AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038307

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038307 MtrunA17_Chr7g0244981 95.760 283 11 1 1 282 1 283 0.0 562
MsaG038307 MtrunA17_Chr7g0244971 85.034 294 32 3 1 282 1 294 0.0 511
MsaG038307 MtrunA17_Chr8g0350621 44.800 250 121 6 12 255 5 243 1.02e-62 198
MsaG038307 MtrunA17_Chr8g0334541 42.391 276 132 8 13 276 4 264 3.66e-59 189
MsaG038307 MtrunA17_Chr2g0315371 39.623 265 119 9 1 229 1 260 6.02e-48 161
MsaG038307 MtrunA17_Chr2g0315381 39.526 253 124 5 6 229 7 259 1.24e-43 150
MsaG038307 MtrunA17_Chr2g0315361 38.806 268 127 7 10 241 12 278 7.80e-42 145
MsaG038307 MtrunA17_Chr5g0428351 39.583 240 108 14 1 237 78 283 7.72e-37 133
MsaG038307 MtrunA17_Chr3g0128671 42.077 183 84 7 20 189 23 196 3.19e-35 129
MsaG038307 MtrunA17_Chr8g0350631 67.532 77 24 1 142 218 5 80 4.19e-31 113
MsaG038307 MtrunA17_Chr7g0275531 34.343 198 101 5 11 194 9 191 3.80e-28 110
MsaG038307 MtrunA17_Chr3g0126391 33.990 203 101 4 9 185 2 197 1.58e-26 106
MsaG038307 MtrunA17_Chr8g0387981 34.158 202 100 7 1 180 1 191 7.71e-25 102
MsaG038307 MtrunA17_Chr8g0347251 52.941 85 32 1 104 180 111 195 1.41e-23 98.2
MsaG038307 MtrunA17_Chr7g0224801 55.932 59 23 1 121 179 93 148 5.84e-16 73.9
MsaG038307 MtrunA17_Chr8g0350641 35.294 136 78 4 13 141 7 139 7.79e-16 72.8
MsaG038307 MtrunA17_Chr2g0315401 58.621 58 23 1 149 205 19 76 1.76e-15 72.0
MsaG038307 MtrunA17_Chr5g0431811 42.667 75 42 1 117 190 668 742 1.40e-14 73.9
MsaG038307 MtrunA17_Chr8g0383351 49.153 59 27 1 121 179 160 215 1.11e-13 68.9
MsaG038307 MtrunA17_Chr1g0194481 50.847 59 26 1 121 179 158 213 2.00e-13 69.3
MsaG038307 MtrunA17_Chr5g0418781 51.724 58 25 1 121 178 124 178 3.94e-13 68.2
MsaG038307 MtrunA17_Chr8g0348311 44.872 78 39 2 104 179 136 211 4.15e-13 68.6
MsaG038307 MtrunA17_Chr3g0129361 49.153 59 27 1 121 179 144 199 4.95e-13 67.0
MsaG038307 MtrunA17_Chr7g0270191 50.847 59 26 1 121 179 145 200 5.09e-13 67.8
MsaG038307 MtrunA17_Chr7g0270831 39.655 116 66 3 65 178 158 271 7.13e-13 68.2
MsaG038307 MtrunA17_Chr2g0322391 36.449 107 65 2 96 202 325 428 1.05e-12 68.2
MsaG038307 MtrunA17_Chr4g0051881 51.724 58 25 1 121 178 178 232 1.47e-12 67.0
MsaG038307 MtrunA17_Chr8g0379461 36.893 103 53 2 115 217 70 160 2.11e-12 65.5
MsaG038307 MtrunA17_Chr5g0443131 50.000 58 26 1 121 178 157 211 2.12e-12 66.2
MsaG038307 MtrunA17_Chr8g0386241 48.276 58 27 1 121 178 103 157 2.19e-12 64.3
MsaG038307 MtrunA17_Chr3g0099641 43.210 81 44 1 122 202 252 330 2.74e-12 66.6
