AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG035408

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035408 MtrunA17_Chr7g0217111 95.956 272 8 1 1 269 1 272 0.0 535
MsaG035408 MtrunA17_Chr6g0453021 61.856 291 67 10 1 269 1 269 3.97e-110 319
MsaG035408 MtrunA17_Chr8g0362151 52.113 284 111 10 1 268 1 275 4.58e-76 233
MsaG035408 MtrunA17_Chr5g0416391 49.462 279 124 7 1 268 4 276 1.63e-70 218
MsaG035408 MtrunA17_Chr3g0119291 52.713 129 57 2 68 193 47 174 2.79e-33 122
MsaG035408 MtrunA17_Chr5g0415941 58.559 111 44 1 62 172 74 182 1.22e-32 122
MsaG035408 MtrunA17_Chr4g0060031 45.026 191 92 6 61 249 81 260 1.77e-32 121
MsaG035408 MtrunA17_Chr6g0450991 58.416 101 41 1 72 172 63 162 1.72e-30 115
MsaG035408 MtrunA17_Chr3g0123691 59.794 97 39 0 76 172 59 155 2.69e-30 115
MsaG035408 MtrunA17_Chr8g0381741 57.732 97 41 0 76 172 53 149 3.65e-29 112
MsaG035408 MtrunA17_Chr7g0265521 50.000 134 55 3 64 193 51 176 3.80e-29 110
MsaG035408 MtrunA17_Chr8g0362751 58.333 96 40 0 77 172 89 184 6.42e-27 105
MsaG035408 MtrunA17_Chr1g0179581 58.537 82 34 0 75 156 26 107 6.73e-25 95.9
MsaG035408 MtrunA17_Chr4g0055851 44.800 125 65 1 46 170 89 209 7.70e-24 97.4
MsaG035408 MtrunA17_Chr3g0127511 44.355 124 60 3 80 197 41 161 5.74e-22 91.7
MsaG035408 MtrunA17_Chr8g0346251 51.163 86 35 1 84 162 48 133 5.25e-21 89.4
MsaG035408 MtrunA17_Chr5g0399491 41.406 128 65 2 46 164 97 223 3.01e-20 88.2
MsaG035408 MtrunA17_Chr1g0175651 43.220 118 59 2 55 171 131 241 7.60e-20 87.0
MsaG035408 MtrunA17_Chr7g0258831 40.157 127 69 1 45 171 128 247 1.06e-19 86.7
MsaG035408 MtrunA17_Chr1g0151971 48.958 96 42 1 76 171 129 217 2.99e-19 85.1
MsaG035408 MtrunA17_Chr5g0400781 45.192 104 50 1 68 171 114 210 3.93e-19 84.3
MsaG035408 MtrunA17_Chr4g0054421 44.231 104 51 1 68 171 118 214 4.93e-19 84.3
MsaG035408 MtrunA17_Chr8g0335131 49.474 95 44 1 76 170 145 235 9.64e-19 84.0
MsaG035408 MtrunA17_Chr2g0308611 47.959 98 47 2 76 173 199 292 2.83e-18 83.2
MsaG035408 MtrunA17_Chr4g0071411 47.674 86 45 0 79 164 90 175 4.03e-18 80.9
MsaG035408 MtrunA17_Chr4g0044091 44.944 89 49 0 76 164 64 152 1.25e-16 76.3
MsaG035408 MtrunA17_Chr5g0403701 48.889 90 46 0 77 166 53 142 7.80e-16 74.3
MsaG035408 MtrunA17_Chr5g0403691 54.167 72 33 0 77 148 53 124 8.75e-15 71.6
MsaG035408 MtrunA17_Chr3g0135331 32.298 161 93 3 56 202 120 278 2.22e-14 71.6
MsaG035408 MtrunA17_Chr2g0299031 43.299 97 51 1 74 170 79 171 1.26e-12 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035408 AT3G01220.1 45.091 275 129 11 1 269 16 274 3.19e-65 205
MsaG035408 AT5G15150.1 45.704 291 123 11 1 268 22 300 1.01e-62 200
MsaG035408 AT1G69780.1 44.755 286 126 11 6 268 11 287 3.85e-61 195
