AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039450

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039450 MtrunA17_Chr7g0258551 95.568 361 8 2 1 359 33 387 0.0 697
MsaG039450 MtrunA17_Chr1g0175091 61.345 357 112 8 1 345 80 422 8.73e-137 396
MsaG039450 MtrunA17_Chr7g0261911 51.111 180 87 1 175 353 251 430 1.53e-58 197
MsaG039450 MtrunA17_Chr1g0190301 57.042 142 60 1 177 317 166 307 3.11e-51 175
MsaG039450 MtrunA17_Chr7g0274471 53.521 142 65 1 185 325 217 358 1.48e-47 166
MsaG039450 MtrunA17_Chr2g0291021 51.724 145 67 2 186 327 49 193 5.73e-46 159
MsaG039450 MtrunA17_Chr7g0254981 49.296 142 68 1 184 321 48 189 2.45e-45 156
MsaG039450 MtrunA17_Chr6g0461641 45.395 152 64 3 185 318 41 191 7.09e-37 137
MsaG039450 MtrunA17_Chr2g0321461 45.087 173 69 6 169 317 27 197 5.05e-36 134
MsaG039450 MtrunA17_Chr7g0242521 46.809 141 71 2 173 310 1 140 1.49e-35 129
MsaG039450 MtrunA17_Chr1g0175071 50.350 143 70 1 175 316 165 307 4.17e-35 130
MsaG039450 MtrunA17_Chr1g0175081 63.529 85 31 0 166 250 2 86 1.45e-31 115
MsaG039450 MtrunA17_Chr5g0417521 35.032 157 89 2 185 328 14 170 1.68e-30 119
MsaG039450 MtrunA17_Chr5g0409731 41.096 146 73 3 186 318 25 170 1.38e-29 115
MsaG039450 MtrunA17_Chr8g0356501 40.268 149 79 4 179 319 28 174 4.19e-29 115
MsaG039450 MtrunA17_Chr4g0042451 40.000 145 75 4 185 317 16 160 8.09e-29 114
MsaG039450 MtrunA17_Chr2g0290991 34.946 186 100 4 186 358 39 216 2.89e-28 112
MsaG039450 MtrunA17_Chr2g0310011 40.000 155 83 4 179 325 26 178 6.09e-28 112
MsaG039450 MtrunA17_Chr1g0197171 36.196 163 83 4 186 333 44 200 7.67e-26 105
MsaG039450 MtrunA17_Chr7g0258531 43.357 143 77 2 177 317 204 344 3.80e-25 104
MsaG039450 MtrunA17_Chr3g0109981 48.837 86 41 2 188 271 276 360 5.79e-18 84.7
MsaG039450 MtrunA17_Chr7g0243081 49.367 79 39 1 182 260 67 144 7.60e-18 83.6
MsaG039450 MtrunA17_Chr8g0366281 54.412 68 29 1 188 253 175 242 1.20e-17 83.2
MsaG039450 MtrunA17_Chr2g0320231 38.125 160 85 5 108 261 26 177 2.53e-17 82.4
MsaG039450 MtrunA17_Chr8g0379121 56.452 62 27 0 182 243 107 168 4.87e-17 82.0
MsaG039450 MtrunA17_Chr2g0288601 53.846 65 30 0 172 236 57 121 3.11e-16 74.3
MsaG039450 MtrunA17_Chr6g0479431 60.000 55 22 0 188 242 204 258 3.37e-16 79.0
MsaG039450 MtrunA17_Chr1g0210911 50.000 78 35 2 169 242 1 78 3.42e-16 78.6
MsaG039450 MtrunA17_Chr3g0095611 55.932 59 26 0 184 242 17 75 5.10e-16 76.3
MsaG039450 MtrunA17_Chr5g0410741 60.000 55 22 0 188 242 221 275 5.33e-16 78.6
MsaG039450 MtrunA17_Chr1g0154261 53.968 63 29 0 188 250 128 190 7.51e-16 77.0
MsaG039450 MtrunA17_Chr1g0162931 55.738 61 27 0 182 242 14 74 9.15e-16 76.6
MsaG039450 MtrunA17_Chr2g0283951 51.515 66 28 1 182 243 85 150 8.00e-14 72.0