MsaG038307 MtrunA17_Chr4g0025061 33.846 130 75 3 77 206 325 443 4.73e-12 66.2
MsaG038307 MtrunA17_Chr8g0335811 48.276 58 27 1 121 178 154 208 5.60e-12 63.9
MsaG038307 MtrunA17_Chr2g0294231 47.458 59 28 1 121 179 203 258 7.33e-12 65.1
MsaG038307 MtrunA17_Chr2g0315341 58.824 51 20 1 158 207 2 52 8.79e-12 61.2
MsaG038307 MtrunA17_Chr4g0068541 44.828 58 29 1 121 178 208 262 1.13e-11 64.7
MsaG038307 MtrunA17_Chr2g0293481 37.963 108 53 3 83 178 217 322 1.69e-11 64.3
MsaG038307 MtrunA17_Chr4g0042831 48.276 58 27 1 121 178 278 332 2.46e-11 63.5
MsaG038307 MtrunA17_Chr1g0150801 31.200 125 70 3 66 179 38 157 2.48e-11 60.8
MsaG038307 MtrunA17_Chr7g0238921 51.724 58 25 1 121 178 124 178 2.64e-11 63.2
MsaG038307 MtrunA17_Chr2g0288871 38.384 99 50 2 80 178 273 360 3.03e-11 63.5
MsaG038307 MtrunA17_Chr1g0147881 36.842 95 56 3 85 178 226 317 4.45e-11 62.4
MsaG038307 MtrunA17_Chr2g0284321 39.785 93 52 3 87 178 1 90 7.73e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038307 AT3G56400.1 41.436 181 82 4 13 180 10 179 4.91e-37 133
MsaG038307 AT2G46400.1 34.197 193 92 6 14 194 8 177 1.55e-26 105
MsaG038307 AT2G40750.1 36.364 209 101 8 3 180 4 211 4.55e-26 105
MsaG038307 AT1G66550.1 32.099 243 138 9 13 248 8 230 1.17e-25 102
MsaG038307 AT1G66550.2 31.687 243 134 9 13 248 8 225 1.07e-24 99.8
MsaG038307 AT4G11070.1 34.536 194 102 4 11 180 8 200 3.59e-24 99.8
MsaG038307 AT5G01900.1 33.854 192 105 5 13 197 7 183 1.09e-23 97.4
MsaG038307 AT1G66560.1 34.503 171 97 4 14 183 9 165 1.79e-23 96.7
MsaG038307 AT5G22570.1 31.330 233 132 8 13 230 9 228 1.80e-23 97.4
MsaG038307 AT1G66600.1 33.889 180 88 7 13 183 8 165 8.42e-22 91.7
MsaG038307 AT4G11070.2 36.517 178 88 5 11 180 8 168 1.41e-21 92.0
MsaG038307 AT2G40740.1 30.890 191 105 5 15 180 44 232 1.49e-20 89.4
MsaG038307 AT2G40740.3 30.890 191 105 5 15 180 53 241 1.73e-20 89.4
MsaG038307 AT4G23810.1 49.412 85 35 1 104 180 133 217 9.41e-20 87.8
MsaG038307 AT5G24110.1 31.638 177 106 3 11 185 14 177 1.93e-19 86.7
MsaG038307 AT1G80590.1 29.648 199 102 5 12 208 7 169 3.88e-19 84.3
MsaG038307 AT5G45260.1 40.000 105 58 2 79 178 1161 1265 9.59e-15 74.7
MsaG038307 AT1G69310.4 36.434 129 64 5 68 186 89 209 2.76e-14 72.0
MsaG038307 AT1G69310.2 36.434 129 64 5 68 186 89 209 2.76e-14 72.0
MsaG038307 AT1G69310.1 36.434 129 64 5 68 186 89 209 2.76e-14 72.0
MsaG038307 AT4G04450.2 37.719 114 68 2 90 202 166 277 1.72e-13 70.5
MsaG038307 AT5G41570.1 51.724 58 25 1 121 178 98 152 1.75e-13 67.8
MsaG038307 AT5G13080.1 47.761 67 32 1 121 187 67 130 1.79e-13 67.0
MsaG038307 AT4G04450.1 37.719 114 68 2 90 202 260 371 2.42e-13 70.1
