AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG023802

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG023802 MtrunA17_Chr8g0382121 93.031 287 19 1 1 286 27 313 0.0 558
MsaG023802 MtrunA17_Chr3g0123941 51.056 284 119 7 1 281 50 316 4.13e-85 258
MsaG023802 MtrunA17_Chr1g0200421 53.684 190 77 5 84 270 236 417 1.49e-65 213
MsaG023802 MtrunA17_Chr2g0320341 55.828 163 67 2 83 241 228 389 1.02e-63 205
MsaG023802 MtrunA17_Chr5g0422571 40.690 145 80 5 101 243 116 256 3.02e-24 99.4
MsaG023802 MtrunA17_Chr8g0373541 34.171 199 109 8 78 274 41 219 2.73e-22 96.3
MsaG023802 MtrunA17_Chr2g0326381 31.633 196 119 6 83 278 45 225 4.23e-22 95.1
MsaG023802 MtrunA17_Chr7g0263941 37.162 148 82 5 83 230 47 183 4.51e-22 95.1
MsaG023802 MtrunA17_Chr8g0342421 33.929 168 96 6 83 250 75 227 4.55e-22 95.5
MsaG023802 MtrunA17_Chr4g0029521 33.721 172 99 6 83 254 51 207 1.53e-21 94.0
MsaG023802 MtrunA17_Chr1g0198651 36.986 146 86 5 101 243 117 259 4.07e-21 90.9
MsaG023802 MtrunA17_Chr1g0191991 36.486 148 83 5 83 230 76 212 4.49e-21 92.8
MsaG023802 MtrunA17_Chr2g0321291 38.571 140 81 4 101 239 148 283 5.15e-21 90.9
MsaG023802 MtrunA17_Chr7g0268961 36.486 148 83 5 83 230 35 171 5.46e-21 92.4
MsaG023802 MtrunA17_Chr4g0053341 37.342 158 91 6 92 246 79 231 5.84e-21 89.0
MsaG023802 MtrunA17_Chr1g0181381 35.135 148 86 4 83 230 51 188 9.89e-21 91.7
MsaG023802 MtrunA17_Chr4g0040571 35.135 148 85 5 83 230 52 188 9.89e-21 91.7
MsaG023802 MtrunA17_Chr4g0026521 34.286 175 101 7 91 256 122 291 1.47e-20 89.4
MsaG023802 MtrunA17_Chr2g0330171 32.370 173 102 6 83 255 59 216 1.51e-20 90.9
MsaG023802 MtrunA17_Chr3g0141431 34.225 187 107 7 49 234 4 175 1.96e-20 90.5
MsaG023802 MtrunA17_Chr8g0352011 37.313 134 80 3 101 234 181 310 3.67e-20 89.0
MsaG023802 MtrunA17_Chr1g0185121 35.135 148 86 4 83 230 53 190 6.45e-20 89.0
MsaG023802 MtrunA17_Chr2g0328921 37.671 146 84 6 101 244 153 293 1.05e-19 87.0
MsaG023802 MtrunA17_Chr1g0210821 32.450 151 91 5 80 230 54 193 2.58e-19 87.8
MsaG023802 MtrunA17_Chr7g0258011 37.143 140 81 6 101 238 191 325 5.12e-19 85.5
MsaG023802 MtrunA17_Chr1g0151351 35.811 148 85 5 83 230 54 191 7.01e-19 86.3
MsaG023802 MtrunA17_Chr1g0199101 33.775 151 89 5 80 230 57 196 1.23e-18 85.5
MsaG023802 MtrunA17_Chr2g0324991 36.111 144 81 5 83 226 5 137 1.43e-18 80.5
MsaG023802 MtrunA17_Chr8g0375521 36.913 149 83 5 83 230 40 178 1.61e-18 84.7
MsaG023802 MtrunA17_Chr1g0163001 33.108 148 88 5 83 230 56 192 1.92e-18 85.1
