AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1172620

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1172620 MtrunA17_Chr4g0042491 98.684 76 1 0 1 76 105 180 3.74e-49 152
Msa1172620 MtrunA17_Chr4g0071941 60.000 75 28 1 3 75 75 149 1.50e-21 81.6
Msa1172620 MtrunA17_Chr5g0408251 59.722 72 27 1 3 72 125 196 1.97e-20 80.1
Msa1172620 MtrunA17_Chr7g0217621 59.722 72 27 1 3 72 127 198 1.08e-19 78.2
Msa1172620 MtrunA17_Chr4g0033601 50.000 66 31 1 9 72 77 142 3.51e-15 65.5
Msa1172620 MtrunA17_Chr7g0245911 51.515 66 31 1 9 73 127 192 6.51e-15 65.9
Msa1172620 MtrunA17_Chr1g0161211 51.562 64 31 0 8 71 117 180 1.82e-14 64.7
Msa1172620 MtrunA17_Chr2g0329371 52.459 61 27 1 14 72 143 203 2.81e-14 64.3
Msa1172620 MtrunA17_Chr4g0044961 41.429 70 41 0 5 74 123 192 4.96e-13 60.8
Msa1172620 MtrunA17_Chr7g0256701 49.231 65 32 1 9 72 149 213 7.34e-13 60.5
Msa1172620 MtrunA17_Chr3g0139311 50.769 65 30 1 9 71 114 178 7.82e-13 60.1
Msa1172620 MtrunA17_Chr7g0254731 49.231 65 33 0 7 71 82 146 8.30e-13 59.3
Msa1172620 MtrunA17_Chr7g0254731 45.312 64 35 0 8 71 10 73 3.57e-11 55.1
Msa1172620 MtrunA17_Chr6g0460211 49.231 65 33 0 7 71 82 146 8.57e-13 59.3
Msa1172620 MtrunA17_Chr5g0440931 49.231 65 33 0 7 71 82 146 8.76e-13 59.3
Msa1172620 MtrunA17_Chr3g0093271 49.231 65 33 0 7 71 133 197 1.77e-12 59.3
Msa1172620 MtrunA17_Chr1g0188171 46.032 63 34 0 9 71 84 146 2.57e-12 58.2
Msa1172620 MtrunA17_Chr5g0402361 45.588 68 37 0 4 71 114 181 5.36e-12 59.3
Msa1172620 MtrunA17_Chr5g0402361 43.939 66 37 0 6 71 289 354 2.96e-11 57.0
Msa1172620 MtrunA17_Chr7g0256171 47.541 61 30 1 14 72 82 142 6.69e-12 57.0
Msa1172620 MtrunA17_Chr8g0392951 43.750 64 36 0 8 71 94 157 1.03e-11 56.6
Msa1172620 MtrunA17_Chr5g0402331 43.939 66 37 0 6 71 117 182 1.43e-11 57.0
Msa1172620 MtrunA17_Chr3g0116151 40.909 66 39 0 7 72 75 140 1.47e-11 55.8
Msa1172620 MtrunA17_Chr3g0116141 40.909 66 39 0 7 72 74 139 1.49e-11 55.8
Msa1172620 MtrunA17_Chr1g0185001 44.444 63 35 0 9 71 83 145 2.13e-11 55.8
Msa1172620 MtrunA17_Chr8g0391691 50.000 60 30 0 8 67 107 166 2.32e-11 56.2
Msa1172620 MtrunA17_Chr8g0351681 46.154 65 34 1 9 72 128 192 4.36e-11 55.8
Msa1172620 MtrunA17_Chr7g0274101 44.643 56 31 0 16 71 91 146 4.97e-11 54.7
Msa1172620 MtrunA17_Chr7g0245371 47.059 68 34 2 9 74 106 173 5.20e-11 55.1
Msa1172620 MtrunA17_Chr1g0169581 44.615 65 36 0 9 73 78 142 6.06e-11 54.3
Msa1172620 MtrunA17_Chr4g0064231 46.875 64 32 1 11 72 154 217 7.31e-11 55.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1172620 AT3G29000.1 54.667 75 32 2 3 75 119 193 1.10e-17 73.2
Msa1172620 AT5G39670.1 49.333 75 36 1 3 75 129 203 4.19e-17 72.0
