AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG043750

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043750 MtrunA17_Chr8g0366281 92.113 355 23 2 1 350 1 355 0.0 606
MsaG043750 MtrunA17_Chr5g0410741 58.477 407 101 15 1 347 1 399 2.25e-124 363
MsaG043750 MtrunA17_Chr3g0109981 49.065 214 70 7 154 347 258 452 2.41e-50 174
MsaG043750 MtrunA17_Chr6g0479431 48.000 200 82 7 154 347 184 367 1.82e-41 148
MsaG043750 MtrunA17_Chr1g0154261 84.722 72 11 0 165 236 121 192 1.03e-35 131
MsaG043750 MtrunA17_Chr7g0243081 44.737 114 59 1 131 244 36 145 2.13e-24 102
MsaG043750 MtrunA17_Chr1g0162931 67.241 58 19 0 169 226 17 74 6.46e-22 94.0
MsaG043750 MtrunA17_Chr1g0210911 65.517 58 20 0 169 226 21 78 1.49e-21 94.0
MsaG043750 MtrunA17_Chr8g0379121 62.295 61 23 0 169 229 110 170 1.23e-19 89.4
MsaG043750 MtrunA17_Chr2g0320231 63.934 61 22 0 169 229 96 156 1.62e-19 88.6
MsaG043750 MtrunA17_Chr7g0261911 52.439 82 37 1 158 239 250 329 4.30e-19 88.2
MsaG043750 MtrunA17_Chr1g0190301 47.872 94 35 2 155 236 148 239 3.00e-18 85.1
MsaG043750 MtrunA17_Chr2g0288601 66.102 59 19 1 163 221 65 122 5.06e-18 79.3
MsaG043750 MtrunA17_Chr7g0258551 54.412 68 29 1 172 239 214 279 6.40e-18 84.0
MsaG043750 MtrunA17_Chr7g0274471 37.405 131 71 2 171 290 219 349 1.19e-17 83.6
MsaG043750 MtrunA17_Chr3g0095611 60.714 56 22 0 171 226 20 75 1.50e-17 80.1
MsaG043750 MtrunA17_Chr5g0409731 69.811 53 16 0 171 223 26 78 1.61e-17 82.0
MsaG043750 MtrunA17_Chr2g0291021 53.247 77 34 1 172 248 51 125 5.22e-17 80.9
MsaG043750 MtrunA17_Chr2g0283951 49.425 87 31 2 169 242 88 174 8.15e-17 80.9
MsaG043750 MtrunA17_Chr7g0254981 50.000 78 38 1 172 249 52 128 1.84e-16 78.6
MsaG043750 MtrunA17_Chr1g0175091 52.941 68 30 1 172 239 260 325 6.57e-16 78.6
MsaG043750 MtrunA17_Chr1g0197171 62.500 56 21 0 171 226 45 100 1.07e-15 76.6
MsaG043750 MtrunA17_Chr8g0356501 58.929 56 23 0 171 226 38 93 2.10e-15 76.3
MsaG043750 MtrunA17_Chr2g0310011 58.929 56 23 0 171 226 36 91 2.52e-15 76.3
MsaG043750 MtrunA17_Chr5g0417521 43.590 78 44 0 171 248 16 93 2.92e-15 75.9
MsaG043750 MtrunA17_Chr4g0042451 37.838 111 67 2 171 279 18 128 3.49e-15 75.5
MsaG043750 MtrunA17_Chr2g0290991 60.714 56 22 0 171 226 40 95 4.04e-15 75.1
MsaG043750 MtrunA17_Chr6g0461641 60.377 53 21 0 171 223 43 95 9.38e-15 74.7
