AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG042781


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042781 MtrunA17_Chr3g0145121 66.667 141 47 0 34 174 149 289 5.93e-50 162
MsaG042781 MtrunA17_Chr4g0035891 67.742 93 24 1 76 168 193 279 2.45e-37 130
MsaG042781 MtrunA17_Chr8g0372291 59.375 96 34 2 73 168 196 286 1.53e-32 117
MsaG042781 MtrunA17_Chr5g0404981 72.464 69 19 0 100 168 300 368 3.48e-31 115
MsaG042781 MtrunA17_Chr6g0461591 50.000 108 43 1 68 164 149 256 4.33e-27 102
MsaG042781 MtrunA17_Chr1g0169431 59.740 77 31 0 91 167 163 239 5.30e-27 102
MsaG042781 MtrunA17_Chr1g0199671 64.286 70 25 0 100 169 242 311 8.47e-27 103
MsaG042781 MtrunA17_Chr1g0213161 52.128 94 44 1 71 164 124 216 2.16e-26 100
MsaG042781 MtrunA17_Chr8g0340401 68.116 69 22 0 100 168 226 294 3.18e-26 102
MsaG042781 MtrunA17_Chr1g0146231 67.606 71 23 0 100 170 234 304 9.39e-26 100
MsaG042781 MtrunA17_Chr2g0326771 62.687 67 25 0 98 164 214 280 1.04e-25 100
MsaG042781 MtrunA17_Chr4g0028961 62.687 67 25 0 100 166 232 298 1.86e-25 99.8
MsaG042781 MtrunA17_Chr7g0253101 67.692 65 21 0 100 164 188 252 1.98e-25 98.6
MsaG042781 MtrunA17_Chr3g0140331 60.526 76 30 0 95 170 248 323 4.70e-25 99.4
MsaG042781 MtrunA17_Chr5g0395391 62.857 70 26 0 98 167 268 337 2.02e-24 97.1
MsaG042781 MtrunA17_Chr5g0395391 54.795 73 33 0 91 163 159 231 9.90e-22 90.1
MsaG042781 MtrunA17_Chr7g0232671 49.206 63 32 0 99 161 186 248 1.25e-15 72.0
MsaG042781 MtrunA17_Chr7g0232701 46.032 63 34 0 99 161 72 134 4.52e-14 65.9
MsaG042781 MtrunA17_Chr7g0232681 45.161 62 34 0 100 161 132 193 5.87e-13 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042781 AT5G66320.2 66.304 92 30 1 77 168 227 317 2.57e-35 126
MsaG042781 AT5G66320.1 66.304 92 30 1 77 168 227 317 2.57e-35 126
MsaG042781 AT4G36240.1 57.000 100 42 1 66 164 129 228 5.79e-32 115
MsaG042781 AT3G51080.1 68.056 72 23 0 100 171 221 292 4.55e-30 112
MsaG042781 AT4G32890.1 54.902 102 42 2 73 171 168 268 4.03e-29 109
MsaG042781 AT4G34680.1 57.292 96 32 1 73 168 162 248 1.04e-27 105
MsaG042781 AT4G34680.2 57.292 96 32 1 73 168 162 248 1.04e-27 105
MsaG042781 AT3G24050.1 60.526 76 30 0 98 173 192 267 2.24e-27 104
MsaG042781 AT5G25830.1 63.158 76 28 0 93 168 212 287 5.24e-27 104
MsaG042781 AT2G45050.1 57.647 85 35 1 86 170 166 249 6.84e-27 102
MsaG042781 AT3G60530.1 66.667 69 23 0 100 168 158 226 7.80e-27 102
MsaG042781 AT3G54810.1 55.172 87 36 1 84 167 210 296 4.11e-26 101
MsaG042781 AT3G54810.2 55.172 87 36 1 84 167 210 296 4.11e-26 101
MsaG042781 AT1G08010.2 51.899 79 38 0 90 168 210 288 4.60e-25 98.6
MsaG042781 AT1G08010.1 51.899 79 38 0 90 168 210 288 4.60e-25 98.6
MsaG042781 AT1G08010.3 51.899 79 38 0 90 168 210 288 4.60e-25 98.6
MsaG042781 AT1G08000.2 47.475 99 49 1 76 171 191 289 7.96e-25 98.2
MsaG042781 AT1G08000.1 47.475 99 49 1 76 171 191 289 7.96e-25 98.2
MsaG042781 AT3G45170.1 51.389 72 35 0 96 167 111 182 4.15e-21 86.3
MsaG042781 AT2G28340.1 51.515 66 32 0 102 167 193 258 4.13e-19 82.4