MsaG035408 AT1G26960.1 43.431 274 116 11 1 268 8 248 1.34e-54 177
MsaG035408 AT5G65310.2 49.265 136 64 1 47 177 19 154 1.13e-32 121
MsaG035408 AT5G65310.1 52.800 125 48 1 64 177 48 172 1.15e-32 122
MsaG035408 AT2G22430.1 57.732 97 41 0 76 172 61 157 7.60e-31 117
MsaG035408 AT4G40060.1 56.701 97 42 0 76 172 58 154 1.01e-30 116
MsaG035408 AT3G01470.1 56.701 97 42 0 76 172 67 163 6.22e-30 114
MsaG035408 AT2G46680.1 50.549 91 45 0 80 170 35 125 4.69e-24 97.8
MsaG035408 AT5G03790.1 35.052 194 89 5 1 181 14 183 5.69e-23 94.4
MsaG035408 AT1G27045.1 50.000 96 48 0 77 172 68 163 2.61e-22 92.4
MsaG035408 AT3G61890.1 48.889 90 46 0 80 169 33 122 5.10e-22 92.0
MsaG035408 AT1G27045.5 50.000 96 48 0 77 172 25 120 5.51e-22 90.5
MsaG035408 AT1G27045.3 50.000 96 48 0 77 172 25 120 5.51e-22 90.5
MsaG035408 AT1G27045.2 50.000 96 48 0 77 172 17 112 6.57e-22 90.1
MsaG035408 AT1G27045.4 50.538 93 46 0 77 169 68 160 1.18e-21 91.3
MsaG035408 AT2G46680.2 48.837 86 44 0 80 165 35 120 1.24e-21 91.3
MsaG035408 AT5G03790.2 49.485 97 47 1 77 173 77 171 3.10e-21 89.0
MsaG035408 AT2G36610.1 45.946 111 45 2 69 171 63 166 2.82e-20 86.3
MsaG035408 AT4G17460.1 47.664 107 51 2 64 170 123 224 6.61e-20 87.0
MsaG035408 AT5G47370.1 35.484 186 92 5 6 170 41 219 2.14e-19 85.9
MsaG035408 AT2G18550.1 43.590 117 58 2 77 192 61 170 3.38e-19 84.0
MsaG035408 AT2G01430.1 46.078 102 55 0 63 164 125 226 6.08e-19 84.3
MsaG035408 AT5G53980.1 47.872 94 49 0 74 167 8 101 1.13e-18 80.9
MsaG035408 AT4G16780.1 44.545 110 57 1 61 170 113 218 1.30e-18 83.6
MsaG035408 AT3G60390.1 44.444 108 56 1 63 170 148 251 2.53e-18 83.2
MsaG035408 AT5G06710.1 47.917 96 46 1 76 171 189 280 3.50e-18 83.2
MsaG035408 AT4G37790.1 44.037 109 52 2 63 171 114 213 4.60e-18 82.0
MsaG035408 AT2G22800.1 42.241 116 51 3 56 171 101 200 2.64e-17 79.7
MsaG035408 AT2G44910.1 46.316 95 47 1 76 170 162 252 7.73e-17 79.3
MsaG035408 AT4G36740.1 42.991 107 56 1 77 178 55 161 9.87e-17 77.4
MsaG035408 AT4G36740.2 42.991 107 56 1 77 178 56 162 1.04e-16 77.0
MsaG035408 AT1G70920.1 42.857 98 55 1 68 164 59 156 2.08e-15 73.6
MsaG035408 AT1G70920.2 42.857 98 55 1 68 164 29 126 3.14e-15 72.4
MsaG035408 AT5G66700.1 52.857 70 33 0 73 142 67 136 2.93e-14 70.5
MsaG035408 AT2G01430.2 50.000 66 33 0 63 128 125 190 6.83e-12 63.9
MsaG035408 AT5G06710.4 54.717 53 24 0 76 128 189 241 1.34e-11 63.9
MsaG035408 AT5G46880.3 38.983 118 62 3 64 179 99 208 6.24e-11 63.2
MsaG035408 AT5G46880.1 38.983 118 62 3 64 179 99 208 6.24e-11 63.2
MsaG035408 AT5G46880.2 38.983 118 62 3 64 179 99 208 6.24e-11 63.2
MsaG035408 AT1G79840.1 33.333 117 57 1 76 171 103 219 6.29e-11 62.8
