AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG006077

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006077 MtrunA17_Chr2g0277531 89.097 321 27 4 1 316 1 318 0.0 571
MsaG006077 MtrunA17_Chr2g0277461 72.240 317 74 7 10 316 4 316 4.31e-156 444
MsaG006077 MtrunA17_Chr1g0178011 48.447 322 141 10 12 316 5 318 4.19e-87 268
MsaG006077 MtrunA17_Chr2g0289221 48.896 317 142 11 12 316 13 321 1.12e-84 259
MsaG006077 MtrunA17_Chr5g0417281 43.849 317 161 8 10 316 2 311 5.91e-82 257
MsaG006077 MtrunA17_Chr5g0424931 46.377 345 134 12 13 316 13 347 1.79e-81 256
MsaG006077 MtrunA17_Chr5g0417211 46.395 319 150 10 11 316 4 314 1.96e-80 249
MsaG006077 MtrunA17_Chr5g0424801 41.975 324 154 12 13 316 6 315 1.57e-72 228
MsaG006077 MtrunA17_Chr5g0425261 42.284 324 153 12 13 316 6 315 1.16e-71 226
MsaG006077 MtrunA17_Chr5g0436761 44.201 319 159 10 11 316 4 316 6.18e-71 227
MsaG006077 MtrunA17_Chr5g0424741 42.165 351 152 12 12 316 5 350 2.24e-70 227
MsaG006077 MtrunA17_Chr3g0115271 39.496 357 152 12 14 316 14 360 3.00e-69 226
MsaG006077 MtrunA17_Chr2g0326761 34.262 359 167 12 16 316 8 355 3.70e-56 193
MsaG006077 MtrunA17_Chr5g0419861 80.556 108 19 1 64 169 16 123 2.53e-55 176
MsaG006077 MtrunA17_Chr1g0181211 32.967 364 173 11 16 316 24 379 7.38e-53 184
MsaG006077 MtrunA17_Chr1g0199681 33.803 355 167 11 19 316 94 437 5.17e-51 179
MsaG006077 MtrunA17_Chr7g0264161 36.246 309 167 11 29 316 2 301 6.74e-49 165
MsaG006077 MtrunA17_Chr5g0425661 45.098 204 101 4 19 218 37 233 7.42e-49 163
MsaG006077 MtrunA17_Chr4g0028971 32.086 374 175 14 9 316 2 362 7.71e-45 162
MsaG006077 MtrunA17_Chr4g0070181 31.804 327 186 12 16 316 20 335 3.65e-36 138
MsaG006077 MtrunA17_Chr7g0264171 36.792 212 121 5 16 222 28 231 7.47e-36 136
MsaG006077 MtrunA17_Chr1g0156321 29.846 325 196 10 16 316 40 356 3.62e-35 135
MsaG006077 MtrunA17_Chr5g0433301 28.840 319 208 8 2 305 7 321 1.02e-33 130
MsaG006077 MtrunA17_Chr8g0389081 30.581 327 192 11 16 316 29 346 1.24e-33 130
MsaG006077 MtrunA17_Chr2g0285461 30.667 300 191 7 19 304 23 319 1.83e-33 130
MsaG006077 MtrunA17_Chr3g0109391 29.355 310 190 9 16 305 23 323 5.41e-33 129
MsaG006077 MtrunA17_Chr8g0376771 30.503 318 197 9 19 316 23 336 5.59e-33 129
MsaG006077 MtrunA17_Chr2g0301251 30.864 324 193 11 16 316 20 335 6.00e-33 129
MsaG006077 MtrunA17_Chr4g0009751 30.218 321 191 12 19 316 19 329 8.23e-33 127
MsaG006077 MtrunA17_Chr2g0276781 29.721 323 197 11 16 316 20 334 9.24e-33 127
MsaG006077 MtrunA17_Chr2g0282961 28.205 312 185 10 19 305 53 350 1.79e-32 126
MsaG006077 MtrunA17_Chr8g0385791 29.721 323 192 11 19 316 59 371 3.05e-32 126
MsaG006077 MtrunA17_Chr2g0326281 30.409 342 188 13 19 316 56 391 4.05e-30 120
