AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG035417

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035417 MtrunA17_Chr7g0217231 95.362 345 7 5 1 340 1 341 0.0 657
MsaG035417 MtrunA17_Chr6g0453231 61.940 268 85 6 35 293 36 295 4.44e-79 244
MsaG035417 MtrunA17_Chr1g0188441 44.828 203 86 6 84 282 6 186 1.57e-52 172
MsaG035417 MtrunA17_Chr5g0404271 43.062 209 100 7 85 283 97 296 2.91e-48 164
MsaG035417 MtrunA17_Chr3g0133181 43.478 207 95 5 84 280 77 271 1.01e-47 162
MsaG035417 MtrunA17_Chr5g0412501 44.811 212 83 7 87 282 78 271 1.41e-46 159
MsaG035417 MtrunA17_Chr4g0076821 40.928 237 98 9 87 283 113 347 5.28e-45 157
MsaG035417 MtrunA17_Chr5g0427051 39.738 229 102 6 79 282 50 267 2.93e-44 153
MsaG035417 MtrunA17_Chr2g0315941 38.249 217 96 6 87 282 68 267 6.67e-40 141
MsaG035417 MtrunA17_Chr6g0479901 38.860 193 66 5 87 278 19 160 1.57e-37 132
MsaG035417 MtrunA17_Chr8g0367691 36.792 212 97 6 87 278 69 263 5.89e-36 131
MsaG035417 MtrunA17_Chr8g0361671 75.410 61 15 0 84 144 61 121 8.97e-27 109
MsaG035417 MtrunA17_Chr8g0357741 59.701 67 26 1 216 282 31 96 2.14e-19 82.0
MsaG035417 MtrunA17_Chr3g0092371 51.899 79 30 2 77 155 10 80 6.15e-18 77.8
MsaG035417 MtrunA17_Chr6g0453221 57.895 57 18 1 81 137 15 65 7.87e-16 71.6
MsaG035417 MtrunA17_Chr4g0060731 50.000 64 27 1 75 138 13 71 1.70e-15 70.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035417 AT5G15210.1 49.446 271 102 9 22 284 3 246 2.95e-71 223
MsaG035417 AT1G69600.1 53.659 205 67 5 85 279 29 215 2.45e-65 207
MsaG035417 AT3G28920.1 48.026 304 108 10 22 298 1 281 1.93e-62 201
MsaG035417 AT5G39760.1 45.878 279 115 9 32 294 17 275 5.40e-56 186
MsaG035417 AT1G14440.1 44.796 221 96 6 82 290 85 291 8.42e-52 174
MsaG035417 AT1G14440.2 44.796 221 96 6 82 290 85 291 8.42e-52 174
MsaG035417 AT2G02540.2 42.152 223 108 6 84 294 84 297 7.42e-51 171
MsaG035417 AT2G02540.1 42.152 223 108 6 84 294 84 297 7.42e-51 171
MsaG035417 AT4G24660.1 45.455 198 83 4 85 282 47 219 4.40e-50 167
MsaG035417 AT4G24660.2 45.641 195 81 4 85 279 47 216 3.13e-49 165
MsaG035417 AT5G60480.1 43.939 198 78 5 84 276 34 203 1.96e-48 162
MsaG035417 AT5G65410.1 43.655 197 94 5 85 281 73 252 1.18e-44 154
MsaG035417 AT1G75240.1 38.559 236 104 4 82 281 71 301 1.62e-44 155
MsaG035417 AT2G18350.1 39.899 198 100 4 87 283 82 261 3.20e-41 145
MsaG035417 AT3G50890.1 40.580 207 96 8 87 286 60 246 3.45e-35 129
MsaG035417 AT5G42780.1 35.204 196 103 5 87 279 64 238 3.22e-28 110
MsaG035417 AT1G14687.1 28.283 198 106 4 82 277 2 165 4.36e-20 86.3
MsaG035417 AT1G74660.1 53.521 71 25 2 85 155 37 99 3.41e-19 82.0
