AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025718

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025718 MtrunA17_Chr5g0404981 85.946 185 15 3 1 176 51 233 4.72e-85 259
MsaG025718 MtrunA17_Chr5g0404981 91.139 79 7 0 169 247 309 387 5.80e-46 158
MsaG025718 MtrunA17_Chr8g0372291 42.000 300 96 9 1 232 1 290 3.42e-60 192
MsaG025718 MtrunA17_Chr4g0035891 41.577 279 107 6 4 229 5 280 2.31e-55 179
MsaG025718 MtrunA17_Chr8g0340401 42.051 195 56 4 91 229 102 295 5.35e-36 130
MsaG025718 MtrunA17_Chr3g0145121 80.952 63 12 0 169 231 224 286 5.65e-33 122
MsaG025718 MtrunA17_Chr3g0145121 42.241 116 60 3 4 114 5 118 4.45e-14 70.5
MsaG025718 MtrunA17_Chr6g0461591 85.714 56 8 0 169 224 201 256 4.39e-29 110
MsaG025718 MtrunA17_Chr7g0253101 83.929 56 9 0 169 224 197 252 3.62e-28 108
MsaG025718 MtrunA17_Chr1g0146231 37.321 209 61 7 91 230 97 304 8.33e-28 108
MsaG025718 MtrunA17_Chr1g0169431 73.016 63 17 0 170 232 182 244 1.71e-27 105
MsaG025718 MtrunA17_Chr3g0140331 55.814 86 38 0 169 254 262 347 2.25e-27 108
MsaG025718 MtrunA17_Chr1g0199671 75.862 58 14 0 169 226 251 308 3.42e-27 107
MsaG025718 MtrunA17_Chr1g0213161 70.312 64 17 1 167 228 159 222 1.28e-26 103
MsaG025718 MtrunA17_Chr4g0028961 69.231 65 18 1 170 232 242 306 2.05e-25 102
MsaG025718 MtrunA17_Chr5g0395391 69.841 63 19 0 170 232 280 342 2.62e-25 102
MsaG025718 MtrunA17_Chr5g0395391 66.129 62 21 0 170 231 178 239 4.45e-22 93.6
MsaG025718 MtrunA17_Chr2g0326771 76.364 55 13 0 170 224 226 280 1.64e-24 99.8
MsaG025718 MtrunA17_Chr7g0232671 59.615 52 21 0 170 221 197 248 2.10e-16 76.3
MsaG025718 MtrunA17_Chr7g0232701 55.769 52 23 0 170 221 83 134 7.43e-15 69.7
MsaG025718 MtrunA17_Chr7g0232681 53.846 52 24 0 170 221 142 193 3.65e-14 69.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025718 AT4G36240.1 42.918 233 79 7 38 227 10 231 3.97e-44 149
MsaG025718 AT4G32890.1 35.798 257 95 7 37 229 16 266 4.83e-37 133
MsaG025718 AT3G51080.1 86.364 66 9 0 169 234 230 295 1.91e-36 131
MsaG025718 AT3G51080.1 40.000 185 76 11 1 176 1 159 1.24e-15 75.5
MsaG025718 AT5G66320.2 79.730 74 14 1 156 228 244 317 4.07e-36 131
MsaG025718 AT5G66320.2 39.011 182 88 5 5 169 3 178 4.93e-20 88.2
MsaG025718 AT5G66320.1 79.730 74 14 1 156 228 244 317 4.07e-36 131
MsaG025718 AT5G66320.1 39.011 182 88 5 5 169 3 178 4.93e-20 88.2