MsaG006077 MtrunA17_Chr8g0346711 28.296 311 200 9 16 311 26 328 6.50e-30 119
MsaG006077 MtrunA17_Chr7g0239061 30.154 325 192 12 16 316 11 324 1.22e-29 119
MsaG006077 MtrunA17_Chr4g0046371 30.033 303 170 10 14 288 33 321 3.29e-29 117
MsaG006077 MtrunA17_Chr4g0029671 31.419 296 171 10 19 290 54 341 7.18e-27 110
MsaG006077 MtrunA17_Chr5g0424791 43.151 146 75 3 73 218 14 151 5.77e-25 98.2
MsaG006077 MtrunA17_Chr5g0425651 47.191 89 36 5 238 316 1 88 1.85e-13 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006077 AT1G77850.1 36.337 344 163 10 15 312 15 348 1.13e-60 203
MsaG006077 AT1G77850.2 36.337 344 163 10 15 312 15 348 1.39e-60 203
MsaG006077 AT4G30080.1 34.174 357 170 10 16 316 16 363 1.87e-53 186
MsaG006077 AT2G28350.2 32.527 372 173 14 11 316 2 361 2.60e-48 171
MsaG006077 AT2G28350.1 32.527 372 173 14 11 316 2 361 3.63e-48 171
MsaG006077 AT4G23980.2 30.530 321 198 9 15 316 8 322 1.12e-38 144
MsaG006077 AT4G23980.1 30.530 321 198 9 15 316 8 322 1.12e-38 144
MsaG006077 AT2G33860.1 31.804 327 182 11 19 316 54 368 1.94e-36 138
MsaG006077 AT1G35540.1 31.790 324 187 12 14 316 22 332 5.87e-36 137
MsaG006077 AT1G34310.1 31.269 323 190 11 14 316 22 332 3.17e-35 134
MsaG006077 AT1G34390.1 30.573 314 189 10 14 312 22 321 3.84e-35 134
MsaG006077 AT1G35520.1 31.210 314 189 10 14 312 22 323 8.67e-35 133
MsaG006077 AT5G37020.1 28.994 338 209 11 2 316 7 336 1.97e-34 133
MsaG006077 AT5G37020.2 28.994 338 209 11 2 316 7 336 2.36e-34 133
MsaG006077 AT5G20730.1 30.793 328 191 11 15 316 20 337 9.35e-34 131
MsaG006077 AT5G20730.3 30.793 328 191 11 15 316 20 337 9.58e-34 131
MsaG006077 AT5G20730.2 30.793 328 190 12 15 316 20 336 4.27e-33 129
MsaG006077 AT1G35240.1 30.341 323 193 11 14 316 22 332 6.33e-33 128
MsaG006077 AT2G46530.1 28.660 321 203 9 15 316 17 330 8.42e-33 128
MsaG006077 AT2G46530.3 28.660 321 203 9 15 316 38 351 9.35e-33 128
MsaG006077 AT1G30330.1 30.368 326 194 10 16 316 20 337 1.76e-32 127
MsaG006077 AT1G19850.2 29.565 345 201 11 1 316 26 357 1.81e-32 127
MsaG006077 AT1G30330.3 30.368 326 194 10 16 316 22 339 1.83e-32 127
MsaG006077 AT1G30330.2 30.368 326 194 10 16 316 22 339 1.83e-32 127
MsaG006077 AT1G19850.1 29.565 345 201 11 1 316 37 368 2.22e-32 127
MsaG006077 AT1G19220.1 29.969 327 192 12 16 316 20 335 1.12e-31 125
MsaG006077 AT1G34410.1 30.031 323 194 11 14 316 22 332 2.13e-31 124
MsaG006077 AT5G62000.4 28.528 326 198 11 16 316 58 373 4.11e-31 124
MsaG006077 AT5G62000.2 28.528 326 198 11 16 316 58 373 4.71e-31 123
MsaG006077 AT5G62000.5 28.528 326 198 11 16 316 58 373 4.71e-31 123
MsaG006077 AT5G62000.3 28.528 326 198 11 16 316 58 373 4.71e-31 123
MsaG006077 AT5G62000.1 28.528 326 198 11 16 316 58 373 4.71e-31 123
MsaG006077 AT3G61830.1 29.538 325 195 12 15 316 21 334 5.01e-31 123