MsaG035417 AT1G74660.2 61.111 54 19 1 85 138 37 88 8.01e-19 80.9
MsaG035417 AT1G18835.1 54.930 71 21 2 85 155 24 83 1.21e-17 77.4
MsaG035417 AT3G28917.1 61.404 57 21 1 84 140 30 85 2.88e-17 76.6

Find 91 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGGTGTTGGTGTTGGGGTT+GGG 0.163111 7:+13343655 None:intergenic
TGGTGTTGGGGTTGGGGTTA+AGG 0.221990 7:+13343662 None:intergenic
TTGGTGGTGGTGTTGGTGTT+GGG 0.222196 7:+13343649 None:intergenic
TGGTGTTGGTGTTGGGGTTG+GGG 0.224426 7:+13343656 None:intergenic
GGTGGTGTTGGTGTTGGGGT+TGG 0.251041 7:+13343654 None:intergenic
TTGAGAACACCATTTGAAAA+AGG 0.255600 7:+13343507 None:intergenic
TGCTCTCTCCGCCGCCTTAC+CGG 0.274469 7:-13343094 MsaT035417.1:CDS
GGTGGTGGTGAGGAAGAATT+TGG 0.280997 7:+13343159 None:intergenic
GTTGGTGGTGGTGTTGGTGT+TGG 0.282642 7:+13343648 None:intergenic
ACAATTCTAGAAAACGTTTC+AGG 0.287144 7:-13343023 MsaT035417.1:CDS
GTGGAAAGTGGTGGTTCTTC+AGG 0.318129 7:+13343258 None:intergenic
TCAGTTTCATGATGTTGTTC+TGG 0.327363 7:+13343573 None:intergenic
TGTTGTTGAGGTTGTTAATA+TGG 0.333829 7:+13343611 None:intergenic
ATCGTAGTGTTCTTAAGGTT+TGG 0.334173 7:-13342882 MsaT035417.1:CDS
GAGACATTCTTTGTAGGTTA+TGG 0.340619 7:+13343422 None:intergenic
GGTTGAAGTGGTGGTGGTGG+TGG 0.346158 7:+13343475 None:intergenic
TTCATCAACATGGTTTGGTT+TGG 0.350778 7:+13343057 None:intergenic
TGTTGATCGTAGTGTTCTTA+AGG 0.355414 7:-13342887 MsaT035417.1:CDS
CACAAGAATGTTGAAATTCA+TGG 0.370792 7:-13342754 MsaT035417.1:CDS
CAGAATGAAGGTGGAGTTGT+TGG 0.373866 7:-13342712 MsaT035417.1:CDS
TATGGTAGGTTGATGGTTGT+TGG 0.374043 7:+13343440 None:intergenic
GGAGTAACTGTTCGTGCTAA+TGG 0.375764 7:-13342691 MsaT035417.1:CDS
AAGAAGCATGTGAGGGGCGG+AGG 0.375917 7:+13343116 None:intergenic
GAGAATTCATCAACATGGTT+TGG 0.380377 7:+13343052 None:intergenic
TGTAGGTTATGGTAGGTTGA+TGG 0.383764 7:+13343433 None:intergenic
TGGTGGTGGTGTTGGTGTTG+GGG 0.402918 7:+13343650 None:intergenic
GTTCTTCAGGTTCACGGCGG+TGG 0.414474 7:+13343271 None:intergenic
CTGAAATTTGCTGAGAAAGT+TGG 0.415196 7:-13342967 MsaT035417.1:CDS
AGGGGCGGAGGGGTAGTAAG+AGG 0.421074 7:+13343128 None:intergenic
TGAATTCACCACAACCATCT+AGG 0.423468 7:+13343367 None:intergenic
ATTGATGTTGGTGGTGGTGT+TGG 0.426088 7:+13343642 None:intergenic
GATGGTTGTTGGTGGTGTTG+TGG 0.428385 7:+13343451 None:intergenic
GGTGGTTGAAGTGGTGGTGG+TGG 0.435301 7:+13343472 None:intergenic
GTTGAGGTTGTTAATATGGT+TGG 0.439657 7:+13343615 None:intergenic
CTAGGTGGTCATGCCCTAGA+TGG 0.446320 7:-13343381 MsaT035417.1:CDS
GAGAAGGGTGGTGGTGGAAG+TGG 0.451229 7:+13343192 None:intergenic
GTTCACGGCGGTGGAAGTTA+CGG 0.458240 7:+13343280 None:intergenic