MsaG043750 MtrunA17_Chr2g0321461 57.143 56 24 0 171 226 46 101 1.79e-14 73.9
MsaG043750 MtrunA17_Chr1g0175081 48.333 60 31 0 172 231 24 83 3.65e-13 65.1
MsaG043750 MtrunA17_Chr7g0242521 46.341 82 37 2 172 246 15 96 6.48e-13 67.8
MsaG043750 MtrunA17_Chr1g0175071 54.717 53 24 0 172 224 179 231 2.45e-12 67.0
MsaG043750 MtrunA17_Chr4g0045361 50.000 72 34 1 165 236 269 338 4.39e-12 66.6
MsaG043750 MtrunA17_Chr4g0062921 47.297 74 36 1 164 237 229 299 8.33e-12 65.9
MsaG043750 MtrunA17_Chr2g0304841 38.679 106 54 3 167 266 210 310 2.77e-11 64.7
MsaG043750 MtrunA17_Chr1g0198601 39.130 115 66 3 124 238 167 277 7.30e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043750 AT1G32240.1 49.750 400 137 15 1 349 1 387 8.19e-87 267
MsaG043750 AT1G32240.2 49.854 343 117 13 1 297 1 334 5.49e-80 249
MsaG043750 AT4G17695.1 39.024 369 150 13 1 347 1 316 3.57e-57 189
MsaG043750 AT5G16560.1 45.192 208 86 5 154 347 203 396 1.26e-45 160
MsaG043750 AT5G42630.2 77.333 75 17 0 165 239 100 174 3.36e-35 128
MsaG043750 AT5G42630.1 79.452 73 15 0 165 237 100 172 1.09e-34 128
MsaG043750 AT1G32240.3 54.967 151 51 4 205 349 1 140 3.08e-34 123
MsaG043750 AT2G38300.1 40.288 139 69 4 155 290 43 170 4.26e-22 95.9
MsaG043750 AT4G04605.1 65.574 61 21 0 169 229 13 73 6.63e-22 92.8
MsaG043750 AT1G14600.1 69.492 59 18 0 170 228 23 81 2.83e-21 92.0
MsaG043750 AT2G02060.2 74.074 54 14 0 170 223 29 82 5.53e-21 91.3
MsaG043750 AT2G02060.1 74.074 54 14 0 170 223 29 82 5.53e-21 91.3
MsaG043750 AT5G45580.1 47.619 105 46 3 171 267 8 111 5.37e-20 88.6
MsaG043750 AT5G45580.2 47.619 105 46 3 171 267 24 127 6.83e-20 88.6
MsaG043750 AT4G04580.1 64.286 56 20 0 171 226 15 70 2.48e-18 81.6
MsaG043750 AT2G40260.1 62.319 69 24 2 163 231 76 142 6.43e-18 84.7
MsaG043750 AT2G42660.1 63.158 57 21 0 171 227 51 107 1.51e-17 81.6
MsaG043750 AT2G01060.1 54.545 77 32 1 172 248 17 90 2.69e-17 81.6
MsaG043750 AT4G04555.1 60.345 58 23 0 169 226 13 70 5.43e-17 76.3
MsaG043750 AT4G28610.1 60.606 66 23 2 172 236 227 290 1.15e-16 80.9
MsaG043750 AT3G12730.1 62.500 56 21 0 171 226 24 79 1.80e-16 78.2
MsaG043750 AT3G24120.2 62.264 53 20 0 171 223 42 94 8.43e-16 77.4
MsaG043750 AT3G24120.1 62.264 53 20 0 171 223 42 94 8.47e-16 77.4
MsaG043750 AT5G29000.4 52.778 72 34 0 172 243 233 304 1.09e-15 77.0
MsaG043750 AT3G04450.3 61.818 55 21 0 172 226 240 294 1.58e-15 76.6