MsaG038307 AT3G01970.1 42.045 88 40 2 121 208 65 141 2.73e-13 66.2
MsaG038307 AT5G49520.1 49.153 59 27 1 121 179 221 276 4.47e-13 69.3
MsaG038307 AT1G64000.1 50.000 58 26 1 121 178 114 168 9.50e-13 65.9
MsaG038307 AT2G34830.2 35.246 122 65 3 62 178 167 279 1.12e-12 68.2
MsaG038307 AT2G34830.1 35.246 122 65 3 62 178 158 270 1.14e-12 68.2
MsaG038307 AT4G18170.1 37.391 115 56 3 84 185 122 233 1.51e-12 67.0
MsaG038307 AT2G47260.1 50.847 59 26 1 121 179 174 229 1.60e-12 67.4
MsaG038307 AT2G37260.1 46.970 66 32 1 121 186 349 411 1.61e-12 67.8
MsaG038307 AT2G37260.2 46.970 66 32 1 121 186 267 329 1.99e-12 67.0
MsaG038307 AT2G37260.3 46.970 66 32 1 121 186 269 331 2.04e-12 67.0
MsaG038307 AT2G46130.1 46.552 58 28 1 121 178 30 84 3.08e-12 62.4
MsaG038307 AT1G29860.1 50.000 58 26 1 121 178 136 190 3.12e-12 65.9
MsaG038307 AT2G44745.1 43.373 83 42 2 96 178 122 199 3.56e-12 64.7
MsaG038307 AT5G46350.1 46.154 65 32 1 121 185 183 244 4.20e-12 65.9
MsaG038307 AT1G62300.1 48.649 74 35 2 106 178 296 367 6.01e-12 66.2
MsaG038307 AT4G39410.1 40.964 83 38 3 96 178 206 277 7.12e-12 65.1
MsaG038307 AT2G23320.1 38.462 104 53 3 83 178 195 295 8.82e-12 65.1
MsaG038307 AT4G01250.1 36.364 110 62 3 71 178 80 183 1.42e-11 64.3
MsaG038307 AT1G29280.1 37.500 88 47 2 97 178 44 129 2.14e-11 63.2
MsaG038307 AT5G52830.1 51.724 58 26 1 122 179 166 221 2.36e-11 63.9
MsaG038307 AT3G62340.1 43.590 78 36 2 121 198 118 187 3.19e-11 62.8
MsaG038307 AT4G22070.4 54.386 57 24 1 122 178 298 352 4.49e-11 63.5
MsaG038307 AT4G22070.3 54.386 57 24 1 122 178 298 352 4.49e-11 63.5
MsaG038307 AT4G22070.2 54.386 57 24 1 122 178 298 352 4.49e-11 63.5
MsaG038307 AT4G22070.1 54.386 57 24 1 122 178 298 352 4.49e-11 63.5
MsaG038307 AT5G26170.1 44.828 58 29 1 121 178 113 167 5.39e-11 60.5
MsaG038307 AT5G64810.1 30.460 174 92 7 38 195 24 184 9.90e-11 60.5

Find 61 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGGGTCCTCTTGAATTCTT+TGG 0.239823 7:+74841393 None:intergenic
TTTAAGAAAGAGGCCAATTA+AGG 0.247289 7:+74841045 None:intergenic
CACCAAATCTGAAGACTCTT+TGG 0.292085 7:-74843258 MsaT038307.1:CDS
CATACATGATATCAGAAATA+TGG 0.313913 7:+74841075 None:intergenic
TTCCAAAGAGTCTTCAGATT+TGG 0.321094 7:+74843256 None:intergenic
CTTCACAAGACCACCTATTC+TGG 0.322872 7:-74841368 MsaT038307.1:CDS
GGTTATTGTTCAAGAACAAT+AGG 0.331883 7:+74843309 None:intergenic
TGATTTGCAGGAACTATTAC+AGG 0.348849 7:-74841460 MsaT038307.1:intron
TGTATGATGATGTCCTTAAT+TGG 0.354460 7:-74841058 MsaT038307.1:CDS
TTGCAAGAGTTCCATTGTTA+AGG 0.357033 7:-74843228 MsaT038307.1:CDS
