AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG037159

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG037159 MtrunA17_Chr7g0233561 68.110 254 79 2 1 253 6 258 1.40e-121 349
MsaG037159 MtrunA17_Chr3g0131891 66.535 254 75 4 1 253 7 251 9.57e-111 322
MsaG037159 MtrunA17_Chr7g0233541 63.755 229 76 6 29 253 2 227 4.65e-90 268
MsaG037159 MtrunA17_Chr7g0233531 64.286 224 63 4 29 251 2 209 1.08e-85 256
MsaG037159 MtrunA17_Chr7g0233571 61.062 226 77 6 1 220 1 221 4.23e-85 253
MsaG037159 MtrunA17_Chr7g0233521 58.407 226 77 3 29 253 2 211 4.50e-84 252
MsaG037159 MtrunA17_Chr8g0390841 33.333 261 146 4 11 253 37 287 3.00e-38 139
MsaG037159 MtrunA17_Chr1g0163071 31.873 251 136 6 29 253 2 243 4.54e-34 124
MsaG037159 MtrunA17_Chr1g0208771 36.607 224 113 6 29 233 13 226 1.82e-33 126
MsaG037159 MtrunA17_Chr5g0419201 36.310 168 99 2 13 172 16 183 5.68e-30 110
MsaG037159 MtrunA17_Chr3g0103151 50.000 102 49 1 10 111 9 108 5.48e-29 107
MsaG037159 MtrunA17_Chr3g0103191 30.769 208 130 3 10 217 9 202 1.20e-27 106
MsaG037159 MtrunA17_Chr3g0103181 30.180 222 132 5 10 229 9 209 4.50e-27 105
MsaG037159 MtrunA17_Chr6g0467351 41.667 132 69 2 9 132 11 142 6.84e-26 101
MsaG037159 MtrunA17_Chr1g0163221 29.839 248 164 6 7 253 5 243 7.56e-26 103
MsaG037159 MtrunA17_Chr1g0163181 30.672 238 142 7 5 234 3 225 7.69e-26 104
MsaG037159 MtrunA17_Chr1g0163231 30.702 228 135 7 9 236 5 209 1.84e-25 101
MsaG037159 MtrunA17_Chr1g0163261 32.743 226 133 7 10 233 6 214 3.41e-23 95.9
MsaG037159 MtrunA17_Chr4g0067431 28.682 258 167 5 9 254 11 263 3.85e-23 95.9
MsaG037159 MtrunA17_Chr1g0163251 31.489 235 117 7 13 234 9 212 5.71e-23 96.7
MsaG037159 MtrunA17_Chr1g0171611 29.832 238 130 7 9 244 5 207 8.41e-23 94.4
MsaG037159 MtrunA17_Chr4g0033961 43.434 99 56 0 13 111 6 104 9.58e-23 96.3
MsaG037159 MtrunA17_Chr1g0162441 44.444 99 55 0 13 111 7 105 3.93e-22 94.4
MsaG037159 MtrunA17_Chr3g0103171 45.238 84 46 0 28 111 5 88 9.61e-20 85.9
MsaG037159 MtrunA17_Chr1g0163061 42.857 105 59 1 11 114 13 117 1.27e-19 85.5
MsaG037159 MtrunA17_Chr3g0077411 38.095 105 64 1 11 114 260 364 2.16e-19 87.0
MsaG037159 MtrunA17_Chr3g0077411 30.827 133 85 1 12 144 24 149 5.49e-19 85.9
MsaG037159 MtrunA17_Chr3g0077461 32.353 136 85 1 12 147 236 364 8.02e-19 85.1
MsaG037159 MtrunA17_Chr3g0077461 33.333 117 68 2 29 145 23 129 2.69e-16 77.8
MsaG037159 MtrunA17_Chr1g0163101 43.564 101 54 2 11 111 15 112 2.07e-18 80.5
MsaG037159 MtrunA17_Chr1g0163201 28.440 218 125 6 29 234 19 217 2.70e-18 83.6
MsaG037159 MtrunA17_Chr3g0077381 33.884 121 70 2 27 147 34 144 2.00e-17 81.3
MsaG037159 MtrunA17_Chr3g0077381 34.951 103 67 0 12 114 246 348 4.35e-15 74.3
MsaG037159 MtrunA17_Chr3g0077451 37.500 88 55 0 27 114 10 97 2.32e-17 78.6