Find 45 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCTCATCTCCAACACTTTA+CGG 0.306611 8:-27695662 None:intergenic
CAACACTTTACGGTGGCTAT+TGG 0.312622 8:-27695652 None:intergenic
TCAGCTTGTAGCCCAACTTT+TGG 0.370479 8:+27695615 MsaT042781.1:CDS
CTTCGTAGTTCTGGTCTTTG+TGG 0.374826 8:-27695315 None:intergenic
TGAGTCCAAACGCGAGGGTT+GGG 0.405637 8:-27695347 None:intergenic
GAAAACCCAACCCTCGCGTT+TGG 0.411990 8:+27695342 MsaT042781.1:CDS
TTGGGTCTGAGCAGTTAAAC+CGG 0.428519 8:-27695711 None:intergenic
ATGTTGTTGAGGACATATAT+TGG 0.436243 8:-27695240 None:intergenic
TGAATTTCACTGCCAAAAGT+TGG 0.437875 8:-27695627 None:intergenic
GAATTTCACTGCCAAAAGTT+GGG 0.447151 8:-27695626 None:intergenic
GAGGAAGAGGAAGGAATGGT+TGG 0.450523 8:+27695680 MsaT042781.1:CDS
AAGTGTTGGAGATGAGGAAG+AGG 0.452676 8:+27695667 MsaT042781.1:CDS
AGTCCGAGGTCCAAGTTGTT+GGG 0.452741 8:+27695436 MsaT042781.1:CDS
TGGGATTGAGGTCCAAGAAA+AGG 0.458056 8:+27695455 MsaT042781.1:CDS
GGTCCAAGTTGTTGGGATTG+AGG 0.468005 8:+27695443 MsaT042781.1:CDS
AAGTCCGAGGTCCAAGTTGT+TGG 0.478204 8:+27695435 MsaT042781.1:CDS
AACCCTACACGCGTTACAAA+GGG 0.494117 8:-27695556 None:intergenic
CAATGGAGAACCCGTCCAAT+GGG 0.496828 8:+27695525 MsaT042781.1:CDS
CTGAGTCCAAACGCGAGGGT+TGG 0.505692 8:-27695348 None:intergenic
AACCCTTTGTAACGCGTGTA+GGG 0.506138 8:+27695554 MsaT042781.1:CDS
AGATGAGGAAGAGGAAGGAA+TGG 0.507566 8:+27695676 MsaT042781.1:CDS
GGACCTCAATCCCAACAACT+TGG 0.507977 8:-27695446 None:intergenic
GTTGGAGATGAGGAAGAGGA+AGG 0.513156 8:+27695671 MsaT042781.1:CDS
GGTATAGAAGAGATAGTTCT+CGG 0.517427 8:-27695202 None:intergenic
AAACCCTTTGTAACGCGTGT+AGG 0.522732 8:+27695553 MsaT042781.1:CDS
GGGATTGAGGTCCAAGAAAA+GGG 0.529827 8:+27695456 MsaT042781.1:CDS
AATCCCAACAACTTGGACCT+CGG 0.531862 8:-27695439 None:intergenic
TGTAGGGTTCAGTATAAATC+CGG 0.531937 8:+27695570 MsaT042781.1:CDS
AGAGGAAGGAATGGTTGGAC+TGG 0.532606 8:+27695685 MsaT042781.1:CDS
TGCTGAGTTTGATGTTGTTG+AGG 0.546340 8:-27695251 None:intergenic
GCAATGGAGAACCCGTCCAA+TGG 0.548411 8:+27695524 MsaT042781.1:CDS
CAATAGCCACCGTAAAGTGT+TGG 0.557110 8:+27695653 MsaT042781.1:CDS
GGAATGGTTGGACTGGAACC+CGG 0.559715 8:+27695692 MsaT042781.1:CDS
ACCGTAAAGTGTTGGAGATG+AGG 0.560291 8:+27695661 MsaT042781.1:CDS
GAACCCTACACGCGTTACAA+AGG 0.560340 8:-27695557 None:intergenic
ATGCGCAGAAGACGCCGCAA+TGG 0.563026 8:+27695508 MsaT042781.1:CDS
GAGCGCTGAGTCCAAACGCG+AGG 0.597316 8:-27695353 None:intergenic
TGGGTCTGAGCAGTTAAACC+GGG 0.601657 8:-27695710 None:intergenic
CAACAACATCAAACTCAGCA+TGG 0.604599 8:+27695254 MsaT042781.1:CDS
AGCGCTGAGTCCAAACGCGA+GGG 0.627609 8:-27695352 None:intergenic
ATTGGACGGGTTCTCCATTG+CGG 0.637141 8:-27695522 None:intergenic
AGAACTATCTCTTCTATACC+CGG 0.640763 8:+27695205 MsaT042781.1:CDS
GGGTTCAGTATAAATCCGGT+CGG 0.677319 8:+27695574 MsaT042781.1:CDS
TCATCTCCAACACTTTACGG+TGG 0.697799 8:-27695659 None:intergenic
AAAAGGGTCAGTTACAACGA+CGG 0.732739 8:+27695472 MsaT042781.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 27695192 27695719 27695192 ID=MsaG042781
Chr8 mRNA 27695192 27695719 27695192 ID=MsaT042781.1;Parent=MsaG042781
Chr8 exon 27695192 27695719 27695192 ID=MsaT042781.1.exon1;Parent=MsaT042781.1
Chr8 CDS 27695192 27695719 27695192 ID=cds.MsaT042781.1;Parent=MsaT042781.1
Gene Sequence

