AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG044261

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044261 MtrunA17_Chr8g0372291 90.722 291 23 2 1 287 1 291 0.0 507
MsaG044261 MtrunA17_Chr5g0404981 45.238 336 120 10 1 286 51 372 1.21e-68 218
MsaG044261 MtrunA17_Chr4g0035891 41.584 303 134 10 1 283 1 280 7.05e-57 184
MsaG044261 MtrunA17_Chr8g0340401 41.135 282 110 9 41 283 31 295 1.18e-53 177
MsaG044261 MtrunA17_Chr3g0145121 41.455 275 136 6 25 284 21 285 1.25e-51 171
MsaG044261 MtrunA17_Chr3g0140331 41.538 260 134 5 40 284 67 323 6.62e-51 171
MsaG044261 MtrunA17_Chr1g0146231 40.559 286 123 10 42 284 23 304 1.58e-45 156
MsaG044261 MtrunA17_Chr6g0461591 39.655 232 66 8 111 278 35 256 1.57e-38 136
MsaG044261 MtrunA17_Chr7g0253101 43.056 216 79 6 105 278 39 252 3.07e-38 135
MsaG044261 MtrunA17_Chr1g0169431 73.333 75 20 0 212 286 170 244 4.79e-36 129
MsaG044261 MtrunA17_Chr1g0213161 39.535 215 81 6 111 282 14 222 5.22e-36 129
MsaG044261 MtrunA17_Chr2g0326771 52.083 144 50 6 149 278 142 280 1.10e-33 124
MsaG044261 MtrunA17_Chr5g0395391 68.000 75 24 0 212 286 268 342 1.01e-32 123
MsaG044261 MtrunA17_Chr5g0395391 71.212 66 19 0 212 277 166 231 1.49e-29 114
MsaG044261 MtrunA17_Chr4g0028961 67.532 77 23 1 212 286 230 306 2.41e-32 121
MsaG044261 MtrunA17_Chr1g0199671 76.119 67 16 0 214 280 242 308 2.54e-32 121
MsaG044261 MtrunA17_Chr7g0232671 56.452 62 27 0 214 275 187 248 7.60e-20 86.7
MsaG044261 MtrunA17_Chr7g0232701 54.839 62 28 0 214 275 73 134 5.02e-18 78.6
MsaG044261 MtrunA17_Chr7g0232681 29.944 177 107 4 103 275 30 193 1.27e-17 79.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044261 AT5G66320.2 45.079 315 134 6 7 282 3 317 1.88e-69 218
MsaG044261 AT5G66320.1 45.079 315 134 6 7 282 3 317 1.88e-69 218
MsaG044261 AT4G32890.1 40.659 273 108 8 43 283 16 266 1.62e-54 179
MsaG044261 AT4G36240.1 42.105 247 127 3 40 286 6 236 3.60e-53 173
MsaG044261 AT4G34680.1 39.931 288 129 10 1 283 1 249 5.47e-48 161
MsaG044261 AT4G34680.2 39.931 288 129 10 1 283 1 249 5.47e-48 161
MsaG044261 AT3G60530.1 47.027 185 76 3 98 282 64 226 2.09e-45 154
MsaG044261 AT5G25830.1 38.849 278 130 10 44 283 13 288 2.52e-44 153
MsaG044261 AT2G45050.1 42.601 223 97 5 74 284 46 249 6.51e-44 150
MsaG044261 AT3G51080.1 89.041 73 8 0 214 286 221 293 2.85e-42 147
MsaG044261 AT3G24050.1 64.368 87 31 0 200 286 180 266 4.94e-36 130
MsaG044261 AT1G08010.2 70.833 72 21 0 211 282 217 288 2.97e-33 124
MsaG044261 AT1G08010.1 70.833 72 21 0 211 282 217 288 2.97e-33 124
MsaG044261 AT1G08010.3 70.833 72 21 0 211 282 217 288 2.97e-33 124
MsaG044261 AT3G54810.1 76.471 68 16 0 214 281 229 296 5.46e-32 120
MsaG044261 AT3G54810.2 76.471 68 16 0 214 281 229 296 5.46e-32 120
MsaG044261 AT1G08000.2 69.444 72 22 0 211 282 215 286 3.54e-31 118
MsaG044261 AT1G08000.1 69.444 72 22 0 211 282 215 286 3.54e-31 118
MsaG044261 AT3G45170.1 65.714 70 24 0 216 285 117 186 1.68e-29 111
MsaG044261 AT2G28340.1 64.615 65 23 0 216 280 193 257 2.77e-25 102
MsaG044261 AT2G18380.1 60.000 40 16 0 207 246 85 124 1.70e-11 62.8
MsaG044261 AT5G26930.1 57.143 42 18 0 208 249 20 61 4.78e-11 59.7