MsaG025718 AT3G60530.1 45.509 167 58 5 91 228 64 226 4.05e-34 123
MsaG025718 AT4G34680.1 38.710 248 120 6 7 229 9 249 5.33e-33 121
MsaG025718 AT4G34680.2 38.710 248 120 6 7 229 9 249 5.33e-33 121
MsaG025718 AT2G45050.1 39.891 183 66 4 92 230 67 249 8.42e-32 118
MsaG025718 AT3G24050.1 73.333 60 16 0 169 228 203 262 1.03e-27 107
MsaG025718 AT5G25830.1 73.770 61 16 0 169 229 228 288 1.21e-27 108
MsaG025718 AT1G08010.2 73.333 60 16 0 169 228 229 288 1.33e-26 105
MsaG025718 AT1G08010.1 73.333 60 16 0 169 228 229 288 1.33e-26 105
MsaG025718 AT1G08010.3 73.333 60 16 0 169 228 229 288 1.33e-26 105
MsaG025718 AT3G54810.1 74.576 59 15 0 169 227 238 296 1.49e-26 105
MsaG025718 AT3G54810.2 74.576 59 15 0 169 227 238 296 1.49e-26 105
MsaG025718 AT1G08000.2 72.131 61 17 0 168 228 226 286 2.04e-26 105
MsaG025718 AT1G08000.1 72.131 61 17 0 168 228 226 286 2.04e-26 105
MsaG025718 AT3G45170.1 65.000 60 21 0 169 228 124 183 6.20e-24 95.9
MsaG025718 AT2G28340.1 55.844 77 33 1 170 245 201 277 1.88e-22 94.0

Find 61 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCGTTGAAAACCAGTTTA+AGG 0.224198 5:+11806225 MsaT025718.1:CDS
AGTGTTCTTGTTCTTCTTCT+TGG 0.233910 5:-11806370 None:intergenic
GCCGCATTTCAAGCACTTTC+CGG 0.262078 5:-11807247 None:intergenic
TGTTAGGGTTTGAAGTTTCA+TGG 0.286423 5:-11806418 None:intergenic
TTGAGAGAGAGAGTGGTGTT+AGG 0.311796 5:-11806434 None:intergenic
AGTTATGTCTTTCCTTAAAC+TGG 0.323165 5:-11806237 None:intergenic
GAGTGATGATGTAGCGGATT+TGG 0.332967 5:+11806650 MsaT025718.1:intron
AAAGAGCCAGAACCGGAGTT+AGG 0.338637 5:+11806844 MsaT025718.1:CDS
TCAGTCCTCAATGCACAAAA+TGG 0.339657 5:+11806284 MsaT025718.1:CDS
TGAGAGAGAGAGTGGTGTTA+GGG 0.347258 5:-11806433 None:intergenic
CTTTGGGAAATTGAAGCATT+TGG 0.359738 5:+11807855 MsaT025718.1:CDS
GTTGAAATTGAAGTTGAAAC+TGG 0.368767 5:+11807293 MsaT025718.1:CDS
CCAAACCCTAACTCCGGTTC+TGG 0.373049 5:-11806850 None:intergenic
CTTCTAGCTTTGGTTTGAAC+CGG 0.384987 5:-11806819 None:intergenic
GAAGATACTGATTCCTTCTC+TGG 0.390652 5:+11806693 MsaT025718.1:CDS
ATGTGGGGTCCGTTTCAAAT+CGG 0.430277 5:+11807154 MsaT025718.1:CDS
AGTTTCATGGTTTACTTTGA+GGG 0.431094 5:-11806405 None:intergenic
AAGTTTCATGGTTTACTTTG+AGG 0.431398 5:-11806406 None:intergenic
TTTCAAGCACTTTCCGGTGG+TGG 0.445128 5:-11807241 None:intergenic