MsaG037159 MtrunA17_Chr1g0154161 26.457 223 153 2 11 233 28 239 3.77e-17 79.3
MsaG037159 MtrunA17_Chr1g0163191 43.333 90 49 1 22 111 14 101 4.30e-17 76.3
MsaG037159 MtrunA17_Chr1g0163131 42.453 106 58 2 6 111 11 113 9.39e-17 78.2
MsaG037159 MtrunA17_Chr4g0009491 35.922 103 66 0 12 114 224 326 1.16e-16 79.0
MsaG037159 MtrunA17_Chr4g0009491 32.787 122 72 2 27 148 11 122 1.39e-16 78.6
MsaG037159 MtrunA17_Chr1g0163241 45.783 83 43 1 29 111 23 103 2.08e-16 74.7
MsaG037159 MtrunA17_Chr1g0162411 40.404 99 57 1 13 111 7 103 2.80e-16 77.8
MsaG037159 MtrunA17_Chr1g0163121 47.191 89 44 2 27 115 9 94 1.49e-15 71.6
MsaG037159 MtrunA17_Chr1g0163141 47.778 90 42 4 27 115 9 94 1.60e-15 72.8
MsaG037159 MtrunA17_Chr1g0154101 40.625 96 54 1 11 103 177 272 1.88e-15 75.9
MsaG037159 MtrunA17_Chr1g0154101 35.870 92 59 0 11 102 23 114 1.36e-13 70.1
MsaG037159 MtrunA17_Chr5g0429931 29.457 129 86 1 29 152 11 139 3.13e-15 73.2
MsaG037159 MtrunA17_Chr3g0077361 30.597 134 84 3 12 140 39 168 3.15e-15 74.7
MsaG037159 MtrunA17_Chr6g0476181 31.447 159 102 4 29 184 2 156 4.79e-15 70.9
MsaG037159 MtrunA17_Chr1g0154211 36.559 93 58 1 11 103 21 112 5.49e-15 73.9
MsaG037159 MtrunA17_Chr1g0154041 23.630 292 175 9 8 253 11 300 4.01e-14 71.6
MsaG037159 MtrunA17_Chr1g0154071 37.931 87 54 0 17 103 159 245 6.20e-14 70.9
MsaG037159 MtrunA17_Chr1g0154071 30.851 94 65 0 14 107 28 121 1.22e-11 64.3
MsaG037159 MtrunA17_Chr1g0154251 34.409 93 60 1 11 103 25 116 1.52e-13 69.7
MsaG037159 MtrunA17_Chr1g0154171 28.718 195 129 5 11 204 21 206 2.42e-13 68.9
MsaG037159 MtrunA17_Chr1g0154131 40.000 95 54 1 12 103 178 272 3.37e-13 68.9
MsaG037159 MtrunA17_Chr1g0154131 37.895 95 55 1 12 102 20 114 7.97e-12 64.7
MsaG037159 MtrunA17_Chr1g0154151 40.230 87 45 1 16 102 14 93 6.77e-13 67.4
MsaG037159 MtrunA17_Chr1g0154191 32.258 93 63 0 11 103 20 112 6.41e-12 64.7
MsaG037159 MtrunA17_Chr1g0154111 30.081 123 85 1 11 132 24 146 7.10e-12 65.1
MsaG037159 MtrunA17_Chr1g0154241 31.959 97 65 1 11 107 20 115 8.13e-12 63.5
MsaG037159 MtrunA17_Chr1g0162161 42.169 83 45 2 29 111 4 83 1.26e-11 61.2
MsaG037159 MtrunA17_Chr1g0163081 36.449 107 64 3 29 135 6 108 3.21e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG037159 AT3G18990.1 30.189 265 141 4 13 233 6 270 1.24e-29 114
MsaG037159 AT3G18990.2 30.189 265 141 4 13 233 6 270 4.16e-29 113
MsaG037159 AT1G49475.1 42.373 118 64 2 13 127 34 150 3.29e-25 99.0
MsaG037159 AT4G01580.1 40.385 104 62 0 13 116 30 133 6.61e-24 95.5
MsaG037159 AT3G18960.2 39.423 104 63 0 13 116 30 133 5.63e-23 93.2
MsaG037159 AT3G18960.1 39.423 104 63 0 13 116 30 133 7.98e-23 93.2
MsaG037159 AT3G18960.3 42.045 88 51 0 29 116 9 96 2.23e-18 80.5
MsaG037159 AT4G33280.2 30.719 153 77 3 12 160 19 146 4.57e-13 67.8