MsaG043750 AT3G04450.4 41.748 103 46 1 172 274 200 288 2.26e-15 77.0
MsaG043750 AT3G04450.2 41.748 103 46 1 172 274 200 288 2.26e-15 77.0
MsaG043750 AT5G29000.1 63.636 55 20 0 172 226 190 244 2.59e-15 76.6
MsaG043750 AT5G29000.3 63.636 55 20 0 172 226 190 244 2.59e-15 76.6
MsaG043750 AT4G13640.1 60.377 53 21 0 171 223 38 90 2.61e-15 75.9
MsaG043750 AT3G04450.1 61.818 55 21 0 172 226 240 294 2.63e-15 77.0
MsaG043750 AT4G13640.2 60.377 53 21 0 171 223 38 90 2.77e-15 75.9
MsaG043750 AT5G29000.2 63.636 55 20 0 172 226 233 287 3.40e-15 76.6
MsaG043750 AT1G79430.2 58.929 56 23 0 171 226 35 90 3.62e-15 76.3
MsaG043750 AT5G06800.3 53.333 60 28 0 167 226 189 248 1.16e-14 73.9
MsaG043750 AT2G20400.1 46.237 93 46 2 172 262 233 323 1.79e-14 74.3
MsaG043750 AT2G20400.2 60.000 60 24 0 172 231 233 292 2.30e-14 73.9
MsaG043750 AT5G18240.2 55.357 56 25 0 171 226 46 101 2.55e-14 73.9
MsaG043750 AT5G18240.3 55.357 56 25 0 171 226 46 101 2.55e-14 73.9
MsaG043750 AT3G04030.1 53.571 56 26 0 171 226 46 101 2.85e-14 73.6
MsaG043750 AT5G18240.5 55.357 56 25 0 171 226 46 101 3.04e-14 73.6
MsaG043750 AT5G18240.1 55.357 56 25 0 171 226 46 101 3.12e-14 73.6
MsaG043750 AT5G18240.4 55.357 56 25 0 171 226 46 101 3.12e-14 73.6
MsaG043750 AT3G04030.3 53.571 56 26 0 171 226 46 101 3.40e-14 73.6
MsaG043750 AT5G06800.2 53.333 60 28 0 167 226 189 248 3.80e-14 73.2
MsaG043750 AT5G06800.1 53.333 60 28 0 167 226 189 248 3.99e-14 73.2
MsaG043750 AT3G13040.3 61.818 55 21 0 172 226 243 297 7.21e-14 72.8
MsaG043750 AT3G13040.1 61.818 55 21 0 172 226 243 297 7.21e-14 72.8
MsaG043750 AT3G13040.2 61.818 55 21 0 172 226 243 297 7.21e-14 72.8
MsaG043750 AT2G06020.1 55.932 59 26 0 172 230 88 146 1.14e-13 71.2
MsaG043750 AT1G69580.1 51.786 56 27 0 171 226 35 90 2.22e-13 70.9
MsaG043750 AT1G69580.2 51.786 56 27 0 171 226 35 90 2.24e-13 70.9
MsaG043750 AT3G04030.2 51.786 56 26 1 171 226 46 100 9.03e-12 66.2
MsaG043750 AT2G03500.1 53.448 58 27 0 166 223 229 286 1.41e-11 65.9

Find 73 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCCTTCTCTTTCCAATCTA+AGG 0.141226 8:-50557046 MsaT043750.1:CDS
CCTAATGTGAATTCCAAATT+TGG 0.168021 8:+50551639 None:intergenic
TGTTCATGCTGTTGAACTTT+TGG 0.168723 8:-50556664 MsaT043750.1:CDS
CAAGATGAGTTGGATGATTT+AGG 0.214915 8:-50557119 MsaT043750.1:CDS