TGTGGGGTCCGTTTCAAATC+GGG 0.450070 5:+11807155 MsaT025718.1:CDS
AGAAGCAAAAGAGCCAGAAC+CGG 0.467532 5:+11806837 MsaT025718.1:CDS
ATTTCATCAACAAATGTTTG+AGG 0.469386 5:-11806260 None:intergenic
CGGAACGTTGAGTTCGTTGG+TGG 0.479405 5:-11806477 None:intergenic
CAGTGGAGAAGTGGACCCCT+TGG 0.483789 5:+11807110 MsaT025718.1:CDS
CGGCGGAAGAAGGAGGTTGT+TGG 0.485331 5:+11807266 MsaT025718.1:CDS
TACTGATTCCTTCTCTGGAA+TGG 0.486449 5:+11806698 MsaT025718.1:CDS
TACCGGAACGTTGAGTTCGT+TGG 0.498859 5:-11806480 None:intergenic
CTACAAGCGGGTCGATACTC+GGG 0.501909 5:-11807188 None:intergenic
GCTACAAGCGGGTCGATACT+CGG 0.502192 5:-11807189 None:intergenic
AAGAGCCAGAACCGGAGTTA+GGG 0.503861 5:+11806845 MsaT025718.1:CDS
GCTTGAAATGCGGCGGAAGA+AGG 0.509175 5:+11807256 MsaT025718.1:CDS
TGTTAAAGCCATTCCAGAGA+AGG 0.512505 5:-11806706 None:intergenic
TGCAATTCACTTGAAAATGT+AGG 0.512664 5:-11807212 None:intergenic
GCAATTCACTTGAAAATGTA+GGG 0.516502 5:-11807211 None:intergenic
CACCAACGAACTCAACGTTC+CGG 0.517043 5:+11806478 MsaT025718.1:CDS
CGGAAGAAGGAGGTTGTTGG+TGG 0.534340 5:+11807269 MsaT025718.1:CDS
ACAACCGACCCGATTTGAAA+CGG 0.552857 5:-11807163 None:intergenic
AAGACTCCTCAGTGGAGAAG+TGG 0.555433 5:+11807101 MsaT025718.1:intron
TGAAAATGTAGGGCTACAAG+CGG 0.567317 5:-11807201 None:intergenic
AAAACACTTTGCAATGCATG+TGG 0.576908 5:+11807137 MsaT025718.1:CDS
ATCTTCTTTGAGAGAGAGAG+TGG 0.577619 5:-11806441 None:intergenic
AACACTTTGCAATGCATGTG+GGG 0.584364 5:+11807139 MsaT025718.1:CDS
AAACACTTTGCAATGCATGT+GGG 0.595953 5:+11807138 MsaT025718.1:CDS
TGGGTTCTTCAAACACAACA+AGG 0.596693 5:-11806755 None:intergenic
GGAACGTTGAGTTCGTTGGT+GGG 0.602465 5:-11806476 None:intergenic
AATTGCACTCAAACCACCAC+CGG 0.603688 5:+11807228 MsaT025718.1:CDS
ACCGGAAAGTGCTTGAAATG+CGG 0.610851 5:+11807246 MsaT025718.1:CDS
GAAAATGTAGGGCTACAAGC+GGG 0.617357 5:-11807200 None:intergenic
CAAGCCGAAACAAGAAAACC+CGG 0.618171 5:+11806776 MsaT025718.1:CDS
TGAAATGCGGCGGAAGAAGG+AGG 0.618269 5:+11807259 MsaT025718.1:CDS
ATGATGTAGCGGATTTGGAA+TGG 0.620800 5:+11806655 MsaT025718.1:CDS
TGTACAGAGTGATGATGTAG+CGG 0.627905 5:+11806644 MsaT025718.1:intron
GGGTCCGTTTCAAATCGGGT+CGG 0.636088 5:+11807159 MsaT025718.1:CDS
GCATTTCAAGCACTTTCCGG+TGG 0.641487 5:-11807244 None:intergenic
TTTACTTTGAGGGAGAGACA+AGG 0.648051 5:-11806395 None:intergenic