Msa1172620 AT3G47480.1 53.623 69 31 1 9 76 115 183 1.65e-16 70.1
Msa1172620 AT1G05990.1 50.000 64 30 1 11 72 80 143 3.04e-14 63.5
Msa1172620 AT4G03290.1 50.769 65 30 1 11 73 82 146 3.06e-14 63.5
Msa1172620 AT3G07490.1 49.180 61 29 1 14 72 82 142 5.58e-14 62.8
Msa1172620 AT5G44460.1 47.887 71 35 1 4 72 105 175 1.13e-13 62.4
Msa1172620 AT1G66410.4 49.231 65 33 0 7 71 46 110 1.53e-13 60.8
Msa1172620 AT1G66410.3 49.231 65 33 0 7 71 46 110 1.53e-13 60.8
Msa1172620 AT1G66410.1 49.231 65 33 0 7 71 82 146 3.97e-13 60.5
Msa1172620 AT5G37780.1 49.231 65 33 0 7 71 82 146 3.97e-13 60.5
Msa1172620 AT3G43810.4 49.231 65 33 0 7 71 46 110 4.77e-13 59.3
Msa1172620 AT3G43810.3 49.231 65 33 0 7 71 46 110 4.77e-13 59.3
Msa1172620 AT2G43290.1 45.455 66 34 1 9 72 142 207 5.59e-13 61.2
Msa1172620 AT5G37780.4 49.231 65 33 0 7 71 69 133 6.30e-13 59.7
Msa1172620 AT1G66410.2 49.231 65 33 0 7 71 92 156 6.37e-13 60.1
Msa1172620 AT5G37780.3 49.231 65 33 0 7 71 108 172 8.74e-13 60.1
Msa1172620 AT1G24620.1 48.438 64 33 0 8 71 108 171 9.03e-13 60.5
Msa1172620 AT5G37780.2 49.231 65 33 0 7 71 97 161 9.29e-13 59.7
Msa1172620 AT5G21274.1 49.231 65 33 0 7 71 82 146 9.65e-13 59.7
Msa1172620 AT3G56800.1 49.231 65 33 0 7 71 82 146 1.07e-12 59.3
Msa1172620 AT2G41110.1 49.231 65 33 0 7 71 82 146 1.07e-12 59.3
Msa1172620 AT2G27030.1 49.231 65 33 0 7 71 82 146 1.07e-12 59.3
Msa1172620 AT3G43810.1 49.231 65 33 0 7 71 82 146 1.18e-12 59.3
Msa1172620 AT2G41110.2 49.231 65 33 0 7 71 94 158 1.47e-12 59.3
Msa1172620 AT2G27030.3 49.231 65 33 0 7 71 82 146 1.79e-12 59.3
Msa1172620 AT4G20780.1 51.562 64 29 1 10 71 120 183 1.93e-12 59.7
Msa1172620 AT4G12860.1 47.541 61 30 1 14 72 82 142 2.23e-12 58.5
Msa1172620 AT3G43810.2 49.231 65 33 0 7 71 82 146 6.32e-12 58.5
Msa1172620 AT2G41100.2 46.774 62 33 0 10 71 66 127 1.16e-11 57.8
Msa1172620 AT1G66400.1 41.176 68 40 0 4 71 84 151 1.81e-11 56.2
Msa1172620 AT4G14640.2 44.444 63 35 0 9 71 67 129 2.13e-11 55.8
Msa1172620 AT2G41100.7 43.478 69 39 0 8 76 64 132 2.42e-11 57.4
Msa1172620 AT2G41100.6 43.478 69 39 0 8 76 64 132 2.42e-11 57.4
Msa1172620 AT2G41100.3 43.478 69 39 0 8 76 64 132 2.42e-11 57.4
Msa1172620 AT2G41100.5 42.188 64 37 0 8 71 10 73 2.61e-11 55.8
Msa1172620 AT2G41100.4 43.478 69 39 0 8 76 99 167 2.95e-11 57.4
Msa1172620 AT2G41100.1 43.478 69 39 0 8 76 99 167 2.95e-11 57.4
Msa1172620 AT4G14640.1 44.444 63 35 0 9 71 85 147 3.63e-11 55.5
Msa1172620 AT1G18210.2 40.000 65 39 0 7 71 89 153 4.67e-11 55.5
Msa1172620 AT1G18210.1 40.000 65 39 0 7 71 89 153 4.67e-11 55.5
Msa1172620 AT3G22930.1 44.444 63 35 0 9 71 107 169 4.98e-11 55.5
Msa1172620 AT3G59440.1 40.909 66 37 1 10 73 123 188 7.95e-11 55.5