MsaG037159 AT4G33280.3 30.719 153 77 3 12 160 19 146 8.80e-13 67.8
MsaG037159 AT4G33280.1 36.190 105 63 2 7 107 14 118 1.09e-12 67.0
MsaG037159 AT3G53310.1 35.354 99 62 2 6 104 5 101 2.82e-12 65.5

Find 49 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCTTCAATTATGTGAATT+TGG 0.174253 7:+52803836 MsaT037159.1:CDS
TTCAAGAGTTGTAACTTTCT+TGG 0.249031 7:-52804207 None:intergenic
TATTTCTCCACAAACTTTCT+TGG 0.252264 7:-52803476 None:intergenic
TTGTGTTAAATGGGAGTAAT+TGG 0.279295 7:+52813768 MsaT037159.1:CDS
AAGAAATTTAGAAGCTGAAT+TGG 0.284244 7:-52803819 None:intergenic
GTCTTCAAACATATAGCTTT+TGG 0.286206 7:-52803512 None:intergenic
AGAAAGTTTGTGGAGAAATA+TGG 0.293086 7:+52803479 MsaT037159.1:CDS
TGCACCCATGACAACATTAA+AGG 0.314222 7:-52804261 None:intergenic
AGCAGTAGCGATATTAAAAC+TGG 0.325506 7:+52803860 MsaT037159.1:CDS
AGACTCCAAATGGTGGGAAT+TGG 0.331245 7:+52803531 MsaT037159.1:CDS
GCTTTCCTTCCTGAAGGCTT+TGG 0.338823 7:-52802447 None:intergenic
CTTTCCTTCCTGAAGGCTTT+GGG 0.349395 7:-52802446 None:intergenic
AACATTAAAGGATGGATTGC+AGG 0.351206 7:-52804249 None:intergenic
AGATTTATTTCCTTGACTAT+TGG 0.358443 7:-52803756 None:intergenic
AATTCCCAATTCCCACCATT+TGG 0.370461 7:-52803536 None:intergenic
GACTCCAAATGGTGGGAATT+GGG 0.384420 7:+52803532 MsaT037159.1:CDS
ATTTCTCCACAAACTTTCTT+GGG 0.389419 7:-52803475 None:intergenic
CATACTTACCCAAAGCCTTC+AGG 0.408589 7:+52802438 MsaT037159.1:CDS
TCAAAAGAGTCGAAGCTAAG+AGG 0.414524 7:+52803726 MsaT037159.1:CDS
TTTATTTCCTTGACTATTGG+AGG 0.434153 7:-52803753 None:intergenic
GACACACTTCGATTTAAATA+CGG 0.450433 7:+52813727 MsaT037159.1:CDS
TAGACTATACCATCCATGTT+TGG 0.453267 7:+52813701 MsaT037159.1:intron
AACACAAAATAGATATCTCC+TGG 0.465245 7:-52813752 None:intergenic
AAATATGGTTTGAGAAGGGT+TGG 0.476973 7:+52803582 MsaT037159.1:CDS
TCCATCCTTTAATGTTGTCA+TGG 0.486839 7:+52804256 MsaT037159.1:CDS
GGAAATCCCAAGAAAGTTTG+TGG 0.492392 7:+52803469 MsaT037159.1:intron
TTCGATTTAAATACGGATCC+AGG 0.494137 7:+52813734 MsaT037159.1:CDS
TTTGTGGAGAAATATGGAAA+AGG 0.495590 7:+52803485 MsaT037159.1:CDS
AATCTTTGATAAGAGTGCCT+TGG 0.513830 7:+52803688 MsaT037159.1:CDS
TTACAAGCTTTCCTTCCTGA+AGG 0.515452 7:-52802453 None:intergenic
CCATCCTTTAATGTTGTCAT+GGG 0.521945 7:+52804257 MsaT037159.1:CDS
TAAAACTGGGAAATCACAAA+AGG 0.526739 7:+52803874 MsaT037159.1:CDS
ATATGTTTGAAGACTCCAAA+TGG 0.536076 7:+52803521 MsaT037159.1:CDS
TGGCAAAATATGGTTTGAGA+AGG 0.537956 7:+52803577 MsaT037159.1:CDS
CATATCTGAACACTAGAAGA+TGG 0.550148 7:-52803640 None:intergenic
CAAAAGAGTCGAAGCTAAGA+GGG 0.567126 7:+52803727 MsaT037159.1:CDS
GAAAGGGTAGTTTATCTCCA+AGG 0.573689 7:-52803705 None:intergenic
GATTTGTACCTTAAAATGAG+AGG 0.576988 7:-52803669 None:intergenic
