AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene037197

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene037197.t1 MTR_2g041510 93.548 248 14 1 1 246 125 372 7.43e-172 478
MS.gene037197.t1 MTR_2g041510 93.548 248 14 1 1 246 145 392 9.73e-172 479
MS.gene037197.t1 MTR_8g074610 78.138 247 52 2 1 246 152 397 1.34e-142 405
MS.gene037197.t1 MTR_8g074640 76.016 246 58 1 1 246 133 377 9.37e-136 387
MS.gene037197.t1 MTR_4g088925 33.858 254 131 8 2 232 133 372 2.42e-33 124
MS.gene037197.t1 MTR_8g085760 35.798 257 122 11 2 232 136 375 1.34e-31 119
MS.gene037197.t1 MTR_7g096720 44.654 159 67 4 74 219 209 359 7.07e-29 112
MS.gene037197.t1 MTR_5g079830 33.047 233 131 4 3 224 117 335 9.16e-27 107
MS.gene037197.t1 MTR_6g092570 32.922 243 135 5 2 232 117 343 1.63e-26 105
MS.gene037197.t1 MTR_3g030050 29.455 275 153 7 2 238 143 414 1.31e-22 95.9
MS.gene037197.t1 MTR_3g037710 32.381 210 117 6 30 225 45 243 2.62e-21 90.1
MS.gene037197.t1 MTR_1g026850 36.810 163 90 4 50 210 172 323 4.48e-20 88.2
MS.gene037197.t1 MTR_6g027100 36.022 186 99 6 59 238 198 369 5.68e-20 88.6
MS.gene037197.t1 MTR_4g125090 39.669 121 63 1 69 189 203 313 1.06e-18 84.0
MS.gene037197.t1 MTR_6g027040 34.409 186 102 6 59 238 198 369 1.61e-18 84.0
MS.gene037197.t1 MTR_6g018390 33.690 187 100 4 59 238 190 359 4.59e-18 82.4
MS.gene037197.t1 MTR_2g047180 31.053 190 105 5 59 238 186 359 1.73e-17 80.9
MS.gene037197.t1 MTR_1g007260 33.889 180 96 6 61 231 209 374 4.32e-17 80.1
MS.gene037197.t1 MTR_3g029650 31.902 163 77 2 58 208 174 314 3.06e-16 78.2
MS.gene037197.t1 MTR_3g029650 28.814 177 102 4 64 225 567 734 3.15e-13 69.3
MS.gene037197.t1 MTR_3g030480 34.104 173 87 5 63 227 184 337 1.16e-15 75.5
MS.gene037197.t1 MTR_3g030360 32.044 181 84 5 63 238 198 344 1.25e-15 75.5
MS.gene037197.t1 MTR_3g030440 33.333 174 89 5 63 228 185 339 5.21e-15 73.9
MS.gene037197.t1 MTR_3g029900 32.948 173 80 5 67 236 297 436 5.25e-15 74.3
MS.gene037197.t1 MTR_6g018315 30.964 197 113 7 59 241 175 362 7.05e-15 73.6
MS.gene037197.t1 MTR_3g029840 35.172 145 71 4 67 210 197 319 8.12e-15 73.2
MS.gene037197.t1 MTR_3g030380 32.370 173 90 4 63 227 186 339 8.36e-15 73.2
MS.gene037197.t1 MTR_3g058460 35.849 159 91 6 57 210 181 333 1.11e-14 72.8
MS.gene037197.t1 MTR_6g018360 33.548 155 91 5 59 210 190 335 1.38e-14 72.8
MS.gene037197.t1 MTR_3g029950 33.333 174 84 7 67 232 197 346 3.14e-14 71.6
MS.gene037197.t1 MTR_1g016540 32.240 183 94 7 74 238 2 172 4.68e-14 68.9
MS.gene037197.t1 MTR_5g042230 35.526 152 84 5 59 208 13 152 5.90e-14 68.9
MS.gene037197.t1 MTR_6g018400 30.409 171 98 4 61 230 194 344 1.13e-13 70.1