MsaG035408 AT1G79840.5 33.333 117 57 1 76 171 103 219 6.40e-11 62.8
MsaG035408 AT1G79840.3 33.333 117 57 1 76 171 45 161 7.18e-11 62.8
MsaG035408 AT1G79840.6 33.333 117 57 1 76 171 45 161 7.18e-11 62.8
MsaG035408 AT1G79840.2 33.333 117 57 1 76 171 132 248 7.51e-11 62.8
MsaG035408 AT1G79840.4 33.333 117 57 1 76 171 103 219 8.29e-11 62.4

Find 50 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTGAGAAGAGCTTTGAATT+TGG 0.186029 7:-13131611 MsaT035408.1:CDS
AAAGAAGATTAGGCTGAATT+TGG 0.191701 7:-13131648 MsaT035408.1:CDS
GTGCAACTTGCTAAGGCTTT+AGG 0.214413 7:-13131563 MsaT035408.1:CDS
TGCAACTTGCTAAGGCTTTA+GGG 0.260540 7:-13131562 MsaT035408.1:CDS
AGTAGTTGGGGTATATTGTT+AGG 0.287974 7:+13129643 None:intergenic
AAGTTGGTAGAAGGCTAATT+AGG 0.295400 7:+13129674 None:intergenic
TTGAGAAGAGCTTTGAATTT+GGG 0.313267 7:-13131610 MsaT035408.1:CDS
TGAAAGAAACTGAGGGTTCT+TGG 0.315616 7:-13129789 MsaT035408.1:CDS
AGCCTAGACAAATTGCTATA+TGG 0.333381 7:-13131535 MsaT035408.1:CDS
AACCCTCAGTTTCTTTCATT+AGG 0.390455 7:+13129794 None:intergenic
AGCATCAGAACCTCTGGCCT+TGG 0.392592 7:-13129555 MsaT035408.1:CDS
GGTTTAATGAAGTTGGTAGA+AGG 0.399111 7:+13129665 None:intergenic
TGATGTGAATTGAAGTAGTT+GGG 0.408685 7:+13129630 None:intergenic
TTGTTAGGGTTTAATGAAGT+TGG 0.422091 7:+13129658 None:intergenic
TTGATGTGAATTGAAGTAGT+TGG 0.468809 7:+13129629 None:intergenic
AAGTGTTGAGGTGGAAAAGA+AGG 0.489869 7:+13132238 None:intergenic
AACATGAAACTATGAGGTGG+TGG 0.502381 7:+13132304 None:intergenic
AAGAAAAGTGCAACTTGCTA+AGG 0.504058 7:-13131570 MsaT035408.1:CDS
GTAGTTGGGGTATATTGTTA+GGG 0.504855 7:+13129644 None:intergenic
TTGATGAGCATCAGAACCTC+TGG 0.507447 7:-13129561 MsaT035408.1:CDS
AGTGTTGAGGTGGAAAAGAA+GGG 0.508674 7:+13132239 None:intergenic
CAAATTCAAAGCTCTTCTCA+AGG 0.519428 7:+13131612 None:intergenic
AGTTCTGTTTCTTCACAGAA+TGG 0.523751 7:-13129703 MsaT035408.1:CDS
GAAGAAATTTGAAGCTGTCA+AGG 0.526329 7:-13131450 MsaT035408.1:CDS
CAGCTTCAAATTTCTTCTTG+AGG 0.527423 7:+13131456 None:intergenic
GCTGAATTTGGATCAAGTGC+AGG 0.529592 7:-13131636 MsaT035408.1:CDS
AAAAGCAAGGATTGGTGTGA+AGG 0.539700 7:-13129829 MsaT035408.1:CDS
CCACCTCAACACTTTCAACA+AGG 0.552469 7:-13132229 MsaT035408.1:intron
CCTTGTTGAAAGTGTTGAGG+TGG 0.554667 7:+13132229 None:intergenic
ACTGAGGGTTCTTGGAGCAA+TGG 0.557955 7:-13129781 MsaT035408.1:CDS
TTGAGGTGGAAAAGAAGGGA+AGG 0.568416 7:+13132243 None:intergenic
AGCAAGGATTGGTGTGAAGG+TGG 0.575668 7:-13129826 MsaT035408.1:CDS
GATGATGAGTTATCTGATGA+TGG 0.580302 7:-13131689 MsaT035408.1:CDS
GTTGAATCATGATCTTCATG+AGG 0.589028 7:+13132277 None:intergenic
AAATTCAAAGCTCTTCTCAA+GGG 0.589863 7:+13131613 None:intergenic
ATCAATGTTGTGAAACATGT+TGG 0.592933 7:+13129579 None:intergenic