MsaG006077 AT5G60450.2 29.154 319 187 11 14 304 36 343 1.27e-29 119
MsaG006077 AT5G60450.1 29.022 317 186 11 16 304 62 367 3.82e-29 118
MsaG006077 AT1G34170.1 28.438 320 192 12 14 312 20 323 1.33e-28 115
MsaG006077 AT1G59750.4 27.607 326 194 11 19 316 22 333 1.74e-28 115
MsaG006077 AT1G59750.1 27.607 326 194 11 19 316 22 333 1.79e-28 115
MsaG006077 AT1G59750.3 27.607 326 194 11 19 316 22 333 1.79e-28 115
MsaG006077 AT1G59750.2 27.607 326 194 11 19 316 22 333 1.83e-28 115
MsaG006077 AT1G34170.2 28.713 303 167 12 14 280 20 309 2.23e-28 114
MsaG006077 AT1G34170.3 28.713 303 167 12 14 280 20 309 4.84e-28 114
MsaG006077 AT1G43950.1 32.258 217 122 7 14 221 22 222 1.45e-27 107
MsaG006077 AT2G33860.2 31.776 214 120 8 125 316 2 211 5.20e-21 93.2
MsaG006077 AT3G61830.2 28.839 267 164 9 69 316 24 283 1.56e-20 92.4
MsaG006077 AT5G37020.3 30.047 213 126 8 125 316 31 241 9.36e-20 90.5
MsaG006077 AT2G46530.2 29.302 215 129 8 121 316 33 243 2.53e-15 76.6
MsaG006077 ATMG00940.1 40.566 106 55 4 210 312 44 144 6.72e-13 66.2

Find 87 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGAATGCAACTTTGGTATT+TGG 0.133681 2:+1370273 None:intergenic
TTCATCTTAACTCTCATTCT+AGG 0.234993 2:+1369519 None:intergenic
TATCTCGTACGTCTAATTTA+TGG 0.240815 2:-1369449 MsaT006077.1:CDS
CTCATCATCGTCGTTGCAAT+TGG 0.314881 2:+1370022 None:intergenic
GTAGAGATTGTCCCTTGATA+TGG 0.324016 2:+1369474 None:intergenic
AACGACGATGATGAGGTAAT+TGG 0.328138 2:-1370014 MsaT006077.1:CDS
GCTGCTGTTGGTGCTGGTGC+TGG 0.335243 2:+1370348 None:intergenic
GTATGCTTGCTTACATTAGT+AGG 0.336336 2:+1369969 None:intergenic
GCATCAACATCATTGGTTAT+TGG 0.339316 2:+1370071 None:intergenic
TTAACAAACGAACTCCATTC+AGG 0.339363 2:+1369795 None:intergenic
CGCATGTCCACCCTCAAATC+TGG 0.363208 2:-1370319 MsaT006077.1:CDS
CAACGGGAAAATTATTTGTT+GGG 0.375166 2:-1369725 MsaT006077.1:CDS
ATGGTTGCTGCTGTTGGTGC+TGG 0.385990 2:+1370342 None:intergenic
CAAATCTGGCAGACATTAAC+CGG 0.388348 2:-1370305 MsaT006077.1:CDS
TAAACTCTTGAATGCAACTT+TGG 0.402834 2:+1370266 None:intergenic
TCAACGGGAAAATTATTTGT+TGG 0.404341 2:-1369726 MsaT006077.1:CDS
CTGACGTTCATGGTGAAGTC+TGG 0.406535 2:-1369869 MsaT006077.1:CDS
CTCCTCGTCACTGACGTTCA+TGG 0.407231 2:-1369879 MsaT006077.1:CDS
AATGGAGTTCGTTTGTTAAG+AGG 0.407313 2:-1369791 MsaT006077.1:CDS
TAATTTATGGCGCATGCTAC+AGG 0.422222 2:-1369436 MsaT006077.1:CDS
TGAGTTGGAGAAGGCAGTAA+TGG 0.441158 2:-1369667 MsaT006077.1:CDS
ACTATCCTCGAGGTGATGAT+TGG 0.444363 2:-1369599 MsaT006077.1:CDS
GACACAGGCATCAACATCAT+TGG 0.444932 2:+1370064 None:intergenic
GTTAATGTCTGCCAGATTTG+AGG 0.445255 2:+1370308 None:intergenic
TCATCTTAACTCTCATTCTA+GGG 0.445548 2:+1369520 None:intergenic
GATATAAAACACGTTTCTCT+TGG 0.446560 2:+1369818 None:intergenic