ATATATATACCTTGGAAAAT+CGG 0.379995 7:+74842321 None:intergenic
GGTCATCAGTGGAGAAAGTA+TGG 0.398881 7:-74842364 MsaT038307.1:CDS
CATTCAGAATATTTCTAAGT+TGG 0.405861 7:+74843420 None:intergenic
GGATAATCCACTATGATCTC+AGG 0.413335 7:+74841317 None:intergenic
CCTTCAAATGATTACCTCTC+TGG 0.419974 7:-74841170 MsaT038307.1:CDS
GTTATTGTTCAAGAACAATA+GGG 0.426826 7:+74843310 None:intergenic
GTAGTTGATGAGTTGTTAAG+AGG 0.428242 7:-74843458 MsaT038307.1:CDS
GCAAGATTCTACAAGTATGA+TGG 0.441895 7:+74841345 None:intergenic
CACTGATGACCATCTTCCTC+AGG 0.442178 7:+74842376 None:intergenic
AAAGGAGGAGTGCAAGGAAG+AGG 0.462606 7:-74841210 MsaT038307.1:CDS
CCAGAGAGGTAATCATTTGA+AGG 0.464626 7:+74841170 None:intergenic
TAATCATTTGAAGGAGGAGG+AGG 0.475507 7:+74841179 None:intergenic
AATCTAGCTCATGGTGGCCG+TGG 0.480166 7:-74843485 MsaT038307.1:CDS
AGAAATATTCTGAATGAAAG+TGG 0.485810 7:-74843413 MsaT038307.1:CDS
AAATCAGAGCCCTCCGAAGT+AGG 0.493017 7:+74843287 None:intergenic
AGGTAATCATTTGAAGGAGG+AGG 0.500051 7:+74841176 None:intergenic
AATCAGAGCCCTCCGAAGTA+GGG 0.501613 7:+74843288 None:intergenic
ACAAGTATGATGGCCAGAAT+AGG 0.508994 7:+74841355 None:intergenic
CTTGATTCTCATGATCACTT+AGG 0.514163 7:-74841101 MsaT038307.1:CDS
AGCTAAGGAACATGGAAGAC+TGG 0.529377 7:+74841288 None:intergenic
GAACAATAGGGAATTAGTAA+AGG 0.532955 7:+74843322 None:intergenic
GAAGAGGCTGTTACAAAAGA+AGG 0.533769 7:-74843202 MsaT038307.1:intron
GGTGATATTGATAATAATGA+TGG 0.535663 7:-74843392 MsaT038307.1:CDS
TCGGAGCAGCCTGAGGAAGA+TGG 0.538270 7:-74842385 MsaT038307.1:CDS
GTTGTCAAAGCTAAGGAACA+TGG 0.540400 7:+74841280 None:intergenic
AGCTCATGGTGGCCGTGGAA+AGG 0.548511 7:-74843480 MsaT038307.1:CDS
GAAAATGAAAATCTAGCTCA+TGG 0.549115 7:-74843494 MsaT038307.1:CDS
AACAATAACCCTACTTCGGA+GGG 0.559409 7:-74843296 MsaT038307.1:CDS
GCCTCTTCGTTCCTTAACAA+TGG 0.560157 7:+74843217 None:intergenic
GGAAAGAGTTGTCAAAGCTA+AGG 0.561012 7:+74841273 None:intergenic
CAATAGGGAATTAGTAAAGG+TGG 0.561256 7:+74843325 None:intergenic
TGCACTCACAAACATGATCA+AGG 0.563442 7:-74841437 MsaT038307.1:CDS
CTTGAACAATAACCCTACTT+CGG 0.567689 7:-74843300 MsaT038307.1:CDS
TAGGTGGTCTTGTGAAGAGG+TGG 0.573118 7:+74841374 None:intergenic
ACAAGTCCAAAGAATTCAAG+AGG 0.590650 7:-74841399 MsaT038307.1:CDS
GAACAATAACCCTACTTCGG+AGG 0.592529 7:-74843297 MsaT038307.1:CDS
AATTTCACAAACATGGGAGA+AGG 0.598123 7:-74842410 MsaT038307.1:CDS
GAAGGAGTCGGAGCAGCCTG+AGG 0.605036 7:-74842392 MsaT038307.1:CDS
GCAAAACCCTGAGATCATAG+TGG 0.609874 7:-74841324 MsaT038307.1:CDS
ACAAACATGGGAGAAGGAGT+CGG 0.610498 7:-74842404 MsaT038307.1:CDS