MsaG039450 MtrunA17_Chr7g0275401 55.000 60 26 1 180 239 186 244 8.50e-13 68.2
MsaG039450 MtrunA17_Chr4g0009901 51.786 56 26 1 184 239 166 220 5.21e-12 65.5
MsaG039450 MtrunA17_Chr4g0062921 49.231 65 33 0 175 239 224 288 6.85e-12 66.2
MsaG039450 MtrunA17_Chr1g0198601 37.755 98 46 1 170 252 180 277 2.13e-11 64.7
MsaG039450 MtrunA17_Chr4g0009981 46.774 62 32 1 178 239 108 168 7.16e-11 62.0
MsaG039450 MtrunA17_Chr4g0045361 50.877 57 28 0 183 239 271 327 7.24e-11 63.2
MsaG039450 MtrunA17_Chr5g0402631 53.571 56 26 0 184 239 212 267 7.67e-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
MsaG039450 AT5G06800.1 57.727 220 86 6 109 322 110 328 6.43e-69 221
MsaG039450 AT5G06800.2 56.444 225 86 7 109 322 110 333 2.63e-66 214
MsaG039450 AT5G29000.1 53.947 152 66 1 173 320 175 326 2.35e-52 178
MsaG039450 AT5G29000.3 53.947 152 66 1 173 320 175 326 2.35e-52 178
MsaG039450 AT5G29000.2 53.947 152 66 1 173 320 218 369 4.19e-52 178
MsaG039450 AT3G04450.4 45.055 182 89 3 143 320 162 336 9.88e-50 172
MsaG039450 AT3G04450.2 45.055 182 89 3 143 320 162 336 9.88e-50 172
MsaG039450 AT3G04450.1 45.055 182 89 3 143 320 202 376 2.40e-49 172
MsaG039450 AT4G28610.1 54.861 144 63 1 173 314 212 355 7.57e-49 169
MsaG039450 AT2G01060.1 50.331 151 73 2 184 332 13 163 2.61e-47 162
MsaG039450 AT3G13040.3 48.214 168 78 4 159 317 211 378 1.32e-44 159
MsaG039450 AT3G13040.1 48.214 168 78 4 159 317 211 378 1.32e-44 159
MsaG039450 AT3G13040.2 48.214 168 78 4 159 317 211 378 1.32e-44 159
MsaG039450 AT2G20400.1 53.077 130 60 1 186 314 231 360 9.64e-42 150
MsaG039450 AT2G20400.2 53.435 131 59 2 186 314 231 361 3.32e-40 146
MsaG039450 AT3G04030.3 45.963 161 69 3 175 317 32 192 7.36e-38 140
MsaG039450 AT5G06800.3 56.081 148 58 6 109 250 110 256 2.83e-37 135
MsaG039450 AT5G18240.1 44.720 161 71 3 176 318 33 193 1.18e-36 137
MsaG039450 AT5G18240.4 44.720 161 71 3 176 318 33 193 1.18e-36 137
MsaG039450 AT3G04030.2 44.720 161 70 4 175 317 32 191 6.84e-35 132
MsaG039450 AT3G24120.1 41.667 156 71 2 186 321 41 196 2.17e-34 128
MsaG039450 AT1G69580.1 42.581 155 63 3 185 317 33 183 3.74e-34 129
MsaG039450 AT5G18240.5 44.099 161 70 4 176 318 33 191 1.12e-33 129
MsaG039450 AT1G69580.2 41.667 156 64 3 185 317 33 184 4.38e-33 126
MsaG039450 AT3G04030.1 43.478 161 67 4 175 317 32 186 1.22e-32 125
MsaG039450 AT1G79430.2 43.243 148 76 4 179 319 25 171 2.38e-32 124
MsaG039450 AT3G24120.2 40.881 159 71 3 186 321 41 199 2.42e-32 123
MsaG039450 AT4G13640.1 34.737 190 108 2 186 359 37 226 2.59e-32 123
MsaG039450 AT5G45580.1 40.606 165 67 5 186 324 7 166 3.82e-32 122
MsaG039450 AT5G45580.2 40.606 165 67 5 186 324 23 182 4.06e-32 122
MsaG039450 AT5G18240.2 42.236 161 69 4 176 318 33 187 2.39e-31 122