CATGATCATCACGAAGTGCA+TGG 0.597777 7:-13131713 MsaT035408.1:CDS
AACCATATAGCAATTTGTCT+AGG 0.597887 7:+13131533 None:intergenic
ACATGAAACTATGAGGTGGT+GGG 0.601396 7:+13132305 None:intergenic
TAATCAGAAACTACAAGCAG+AGG 0.617126 7:-13131402 MsaT035408.1:intron
AAATGATGCATCTATGTCCA+AGG 0.620204 7:+13129538 None:intergenic
ATGCCTAATGAAAGAAACTG+AGG 0.620720 7:-13129797 MsaT035408.1:CDS
TTGAATCATGATCTTCATGA+GGG 0.629356 7:+13132278 None:intergenic
GGGTTAAACATGAAACTATG+AGG 0.630990 7:+13132298 None:intergenic
TGACCTTGTTGAAAGTGTTG+AGG 0.631537 7:+13132226 None:intergenic
TCTGATGATGGATTCCAAAG+TGG 0.632276 7:-13131677 MsaT035408.1:CDS
TGCCTAATGAAAGAAACTGA+GGG 0.635799 7:-13129796 MsaT035408.1:CDS
GCATCTATGTCCAAGGCCAG+AGG 0.638650 7:+13129545 None:intergenic
GATGTGAATTGAAGTAGTTG+GGG 0.704596 7:+13129631 None:intergenic
TTAAACATGAAACTATGAGG+TGG 0.709265 7:+13132301 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 13129549 13132335 13129549 ID=MsaG035408
Chr7 mRNA 13129549 13132335 13129549 ID=MsaT035408.1;Parent=MsaG035408
Chr7 exon 13129549 13129863 13129549 ID=MsaT035408.1.exon3;Parent=MsaT035408.1
Chr7 CDS 13129549 13129863 13129549 ID=cds.MsaT035408.1;Parent=MsaT035408.1
Chr7 exon 13131403 13131791 13131403 ID=MsaT035408.1.exon2;Parent=MsaT035408.1
Chr7 CDS 13131403 13131791 13131403 ID=cds.MsaT035408.1;Parent=MsaT035408.1
Chr7 exon 13132230 13132335 13132230 ID=MsaT035408.1.exon1;Parent=MsaT035408.1
Chr7 CDS 13132230 13132335 13132230 ID=cds.MsaT035408.1;Parent=MsaT035408.1
Gene Sequence

>MsaT035408.1

ATGGCATTCCCACCACCTCATAGTTTCATGTTTAACCCTCATGAAGATCATGATTCAACTTCTCTTAACACCTTCCCTTCTTTTCCACCTCAACACTTTCAACAAGGTGCATCTTTTTTGTTGAAGAAATCAATGTCATTTTCGGGCATTGAGAACAAGTGTCATGATCATCACGAAGTGCATGGCGATGATGAGTTATCTGATGATGGATTCCAAAGTGGAGAGAAAAAGAAGATTAGGCTGAATTTGGATCAAGTGCAGGCCCTTGAGAAGAGCTTTGAATTTGGGAACAAGCTTGACCCAGAAAGAAAAGTGCAACTTGCTAAGGCTTTAGGGTTGCAGCCTAGACAAATTGCTATATGGTTTCAGAATAGAAGAGCAAGATGCAAAACAAAGCAACTTGAGAATGAATATGAAGTCCTCAAGAAGAAATTTGAAGCTGTCAAGGATGAAAATGATGCACTTAAAGTTCATAATCAGAAACTACAAGCAGAGTTACAAGCATTAAAAAGCAAGGATTGGTGTGAAGGTGGAACAAAATGCCTAATGAAAGAAACTGAGGGTTCTTGGAGCAATGGAAGTGATAATAGCTTAAACATTAATTTAGATCTCTCAAGAACACAAGCTTTGAACAGTTCTGTTTCTTCACAGAATGGTAGAAACCTAATTAGCCTTCTACCAACTTCATTAAACCCTAACAATATACCCCAACTACTTCAATTCACATCAAGACCAGATCTCCAAGATGAAAACTTCACCAACATGTTTCACAACATTGATGAGCATCAGAACCTCTGGCCTTGGACATAG
Protein sequence

>MsaT035408.1

MAFPPPHSFMFNPHEDHDSTSLNTFPSFPPQHFQQGASFLLKKSMSFSGIENKCHDHHEVHGDDELSDDGFQSGEKKKIRLNLDQVQALEKSFEFGNKLDPERKVQLAKALGLQPRQIAIWFQNRRARCKTKQLENEYEVLKKKFEAVKDENDALKVHNQKLQAELQALKSKDWCEGGTKCLMKETEGSWSNGSDNSLNINLDLSRTQALNSSVSSQNGRNLISLLPTSLNPNNIPQLLQFTSRPDLQDENFTNMFHNIDEHQNLWPWT*