MsaG023802 MtrunA17_Chr1g0173841 35.862 145 86 6 101 243 230 369 2.55e-18 84.0
MsaG023802 MtrunA17_Chr1g0162971 32.450 151 91 5 80 230 51 190 3.58e-18 84.0
MsaG023802 MtrunA17_Chr6g0479921 37.086 151 79 6 83 230 42 179 1.86e-17 82.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG023802 AT1G34370.3 55.357 168 70 2 84 247 19 185 1.22e-64 204
MsaG023802 AT1G34370.2 56.805 169 66 3 84 247 229 395 1.52e-63 208
MsaG023802 AT1G34370.1 56.805 169 66 3 84 247 229 395 1.52e-63 208
MsaG023802 AT5G22890.1 55.882 170 70 2 85 250 203 371 5.94e-62 200
MsaG023802 AT1G08290.1 39.007 141 80 5 101 239 182 318 5.43e-22 94.4
MsaG023802 AT5G66730.1 36.486 148 83 5 83 230 45 181 6.35e-22 95.5
MsaG023802 AT1G13290.1 37.415 147 87 4 101 245 103 246 8.58e-22 93.2
MsaG023802 AT5G44160.1 35.135 148 85 5 83 230 50 186 8.76e-22 95.1
MsaG023802 AT5G44160.2 35.135 148 85 5 83 230 11 147 9.65e-22 94.7
MsaG023802 AT5G60470.2 34.615 156 90 5 75 230 51 194 1.07e-21 94.7
MsaG023802 AT5G60470.1 34.228 149 88 4 82 230 47 185 1.11e-21 94.7
MsaG023802 AT5G60470.3 34.615 156 90 5 75 230 47 190 1.13e-21 94.7
MsaG023802 AT3G45260.2 31.977 172 103 5 83 254 52 209 1.27e-21 94.4
MsaG023802 AT3G45260.1 31.977 172 103 5 83 254 52 209 1.27e-21 94.4
MsaG023802 AT5G03150.1 36.301 146 83 4 85 230 68 203 1.34e-21 94.7
MsaG023802 AT1G51220.1 39.189 148 83 6 101 246 180 322 2.05e-21 92.8
MsaG023802 AT3G50700.1 36.471 170 91 7 61 230 31 183 2.43e-21 93.6
MsaG023802 AT1G03840.2 35.099 151 87 5 80 230 49 188 3.34e-21 93.6
MsaG023802 AT1G03840.1 35.135 148 85 5 83 230 54 190 5.62e-21 92.8
MsaG023802 AT3G20880.1 37.107 159 93 6 101 257 258 411 8.52e-21 91.7
MsaG023802 AT1G55110.3 32.934 167 98 5 83 249 76 228 2.44e-20 90.9
MsaG023802 AT1G55110.1 32.934 167 98 5 83 249 76 228 2.44e-20 90.9
MsaG023802 AT1G55110.2 32.934 167 98 5 83 249 76 228 2.44e-20 90.9
MsaG023802 AT3G13810.4 35.135 148 86 4 83 230 83 220 8.58e-20 89.4
MsaG023802 AT3G13810.1 35.135 148 86 4 83 230 83 220 8.58e-20 89.4
MsaG023802 AT3G13810.5 35.135 148 86 4 83 230 78 215 9.41e-20 89.4
MsaG023802 AT3G13810.6 35.135 148 86 4 83 230 64 201 9.89e-20 89.4
MsaG023802 AT3G13810.2 35.135 148 86 4 83 230 84 221 1.23e-19 89.0
MsaG023802 AT3G13810.3 35.135 148 86 4 83 230 70 207 1.37e-19 89.0
MsaG023802 AT2G02080.1 30.526 190 111 8 75 260 61 233 2.74e-19 87.8
MsaG023802 AT2G02080.4 30.526 190 111 8 75 260 61 233 2.74e-19 87.8
