AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG044619

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044619 MtrunA17_Chr4g0054421 98.524 271 3 1 1 270 1 271 0.0 550
MsaG044619 MtrunA17_Chr5g0400781 63.860 285 73 8 1 270 1 270 1.00e-102 300
MsaG044619 MtrunA17_Chr1g0175651 62.963 189 48 4 68 255 116 283 2.86e-72 223
MsaG044619 MtrunA17_Chr2g0308611 76.119 134 31 1 108 240 180 313 1.41e-67 213
MsaG044619 MtrunA17_Chr7g0258831 76.984 126 27 1 115 240 150 273 8.49e-66 207
MsaG044619 MtrunA17_Chr5g0399491 68.293 164 42 4 79 240 95 250 2.27e-65 206
MsaG044619 MtrunA17_Chr1g0151971 45.847 301 114 9 5 270 2 288 6.10e-65 204
MsaG044619 MtrunA17_Chr4g0055851 66.667 162 41 2 80 240 85 234 7.91e-65 204
MsaG044619 MtrunA17_Chr8g0335131 82.456 114 19 1 126 238 145 258 6.04e-62 197
MsaG044619 MtrunA17_Chr3g0135331 54.124 194 64 6 90 268 117 300 5.65e-50 166
MsaG044619 MtrunA17_Chr4g0044091 63.866 119 37 1 126 238 64 182 8.02e-49 160
MsaG044619 MtrunA17_Chr2g0299031 44.211 190 93 4 54 239 15 195 1.08e-39 137
MsaG044619 MtrunA17_Chr4g0071411 59.649 114 42 2 129 238 90 203 3.06e-35 125
MsaG044619 MtrunA17_Chr5g0416391 47.664 107 54 1 114 218 62 168 3.38e-21 90.5
MsaG044619 MtrunA17_Chr7g0265521 42.991 107 61 0 108 214 44 150 1.33e-20 87.8
MsaG044619 MtrunA17_Chr3g0119291 35.417 192 112 5 80 261 12 201 2.78e-20 87.4
MsaG044619 MtrunA17_Chr8g0362151 42.735 117 64 1 102 218 55 168 8.95e-20 86.7
MsaG044619 MtrunA17_Chr7g0217111 46.602 103 51 1 118 216 71 173 4.08e-19 84.3
MsaG044619 MtrunA17_Chr6g0450991 50.000 88 44 0 127 214 67 154 5.83e-19 84.3
MsaG044619 MtrunA17_Chr4g0060031 45.455 99 54 0 116 214 84 182 1.99e-17 80.9
MsaG044619 MtrunA17_Chr8g0381741 47.170 106 47 2 118 214 43 148 2.59e-17 80.1
MsaG044619 MtrunA17_Chr3g0123691 37.975 158 85 5 119 265 52 207 2.86e-17 79.7
MsaG044619 MtrunA17_Chr1g0179581 48.193 83 43 0 127 209 28 110 3.12e-17 75.5
MsaG044619 MtrunA17_Chr6g0453021 45.192 104 49 2 118 213 86 189 6.64e-17 78.6
MsaG044619 MtrunA17_Chr5g0415941 40.000 135 65 3 87 213 54 180 7.56e-17 79.0
MsaG044619 MtrunA17_Chr8g0362751 46.809 94 43 1 127 213 89 182 5.92e-16 75.9
MsaG044619 MtrunA17_Chr5g0403701 43.689 103 53 1 119 221 45 142 8.47e-13 65.9
MsaG044619 MtrunA17_Chr5g0403691 42.857 105 58 1 119 221 45 149 9.16e-13 65.9
MsaG044619 MtrunA17_Chr3g0127511 43.011 93 46 1 130 215 41 133 2.62e-12 65.1
MsaG044619 MtrunA17_Chr8g0346251 42.683 82 47 0 131 212 45 126 1.85e-11 62.8
MsaG044619 MtrunA17_Chr5g0410711 35.849 106 68 0 118 223 83 188 3.85e-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
MsaG044619 AT4G37790.1 61.806 288 82 9 1 270 1 278 2.61e-91 271
MsaG044619 AT2G22800.1 58.163 294 79 11 1 270 1 274 2.63e-83 251