GAATAGGTGGTCTTGTGAAG+AGG 0.611087 7:+74841371 None:intergenic
GATAATCCACTATGATCTCA+GGG 0.616679 7:+74841318 None:intergenic
AGTATGATGGCCAGAATAGG+TGG 0.622911 7:+74841358 None:intergenic
AGGTGGTCTTGTGAAGAGGT+GGG 0.643592 7:+74841375 None:intergenic
GAGAGGTAATCATTTGAAGG+AGG 0.645608 7:+74841173 None:intergenic
TCCATTGTTAAGGAACGAAG+AGG 0.645691 7:-74843218 MsaT038307.1:CDS
AACATGGAAGACTGGTCAGT+AGG 0.650207 7:+74841296 None:intergenic
ACTCATCAACTACCTTTCCA+CGG 0.650310 7:+74843468 None:intergenic
CTGAGGAAGATGGTCATCAG+TGG 0.675639 7:-74842375 MsaT038307.1:CDS
CATCAAAAGTTAGTCCAGAG+AGG 0.687787 7:+74841156 None:intergenic
AATGAAAATCTAGCTCATGG+TGG 0.743865 7:-74843491 MsaT038307.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 74841046 74843519 74841046 ID=MsaG038307
Chr7 mRNA 74841046 74843519 74841046 ID=MsaT038307.1;Parent=MsaG038307
Chr7 exon 74841046 74841472 74841046 ID=MsaT038307.1.exon3;Parent=MsaT038307.1
Chr7 CDS 74841046 74841472 74841046 ID=cds.MsaT038307.1;Parent=MsaT038307.1
Chr7 exon 74842331 74842435 74842331 ID=MsaT038307.1.exon2;Parent=MsaT038307.1
Chr7 CDS 74842331 74842435 74842331 ID=cds.MsaT038307.1;Parent=MsaT038307.1
Chr7 exon 74843203 74843519 74843203 ID=MsaT038307.1.exon1;Parent=MsaT038307.1
Chr7 CDS 74843203 74843519 74843203 ID=cds.MsaT038307.1;Parent=MsaT038307.1
Gene Sequence

>MsaT038307.1

ATGGAAAATGAAAATCTAGCTCATGGTGGCCGTGGAAAGGTAGTTGATGAGTTGTTAAGAGGACGTGATCTTGCAAACCAACTTAGAAATATTCTGAATGAAAGTGGTGATATTGATAATAATGATGGATCAACAATACCATTTGCTGAAAATCTTTTGAAGGAAGTGCTTACCACCTTTACTAATTCCCTATTGTTCTTGAACAATAACCCTACTTCGGAGGGCTCTGATTTGCAACTCACCAAATCTGAAGACTCTTTGGAAAGTAATTGCAAGAGTTCCATTGTTAAGGAACGAAGAGGCTGTTACAAAAGAAGAAAAATTTCACAAACATGGGAGAAGGAGTCGGAGCAGCCTGAGGAAGATGGTCATCAGTGGAGAAAGTATGGCCAAAAAAAGATCTTGCACACCGATTTTCCAAGGAACTATTACAGGTGCACTCACAAACATGATCAAGGTTGCAAAGCAACAAAACAAGTCCAAAGAATTCAAGAGGACCCACCTCTTCACAAGACCACCTATTCTGGCCATCATACTTGTAGAATCTTGCAAAACCCTGAGATCATAGTGGATTATCCTACTGACCAGTCTTCCATGTTCCTTAGCTTTGACAACTCTTTCCCAACACCAGCCAAAAAAGACTGTCCTTTTCTCTCAGTGAAAAAGGAGGAGTGCAAGGAAGAGGTTGTTCATCCTCCTCCTCCTTCAAATGATTACCTCTCTGGACTAACTTTTGATGATCCAGAAAAGGATGTCACACTATCATCAACACTTGATTCTCATGATCACTTAGGTGTCCATATTTCTGATATCATGTATGATGATGTCCTTAATTGGCCTCTTTCTTAA
Protein sequence

>MsaT038307.1

MENENLAHGGRGKVVDELLRGRDLANQLRNILNESGDIDNNDGSTIPFAENLLKEVLTTFTNSLLFLNNNPTSEGSDLQLTKSEDSLESNCKSSIVKERRGCYKRRKISQTWEKESEQPEEDGHQWRKYGQKKILHTDFPRNYYRCTHKHDQGCKATKQVQRIQEDPPLHKTTYSGHHTCRILQNPEIIVDYPTDQSSMFLSFDNSFPTPAKKDCPFLSVKKEECKEEVVHPPPPSNDYLSGLTFDDPEKDVTLSSTLDSHDHLGVHISDIMYDDVLNWPLS*