AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG019370

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019370 MtrunA17_Chr4g0014321 89.177 231 25 0 1 231 1 231 4.40e-160 442
MsaG019370 MtrunA17_Chr4g0013041 68.627 204 47 2 1 204 1 187 2.03e-97 282
MsaG019370 MtrunA17_Chr8g0351751 57.490 247 89 3 1 231 1 247 6.10e-92 270
MsaG019370 MtrunA17_Chr4g0014031 52.521 238 97 2 1 231 1 229 3.79e-76 229
MsaG019370 MtrunA17_Chr4g0014131 54.098 244 86 4 1 231 1 231 2.91e-74 224
MsaG019370 MtrunA17_Chr3g0110131 47.500 240 112 4 1 228 1 238 3.81e-66 204
MsaG019370 MtrunA17_Chr3g0107381 51.923 156 74 1 1 156 1 155 2.08e-55 176
MsaG019370 MtrunA17_Chr4g0014121 59.355 155 63 0 1 155 29 183 2.53e-53 170
MsaG019370 MtrunA17_Chr2g0296831 66.942 121 40 0 1 121 1 121 8.58e-50 159
MsaG019370 MtrunA17_Chr3g0107331 41.975 162 91 2 3 163 2 161 9.16e-44 144
MsaG019370 MtrunA17_Chr3g0107351 40.252 159 92 2 3 160 2 158 5.95e-40 135
MsaG019370 MtrunA17_Chr3g0107361 42.500 160 87 4 3 160 2 158 7.39e-40 134
MsaG019370 MtrunA17_Chr3g0107341 41.509 159 90 2 3 160 2 158 2.65e-39 133
MsaG019370 MtrunA17_Chr3g0107461 38.961 154 94 0 1 154 1 154 4.30e-39 132
MsaG019370 MtrunA17_Chr5g0420351 40.000 155 91 2 1 155 1 153 6.80e-39 132
MsaG019370 MtrunA17_Chr5g0432691 40.260 154 91 1 1 154 1 153 2.36e-37 128
MsaG019370 MtrunA17_Chr7g0218151 41.558 154 88 2 1 154 1 152 6.29e-37 127
MsaG019370 MtrunA17_Chr2g0283941 33.480 227 129 4 1 219 1 213 6.35e-35 124
MsaG019370 MtrunA17_Chr1g0197261 37.342 158 97 2 1 158 1 156 6.36e-35 122
MsaG019370 MtrunA17_Chr1g0193311 39.355 155 92 2 1 155 1 153 3.84e-34 120
MsaG019370 MtrunA17_Chr1g0197461 40.136 147 86 2 3 149 2 146 4.19e-34 119
MsaG019370 MtrunA17_Chr4g0012761 38.312 154 93 2 1 154 1 152 6.51e-33 117
MsaG019370 MtrunA17_Chr1g0188681 36.364 154 96 2 1 154 1 152 1.26e-32 116
MsaG019370 MtrunA17_Chr1g0197321 34.810 158 102 1 1 158 1 157 2.26e-32 115
MsaG019370 MtrunA17_Chr4g0031421 39.416 137 83 0 29 165 1 137 6.68e-31 111
MsaG019370 MtrunA17_Chr1g0188661 37.013 154 95 2 1 154 1 152 1.19e-30 111
MsaG019370 MtrunA17_Chr3g0106421 43.307 127 72 0 29 155 1 127 1.19e-30 112
MsaG019370 MtrunA17_Chr3g0105791 37.956 137 85 0 29 165 1 137 4.04e-29 106
MsaG019370 MtrunA17_Chr2g0296861 38.065 155 95 1 1 155 1 154 1.16e-28 105
MsaG019370 MtrunA17_Chr1g0188651 38.217 157 87 3 1 154 1 150 1.60e-27 102