MsaG039450 AT5G18240.3 42.236 161 69 4 176 318 33 187 2.39e-31 122
MsaG039450 AT4G13640.2 34.184 196 104 4 186 359 37 229 2.45e-30 117
MsaG039450 AT2G01060.2 49.123 114 56 2 221 332 1 114 1.46e-28 111
MsaG039450 AT5G29000.4 57.955 88 35 1 173 258 218 305 2.59e-28 112
MsaG039450 AT3G04450.3 46.154 104 49 2 143 246 202 298 3.15e-26 107
MsaG039450 AT3G12730.1 38.562 153 81 5 177 317 12 163 3.70e-25 102
MsaG039450 AT2G42660.1 55.072 69 31 0 182 250 46 114 3.12e-19 86.7
MsaG039450 AT3G04030.5 41.379 116 52 2 218 317 1 116 2.94e-18 84.7
MsaG039450 AT4G04605.1 45.263 95 48 2 182 276 10 100 5.21e-17 79.3
MsaG039450 AT2G38300.1 58.065 62 26 0 182 243 50 111 6.25e-17 81.3
MsaG039450 AT2G02060.2 63.793 58 21 0 182 239 25 82 8.26e-17 79.7
MsaG039450 AT2G02060.1 63.793 58 21 0 182 239 25 82 8.26e-17 79.7
MsaG039450 AT4G17695.1 54.412 68 29 1 188 253 166 233 8.45e-17 80.9
MsaG039450 AT1G14600.1 58.065 62 26 0 182 243 19 80 1.56e-16 79.0
MsaG039450 AT1G32240.2 54.412 68 29 1 188 253 215 282 1.83e-16 80.1
MsaG039450 AT1G32240.1 54.412 68 29 1 188 253 215 282 2.23e-16 80.1
MsaG039450 AT5G16560.1 60.000 55 22 0 188 242 221 275 5.81e-16 79.0
MsaG039450 AT1G79430.1 38.318 107 60 3 218 319 1 106 1.01e-15 77.0
MsaG039450 AT5G42630.2 51.562 64 31 0 188 251 107 170 2.16e-15 75.1
MsaG039450 AT2G06020.1 54.386 57 26 0 186 242 86 142 3.12e-15 75.9
MsaG039450 AT5G42630.1 51.562 64 31 0 188 251 107 170 3.53e-15 75.5
MsaG039450 AT2G40260.1 57.627 59 24 1 185 242 80 138 7.15e-15 75.9
MsaG039450 AT4G04580.1 50.820 61 30 0 182 242 10 70 5.08e-14 69.7
MsaG039450 AT3G04030.4 37.931 116 50 3 218 317 1 110 1.89e-13 70.9
MsaG039450 AT4G04555.1 51.471 68 28 1 180 242 3 70 3.40e-13 65.9
MsaG039450 AT4G37180.1 50.000 64 32 0 176 239 200 263 6.63e-13 69.3
MsaG039450 AT4G37180.2 50.000 64 32 0 176 239 207 270 8.04e-13 69.3
MsaG039450 AT5G18240.6 35.897 117 53 3 218 318 1 111 2.55e-12 67.4
MsaG039450 AT2G40970.1 46.053 76 38 2 166 239 83 157 8.84e-12 65.1
MsaG039450 AT2G03500.1 49.254 67 31 1 173 239 223 286 2.43e-11 65.1
MsaG039450 AT5G58080.1 51.667 60 28 1 180 239 188 246 5.16e-11 64.3

Find 51 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTATCATCATTGATTGTATT+TGG 0.166617 7:+89194137 None:intergenic
AAGGGAAAACAATCATTTAT+TGG 0.215858 7:-89196134 MsaT039450.1:CDS
TCCCTTTGTGTCAATCTCTA+AGG 0.220544 7:-89196153 MsaT039450.1:CDS
AATTATGTGTTCGGAGGTTT+TGG 0.254189 7:+89194055 None:intergenic
CAGCAAAAGTTGTTCTTTGA+TGG 0.257577 7:-89195953 MsaT039450.1:CDS
ATCATATAAGGTTAATGATT+TGG 0.267300 7:-89196179 MsaT039450.1:CDS
ATCATCTTCAATATAGCTTT+TGG 0.290192 7:+89195243 None:intergenic
TTTGAGTTCTCAATCATATA+AGG 0.290541 7:-89196191 MsaT039450.1:CDS