AAGCTTAAAGAATCCAAATT+TGG 0.223420 8:-50551652 MsaT043750.1:CDS
AGTTGGATGATTTAGGATTC+TGG 0.227254 8:-50557112 MsaT043750.1:CDS
TTAAGCTTTGGTAATTGTTT+TGG 0.233379 8:+50556925 None:intergenic
AGCTCTTCCTCAAACATTTC+GGG 0.246554 8:-50551678 MsaT043750.1:CDS
CATTAGCTCAAGAACTGATT+TGG 0.260573 8:+50556436 None:intergenic
ATTGGAAAGAGAAGGGTTAA+AGG 0.279584 8:+50557052 None:intergenic
GAGCTCTTCCTCAAACATTT+CGG 0.296247 8:-50551679 MsaT043750.1:CDS
CCAAATTTGGAATTCACATT+AGG 0.298727 8:-50551639 MsaT043750.1:CDS
CAAAGCTTAAGTGAAGAGTT+AGG 0.304469 8:-50556912 MsaT043750.1:CDS
GGTACGAAAATTTACTTTCA+TGG 0.315520 8:+50556637 None:intergenic
AATAATGCAATAGAAGGATT+AGG 0.317571 8:+50556846 None:intergenic
CTTGATGTTTGTTTGCTGTT+TGG 0.333293 8:+50557164 None:intergenic
CAAATCAGTTCTTGAGCTAA+TGG 0.343450 8:-50556435 MsaT043750.1:CDS
TACACTGGAATTCCTCTAAT+AGG 0.345904 8:+50556879 None:intergenic
ATTTCTGCATCCAACTTAAC+TGG 0.356971 8:+50554690 None:intergenic
ACATGTTAAATCTCATTTGC+AGG 0.365023 8:-50556390 MsaT043750.1:intron
ATAATGCAATAGAAGGATTA+GGG 0.367798 8:+50556847 None:intergenic
CTAACTCTTCACTTAAGCTT+TGG 0.376994 8:+50556913 None:intergenic
GGGTTTCTCAAACCTATTAG+AGG 0.377514 8:-50556891 MsaT043750.1:CDS
GCATTTGGAGCAAATCTTCC+AGG 0.379781 8:-50554641 MsaT043750.1:intron
TGAGAAAATAATGCAATAGA+AGG 0.401679 8:+50556840 None:intergenic
ATTAGCTCAAGAACTGATTT+GGG 0.410489 8:+50556437 None:intergenic
AGGATTCTGGAAAAGAGCTT+TGG 0.413378 8:-50557099 MsaT043750.1:CDS
TTTCCAACAGGATGGACCTT+TGG 0.414851 8:+50553188 None:intergenic
ATGAGATTTAACATGTGATA+AGG 0.424611 8:+50556397 None:intergenic
AAAGCTTAAGTGAAGAGTTA+GGG 0.427487 8:-50556911 MsaT043750.1:CDS
AGAAGAAGGAGCCCTTAGAT+TGG 0.430703 8:+50557034 None:intergenic
ATGTATGACAATGGTTCATC+TGG 0.431132 8:-50554771 MsaT043750.1:CDS
GCTCTCACGCTGCGCTTTGA+AGG 0.432112 8:+50556726 None:intergenic
CTTTCGTTGCTTACACACTT+TGG 0.436512 8:+50551717 None:intergenic
CCCTTCTCTTTCCAATCTAA+GGG 0.458265 8:-50557045 MsaT043750.1:CDS
TAGAGGTTTGAAGAAGAAGA+AGG 0.460058 8:+50557020 None:intergenic
GCTTGTTCCCGAAATGTTTG+AGG 0.469196 8:+50551671 None:intergenic
TAATGATCTGCCAGTTAAGT+TGG 0.471479 8:-50554700 MsaT043750.1:CDS
TGGAAATGTGTCTTCTCTTG+AGG 0.477195 8:-50553171 MsaT043750.1:intron
AATGATAAATCTAGTTGTGC+TGG 0.487533 8:+50557200 None:intergenic
TAAATTTAAATTAGATGTAC+CGG 0.487824 8:-50554959 MsaT043750.1:intron