CAACGTGAGAGAAGTCAAGA+AGG 0.648494 5:-11806337 None:intergenic
GAATGGCCAAACCCTAACTC+CGG 0.661642 5:-11806856 None:intergenic
GGAAAGTGCTTGAAATGCGG+CGG 0.671374 5:+11807249 MsaT025718.1:CDS
AATGGCTTTAACAACAACAA+CGG 0.712114 5:+11806716 MsaT025718.1:CDS
GTGTAACAAAGACTCCTCAG+TGG 0.731260 5:+11807093 MsaT025718.1:intron
AGGGGTCCACTTCTCCACTG+AGG 0.747563 5:-11807107 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 11806209 11807893 11806209 ID=MsaG025718
Chr5 mRNA 11806209 11807893 11806209 ID=MsaT025718.1;Parent=MsaG025718
Chr5 exon 11806209 11806499 11806209 ID=MsaT025718.1.exon1;Parent=MsaT025718.1
Chr5 CDS 11806209 11806499 11806209 ID=cds.MsaT025718.1;Parent=MsaT025718.1
Chr5 exon 11806651 11806866 11806651 ID=MsaT025718.1.exon2;Parent=MsaT025718.1
Chr5 CDS 11806651 11806866 11806651 ID=cds.MsaT025718.1;Parent=MsaT025718.1
Chr5 exon 11807104 11807314 11807104 ID=MsaT025718.1.exon3;Parent=MsaT025718.1
Chr5 CDS 11807104 11807314 11807104 ID=cds.MsaT025718.1;Parent=MsaT025718.1
Chr5 exon 11807835 11807893 11807835 ID=MsaT025718.1.exon4;Parent=MsaT025718.1
Chr5 CDS 11807835 11807893 11807835 ID=cds.MsaT025718.1;Parent=MsaT025718.1
Gene Sequence

>MsaT025718.1

ATGGAGTGCGTTGAAACAGCGTTGAAAACCAGTTTAAGGAAAGACATAACTCCTCAAACATTTGTTGATGAAATTTCAGTCCTCAATGCACAAAATGGAACAACTTCTGATGATTTTTTCGTTGACGACCTTCTTGACTTCTCTCACGTTGAAGAACAACACCAAGAAGAAGAACAAGAACACTCTCCTTGTCTCTCCCTCAAAGTAAACCATGAAACTTCAAACCCTAACACCACTCTCTCTCTCAAAGAAGATTATTCTTCTCTACCCACCAACGAACTCAACGTTCCGAGTGATGATGTAGCGGATTTGGAATGGCTTTCACATTTCGTTGAAGATACTGATTCCTTCTCTGGAATGGCTTTAACAACAACAACGGAGAAAAACCCTAAAAGCCTTGTTGTGTTTGAAGAACCCAAGCCGAAACAAGAAAACCCGGTTTTTACTACTTTCAAAACACCGGTTCAAACCAAAGCTAGAAGCAAAAGAGCCAGAACCGGAGTTAGGACTCCTCAGTGGAGAAGTGGACCCCTTGGAGCAAAAACACTTTGCAATGCATGTGGGGTCCGTTTCAAATCGGGTCGGTTGTTGCCCGAGTATCGACCCGCTTGTAGCCCTACATTTTCAAGTGAATTGCACTCAAACCACCACCGGAAAGTGCTTGAAATGCGGCGGAAGAAGGAGGTTGTTGGTGGTGTTGAAATTGAAGTTGAAACTGATGGAAGAAAAAGTAAAGTACTTTGGGAAATTGAAGCATTTGGAAGCTTCACTAAATAG
Protein sequence

>MsaT025718.1

MECVETALKTSLRKDITPQTFVDEISVLNAQNGTTSDDFFVDDLLDFSHVEEQHQEEEQEHSPCLSLKVNHETSNPNTTLSLKEDYSSLPTNELNVPSDDVADLEWLSHFVEDTDSFSGMALTTTTEKNPKSLVVFEEPKPKQENPVFTTFKTPVQTKARSKRARTGVRTPQWRSGPLGAKTLCNACGVRFKSGRLLPEYRPACSPTFSSELHSNHHRKVLEMRRKKEVVGGVEIEVETDGRKSKVLWEIEAFGSFTK*