MS.gene037197.t1 MTR_3g029750 34.161 161 82 6 64 219 211 352 2.11e-13 69.3
MS.gene037197.t1 MTR_3g029670 31.183 186 95 7 64 235 211 377 5.25e-13 68.2
MS.gene037197.t1 MTR_3g030080 32.353 136 75 3 76 210 207 326 2.11e-12 66.2
MS.gene037197.t1 MTR_3g114990 28.395 162 106 5 57 213 203 359 3.44e-12 65.9
MS.gene037197.t1 MTR_3g029640 29.707 239 121 10 4 225 126 334 7.88e-12 64.7
MS.gene037197.t1 MTR_1g007250 31.515 165 90 5 76 231 4 154 8.14e-12 62.0
MS.gene037197.t1 MTR_3g091990 29.730 185 107 6 64 237 206 378 1.76e-11 63.5
MS.gene037197.t1 MTR_3g029620 31.515 165 93 6 63 225 197 343 2.45e-11 63.2
MS.gene037197.t1 MTR_3g029920 32.796 186 97 6 59 238 196 359 4.02e-11 62.4
MS.gene037197.t1 MTR_1g016570 29.442 197 99 7 57 241 188 356 7.63e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene037197.t1 AT1G65770 35.976 164 101 3 65 228 182 341 7.23e-25 101
MS.gene037197.t1 AT4G35733 28.807 243 132 6 4 227 121 341 2.81e-22 94.4
MS.gene037197.t1 AT1G44080 38.608 158 83 3 79 230 179 328 7.23e-22 92.8
MS.gene037197.t1 AT2G26160 33.190 232 114 10 4 215 113 323 1.76e-21 91.7
MS.gene037197.t1 AT2G17030 28.755 233 146 8 2 221 126 351 1.12e-19 87.4
MS.gene037197.t1 AT3G25750 29.412 238 137 8 4 225 119 341 1.64e-18 84.0
MS.gene037197.t1 AT3G25750 33.143 175 94 5 62 225 165 327 1.24e-17 81.3
MS.gene037197.t1 AT2G17036 28.395 243 152 7 2 229 123 358 1.61e-17 81.3
MS.gene037197.t1 AT2G17036 28.395 243 152 7 2 229 124 359 1.63e-17 81.3
MS.gene037197.t1 AT1G65740 30.085 236 142 9 4 227 128 352 1.38e-16 78.6
MS.gene037197.t1 AT1G57906 31.515 165 76 5 65 197 67 226 2.79e-13 67.4
MS.gene037197.t1 AT5G60060 35.542 166 91 9 42 200 174 330 4.61e-13 68.2
MS.gene037197.t1 AT1G65760 35.514 107 65 2 121 227 240 342 1.20e-12 67.0
MS.gene037197.t1 AT2G17690 27.064 218 101 6 67 227 189 405 9.03e-12 64.7
MS.gene037197.t1 AT2G16290 29.570 186 94 7 67 232 216 384 9.25e-11 61.6

Find 46 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGGAATTGCATCTACTTTA+AGG 0.156851 2.3:+48344622 MS.gene037197:CDS
TATAAAATTGAAAAGATTAA+AGG 0.167135 2.3:+48344065 MS.gene037197:CDS
TAATGTTCGTATGTATAATT+TGG 0.171010 2.3:+48344652 MS.gene037197:CDS
GTTTCGGCTAAAGAATTAAT+TGG 0.192055 2.3:+48344593 MS.gene037197:CDS
CCACAACCTCGTATCGATTT+TGG 0.196182 2.3:-48344466 None:intergenic
TCACCTCCTTTGTGTGGTTT+TGG 0.214421 2.3:+48344344 MS.gene037197:CDS
TAGAACACAACTTTCTTTAC+AGG 0.254464 2.3:-48344098 None:intergenic
TATGGAACATGTTGGATTAT+AGG 0.282617 2.3:+48344021 MS.gene037197:CDS
ATGGAACATGTTGGATTATA+GGG 0.306390 2.3:+48344022 MS.gene037197:CDS