MsaG044619 AT5G06710.1 61.376 189 56 4 76 254 136 317 4.99e-70 219
MsaG044619 AT5G47370.1 57.789 199 74 4 72 264 70 264 1.75e-66 208
MsaG044619 AT3G60390.1 60.656 183 57 6 69 238 94 274 1.22e-62 199
MsaG044619 AT4G17460.1 60.221 181 64 5 68 241 71 250 4.76e-62 197
MsaG044619 AT4G16780.1 75.194 129 30 2 112 239 115 242 2.00e-61 196
MsaG044619 AT2G44910.1 79.130 115 23 1 126 239 162 276 7.21e-59 190
MsaG044619 AT2G01430.1 54.676 139 56 2 106 239 113 249 2.42e-44 151
MsaG044619 AT1G70920.2 52.941 136 57 1 114 249 26 154 1.03e-40 139
MsaG044619 AT1G70920.1 56.349 126 48 1 114 239 56 174 1.19e-40 140
MsaG044619 AT5G06710.4 59.292 113 29 4 76 178 136 241 5.02e-30 114
MsaG044619 AT2G01430.2 50.526 95 40 2 106 195 113 205 1.12e-22 93.2
MsaG044619 AT1G69780.1 46.465 99 53 0 116 214 74 172 7.54e-20 87.4
MsaG044619 AT1G26960.1 41.964 112 65 0 119 230 63 174 2.21e-19 85.1
MsaG044619 AT5G03790.1 35.374 147 79 2 127 257 77 223 3.75e-18 81.6
MsaG044619 AT5G65310.1 45.000 100 48 1 122 214 67 166 1.60e-16 78.2
MsaG044619 AT3G01470.1 45.161 93 44 1 127 212 68 160 1.81e-16 77.4
MsaG044619 AT5G65310.2 45.000 100 48 1 122 214 49 148 1.98e-16 77.8
MsaG044619 AT2G18550.1 44.000 100 56 0 114 213 48 147 8.11e-16 74.7
MsaG044619 AT5G03790.2 47.253 91 48 0 127 217 77 167 9.71e-16 73.9
MsaG044619 AT5G15150.1 42.478 113 56 3 113 216 96 208 1.32e-15 75.9
MsaG044619 AT4G36740.2 44.681 94 52 0 120 213 49 142 2.40e-15 73.6
MsaG044619 AT4G36740.1 44.681 94 52 0 120 213 48 141 2.44e-15 73.6
MsaG044619 AT4G40060.1 44.330 97 47 1 125 214 57 153 2.55e-15 74.7
MsaG044619 AT3G01220.1 43.269 104 53 2 119 216 77 180 2.91e-15 74.3
MsaG044619 AT1G27045.4 46.875 96 44 1 127 215 68 163 4.78e-15 73.2
MsaG044619 AT1G27045.1 40.909 132 62 3 127 250 68 191 5.93e-15 72.4
MsaG044619 AT1G27045.2 57.576 66 28 0 127 192 17 82 8.87e-15 70.9
MsaG044619 AT1G27045.5 57.576 66 28 0 127 192 25 90 9.67e-15 71.2
MsaG044619 AT1G27045.3 57.576 66 28 0 127 192 25 90 9.67e-15 71.2
MsaG044619 AT2G36610.1 40.816 98 50 1 126 215 70 167 3.41e-14 69.7
MsaG044619 AT2G22430.1 43.750 96 50 1 125 216 60 155 7.56e-14 70.5
MsaG044619 AT2G46680.1 43.011 93 49 1 130 218 35 127 1.56e-13 68.9
MsaG044619 AT2G46680.2 41.111 90 53 0 130 219 35 124 1.57e-13 68.9
MsaG044619 AT5G06710.2 51.163 86 25 4 76 151 136 214 4.12e-12 64.7
MsaG044619 AT5G06710.3 51.163 86 25 4 76 151 136 214 4.12e-12 64.7
MsaG044619 AT3G61890.1 38.947 95 44 1 130 210 33 127 2.74e-11 62.4
MsaG044619 AT5G66700.1 44.872 78 43 0 115 192 59 136 6.59e-11 61.2
MsaG044619 AT1G79840.1 43.373 83 46 1 126 207 102 184 9.84e-11 62.4

Find 60 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTAGAGAAATTGCTCTTAT+TGG 0.187884 8:-62722981 None:intergenic
CTAGGTGGTGGTGGTGTTAA+TGG 0.243245 8:+62722950 MsaT044619.1:CDS