Find 59 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCCGCATCTCAATAACTTTC+CGG 0.265019 8:+57958138 None:intergenic
CGGAAGAAGGAGGTTGTTCC+CGG 0.283078 8:-57958116 MsaT044261.1:CDS
GATGAATTGGCTAATGAAAT+TGG 0.328161 8:+57958443 None:intergenic
AACAAACTGGTTGTTGAGTA+TGG 0.356636 8:+57958966 None:intergenic
TTGTGGGGTTCGTTATAAAT+CGG 0.359488 8:-57958231 MsaT044261.1:CDS
TTCATGTTCTTGTTCTTCGT+TGG 0.402622 8:+57959065 None:intergenic
GAGTACCGGAACGGTGAGTT+CGG 0.425105 8:+57958930 None:intergenic
TGGAGTGTGAAATTTCGTTT+TGG 0.430031 8:+57958986 None:intergenic
ACGCCTCTTGCTTCTCCGTC+CGG 0.456416 8:+57958338 None:intergenic
AGTTGAGCTTGAAGATGAAT+TGG 0.456507 8:+57958430 None:intergenic
AAATCTTCTAACAACGTTTG+TGG 0.458911 8:+57959156 None:intergenic
CCTGGTCCGGCTCGCCATTG+AGG 0.462863 8:+57958278 None:intergenic
CTACAAGCGGGTCTATATTC+CGG 0.463631 8:+57958197 None:intergenic
TAAATCGGGTCGGCTGTTAC+CGG 0.473034 8:-57958216 MsaT044261.1:CDS
TGTGGGGTTCGTTATAAATC+GGG 0.473414 8:-57958230 MsaT044261.1:CDS
TGAACATTCCTCGAGGTTTG+AGG 0.473610 8:+57958397 None:intergenic
AAACACTTTGTAATGCTTGT+GGG 0.474975 8:-57958247 MsaT044261.1:CDS
GGTGTTGAAAACGTGGGTTT+TGG 0.479696 8:+57958533 None:intergenic
TACTTCCGAACTCACCGTTC+CGG 0.482592 8:-57958935 MsaT044261.1:intron
CATCTACAGGAGCTATGTCT+TGG 0.484747 8:+57959118 None:intergenic
AGAAGCAAGAGAACTAGAAC+CGG 0.486054 8:-57958479 MsaT044261.1:CDS
AAGAAGCTGCTGATTTAGAA+TGG 0.493576 8:-57958634 MsaT044261.1:CDS
AAGTAGGTAATGAAACAAAC+TGG 0.494133 8:+57958953 None:intergenic
CCTCAATGGCGAGCCGGACC+AGG 0.495319 8:-57958278 MsaT044261.1:CDS
TATTGAGATGCGGCGGAAGA+AGG 0.503721 8:-57958129 MsaT044261.1:CDS
CTAGAACCGGTATTCGTGTA+TGG 0.507115 8:-57958466 MsaT044261.1:CDS
AACACCATGTTTCAAAACTC+CGG 0.514438 8:-57958516 MsaT044261.1:CDS
TGCAATTCACTCGAAAATGT+AGG 0.515398 8:+57958173 None:intergenic
AAAACACTTTGTAATGCTTG+TGG 0.520445 8:-57958248 MsaT044261.1:CDS
AAGCAAGAGGCGTGCCGCGG+CGG 0.524432 8:-57958328 MsaT044261.1:CDS
ATGTTTCAAAACTCCGGTAC+CGG 0.531543 8:-57958510 MsaT044261.1:CDS
AAGACTCCTCAATGGCGAGC+CGG 0.535933 8:-57958284 MsaT044261.1:CDS
TCGACAAAGAAATCATCTAC+AGG 0.546740 8:+57959105 None:intergenic
GCAATTCACTCGAAAATGTA+GGG 0.548717 8:+57958174 None:intergenic
CGAAAATGTAGGGCTACAAG+CGG 0.550905 8:+57958184 None:intergenic
CAATGGCGAGCCGGACCAGG+TGG 0.553655 8:-57958275 MsaT044261.1:CDS
AGCGAAGAGGATGATTTCAC+CGG 0.558122 8:-57958357 MsaT044261.1:CDS
AATTGGCCATACACGAATAC+CGG 0.562778 8:+57958460 None:intergenic
CGAGGAATGTTCAAAGCCAC+CGG 0.566500 8:-57958387 MsaT044261.1:CDS
AACACTTTGTAATGCTTGTG+GGG 0.570684 8:-57958246 MsaT044261.1:CDS
AATTGCATTCAAATCATCAC+CGG 0.574316 8:-57958157 MsaT044261.1:CDS
GAGAAGCAAGAGGCGTGCCG+CGG 0.580601 8:-57958331 MsaT044261.1:CDS
GGAACGGTGAGTTCGGAAGT+AGG 0.583372 8:+57958937 None:intergenic
AATGGCGAGCCGGACCAGGT+GGG 0.586994 8:-57958274 MsaT044261.1:CDS
TGAGATGCGGCGGAAGAAGG+AGG 0.620640 8:-57958126 MsaT044261.1:CDS
GGGTTCGTTATAAATCGGGT+CGG 0.621017 8:-57958226 MsaT044261.1:CDS
GAAAATGTAGGGCTACAAGC+GGG 0.623200 8:+57958185 None:intergenic
AAGAGGATGATTTCACCGGA+CGG 0.639911 8:-57958353 MsaT044261.1:CDS
ACCGGAAAGTTATTGAGATG+CGG 0.641146 8:-57958139 MsaT044261.1:CDS
GAAACATGGTGTTGAAAACG+TGG 0.645272 8:+57958526 None:intergenic
TCACCGGACGGAGAAGCAAG+AGG 0.653220 8:-57958341 MsaT044261.1:CDS
GAATAGAGAGAGTACCGGAA+CGG 0.659982 8:+57958921 None:intergenic
GTGTGCAGAAGACTCCTCAA+TGG 0.671474 8:-57958292 MsaT044261.1:CDS
CCGCGGCGGTGTAGTCATTG+TGG 0.682078 8:-57958314 MsaT044261.1:CDS
GGAAAGTTATTGAGATGCGG+CGG 0.689583 8:-57958136 MsaT044261.1:CDS
GTGGCTTTGAACATTCCTCG+AGG 0.689945 8:+57958390 None:intergenic
ACTTTCTTCCTCAAACCTCG+AGG 0.695600 8:-57958405 MsaT044261.1:CDS
AAACATGGTGTTGAAAACGT+GGG 0.703723 8:+57958527 None:intergenic
CCACAATGACTACACCGCCG+CGG 0.734673 8:+57958314 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 57958109 57959247 57958109 ID=MsaG044261
Chr8 mRNA 57958109 57959247 57958109 ID=MsaT044261.1;Parent=MsaG044261
Chr8 exon 57958109 57958660 57958109 ID=MsaT044261.1.exon2;Parent=MsaT044261.1
Chr8 CDS 57958109 57958660 57958109 ID=cds.MsaT044261.1;Parent=MsaT044261.1
Chr8 exon 57958936 57959247 57958936 ID=MsaT044261.1.exon1;Parent=MsaT044261.1
Chr8 CDS 57958936 57959247 57958936 ID=cds.MsaT044261.1;Parent=MsaT044261.1
Gene Sequence