ACAACACTTCCCTGATGATA+TGG 0.308294 2.3:+48344003 None:intergenic
TAGTTGTAACTTCTCTGTTT+CGG 0.344186 2.3:+48344577 MS.gene037197:CDS
ATAAATGGGGAACTATTTCA+TGG 0.373052 2.3:+48344288 MS.gene037197:CDS
ACACTAATCCAAGGAGAGTT+AGG 0.382537 2.3:-48344122 None:intergenic
TAAAACATGGTGATGAGAAA+TGG 0.387502 2.3:+48344195 MS.gene037197:CDS
TGTTCTATCCTAACTCTCCT+TGG 0.393427 2.3:+48344114 MS.gene037197:CDS
CGATGATATTATTGTGTTCA+AGG 0.406745 2.3:+48344247 MS.gene037197:CDS
AAAGAATTAATTGGATATCA+AGG 0.411865 2.3:+48344602 MS.gene037197:CDS
CTTGCATCGACAACACTTTG+TGG 0.427663 2.3:+48344708 MS.gene037197:CDS
CTATAAGTTGGATGAAGAAT+GGG 0.428624 2.3:+48344502 MS.gene037197:CDS
AACATTTGGTGGAATCTTGT+GGG 0.442266 2.3:+48344375 MS.gene037197:CDS
TCTATAAGTTGGATGAAGAA+TGG 0.449108 2.3:+48344501 MS.gene037197:CDS
CTCTCCTTGGATTAGTGTTG+AGG 0.456926 2.3:+48344127 MS.gene037197:CDS
ATCTTTCAAGAAGATATAGT+AGG 0.478424 2.3:+48344167 MS.gene037197:CDS
AAACATTTGGTGGAATCTTG+TGG 0.483180 2.3:+48344374 MS.gene037197:CDS
CACCTCGGCAGAGATGTTAG+AGG 0.525382 2.3:+48344738 MS.gene037197:CDS
ACAACTAGGGCTCAAAATGA+AGG 0.531781 2.3:-48344561 None:intergenic
TGGAAACAAGAAACATTTGG+TGG 0.554210 2.3:+48344364 MS.gene037197:CDS
CACAAAGTGTTGTCGATGCA+AGG 0.554548 2.3:-48344707 None:intergenic
CCTGATGATATGGAACATGT+TGG 0.555978 2.3:+48344013 None:intergenic
AACGTGAGAAGGAACTATGT+TGG 0.556354 2.3:+48344434 MS.gene037197:CDS
GATGATATTATTGTGTTCAA+GGG 0.560408 2.3:+48344248 MS.gene037197:CDS
AAGAATTAATTGGATATCAA+GGG 0.561141 2.3:+48344603 MS.gene037197:CDS
CCAAAATCGATACGAGGTTG+TGG 0.561790 2.3:+48344466 MS.gene037197:CDS
TATAAGTTGGATGAAGAATG+GGG 0.579436 2.3:+48344503 MS.gene037197:CDS
GTCCTCTAACATCTCTGCCG+AGG 0.609853 2.3:-48344740 None:intergenic
GAAACAGAGAAGTTACAACT+AGG 0.617329 2.3:-48344575 None:intergenic
CAATCCTCAACACTAATCCA+AGG 0.617873 2.3:-48344131 None:intergenic
AAACAGAGAAGTTACAACTA+GGG 0.627623 2.3:-48344574 None:intergenic
ACGAAAGCGAAAACGTGAGA+AGG 0.630900 2.3:+48344423 MS.gene037197:CDS
CTTTGTGGTGTCATGCACCT+CGG 0.641274 2.3:+48344723 MS.gene037197:CDS
TTTCCAAAACCACACAAAGG+AGG 0.646363 2.3:-48344347 None:intergenic
GATGCAAGGATTAAAATCAA+CGG 0.664976 2.3:-48344693 None:intergenic
TTGTTTCCAAAACCACACAA+AGG 0.670548 2.3:-48344350 None:intergenic
ATAGTAGGATTCATAAAACA+TGG 0.671857 2.3:+48344182 MS.gene037197:CDS
ATAAGTTGGATGAAGAATGG+GGG 0.674708 2.3:+48344504 MS.gene037197:CDS
AAGACACCAAAATCGATACG+AGG 0.748663 2.3:+48344460 MS.gene037197:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATAAAATTGAAAAGATTAA+AGG + chr2.3:48344065-48344084 MS.gene037197:CDS 10.0%
!! AAAGAATTAATTGGATATCA+AGG + chr2.3:48344602-48344621 MS.gene037197:CDS 20.0%