TACAGATGATCAAGATGAGT+TGG 0.492255 8:-50557129 MsaT043750.1:CDS
AGAGAAGACACATTTCCAAC+AGG 0.502518 8:+50553176 None:intergenic
TGGTTGAAAAGAGTTATTGT+TGG 0.506043 8:+50556959 None:intergenic
GATAGACCACCAGCATCATC+AGG 0.511405 8:-50554921 MsaT043750.1:intron
GCCCTTAGATTGGAAAGAGA+AGG 0.518621 8:+50557044 None:intergenic
TCTTGAGCTAATGGATGTAA+AGG 0.520433 8:-50556426 MsaT043750.1:CDS
AACAGGGAAGCTTGGTTGCA+TGG 0.521093 8:-50553215 MsaT043750.1:intron
TTGATAGTAACAGGGAAGCT+TGG 0.525381 8:-50553223 MsaT043750.1:intron
AACGAAAGATATTCCTCAGA+TGG 0.530234 8:-50551702 MsaT043750.1:CDS
AAGCCAAAGGTCCATCCTGT+TGG 0.539624 8:-50553191 MsaT043750.1:CDS
GTGGTAGTCCAACGCATCCT+CGG 0.547370 8:+50556702 None:intergenic
GAAGCATCAAAGAGTGGTTG+TGG 0.559906 8:+50556816 None:intergenic
TGAGAGCTCCGAGGATGCGT+TGG 0.564823 8:-50556710 MsaT043750.1:CDS
CCCTTAGATTGGAAAGAGAA+GGG 0.569429 8:+50557045 None:intergenic
GCAAACAAACATCAAGTTGG+AGG 0.579839 8:-50557157 MsaT043750.1:CDS
ACAGCAAACAAACATCAAGT+TGG 0.580847 8:-50557160 MsaT043750.1:CDS
TATCACTAACCTGATGATGC+TGG 0.583542 8:+50554912 None:intergenic
GGTTAGGTATGAGATTGTAG+AGG 0.587027 8:+50557003 None:intergenic
ACGAAAGATATTCCTCAGAT+GGG 0.600347 8:-50551701 MsaT043750.1:CDS
AAGACACATTTCCAACAGGA+TGG 0.611319 8:+50553180 None:intergenic
ATGATAAATCTAGTTGTGCT+GGG 0.613410 8:+50557201 None:intergenic
AACAAAGCGATTATGAAGAG+TGG 0.613873 8:+50556683 None:intergenic
CAATCTGATATGTATGACAA+TGG 0.620941 8:-50554780 MsaT043750.1:CDS
TGAGGAAGAGCTCCCATCTG+AGG 0.623382 8:+50551689 None:intergenic
TTGGTTGCATGGTAAGCCAA+AGG 0.634514 8:-50553204 MsaT043750.1:CDS
TTGACATAAATTCTTCAACA+AGG 0.639893 8:-50554725 MsaT043750.1:CDS
TGAGATCAAAGTTGTTGCCG+CGG 0.651120 8:-50556752 MsaT043750.1:CDS
GAAGCAGAAGCATCAAAGAG+TGG 0.673679 8:+50556810 None:intergenic
TTTAAATTAGATGTACCGGA+CGG 0.677447 8:-50554955 MsaT043750.1:intron
CACTAACCTGATGATGCTGG+TGG 0.677669 8:+50554915 None:intergenic
CTGCGCTTTGAAGGAAACCG+CGG 0.685322 8:+50556735 None:intergenic
AGCGCAGCGTGAGAGCTCCG+AGG 0.728362 8:-50556719 MsaT043750.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 50551626 50557234 50551626 ID=MsaG043750
Chr8 mRNA 50551626 50557234 50551626 ID=MsaT043750.1;Parent=MsaG043750
Chr8 exon 50551626 50551748 50551626 ID=MsaT043750.1.exon6;Parent=MsaT043750.1