>MsaT042781.1

ATGACTCTCTCCGAGAACTATCTCTTCTATACCCGGTTAAAATTCAAACCAATATATGTCCTCAACAACATCAAACTCAGCATGGAAAATCTTTTCGTTTTTCAACTTAAAAAATTAAAATTACCACAAAGACCAGAACTACGAAGAATAGAAAACCCAACCCTCGCGTTTGGACTCAGCGCTCGTTTTTTTTCGTCACCGTCTGTTGTTTTTGGTGCATCACCAGCGAAGAAACAGAAGAAAAAGTCCGAGGTCCAAGTTGTTGGGATTGAGGTCCAAGAAAAGGGTCAGTTACAACGACGGTGTAGTCATTGCGATGCGCAGAAGACGCCGCAATGGAGAACCCGTCCAATGGGTGCTAAAACCCTTTGTAACGCGTGTAGGGTTCAGTATAAATCCGGTCGGCTTTTTTCAAAGGATAGATCAGCTTGTAGCCCAACTTTTGGCAGTGAAATTCATTCCAATAGCCACCGTAAAGTGTTGGAGATGAGGAAGAGGAAGGAATGGTTGGACTGGAACCCGGTTTAA

Protein sequence

>MsaT042781.1

MTLSENYLFYTRLKFKPIYVLNNIKLSMENLFVFQLKKLKLPQRPELRRIENPTLAFGLSARFFSSPSVVFGASPAKKQKKKSEVQVVGIEVQEKGQLQRRCSHCDAQKTPQWRTRPMGAKTLCNACRVQYKSGRLFSKDRSACSPTFGSEIHSNSHRKVLEMRKRKEWLDWNPV*