MsaG019370 MtrunA17_Chr3g0106501 34.328 134 88 0 29 162 1 134 1.26e-23 92.8
MsaG019370 MtrunA17_Chr4g0008701 32.278 158 103 2 3 157 6 162 9.13e-21 90.5
MsaG019370 MtrunA17_Chr7g0267601 35.246 122 79 0 3 124 6 127 1.22e-20 89.7
MsaG019370 MtrunA17_Chr3g0128721 33.117 154 100 3 3 155 6 157 2.73e-19 86.3
MsaG019370 MtrunA17_Chr2g0296851 45.977 87 47 0 74 160 1 87 1.27e-13 64.7
MsaG019370 MtrunA17_Chr6g0457851 36.538 104 59 4 1 98 11 113 1.40e-12 66.2
MsaG019370 MtrunA17_Chr1g0212151 33.333 117 63 4 1 103 1 116 2.18e-12 65.5
MsaG019370 MtrunA17_Chr6g0449861 33.898 118 63 4 1 104 9 125 1.59e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019370 AT5G48670.1 52.903 155 72 1 1 155 1 154 6.26e-49 163
MsaG019370 AT1G65300.1 39.560 182 105 2 3 184 2 178 2.15e-37 132
MsaG019370 AT3G05860.2 37.805 164 101 1 1 164 1 163 4.30e-37 129
MsaG019370 AT3G05860.3 37.805 164 101 1 1 164 1 163 1.34e-36 129
MsaG019370 AT3G05860.1 37.805 164 101 1 1 164 1 163 1.47e-36 129
MsaG019370 AT5G26630.1 38.947 190 114 2 1 189 1 189 1.70e-35 125
MsaG019370 AT5G26650.1 38.150 173 104 2 4 176 2 171 8.55e-35 127
MsaG019370 AT5G27960.1 36.994 173 106 2 4 176 2 171 4.49e-34 124
MsaG019370 AT1G65330.1 40.523 153 90 1 3 155 2 153 5.28e-33 120
MsaG019370 AT5G27810.1 47.863 117 61 0 29 145 1 117 6.35e-33 115
MsaG019370 AT1G31630.1 33.333 171 110 3 3 173 2 168 6.28e-29 111
MsaG019370 AT1G31640.1 31.788 151 101 2 3 153 2 150 3.80e-26 105
MsaG019370 AT2G28700.1 30.000 200 134 2 1 195 1 199 3.07e-25 101
MsaG019370 AT5G26580.1 32.955 176 100 3 1 176 1 158 7.13e-25 100
MsaG019370 AT1G22590.2 37.624 101 63 0 1 101 1 101 6.03e-21 86.3
MsaG019370 AT2G40210.1 39.167 120 73 0 1 120 1 120 1.57e-18 83.6
MsaG019370 AT5G06500.1 28.571 154 108 1 1 154 1 152 4.29e-17 77.8
MsaG019370 AT5G55690.1 32.558 129 79 3 1 122 1 128 4.51e-13 67.4
MsaG019370 AT5G55690.2 32.558 129 79 3 1 122 1 128 4.51e-13 67.4
MsaG019370 AT5G58890.1 36.441 118 66 4 1 111 1 116 5.73e-13 67.0

Find 58 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTGCCATTTCCTCATTCC+TGG 0.183624 4:+27425487 None:intergenic
AATGATGTCACCATTATTCA+TGG 0.300939 4:+27425439 None:intergenic
TTGTATCTTCAGTTTCTCTT+TGG 0.302597 4:+27425721 None:intergenic
ATTCATTCAAGGCAGTATAT+TGG 0.306143 4:+27425331 None:intergenic
TTCATTCAAGGCAGTATATT+GGG 0.306995 4:+27425332 None:intergenic