AGGTAATTGGTTCGTTTACA+AGG 0.453827 2:-1370001 MsaT006077.1:CDS
TGAAGACTGATAAATCTTCA+AGG 0.454632 2:-1369500 MsaT006077.1:CDS
TGGGAACCTCATGAGGGTCT+TGG 0.457592 2:+1370042 None:intergenic
AATTATTTGTTGGGATTCGC+AGG 0.462606 2:-1369716 MsaT006077.1:CDS
GGATAGTAAACAATTTCAAA+TGG 0.472676 2:+1369615 None:intergenic
AGTAATGGAGGCAGTGAAGT+TGG 0.472794 2:-1369652 MsaT006077.1:CDS
TTAATGTCTGCCAGATTTGA+GGG 0.479203 2:+1370309 None:intergenic
ATGAATCAATGAAAATTCAA+TGG 0.482116 2:-1369545 MsaT006077.1:CDS
GGAGTGAATGTAAGCATTGG+AGG 0.486006 2:+1370202 None:intergenic
TCTCTTGGCAAACCCGTGGC+AGG 0.490609 2:+1369833 None:intergenic
TCATCATCGTCGTTGCAATT+GGG 0.492508 2:+1370023 None:intergenic
GAAAATATCTTCCCTCCGCT+TGG 0.492876 2:-1369921 MsaT006077.1:CDS
TAGAGATTGTCCCTTGATAT+GGG 0.494859 2:+1369475 None:intergenic
CTCATGAGGGTCTTGGACAC+AGG 0.498403 2:+1370049 None:intergenic
TATGCTTGCTTACATTAGTA+GGG 0.498565 2:+1369970 None:intergenic
TGGTATTTGGACAGCAGTGC+CGG 0.499421 2:+1370286 None:intergenic
TGGCAAACCCGTGGCAGGCA+TGG 0.500790 2:+1369838 None:intergenic
AAGTTTCACCATGCCTGCCA+CGG 0.506565 2:-1369846 MsaT006077.1:CDS
TAACAAACGAACTCCATTCA+GGG 0.512751 2:+1369796 None:intergenic
TCTTCAAGGATCCCATATCA+AGG 0.512818 2:-1369486 MsaT006077.1:CDS
ATGTAAGCATTGGAGGAGGA+AGG 0.516472 2:+1370209 None:intergenic
AGTTTCACCATGCCTGCCAC+GGG 0.517459 2:-1369845 MsaT006077.1:CDS
CATGCGATGGTTGCTGCTGT+TGG 0.533873 2:+1370336 None:intergenic
TTGCAATTGGGAACCTCATG+AGG 0.534875 2:+1370035 None:intergenic
GGAGGCAGTGAAGTTGGCAG+AGG 0.547497 2:-1369646 MsaT006077.1:CDS
TATCTTCCCTCCGCTTGGCA+TGG 0.558368 2:-1369916 MsaT006077.1:CDS
CGCCGATCCTCACACTGATG+AGG 0.560935 2:-1370117 MsaT006077.1:CDS
AAGGGAGTGAATGTAAGCAT+TGG 0.561164 2:+1370199 None:intergenic
CTGGTGCTGGTTGAGAGACA+TGG 0.567756 2:+1370361 None:intergenic
GCATATTCTAAGTGGCCTTG+TGG 0.574209 2:+1370236 None:intergenic
GTGAATGTAAGCATTGGAGG+AGG 0.588009 2:+1370205 None:intergenic
GTTGGAGAAGGCAGTAATGG+AGG 0.592416 2:-1369664 MsaT006077.1:CDS
TGGGATTCGCAGGAAAGCCG+CGG 0.593939 2:-1369706 MsaT006077.1:CDS
GGAGCAAAAGAAAGATGAGT+TGG 0.594103 2:-1369682 MsaT006077.1:CDS
GACCTCATCAGTGTGAGGAT+CGG 0.595759 2:+1370115 None:intergenic
AAAGAAAGATGAGTTGGAGA+AGG 0.605720 2:-1369676 MsaT006077.1:CDS
AAATCTCCATGCCAAGCGGA+GGG 0.609417 2:+1369910 None:intergenic
CTTCAAGGATCCCATATCAA+GGG 0.609531 2:-1369485 MsaT006077.1:CDS
GAGATGATACAGATAGTGAA+AGG 0.609814 2:+1370155 None:intergenic
GAAATCTCCATGCCAAGCGG+AGG 0.617181 2:+1369909 None:intergenic
CACCATGAACGTCAGTGACG+AGG 0.617900 2:+1369877 None:intergenic
CGTTTCTCTTGGCAAACCCG+TGG 0.618791 2:+1369829 None:intergenic
AAAACGTTGAAGATCATGAA+GGG 0.620045 2:+1370181 None:intergenic
CACTATCTGTATCATCTCCG+CGG 0.622122 2:-1370150 MsaT006077.1:CDS
