAAATGAATCAATTGCTCGTAGAAAATGTACGCATTGTGAGGTAACTGAAACGCCACAATGGAGAGAGGGGCCTAAGGGTCCTAAGACCCTATGCAATGCTTGTGGAGTTCGATACAGGTCTGGTCGCCTATTTCCTGAATATCGGCCTGCAGCTAGCCCAACCTTTGAAGCATCAGTGCACTCAAATTCTCACAAGAAGGTCTTGGAAATCAGGAAAAAGGTTAATCAGGAGACTGTTAAAGGTTCTTCCATGTTGTATTTATCATCAAACCTTTCAGGAATTCTCTAG
Protein sequence

>MsaT020635.1

MKNSWFFDKNFNGVSDEILGDVVEFFDFPLEDVETDGVEQDWNDQFKHLEEPSLGVFSVPAFELRGETQDEKPNLVNNFSAALGKTAGPAYGKTIPIQNVSFNGTNLRGCRTYSPVSVFESSSYSSVENYNFELPVIPTKRPRGKRRRLSSFDRLFSIPFIPPFQKQQSDKQRAGKSLCRAQKRPRKDNISQFSNSIEMKRSSLNESIARRKCTHCEVTETPQWREGPKGPKTLCNACGVRYRSGRLFPEYRPAASPTFEASVHSNSHKKVLEIRKKVNQETVKGSSMLYLSSNLSGIL*