ATCTCTGGTTGAGGCTTGTA+TGG 0.342107 4:+27425863 None:intergenic
GAAGCATGTGCCATAGTCTA+TGG 0.364353 4:-27425887 MsaT019370.1:CDS
GGAAAGCAACATACAATAAC+AGG 0.369187 4:-27425961 MsaT019370.1:CDS
TATGCAGAGTAATATGTCAT+TGG 0.410310 4:-27425633 MsaT019370.1:CDS
ATGTTTCAATTTCTTTATGA+AGG 0.411623 4:-27425662 MsaT019370.1:CDS
ATGGCAATGGTGGTGCCATT+TGG 0.414280 4:+27425510 None:intergenic
ACAAGCCTCAACCAGAGATA+TGG 0.424604 4:-27425859 MsaT019370.1:CDS
TTATTGTAAATGATGCATCT+AGG 0.431822 4:-27425982 MsaT019370.1:CDS
AGGATGGGTCATGGCCATGC+TGG 0.433216 4:-27425467 MsaT019370.1:CDS
AAGAGACATATATGAAAGAA+AGG 0.443744 4:-27425754 MsaT019370.1:CDS
GAAGATGAGACGGTGCCATT+TGG 0.449628 4:-27425377 MsaT019370.1:CDS
AAATGAAGGAGGTTGGTAGA+AGG 0.451827 4:-27425574 MsaT019370.1:CDS
GCCATCCAGGAATGAGGAAA+TGG 0.456661 4:-27425492 MsaT019370.1:CDS
TGGCACCACCATTGCCATCC+AGG 0.461702 4:-27425505 MsaT019370.1:CDS
TATGAAAGAAAGGGTTCTAA+AGG 0.463711 4:-27425744 MsaT019370.1:CDS
GCCATTTCCTCATTCCTGGA+TGG 0.469646 4:+27425491 None:intergenic
TTGATTCAAAACATCTTTGT+TGG 0.470119 4:-27425610 MsaT019370.1:CDS
ACATGAAATTCAACTCCAAA+TGG 0.474248 4:-27425525 MsaT019370.1:CDS
TGTGATGACGGCCATATCTC+TGG 0.481006 4:+27425848 None:intergenic
TTGATGGGCTTGATGATGAA+TGG 0.481425 4:-27425404 MsaT019370.1:CDS
GAATGAGGAAATGGCAAGGA+TGG 0.482915 4:-27425483 MsaT019370.1:CDS
GAAGGAGGTTGGTAGAAGGT+TGG 0.483853 4:-27425570 MsaT019370.1:CDS
TCCTCATTCCTGGATGGCAA+TGG 0.486555 4:+27425497 None:intergenic
GTTGATTGACGAGAAAATGA+AGG 0.491460 4:-27425588 MsaT019370.1:CDS
ATTCAGAACAATGACTGAAA+GGG 0.494087 4:-27425801 MsaT019370.1:CDS
CTAGGATCAACCTCGCCAAA+TGG 0.499555 4:+27425362 None:intergenic
GACGAGAAAATGAAGGAGGT+TGG 0.500356 4:-27425581 MsaT019370.1:CDS
CTTGTATGGTCCATAGACTA+TGG 0.514753 4:+27425877 None:intergenic
GCTGGGATGACCATGAATAA+TGG 0.515101 4:-27425449 MsaT019370.1:CDS
GTTTGGACTCCTTGTGATGA+CGG 0.522277 4:+27425836 None:intergenic
GGATGGGTCATGGCCATGCT+GGG 0.533577 4:-27425466 MsaT019370.1:CDS
TGGTAGAAGGTTGGACGAAG+AGG 0.541273 4:-27425561 MsaT019370.1:CDS
AGAGACATATATGAAAGAAA+GGG 0.542993 4:-27425753 MsaT019370.1:CDS
AATTCAGAACAATGACTGAA+AGG 0.545022 4:-27425802 MsaT019370.1:CDS
ACCATTGCCATCCAGGAATG+AGG 0.549091 4:-27425498 MsaT019370.1:CDS
GACGGCCATATCTCTGGTTG+AGG 0.560463 4:+27425854 None:intergenic
AACATACAATAACAGGTGGA+AGG 0.581713 4:-27425954 MsaT019370.1:CDS