>MsaT044261.1

ATGGAGTGTGTGAAAGCAGAAGCAGCTTTGAAAAGCAGTTTTAACATAAACACAACGGTGAAACTCAGTCCACAAACGTTGTTAGAAGATTTATCTTCTTTTAATGTCCAAGACATAGCTCCTGTAGATGATTTCTTTGTCGATGATTTTCTTAACTTTTCCAACGAAGAACAAGAACATGAACAAGATTTTCTCGAAGAAAAACAACAAAACCATACCCCTCAAAACAACACCCAAAACCAAAACGAAATTTCACACTCCATACTCAACAACCAGTTTGTTTCATTACCTACTTCCGAACTCACCGTTCCGGTAGAAGAAGCTGCTGATTTAGAATGGTTATCATATTTCGTTGAAGATTCCTTCTCAGAATTTCCCAAAACAGAAAATCTCCAACTTCTACAAAAAGCTCATGAACCAAAACCCACGTTTTCAACACCATGTTTCAAAACTCCGGTACCGGCAAAAGCAAGAAGCAAGAGAACTAGAACCGGTATTCGTGTATGGCCAATTTCATTAGCCAATTCATCTTCAAGCTCAACTACACTTTCTTCCTCAAACCTCGAGGAATGTTCAAAGCCACCGGAGAAAAAAGCGAAGAGGATGATTTCACCGGACGGAGAAGCAAGAGGCGTGCCGCGGCGGTGTAGTCATTGTGGTGTGCAGAAGACTCCTCAATGGCGAGCCGGACCAGGTGGGCCGAAAACACTTTGTAATGCTTGTGGGGTTCGTTATAAATCGGGTCGGCTGTTACCGGAATATAGACCCGCTTGTAGCCCTACATTTTCGAGTGAATTGCATTCAAATCATCACCGGAAAGTTATTGAGATGCGGCGGAAGAAGGAGGTTGTTCCCGGTTTTTGA
Protein sequence

>MsaT044261.1

MECVKAEAALKSSFNINTTVKLSPQTLLEDLSSFNVQDIAPVDDFFVDDFLNFSNEEQEHEQDFLEEKQQNHTPQNNTQNQNEISHSILNNQFVSLPTSELTVPVEEAADLEWLSYFVEDSFSEFPKTENLQLLQKAHEPKPTFSTPCFKTPVPAKARSKRTRTGIRVWPISLANSSSSSTTLSSSNLEECSKPPEKKAKRMISPDGEARGVPRRCSHCGVQKTPQWRAGPGGPKTLCNACGVRYKSGRLLPEYRPACSPTFSSELHSNHHRKVIEMRRKKEVVPGF*