CAAGCTGCACATCATCTATA+TGG 0.344546 7:+89194732 None:intergenic
TAATGGAAATCATGACTATA+TGG 0.366206 7:-89195894 MsaT039450.1:intron
AAACTTCCTGCTGAAATTGT+TGG 0.389210 7:+89195482 None:intergenic
TTGAGTGTGTGAATCGCCTT+GGG 0.396796 7:-89195367 MsaT039450.1:CDS
GGAAGTTTATCAACTTCTCT+TGG 0.397953 7:-89195467 MsaT039450.1:CDS
GTGTTAGACAGTTCAAAGTT+GGG 0.442345 7:+89196091 None:intergenic
ATAGATGATGTGCAGCTTGT+TGG 0.451741 7:-89194728 MsaT039450.1:CDS
GTCTAACACTTTGCAAGCAT+TGG 0.457506 7:-89196077 MsaT039450.1:CDS
GTTGAGTGTGTGAATCGCCT+TGG 0.458117 7:-89195368 MsaT039450.1:CDS
AGTGTTAGACAGTTCAAAGT+TGG 0.458507 7:+89196090 None:intergenic
CAAGTAAAACAAGAATTAGA+TGG 0.463217 7:-89195415 MsaT039450.1:CDS
TTGCAGTGGCTTTCAAATCA+AGG 0.468098 7:-89194555 MsaT039450.1:intron
TAACTATCAAATTATGTGTT+CGG 0.471768 7:+89194046 None:intergenic
AAAAGCTATATTGAAGATGA+TGG 0.473225 7:-89195241 MsaT039450.1:CDS
CCCTTAGAGATTGACACAAA+GGG 0.473466 7:+89196152 None:intergenic
AAGATTGATTATTATCAACT+TGG 0.481452 7:+89196212 None:intergenic
AACAAGAATTAGATGGACTA+AGG 0.489147 7:-89195408 MsaT039450.1:CDS
TTGGTGAAATCTCAATTGAA+TGG 0.505462 7:-89196058 MsaT039450.1:CDS
GTTCAAAGTTGGGGTCATGC+TGG 0.509873 7:+89196101 None:intergenic
CCCTTTGTGTCAATCTCTAA+GGG 0.510278 7:-89196152 MsaT039450.1:CDS
CTTGGAAGCACTTCTTCTAG+TGG 0.515481 7:-89195449 MsaT039450.1:CDS
AAAGATGTTTCTATTTCTGA+AGG 0.518549 7:-89194101 MsaT039450.1:CDS
TTGTCTCCAACAATTTCAGC+AGG 0.521373 7:-89195488 MsaT039450.1:CDS
AAATTACCTTGTGCTGACTC+TGG 0.538668 7:+89195150 None:intergenic
ATTGGAAAAGGCTTGCTCCC+AGG 0.542042 7:+89195980 None:intergenic
CAGAAGCTGGTGACTCGAAA+CGG 0.549320 7:+89196281 None:intergenic
AACATTACAATTGCGACTTG+AGG 0.551481 7:-89194228 MsaT039450.1:CDS
TTGGAAGCACTTCTTCTAGT+GGG 0.558294 7:-89195448 MsaT039450.1:CDS
TATGCAACAGAAAACTGCAT+GGG 0.559407 7:-89196253 MsaT039450.1:CDS
ATCCGTTTGCAGGTTGCTCG+TGG 0.560326 7:-89195563 MsaT039450.1:intron
TCCCTTAGAGATTGACACAA+AGG 0.575040 7:+89196151 None:intergenic
CTATCAAATTATGTGTTCGG+AGG 0.576552 7:+89194049 None:intergenic
TTATGCAACAGAAAACTGCA+TGG 0.589899 7:-89196254 MsaT039450.1:CDS
TTGTATTTGGAGTATTGAAG+AGG 0.600647 7:+89194150 None:intergenic
TGTTAGACAGTTCAAAGTTG+GGG 0.605516 7:+89196092 None:intergenic
GCGTCTTCATGAACAACTAG+AGG 0.618964 7:-89194501 MsaT039450.1:intron
TTGAAGATGATGGACTCTGA+AGG 0.627815 7:-89195231 MsaT039450.1:CDS
CAATTGCGACTTGAGGAACA+AGG 0.643962 7:-89194221 MsaT039450.1:CDS
AACTTCAATTAGATGCACAA+AGG 0.668848 7:-89194523 MsaT039450.1:CDS
TGATGAGCTGTTGCTAACTG+AGG 0.672832 7:+89195925 None:intergenic
TTCATGCCAGAGTCAGCACA+AGG 0.675031 7:-89195156 MsaT039450.1:intron
GAGTGTGTGAATCGCCTTGG+GGG 0.715113 7:-89195365 MsaT039450.1:CDS