TTTAAGGATGTTGGGTCGGT+TGG 0.464594 7:+13343324 None:intergenic
TGAAATTTGCTGAGAAAGTT+GGG 0.467964 7:-13342966 MsaT035417.1:CDS
TGTGGTGGTTGAAGTGGTGG+TGG 0.482629 7:+13343469 None:intergenic
TGGTGTTGTGGTGGTTGAAG+TGG 0.484034 7:+13343463 None:intergenic
ATGGTTGGTGCTATTGATGT+TGG 0.487966 7:+13343630 None:intergenic
CACAATCATTATCAGAATGA+AGG 0.494541 7:-13342724 MsaT035417.1:CDS
TGTTGTGGTGGTTGAAGTGG+TGG 0.495077 7:+13343466 None:intergenic
AGAAGCATGTGAGGGGCGGA+GGG 0.495592 7:+13343117 None:intergenic
GTGGTGGTTCTTCAGGTTCA+CGG 0.497308 7:+13343265 None:intergenic
CGGTGAGAGAAGGGTGGTGG+TGG 0.497993 7:+13343186 None:intergenic
GTGGTGGAAGTGGTTGATGA+CGG 0.500583 7:+13343202 None:intergenic
GGGTAGTAAGAGGATGAGAT+CGG 0.502210 7:+13343138 None:intergenic
TGGGGTTAAGGTTATGTCCA+TGG 0.505272 7:+13343674 None:intergenic
CACCACCACCCTTCTCTCAC+CGG 0.505691 7:-13343185 MsaT035417.1:CDS
CTCCGGTGAGAGAAGGGTGG+TGG 0.505916 7:+13343183 None:intergenic
GTGAGGAAGAATTTGGGCTC+CGG 0.509490 7:+13343166 None:intergenic
GGATGAGATCGGTGGTGGTG+AGG 0.512010 7:+13343149 None:intergenic
GGTAGGTTGATGGTTGTTGG+TGG 0.516018 7:+13343443 None:intergenic
CATTCTTTGTAGGTTATGGT+AGG 0.517382 7:+13343426 None:intergenic
GGTGCTATTGATGTTGGTGG+TGG 0.518237 7:+13343636 None:intergenic
AATAACAATGAGATTAATGA+TGG 0.520304 7:-13342814 MsaT035417.1:CDS
TAAGAGGATGAGATCGGTGG+TGG 0.521955 7:+13343144 None:intergenic
GTTGGTGCTATTGATGTTGG+TGG 0.524202 7:+13343633 None:intergenic
GACCACCTAGGTTTGCTGCA+TGG 0.528612 7:+13343394 None:intergenic
GGTTGTTGGTGGTGTTGTGG+TGG 0.530020 7:+13343454 None:intergenic
GTGGTGGTGAGGAAGAATTT+GGG 0.531271 7:+13343160 None:intergenic
TTTAGTTAACGTTGTTGTTG+AGG 0.536061 7:+13343599 None:intergenic
GAATTCACCACAACCATCTA+GGG 0.539304 7:+13343368 None:intergenic
GGGTCGGTTGGTGTTGCTGT+TGG 0.542927 7:+13343336 None:intergenic
ACATGAGTTGTGGTGGAAAG+TGG 0.548946 7:+13343246 None:intergenic
GAGAGAGCAAGAAGCATGTG+AGG 0.550052 7:+13343108 None:intergenic
ATTTGGGCTCCGGTGAGAGA+AGG 0.550326 7:+13343176 None:intergenic
GAAGCATGTGAGGGGCGGAG+GGG 0.553313 7:+13343118 None:intergenic
TTTGGGCTCCGGTGAGAGAA+GGG 0.571136 7:+13343177 None:intergenic
TCCTTAAAATGTGCTGCTTG+TGG 0.574232 7:-13343309 MsaT035417.1:CDS
GGTCATGCCCTAGATGGTTG+TGG 0.575703 7:-13343375 MsaT035417.1:CDS
TTGTGTTCTTCATCTTCAAG+AGG 0.585430 7:+13342772 None:intergenic
TTCAATGACATGAGTTGTGG+TGG 0.585624 7:+13343239 None:intergenic
AGCAAGAAGCATGTGAGGGG+CGG 0.594492 7:+13343113 None:intergenic
AGAGAGCAAGAAGCATGTGA+GGG 0.597359 7:+13343109 None:intergenic
AATCATTATCAGAATGAAGG+TGG 0.598316 7:-13342721 MsaT035417.1:CDS