!! AAGAATTAATTGGATATCAA+GGG + chr2.3:48344603-48344622 MS.gene037197:CDS 20.0%
!! TAATGTTCGTATGTATAATT+TGG + chr2.3:48344652-48344671 MS.gene037197:CDS 20.0%
!!! AGTTTTATGTTACTGATAAA+TGG + chr2.3:48344273-48344292 MS.gene037197:CDS 20.0%
!!! GTTTTATGTTACTGATAAAT+GGG + chr2.3:48344274-48344293 MS.gene037197:CDS 20.0%
!!! TTTTATGTTACTGATAAATG+GGG + chr2.3:48344275-48344294 MS.gene037197:CDS 20.0%
! ATAGTAGGATTCATAAAACA+TGG + chr2.3:48344182-48344201 MS.gene037197:CDS 25.0%
! ATCTTTCAAGAAGATATAGT+AGG + chr2.3:48344167-48344186 MS.gene037197:CDS 25.0%
! GATGATATTATTGTGTTCAA+GGG + chr2.3:48344248-48344267 MS.gene037197:CDS 25.0%
!!! GTGTTTTAAAGTCTATAAGT+TGG + chr2.3:48344490-48344509 MS.gene037197:CDS 25.0%
!!! TTTTGGAAACAAGAAACATT+TGG + chr2.3:48344361-48344380 MS.gene037197:CDS 25.0%
AAACAGAGAAGTTACAACTA+GGG - chr2.3:48344577-48344596 None:intergenic 30.0%
ATAAATGGGGAACTATTTCA+TGG + chr2.3:48344288-48344307 MS.gene037197:CDS 30.0%
ATGGAACATGTTGGATTATA+GGG + chr2.3:48344022-48344041 MS.gene037197:CDS 30.0%
CGATGATATTATTGTGTTCA+AGG + chr2.3:48344247-48344266 MS.gene037197:CDS 30.0%
GATGCAAGGATTAAAATCAA+CGG - chr2.3:48344696-48344715 None:intergenic 30.0%
GTTTCGGCTAAAGAATTAAT+TGG + chr2.3:48344593-48344612 MS.gene037197:CDS 30.0%
TAGAACACAACTTTCTTTAC+AGG - chr2.3:48344101-48344120 None:intergenic 30.0%
TAGTTGTAACTTCTCTGTTT+CGG + chr2.3:48344577-48344596 MS.gene037197:CDS 30.0%
TATGGAACATGTTGGATTAT+AGG + chr2.3:48344021-48344040 MS.gene037197:CDS 30.0%
! CTATAAGTTGGATGAAGAAT+GGG + chr2.3:48344502-48344521 MS.gene037197:CDS 30.0%
! TAAAACATGGTGATGAGAAA+TGG + chr2.3:48344195-48344214 MS.gene037197:CDS 30.0%
! TATAAGTTGGATGAAGAATG+GGG + chr2.3:48344503-48344522 MS.gene037197:CDS 30.0%
! TCTATAAGTTGGATGAAGAA+TGG + chr2.3:48344501-48344520 MS.gene037197:CDS 30.0%
AGGGAATTGCATCTACTTTA+AGG + chr2.3:48344622-48344641 MS.gene037197:CDS 35.0%
GAAACAGAGAAGTTACAACT+AGG - chr2.3:48344578-48344597 None:intergenic 35.0%
TGGAAACAAGAAACATTTGG+TGG + chr2.3:48344364-48344383 MS.gene037197:CDS 35.0%
TTGTTTCCAAAACCACACAA+AGG - chr2.3:48344353-48344372 None:intergenic 35.0%
! AAACATTTGGTGGAATCTTG+TGG + chr2.3:48344374-48344393 MS.gene037197:CDS 35.0%
! AACATTTGGTGGAATCTTGT+GGG + chr2.3:48344375-48344394 MS.gene037197:CDS 35.0%
! ATAAGTTGGATGAAGAATGG+GGG + chr2.3:48344504-48344523 MS.gene037197:CDS 35.0%
AACGTGAGAAGGAACTATGT+TGG + chr2.3:48344434-48344453 MS.gene037197:CDS 40.0%
AAGACACCAAAATCGATACG+AGG + chr2.3:48344460-48344479 MS.gene037197:CDS 40.0%
ACAACTAGGGCTCAAAATGA+AGG - chr2.3:48344564-48344583 None:intergenic 40.0%