TCAGGCCTTCAACTTATTCT+AGG 0.257483 8:+62721714 MsaT044619.1:CDS
ATGTTTCACAACATTTCTTT+AGG 0.284664 8:-62722805 None:intergenic
GGTACCTGGCTCTACGGTTC+TGG 0.335278 8:-62722295 None:intergenic
TTATGATTACTTGAGGAATA+AGG 0.345806 8:-62721795 None:intergenic
AAGCATAGCAGATTGATCTT+TGG 0.351274 8:-62722075 None:intergenic
GGATGGTGGTGTGTCTTGTT+TGG 0.360529 8:-62721754 None:intergenic
CACATGAAGGGCACATAGTA+AGG 0.379041 8:-62722922 None:intergenic
TGTTAGCAGTGAATTAGAAA+TGG 0.445208 8:+62721965 MsaT044619.1:CDS
AGGCTTTGTAACGTTGTTGT+TGG 0.454137 8:-62721775 None:intergenic
AAACATTAACAGAAGAGAAT+AGG 0.467293 8:+62722822 MsaT044619.1:CDS
GCTGAACCATCTTTAACGTT+GGG 0.469771 8:+62721828 MsaT044619.1:CDS
TTCCTCTTTCTCTAGTGGGA+GGG 0.480454 8:+62721926 MsaT044619.1:CDS
AAAGGAGGTGCAAGAATTGA+AGG 0.482533 8:+62722853 MsaT044619.1:CDS
TTGTTTCCTCTTTCTCTAGT+GGG 0.482881 8:+62721922 MsaT044619.1:CDS
AGCTGAACCATCTTTAACGT+TGG 0.482898 8:+62721827 MsaT044619.1:CDS
CACCCTCCCACTAGAGAAAG+AGG 0.485237 8:-62721928 None:intergenic
CTAAGCCTAGAATAAGTTGA+AGG 0.488952 8:-62721719 None:intergenic
TTCTTCATAGTAACTCTTGG+TGG 0.498912 8:-62721856 None:intergenic
AGGTGTTAGATTTAACTCTC+TGG 0.498987 8:-62722252 None:intergenic
CACCTCGACAAGTTGAGGTC+TGG 0.514656 8:+62722270 MsaT044619.1:CDS
AGGTTCTTCATAGTAACTCT+TGG 0.520099 8:-62721859 None:intergenic
GGTTCCAGAACCGTAGAGCC+AGG 0.526669 8:+62722291 MsaT044619.1:CDS
GTTGTTTCCTCTTTCTCTAG+TGG 0.529933 8:+62721921 MsaT044619.1:CDS
TTTCCTCTTTCTCTAGTGGG+AGG 0.530703 8:+62721925 MsaT044619.1:CDS
CCACCTAGTCTCTCACATGA+AGG 0.532667 8:-62722935 None:intergenic
GTGAAGGGGTTGTAAAAGTG+AGG 0.536068 8:-62723004 None:intergenic
GTAAGGGTAGCAGCAGGCAT+AGG 0.543191 8:-62722905 None:intergenic
TTTGTAACGTTGTTGTTGGA+TGG 0.545023 8:-62721771 None:intergenic
GATAAACCCAACGTTAAAGA+TGG 0.545369 8:-62721834 None:intergenic
AGAGAATAGGAGGCTACAAA+AGG 0.550932 8:+62722835 MsaT044619.1:CDS
AGAAATGGAAACGACGGAGA+TGG 0.553541 8:+62721980 MsaT044619.1:CDS
AGCAGGCATAGGCATATACA+AGG 0.565140 8:-62722894 None:intergenic
CACATAGTAAGGGTAGCAGC+AGG 0.565288 8:-62722911 None:intergenic
TGTATAGGTACCTGGCTCTA+CGG 0.565795 8:-62722301 None:intergenic
AAAGCTGAAGCAAACAGAAG+TGG 0.566126 8:+62722772 MsaT044619.1:CDS
TGTGAGAGACTAGGTGGTGG+TGG 0.571619 8:+62722941 MsaT044619.1:CDS
TCTAACACCTCGACAAGTTG+AGG 0.578186 8:+62722265 MsaT044619.1:CDS
CATTAACAGAAGAGAATAGG+AGG 0.587793 8:+62722825 MsaT044619.1:CDS
ATAGTTGTTATGATTACTTG+AGG 0.592747 8:-62721802 None:intergenic
AAGACGGTGCCACTGCAGCT+AGG 0.595899 8:+62722036 MsaT044619.1:CDS
AAGCTTCTTCCTAGCTGCAG+TGG 0.601402 8:-62722045 None:intergenic
CAAGATGCTAGTAACAACTC+AGG 0.601537 8:+62721696 MsaT044619.1:CDS
GTAACGTTGTTGTTGGATGG+TGG 0.602624 8:-62721768 None:intergenic