Find 14 sgRNAs with CRISPR-Local

Find 12 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTGCTCATATGTTTGAAAA+TGG 0.169368 8_1:+2748326 None:intergenic
GTTTGAAAATGGGGTTAGTT+TGG 0.294711 8_1:+2748337 Msa1172620:CDS
ATTAATGCAGTTGATCAAAA+TGG 0.313664 8_1:+2748485 Msa1172620:CDS
CTATGAGTTTGTTGTGTTGA+TGG 0.336088 8_1:+2748526 Msa1172620:CDS
AAGAGAGTCTTGTGTTGTTT+GGG 0.336625 8_1:+2748428 Msa1172620:CDS
GAAGAGAGTCTTGTGTTGTT+TGG 0.378049 8_1:+2748427 Msa1172620:CDS
TTGCTCATATGTTTGAAAAT+GGG 0.395795 8_1:+2748327 None:intergenic
GTGTTGATGGAACAAAGTTT+TGG 0.423873 8_1:+2748539 Msa1172620:CDS
TGCTCATATGTTTGAAAATG+GGG 0.468776 8_1:+2748328 None:intergenic
GTGTTTGATGAAAACAAAGA+TGG 0.498276 8_1:+2748383 Msa1172620:CDS
AAACAAAGATGGGTTTATAG+AGG 0.531105 8_1:+2748394 Msa1172620:CDS
TGTTTGATGAAAACAAAGAT+GGG 0.535462 8_1:+2748384 Msa1172620:CDS
GCAGTTGATCAAAATGGAGA+TGG 0.549331 8_1:+2748491 Msa1172620:CDS
TCAACACAACAAACTCATAG+TGG 0.604767 8_1:-2748523 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGTTTGATGAAAACAAAGAT+GGG + chr8_1:2748384-2748403 Msa1172620:CDS 25.0%
! ATTAATGCAGTTGATCAAAA+TGG + chr8_1:2748485-2748504 Msa1172620:CDS 25.0%
GTGTTTGATGAAAACAAAGA+TGG + chr8_1:2748383-2748402 Msa1172620:CDS 30.0%
! AAACAAAGATGGGTTTATAG+AGG + chr8_1:2748394-2748413 Msa1172620:CDS 30.0%
!! GTTTGAAAATGGGGTTAGTT+TGG + chr8_1:2748337-2748356 Msa1172620:CDS 35.0%
!! AAGAGAGTCTTGTGTTGTTT+GGG + chr8_1:2748428-2748447 Msa1172620:CDS 35.0%
TCAACACAACAAACTCATAG+TGG - chr8_1:2748526-2748545 None:intergenic 35.0%
!! CTATGAGTTTGTTGTGTTGA+TGG + chr8_1:2748526-2748545 Msa1172620:CDS 35.0%
!! GTGTTGATGGAACAAAGTTT+TGG + chr8_1:2748539-2748558 Msa1172620:CDS 35.0%
! GAAGAGAGTCTTGTGTTGTT+TGG + chr8_1:2748427-2748446 Msa1172620:CDS 40.0%
! GGGATTGCATAGAGATTTTG+TGG + chr8_1:2748448-2748467 Msa1172620:CDS 40.0%
GCAGTTGATCAAAATGGAGA+TGG + chr8_1:2748491-2748510 Msa1172620:CDS 40.0%
Chromosome Type Strat End Strand Name
chr8_1 gene 2748335 2748565 2748335 ID=Msa1172620;Name=Msa1172620
chr8_1 mRNA 2748335 2748565 2748335 ID=Msa1172620-mRNA-1;Parent=Msa1172620;Name=Msa1172620-mRNA-1;_AED=0.23;_eAED=0.23;_QI=0|-1|0|1|-1|1|1|0|76
chr8_1 exon 2748335 2748565 2748335 ID=Msa1172620-mRNA-1:exon:1002;Parent=Msa1172620-mRNA-1
chr8_1 CDS 2748335 2748565 2748335 ID=Msa1172620-mRNA-1:cds;Parent=Msa1172620-mRNA-1
Gene Sequence

>Msa1172620

ATGTTTGAAAATGGGGTTAGTTTGGAAGAGTTGAATGAAGCTTTCAATGTGTTTGATGAAAACAAAGATGGGTTTATAGAGGCTGCTGAGTTGAAGAGAGTCTTGTGTTGTTTGGGATTGCATAGAGATTTTGTGGAGTGTCAGAAAATGATTAATGCAGTTGATCAAAATGGAGATGGATTAATTGACCACTATGAGTTTGTTGTGTTGATGGAACAAAGTTTTGGTTGA
Protein sequence

>Msa1172620

MFENGVSLEELNEAFNVFDENKDGFIEAAELKRVLCCLGLHRDFVECQKMINAVDQNGDGLIDHYEFVVLMEQSFG*