AAGGAGAAGCATATTCTAAG+TGG 0.626940 2:+1370228 None:intergenic
GAAAACGTTGAAGATCATGA+AGG 0.628457 2:+1370180 None:intergenic
CAATTGCAACGACGATGATG+AGG 0.630770 2:-1370021 MsaT006077.1:CDS
GAAATTGTTTACTATCCTCG+AGG 0.641156 2:-1369609 MsaT006077.1:CDS
TGCAATTGGGAACCTCATGA+GGG 0.643730 2:+1370036 None:intergenic
ATTTGAGGGTGGACATGCGA+TGG 0.643879 2:+1370323 None:intergenic
ATGCTTGCTTACATTAGTAG+GGG 0.652528 2:+1369971 None:intergenic
CATGAACGTCAGTGACGAGG+AGG 0.677277 2:+1369880 None:intergenic
GCGAAGACCTCATCAGTGTG+AGG 0.682334 2:+1370110 None:intergenic
ATGTCTGCCAGATTTGAGGG+TGG 0.682807 2:+1370312 None:intergenic
ATCGGCGAGGAGATCAACCG+CGG 0.684227 2:+1370133 None:intergenic
TGAGAAATCTCCATGCCAAG+CGG 0.686661 2:+1369906 None:intergenic
CTGTGTCCAAGACCCTCATG+AGG 0.688345 2:-1370048 MsaT006077.1:CDS
GATTCGCAGGAAAGCCGCGG+CGG 0.692782 2:-1369703 MsaT006077.1:CDS
TCATGCCAATCATCACCTCG+AGG 0.713899 2:+1369594 None:intergenic
AAGAGGAAGAAACTCGACGT+CGG 0.718798 2:-1369774 MsaT006077.1:CDS
CATCAGTGTGAGGATCGGCG+AGG 0.752555 2:+1370120 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 1369431 1370381 1369431 ID=MsaG006077
Chr2 mRNA 1369431 1370381 1369431 ID=MsaT006077.1;Parent=MsaG006077
Chr2 exon 1369431 1370381 1369431 ID=MsaT006077.1.exon1;Parent=MsaT006077.1
Chr2 CDS 1369431 1370381 1369431 ID=cds.MsaT006077.1;Parent=MsaT006077.1
Gene Sequence

>MsaT006077.1

ATGTCTCTCAACCAGCACCAGCACCAACAGCAGCAACCATCGCATGTCCACCCTCAAATCTGGCAGACATTAACCGGCACTGCTGTCCAAATACCAAAGTTGCATTCAAGAGTTTACTATTTTCCACAAGGCCACTTAGAATATGCTTCTCCTTCCTCCTCCAATGCTTACATTCACTCCCTTCATGATCTTCAACGTTTTCGTCCTTTCACTATCTGTATCATCTCCGCGGTTGATCTCCTCGCCGATCCTCACACTGATGAGGTCTTCGCTAAACTGCTACTCACTCCAATAACCAATGATGTTGATGCCTGTGTCCAAGACCCTCATGAGGTTCCCAATTGCAACGACGATGATGAGGTAATTGGTTCGTTTACAAGGACTCTCGCCCCTACTAATGTAAGCAAGCATACATTTTACATACCTCGGTTTTGTGCTGAAAATATCTTCCCTCCGCTTGGCATGGAGATTTCTCAAAACCTCCTCGTCACTGACGTTCATGGTGAAGTCTGGAAGTTTCACCATGCCTGCCACGGGTTTGCCAAGAGAAACGTGTTTTATATCCCTGAATGGAGTTCGTTTGTTAAGAGGAAGAAACTCGACGTCGGAGATGCTGTTGTTTTCATGAAAAACTCAACGGGAAAATTATTTGTTGGGATTCGCAGGAAAGCCGCGGCGGAGCAAAAGAAAGATGAGTTGGAGAAGGCAGTAATGGAGGCAGTGAAGTTGGCAGAGGAGAACAAGCCATTTGAAATTGTTTACTATCCTCGAGGTGATGATTGGCATGATTTTGTAGTGGATGCTAATATTGTTGATGAATCAATGAAAATTCAATGGAACCCTAGAATGAGAGTTAAGATGAAGACTGATAAATCTTCAAGGATCCCATATCAAGGGACAATCTCTACTGTATCTCGTACGTCTAATTTATGGCGCATGCTACAGGTATAA
Protein sequence

>MsaT006077.1

MSLNQHQHQQQQPSHVHPQIWQTLTGTAVQIPKLHSRVYYFPQGHLEYASPSSSNAYIHSLHDLQRFRPFTICIISAVDLLADPHTDEVFAKLLLTPITNDVDACVQDPHEVPNCNDDDEVIGSFTRTLAPTNVSKHTFYIPRFCAENIFPPLGMEISQNLLVTDVHGEVWKFHHACHGFAKRNVFYIPEWSSFVKRKKLDVGDAVVFMKNSTGKLFVGIRRKAAAEQKKDELEKAVMEAVKLAEENKPFEIVYYPRGDDWHDFVVDANIVDESMKIQWNPRMRVKMKTDKSSRIPYQGTISTVSRTSNLWRMLQV*