ACACTAATCCAAGGAGAGTT+AGG - chr2.3:48344125-48344144 None:intergenic 40.0%
CAATCCTCAACACTAATCCA+AGG - chr2.3:48344134-48344153 None:intergenic 40.0%
TGTTCTATCCTAACTCTCCT+TGG + chr2.3:48344114-48344133 MS.gene037197:CDS 40.0%
TTTCCAAAACCACACAAAGG+AGG - chr2.3:48344350-48344369 None:intergenic 40.0%
! CAATTTTCACCTCCTTTGTG+TGG + chr2.3:48344338-48344357 MS.gene037197:CDS 40.0%
ACGAAAGCGAAAACGTGAGA+AGG + chr2.3:48344423-48344442 MS.gene037197:CDS 45.0%
CCAAAATCGATACGAGGTTG+TGG + chr2.3:48344466-48344485 MS.gene037197:CDS 45.0%
GGATGAAGAATGGGGGAAAT+GGG + chr2.3:48344511-48344530 MS.gene037197:CDS 45.0%
TGGATGAAGAATGGGGGAAA+TGG + chr2.3:48344510-48344529 MS.gene037197:CDS 45.0%
! CTTGCATCGACAACACTTTG+TGG + chr2.3:48344708-48344727 MS.gene037197:CDS 45.0%
! TCACCTCCTTTGTGTGGTTT+TGG + chr2.3:48344344-48344363 MS.gene037197:CDS 45.0%
!! CACAAAGTGTTGTCGATGCA+AGG - chr2.3:48344710-48344729 None:intergenic 45.0%
!! CTCTCCTTGGATTAGTGTTG+AGG + chr2.3:48344127-48344146 MS.gene037197:CDS 45.0%
!!! CCACAACCTCGTATCGATTT+TGG - chr2.3:48344469-48344488 None:intergenic 45.0%
!! CTTTGTGGTGTCATGCACCT+CGG + chr2.3:48344723-48344742 MS.gene037197:CDS 50.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 48344017 48344757 48344017 ID=MS.gene037197
chr2.3 mRNA 48344017 48344757 48344017 ID=MS.gene037197.t1;Parent=MS.gene037197
chr2.3 exon 48344017 48344757 48344017 ID=MS.gene037197.t1.exon1;Parent=MS.gene037197.t1
chr2.3 CDS 48344017 48344757 48344017 ID=cds.MS.gene037197.t1;Parent=MS.gene037197.t1
Gene Sequence

>MS.gene037197

ATGATATGGAACATGTTGGATTATAGGGTCATTGAGCTATGCAAATCATATAAAATTGAAAAGATTAAAGGTTTTTCAAGTCCTGTAAAGAAAGTTGTGTTCTATCCTAACTCTCCTTGGATTAGTGTTGAGGATTGTGTTTCTTGTTGTATCTTTCAAGAAGATATAGTAGGATTCATAAAACATGGTGATGAGAAATGGAAACTTGTCGATGAAAACAATTTCTACTACGATGATATTATTGTGTTCAAGGGTCAGTTTTATGTTACTGATAAATGGGGAACTATTTCATGGATTGATATTTCTTCTTTGAAGTTGATACAATTTTCACCTCCTTTGTGTGGTTTTGGAAACAAGAAACATTTGGTGGAATCTTGTGGGAATCTTTATGTCGTTGATAGATACTACGAAAGCGAAAACGTGAGAAGGAACTATGTTGGAAGAAGACACCAAAATCGATACGAGGTTGTGGAGTGTTTTAAAGTCTATAAGTTGGATGAAGAATGGGGGAAATGGGTTGATGTGAAAAATTTGAAAGATAGAGCCTTCATTTTGAGCCCTAGTTGTAACTTCTCTGTTTCGGCTAAAGAATTAATTGGATATCAAGGGAATTGCATCTACTTTAAGGATTCTTTTAATGTTCGTATGTATAATTTGGACGATAGTAGAATCACTACCGTTGATTTTAATCCTTGCATCGACAACACTTTGTGGTGTCATGCACCTCGGCAGAGATGTTAG
Protein sequence

>MS.gene037197.t1

MIWNMLDYRVIELCKSYKIEKIKGFSSPVKKVVFYPNSPWISVEDCVSCCIFQEDIVGFIKHGDEKWKLVDENNFYYDDIIVFKGQFYVTDKWGTISWIDISSLKLIQFSPPLCGFGNKKHLVESCGNLYVVDRYYESENVRRNYVGRRHQNRYEVVECFKVYKLDEEWGKWVDVKNLKDRAFILSPSCNFSVSAKELIGYQGNCIYFKDSFNVRMYNLDDSRITTVDFNPCIDNTLWCHAPRQRC