Chr8 CDS 50551626 50551748 50551626 ID=cds.MsaT043750.1;Parent=MsaT043750.1
Chr8 exon 50553172 50553232 50553172 ID=MsaT043750.1.exon5;Parent=MsaT043750.1
Chr8 CDS 50553172 50553232 50553172 ID=cds.MsaT043750.1;Parent=MsaT043750.1
Chr8 exon 50554642 50554804 50554642 ID=MsaT043750.1.exon4;Parent=MsaT043750.1
Chr8 CDS 50554642 50554804 50554642 ID=cds.MsaT043750.1;Parent=MsaT043750.1
Chr8 exon 50554922 50554967 50554922 ID=MsaT043750.1.exon3;Parent=MsaT043750.1
Chr8 CDS 50554922 50554967 50554922 ID=cds.MsaT043750.1;Parent=MsaT043750.1
Chr8 exon 50556391 50556467 50556391 ID=MsaT043750.1.exon2;Parent=MsaT043750.1
Chr8 CDS 50556391 50556467 50556391 ID=cds.MsaT043750.1;Parent=MsaT043750.1
Chr8 exon 50556652 50557234 50556652 ID=MsaT043750.1.exon1;Parent=MsaT043750.1
Chr8 CDS 50556652 50557234 50556652 ID=cds.MsaT043750.1;Parent=MsaT043750.1
Gene Sequence

>MsaT043750.1

ATGGAGCTATTCCCAGCACAACTAGATTTATCATTGCAAATCAGTCTTCCAAACAGCAAACAAACATCAAGTTGGAGGAGAAATACAGATGATCAAGATGAGTTGGATGATTTAGGATTCTGGAAAAGAGCTTTGGAGTCAAGAACAGAAGCAAATCACACCTTTAACCCTTCTCTTTCCAATCTAAGGGCTCCTTCTTCTTCTTCAAACCTCTACAATCTCATACCTAACCCTTTTCAAAACACTAATAATTCCAACAATAACTCTTTTCAACCATTTCATCAAAACCAAAACAATTACCAAAGCTTAAGTGAAGAGTTAGGGTTTCTCAAACCTATTAGAGGAATTCCAGTGTATCATCAAAACCCTAATCCTTCTATTGCATTATTTTCTCAGCCACAACCACTCTTTGATGCTTCTGCTTCAAGTTCATCAACAGCTTTTCATTCTCATACTTCGATGAGATCAAAGTTGTTGCCGCGGTTTCCTTCAAAGCGCAGCGTGAGAGCTCCGAGGATGCGTTGGACTACCACTCTTCATAATCGCTTTGTTCATGCTGTTGAACTTTTGGGTGGCCATGAAAGAGCTACACCCAAATCAGTTCTTGAGCTAATGGATGTAAAGGATCTAACCTTATCACATGTTAAATCTCATTTGCAGATGTACCGGACGGTGAAAATTACAGATAGACCACCAGCATCATCAGGTCAATCTGATATGTATGACAATGGTTCATCTGGAGATACTTCTGAAGACTTCATGTTTGACATAAATTCTTCAACAAGGTCTAATGATCTGCCAGTTAAGTTGGATGCAGAAATCCCTAATCAAGATAAAGAAAAACATAGCATTTGGAGCAAATCTTCCAGGGAAGCTTGGTTGCATGGTAAGCCAAAGGTCCATCCTGTTGGAAATGTGTCTTCTCTTGAGGAAATGGATCCAAAGTGTGTAAGCAACGAAAGATATTCCTCAGATGGGAGCTCTTCCTCAAACATTTCGGGAACAAGCTTAAAGAATCCAAATTTGGAATTCACATTAGGCAACTCAGTTTGA
Protein sequence

>MsaT043750.1

MELFPAQLDLSLQISLPNSKQTSSWRRNTDDQDELDDLGFWKRALESRTEANHTFNPSLSNLRAPSSSSNLYNLIPNPFQNTNNSNNNSFQPFHQNQNNYQSLSEELGFLKPIRGIPVYHQNPNPSIALFSQPQPLFDASASSSSTAFHSHTSMRSKLLPRFPSKRSVRAPRMRWTTTLHNRFVHAVELLGGHERATPKSVLELMDVKDLTLSHVKSHLQMYRTVKITDRPPASSGQSDMYDNGSSGDTSEDFMFDINSSTRSNDLPVKLDAEIPNQDKEKHSIWSKSSREAWLHGKPKVHPVGNVSSLEEMDPKCVSNERYSSDGSSSSNISGTSLKNPNLEFTLGNSV*