GTGGAAGGGTCTACTGAAGA+AGG 0.590784 4:-27425939 MsaT019370.1:CDS
AAGAGAAACTGAAGATACAA+AGG 0.595097 4:-27425718 MsaT019370.1:CDS
GATTGACGAGAAAATGAAGG+AGG 0.595622 4:-27425585 MsaT019370.1:CDS
GAGATATGGCCGTCATCACA+AGG 0.597681 4:-27425845 MsaT019370.1:CDS
TCATTCCTGGATGGCAATGG+TGG 0.602855 4:+27425500 None:intergenic
AATGAGGAAATGGCAAGGAT+GGG 0.613705 4:-27425482 MsaT019370.1:CDS
ACATACAATAACAGGTGGAA+GGG 0.624477 4:-27425953 MsaT019370.1:CDS
GAAATGGCAAGGATGGGTCA+TGG 0.626584 4:-27425476 MsaT019370.1:CDS
GATACAAAGGCATGACAACA+AGG 0.627785 4:-27425705 MsaT019370.1:CDS
TGAGACGGTGCCATTTGGCG+AGG 0.635055 4:-27425372 MsaT019370.1:CDS
AAGCAACATACAATAACAGG+TGG 0.643203 4:-27425958 MsaT019370.1:CDS
TATTCATGGTCATCCCAGCA+TGG 0.650127 4:+27425453 None:intergenic
CCAGGAATGAGGAAATGGCA+AGG 0.651946 4:-27425487 MsaT019370.1:CDS
TATGAACTAAGCACTCTGTG+TGG 0.701795 4:-27425914 MsaT019370.1:CDS
GAATGGTTATGAAGATGAGA+CGG 0.707575 4:-27425387 MsaT019370.1:CDS
ATCACAAGGAGTCCAAACAG+TGG 0.740848 4:-27425831 MsaT019370.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 27425337 27426032 27425337 ID=MsaG019370
Chr4 mRNA 27425337 27426032 27425337 ID=MsaT019370.1;Parent=MsaG019370
Chr4 exon 27425337 27426032 27425337 ID=MsaT019370.1.exon1;Parent=MsaT019370.1
Chr4 CDS 27425337 27426032 27425337 ID=cds.MsaT019370.1;Parent=MsaT019370.1
Gene Sequence

>MsaT019370.1

ATGACTAGGAAAAAGATGAAAATTGCTTTTATTGTAAATGATGCATCTAGGAAAGCAACATACAATAACAGGTGGAAGGGTCTACTGAAGAAGGTTTATGAACTAAGCACTCTGTGTGGAGTTGAAGCATGTGCCATAGTCTATGGACCATACAAGCCTCAACCAGAGATATGGCCGTCATCACAAGGAGTCCAAACAGTGGTCTCAAAATTCAGAACAATGACTGAAAGGGATAAGAGCAAGAGAATGTTGAATCAAGAGACATATATGAAAGAAAGGGTTCTAAAGGCCAAAGAGAAACTGAAGATACAAAGGCATGACAACAAGGACAAAGAGATGACAATGCTCATGTTTCAATTTCTTTATGAAGGTAACTTTATGCAGAGTAATATGTCATTGGTTGATTCAAAACATCTTTGTTGGTTGATTGACGAGAAAATGAAGGAGGTTGGTAGAAGGTTGGACGAAGAGGATAATAATAGTCAACATGAAATTCAACTCCAAATGGCACCACCATTGCCATCCAGGAATGAGGAAATGGCAAGGATGGGTCATGGCCATGCTGGGATGACCATGAATAATGGTGACATCATTGAAAATCAATTTTTGATGGGCTTGATGATGAATGGTTATGAAGATGAGACGGTGCCATTTGGCGAGGTTGATCCTAGATTTTTGCCCAATATACTGCCTTGA
Protein sequence

>MsaT019370.1

MTRKKMKIAFIVNDASRKATYNNRWKGLLKKVYELSTLCGVEACAIVYGPYKPQPEIWPSSQGVQTVVSKFRTMTERDKSKRMLNQETYMKERVLKAKEKLKIQRHDNKDKEMTMLMFQFLYEGNFMQSNMSLVDSKHLCWLIDEKMKEVGRRLDEEDNNSQHEIQLQMAPPLPSRNEEMARMGHGHAGMTMNNGDIIENQFLMGLMMNGYEDETVPFGEVDPRFLPNILP*