GTGGAAGTGGTTGATGACGG+TGG 0.599219 7:+13343205 None:intergenic
GAGAGCAAGAAGCATGTGAG+GGG 0.602424 7:+13343110 None:intergenic
TAGTAAGAGGATGAGATCGG+TGG 0.622575 7:+13343141 None:intergenic
ATATTCAATGACATGAGTTG+TGG 0.623812 7:+13343236 None:intergenic
AGTGGTTGATGACGGTGGTG+AGG 0.625162 7:+13343210 None:intergenic
GGAGTGAGAATTCATCAACA+TGG 0.645071 7:+13343047 None:intergenic
GGGCTCCGGTGAGAGAAGGG+TGG 0.647123 7:+13343180 None:intergenic
CATCTAGGGCATGACCACCT+AGG 0.648371 7:+13343382 None:intergenic
TGAGTTGTGGTGGAAAGTGG+TGG 0.661282 7:+13343249 None:intergenic
CACGGCGGTGGAAGTTACGG+TGG 0.670619 7:+13343283 None:intergenic
AACCATGCAGCAAACCTAGG+TGG 0.685477 7:-13343396 MsaT035417.1:CDS
AATTTGCTGAGAAAGTTGGG+TGG 0.726025 7:-13342963 MsaT035417.1:CDS
GTGGTTCTTCAGGTTCACGG+CGG 0.747111 7:+13343268 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 13342672 13343694 13342672 ID=MsaG035417
Chr7 mRNA 13342672 13343694 13342672 ID=MsaT035417.1;Parent=MsaG035417
Chr7 exon 13342672 13343694 13342672 ID=MsaT035417.1.exon1;Parent=MsaT035417.1
Chr7 CDS 13342672 13343694 13342672 ID=cds.MsaT035417.1;Parent=MsaT035417.1
Gene Sequence

>MsaT035417.1

ATGGACATAACCTTAACCCCAACCCCAACACCAACACCACCACCAACATCAATAGCACCAACCATATTAACAACCTCAACAACAACGTTAACTAAATCACCAGAACAACATCATGAAACTGAAACACCCACAAAATTCCCAACCTCAACAACACCAAAAATCTCACCTTTTTCAAATGGTGTTCTCAAACGTTTCCACCACCACCACCACCACTTCAACCACCACAACACCACCAACAACCATCAACCTACCATAACCTACAAAGAATGTCTCAAAAACCATGCAGCAAACCTAGGTGGTCATGCCCTAGATGGTTGTGGTGAATTCATGACATCACCAACAGCAACACCAACCGACCCAACATCCTTAAAATGTGCTGCTTGTGGCTGCCACCGTAACTTCCACCGCCGTGAACCTGAAGAACCACCACTTTCCACCACAACTCATGTCATTGAATATCAACCTCACCACCGTCATCAACCACTTCCACCACCACCCTTCTCTCACCGGAGCCCAAATTCTTCCTCACCACCACCGATCTCATCCTCTTACTACCCCTCCGCCCCTCACATGCTTCTTGCTCTCTCCGCCGCCTTACCGGAAAACGTTGCAGCTCCAAACCAAACCATGTTGATGAATTCTCACTCCAACAATTCTAGAAAACGTTTCAGGACAAAGTTTACACAAGATCAGAAAGATAAGATGCTGAAATTTGCTGAGAAAGTTGGGTGGAAGATGCAGAAAAAAGATGATGAATTTGTTCATGAGTTTTGTAATGAGATTGGTGTTGATCGTAGTGTTCTTAAGGTTTGGATGCATAACAACAAGAACACTTTAGCTAAACGAGAAAATCTTAACAATAACAATGAGATTAATGATGGTGTTAAGAGTTTTCAGCTACCTCTTGAAGATGAAGAACACAAGAATGTTGAAATTCATGGTCTTAATCACAATCATTATCAGAATGAAGGTGGAGTTGTTGGAGTAACTGTTCGTGCTAATGGTTCATCATCTTCTTCTTAA
Protein sequence

>MsaT035417.1

MDITLTPTPTPTPPPTSIAPTILTTSTTTLTKSPEQHHETETPTKFPTSTTPKISPFSNGVLKRFHHHHHHFNHHNTTNNHQPTITYKECLKNHAANLGGHALDGCGEFMTSPTATPTDPTSLKCAACGCHRNFHRREPEEPPLSTTTHVIEYQPHHRHQPLPPPPFSHRSPNSSSPPPISSSYYPSAPHMLLALSAALPENVAAPNQTMLMNSHSNNSRKRFRTKFTQDQKDKMLKFAEKVGWKMQKKDDEFVHEFCNEIGVDRSVLKVWMHNNKNTLAKRENLNNNNEINDGVKSFQLPLEDEEHKNVEIHGLNHNHYQNEGGVVGVTVRANGSSSSS*