GAATAGGAGGCTACAAAAGG+AGG 0.603538 8:+62722838 MsaT044619.1:CDS
GGTGGTGGTGGTGTTAATGG+TGG 0.605462 8:+62722953 MsaT044619.1:CDS
CACCTAGTCTCTCACATGAA+GGG 0.617037 8:-62722934 None:intergenic
TGCTGCTGAAGAATTTGTGA+AGG 0.622725 8:-62723020 None:intergenic
ACATGAAGGGCACATAGTAA+GGG 0.623367 8:-62722921 None:intergenic
AACCAGACCTCAACTTGTCG+AGG 0.626268 8:-62722272 None:intergenic
GAGGAAACAACGCTGTGATG+AGG 0.631204 8:-62721909 None:intergenic
TGAATTAGAAATGGAAACGA+CGG 0.634393 8:+62721974 MsaT044619.1:CDS
GCTGCTGAAGAATTTGTGAA+GGG 0.658168 8:-62723019 None:intergenic
CCTTCATGTGAGAGACTAGG+TGG 0.665742 8:+62722935 MsaT044619.1:CDS
TCATGTGAGAGACTAGGTGG+TGG 0.669612 8:+62722938 MsaT044619.1:CDS
ATCAGCGACGAAGATGAAGA+CGG 0.679700 8:+62722020 MsaT044619.1:CDS
CTGCTGAAGAATTTGTGAAG+GGG 0.685286 8:-62723018 None:intergenic
TGCCCTTCATGTGAGAGACT+AGG 0.694086 8:+62722932 MsaT044619.1:CDS
GCAGGCATAGGCATATACAA+GGG 0.751200 8:-62722893 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 62721681 62723048 62721681 ID=MsaG044619
Chr8 mRNA 62721681 62723048 62721681 ID=MsaT044619.1;Parent=MsaG044619
Chr8 exon 62721681 62722133 62721681 ID=MsaT044619.1.exon1;Parent=MsaT044619.1
Chr8 CDS 62721681 62722133 62721681 ID=cds.MsaT044619.1;Parent=MsaT044619.1
Chr8 exon 62722233 62722312 62722233 ID=MsaT044619.1.exon2;Parent=MsaT044619.1
Chr8 CDS 62722233 62722312 62722233 ID=cds.MsaT044619.1;Parent=MsaT044619.1
Chr8 exon 62722769 62723048 62722769 ID=MsaT044619.1.exon3;Parent=MsaT044619.1
Chr8 CDS 62722769 62723048 62722769 ID=cds.MsaT044619.1;Parent=MsaT044619.1
Gene Sequence

>MsaT044619.1

ATGGGTCTTAATAATCAAGATGCTAGTAACAACTCAGGCCTTCAACTTATTCTAGGCTTAGCTCTTACTCTTACCAAACAAGACACACCACCATCCAACAACAACGTTACAAAGCCTTATTCCTCAAGTAATCATAACAACTATGAAGCTGAACCATCTTTAACGTTGGGTTTATCCACCAAGAGTTACTATGAAGAACCTCTTGATTTTTCTACACAAACAAACTCACCTCATCACAGCGTTGTTTCCTCTTTCTCTAGTGGGAGGGTGAAGAGAGAAAGAGATGTTAGCAGTGAATTAGAAATGGAAACGACGGAGATGGAGAGAGTTTCTTCGAGAATCAGCGACGAAGATGAAGACGGTGCCACTGCAGCTAGGAAGAAGCTTAGACTTACCAAAGATCAATCTGCTATGCTTGAAGAAAGCTTCAAAGAACACAGCACTCTCAATCCTAAACAGAAGCAAGCTTTAGCCAGAGAGTTAAATCTAACACCTCGACAAGTTGAGGTCTGGTTCCAGAACCGTAGAGCCAGAACAAAGCTGAAGCAAACAGAAGTGGATTGTGAGTTCCTAAAGAAATGTTGTGAAACATTAACAGAAGAGAATAGGAGGCTACAAAAGGAGGTGCAAGAATTGAAGGCACTAAAACTAGCACAACCCTTGTATATGCCTATGCCTGCTGCTACCCTTACTATGTGCCCTTCATGTGAGAGACTAGGTGGTGGTGGTGTTAATGGTGGTTCTTCCAATAAGAGCAATTTCTCTAAGCCTCACTTTTACAACCCCTTCACAAATTCTTCAGCAGCATGTTGA
Protein sequence

>MsaT044619.1

MGLNNQDASNNSGLQLILGLALTLTKQDTPPSNNNVTKPYSSSNHNNYEAEPSLTLGLSTKSYYEEPLDFSTQTNSPHHSVVSSFSSGRVKRERDVSSELEMETTEMERVSSRISDEDEDGATAARKKLRLTKDQSAMLEESFKEHSTLNPKQKQALARELNLTPRQVEVWFQNRRARTKLKQTEVDCEFLKKCCETLTEENRRLQKEVQELKALKLAQPLYMPMPAATLTMCPSCERLGGGGVNGGSSNKSNFSKPHFYNPFTNSSAAC*