ATGGGAGTAATTGGTCTGCA+AGG 0.595978 7:+52813777 MsaT037159.1:CDS
GGCAAAATATGGTTTGAGAA+GGG 0.598388 7:+52803578 MsaT037159.1:CDS
AGGGTCTCCTCCAATAGTCA+AGG 0.599925 7:+52803746 MsaT037159.1:CDS
GTTTGAAGACTCCAAATGGT+GGG 0.605264 7:+52803525 MsaT037159.1:CDS
GAAGTGTGTCTTACCAAACA+TGG 0.619879 7:-52813714 None:intergenic
CCCATGACAACATTAAAGGA+TGG 0.623811 7:-52804257 None:intergenic
TGTTTGAAGACTCCAAATGG+TGG 0.629714 7:+52803524 MsaT037159.1:CDS
TGTGTCTTACCAAACATGGA+TGG 0.651629 7:-52813710 None:intergenic
CTTACCCAAAGCCTTCAGGA+AGG 0.662928 7:+52802442 MsaT037159.1:CDS
GTCATGGGTGCATCATACGT+TGG 0.667054 7:+52804272 MsaT037159.1:CDS
GCAGTAGCGATATTAAAACT+GGG 0.669254 7:+52803861 MsaT037159.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 52802391 52814933 52802391 ID=MsaG037159
Chr7 mRNA 52802391 52814933 52802391 ID=MsaT037159.1;Parent=MsaG037159
Chr7 exon 52802391 52802471 52802391 ID=MsaT037159.1.exon1;Parent=MsaT037159.1
Chr7 CDS 52802391 52802471 52802391 ID=cds.MsaT037159.1;Parent=MsaT037159.1
Chr7 exon 52803470 52803929 52803470 ID=MsaT037159.1.exon2;Parent=MsaT037159.1
Chr7 CDS 52803470 52803929 52803470 ID=cds.MsaT037159.1;Parent=MsaT037159.1
Chr7 exon 52804186 52804310 52804186 ID=MsaT037159.1.exon3;Parent=MsaT037159.1
Chr7 CDS 52804186 52804310 52804186 ID=cds.MsaT037159.1;Parent=MsaT037159.1
Chr7 exon 52813704 52813798 52813704 ID=MsaT037159.1.exon4;Parent=MsaT037159.1
Chr7 CDS 52813704 52813798 52813704 ID=cds.MsaT037159.1;Parent=MsaT037159.1
Chr7 exon 52814930 52814933 52814930 ID=MsaT037159.1.exon5;Parent=MsaT037159.1
Chr7 CDS 52814930 52814933 52814930 ID=cds.MsaT037159.1;Parent=MsaT037159.1
Gene Sequence

>MsaT037159.1

ATGGCTACTGAATTTTCTGAGGTGAATCCAGTACACTTTTTCAAGATCATACTTACCCAAAGCCTTCAGGAAGGAAAGCTTGAAATCCCAAGAAAGTTTGTGGAGAAATATGGAAAAGGCTTACCAAAAGCTATATGTTTGAAGACTCCAAATGGTGGGAATTGGGAATTAAATTTGCAAAAAAATGATGGCAAAATATGGTTTGAGAAGGGTTGGAAAGAATTTGCAGATTTTCATTCTCTATCTGATGGCCATCTTCTAGTGTTCAGATATGAAAGAACCTCTCATTTTAAGGTACAAATCTTTGATAAGAGTGCCTTGGAGATAAACTACCCTTTCAAAAGAGTCGAAGCTAAGAGGGTCTCCTCCAATAGTCAAGGAAATAAATCTCCGAATTGTGAAAATTGTACATCATCTCAAAAGAGAAAAGCCAATTCAGCTTCTAAATTTCTTCAATTATGTGAATTTGGAAGCAGTAGCGATATTAAAACTGGGAAATCACAAAAGGTAGATGTGCATCATACTCACAAAAAGTGCGAAGGGAAACAAGTGATTACTACTGCCAAGAAAGTTACAACTCTTGAAAGAGCAAAATCTTTCAAAACCTGCAATCCATCCTTTAATGTTGTCATGGGTGCATCATACGTTGGATGCAATTTTGCTCTGACTATACCATCCATGTTTGGTAAGACACACTTCGATTTAAATACGGATCCAGGAGATATCTATTTTGTGTTAAATGGGAGTAATTGGTCTGCAAGCTAA
Protein sequence

>MsaT037159.1

MATEFSEVNPVHFFKIILTQSLQEGKLEIPRKFVEKYGKGLPKAICLKTPNGGNWELNLQKNDGKIWFEKGWKEFADFHSLSDGHLLVFRYERTSHFKVQIFDKSALEINYPFKRVEAKRVSSNSQGNKSPNCENCTSSQKRKANSASKFLQLCEFGSSSDIKTGKSQKVDVHHTHKKCEGKQVITTAKKVTTLERAKSFKTCNPSFNVVMGASYVGCNFALTIPSMFGKTHFDLNTDPGDIYFVLNGSNWSAS*