TGAGTGTGTGAATCGCCTTG+GGG 0.716876 7:-89195366 MsaT039450.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 89194052 89196308 89194052 ID=MsaG039450
Chr7 mRNA 89194052 89196308 89194052 ID=MsaT039450.1;Parent=MsaG039450
Chr7 exon 89194052 89194258 89194052 ID=MsaT039450.1.exon6;Parent=MsaT039450.1
Chr7 CDS 89194052 89194258 89194052 ID=cds.MsaT039450.1;Parent=MsaT039450.1
Chr7 exon 89194502 89194571 89194502 ID=MsaT039450.1.exon5;Parent=MsaT039450.1
Chr7 CDS 89194502 89194571 89194502 ID=cds.MsaT039450.1;Parent=MsaT039450.1
Chr7 exon 89194719 89194773 89194719 ID=MsaT039450.1.exon4;Parent=MsaT039450.1
Chr7 CDS 89194719 89194773 89194719 ID=cds.MsaT039450.1;Parent=MsaT039450.1
Chr7 exon 89195157 89195273 89195157 ID=MsaT039450.1.exon3;Parent=MsaT039450.1
Chr7 CDS 89195157 89195273 89195157 ID=cds.MsaT039450.1;Parent=MsaT039450.1
Chr7 exon 89195357 89195573 89195357 ID=MsaT039450.1.exon2;Parent=MsaT039450.1
Chr7 CDS 89195357 89195573 89195357 ID=cds.MsaT039450.1;Parent=MsaT039450.1
Chr7 exon 89195895 89196308 89195895 ID=MsaT039450.1.exon1;Parent=MsaT039450.1
Chr7 CDS 89195895 89196308 89195895 ID=cds.MsaT039450.1;Parent=MsaT039450.1
Gene Sequence

>MsaT039450.1

ATGAGCCGTTTCGAGTCACCAGCTTCTGCTTTTTATGCAACAGAAAACTGCATGGGATTTGCAGAATTTGATCACCAAGTTGATAATAATCAATCTTTGAGTTCTCAATCATATAAGGTTAATGATTTGGAATTCCCTTTGTGTCAATCTCTAAGGGAAAACAATCATTTATTGGATGCATCAAACCAGCATGACCCCAACTTTGAACTGTCTAACACTTTGCAAGCATTGGTGAAATCTCAATTGAATGGTAATCAACACCTTAGATTCCATGAAAACTTGAATAAATTTTCATGTGGGAATTTTCCTGGGAGCAAGCCTTTTCCAATTGAACAGCAAAAGTTGTTCTTTGATGGTCTTGCCTCAGTTAGCAACAGCTCATCATTTTGTAATAATGGAAATCATGACTATATGGTTGCTCGTGGATCTTATCATTTATCTGTTGAGCAACTGAACTTCTCTTCTCAGCATGAGAAGTTGTCTCCAACAATTTCAGCAGGAAGTTTATCAACTTCTCTTGGAAGCACTTCTTCTAGTGGGAATGTAGTCTCAAGTAAAACAAGAATTAGATGGACTAAGGATCTTCATGAGAAGTTTGTTGAGTGTGTGAATCGCCTTGGGGGTGCTGAGAAGGCAACACCAAAAGCTATATTGAAGATGATGGACTCTGAAGGCTTGACCATATTTCATGTGAAAAGTCATTTGCAGAAATATAGAACTGCAAAATTCATGCCAGAGTCAGCACAAGGGAAATCTGACAAAAGAATCCATATAGATGATGTGCAGCTTGTTGGTGTTAAAACTGGCTTTCAAATCAAGGAAGCACTTCAACTTCAATTAGATGCACAAAGGCGTCTTCATGAACAACTAGAGATTCAAAGAACATTACAATTGCGACTTGAGGAACAAGGCAGACAGCTGAAAAAAATGTTTGATCAGCAGCAGAAGACATGTAGTAACCTCTTCAATACTCCAAATACAATCAATGATGATACAAAAAATATTGGCAAAGATGTTTCTATTTCTGAAGGAGCTGAAAACTCTTTATTCCAATCCAAAACCTCCGAACACATAATTTGA
Protein sequence

>MsaT039450.1

MSRFESPASAFYATENCMGFAEFDHQVDNNQSLSSQSYKVNDLEFPLCQSLRENNHLLDASNQHDPNFELSNTLQALVKSQLNGNQHLRFHENLNKFSCGNFPGSKPFPIEQQKLFFDGLASVSNSSSFCNNGNHDYMVARGSYHLSVEQLNFSSQHEKLSPTISAGSLSTSLGSTSSSGNVVSSKTRIRWTKDLHEKFVECVNRLGGAEKATPKAILKMMDSEGLTIFHVKSHLQKYRTAKFMPESAQGKSDKRIHIDDVQLVGVKTGFQIKEALQLQLDAQRRLHEQLEIQRTLQLRLEEQGRQLKKMFDQQQKTCSNLFNTPNTINDDTKNIGKDVSISEGAENSLFQSKTSEHII*