MsaG023802 AT2G02080.5 30.526 190 111 8 75 260 61 233 2.74e-19 87.8
MsaG023802 AT2G02080.3 30.526 190 111 8 75 260 61 233 2.74e-19 87.8
MsaG023802 AT4G02670.1 35.811 148 85 5 83 230 66 203 3.31e-19 87.0
MsaG023802 AT4G02670.2 35.811 148 85 5 83 230 68 205 3.45e-19 87.0
MsaG023802 AT1G34790.1 35.329 167 97 8 92 252 137 298 3.92e-19 85.9
MsaG023802 AT2G02070.2 32.450 151 91 5 80 230 62 201 4.24e-19 87.4
MsaG023802 AT2G02070.1 32.450 151 91 5 80 230 62 201 4.24e-19 87.4
MsaG023802 AT1G14580.1 32.692 156 92 6 75 230 60 202 7.59e-19 86.7
MsaG023802 AT1G14580.2 32.692 156 92 6 75 230 60 202 7.59e-19 86.7
MsaG023802 AT1G14580.3 32.692 156 92 6 75 230 74 216 8.14e-19 86.3
MsaG023802 AT3G57670.1 35.862 145 86 6 101 243 219 358 4.22e-18 84.0
MsaG023802 AT1G25250.1 33.750 160 96 5 72 230 12 162 2.94e-17 81.3
MsaG023802 AT2G02080.6 30.409 171 100 7 94 260 1 156 3.65e-17 81.6
MsaG023802 AT2G02080.2 30.409 171 100 7 94 260 1 156 3.65e-17 81.6
MsaG023802 AT1G25250.3 35.570 149 86 5 83 230 46 185 3.84e-17 81.3
MsaG023802 AT2G01940.1 35.762 151 82 6 83 230 57 195 4.02e-17 81.3
MsaG023802 AT1G68130.1 35.570 149 85 5 83 230 54 192 1.01e-16 80.1
MsaG023802 AT2G01940.3 35.252 139 75 6 83 218 57 183 3.47e-14 72.8

Find 67 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGATGATTTGGATAAATTT+TGG 0.104736 4:-92537476 MsaT023802.1:CDS
GGAGGAATTGTTATTGTTTC+TGG 0.118268 4:+92538164 None:intergenic
GGAAGGTTTCTTTGATGATT+TGG 0.263746 4:-92537487 MsaT023802.1:CDS
CATGTCATCGTCAATGTAAT+TGG 0.286361 4:+92538109 None:intergenic
TCCACTTCTGCGAGATTTGC+GGG 0.292814 4:-92538016 MsaT023802.1:CDS
TGCGTCGAGTTCCACAATTT+TGG 0.303992 4:+92538061 None:intergenic
ATGAAGGTTGCAAACGTAAC+AGG 0.321705 4:-92537860 MsaT023802.1:CDS
GACAATGACTTCTCTTGAAA+TGG 0.326614 4:+92537790 None:intergenic
TCTAGGAAGGAGAAATTGTT+TGG 0.374626 4:-92537645 MsaT023802.1:CDS
GACGAATTGTGGAGGAGATT+TGG 0.390719 4:+92538225 None:intergenic
GAGGACTGTGTTTGTTTGAA+TGG 0.398093 4:+92538277 None:intergenic
TGTGTTTGTTTGAATGGATT+GGG 0.410517 4:+92538283 None:intergenic
CTGTGTTTGTTTGAATGGAT+TGG 0.411205 4:+92538282 None:intergenic
TGATTGCATGGATACGTTAC+CGG 0.422874 4:-92537508 MsaT023802.1:CDS
TTTGGAATGGTAGTTATGAA+TGG 0.430613 4:+92538079 None:intergenic
GACGGCGGCGCCGGCAGAAG+AGG 0.442327 4:-92537562 MsaT023802.1:CDS
TTACGTTTGCAACCTTCATA+AGG 0.442930 4:+92537864 None:intergenic
TTGGAATGGTAGTTATGAAT+GGG 0.447738 4:+92538080 None:intergenic
GAAGTTCAATCCGTTGAAAT+CGG 0.453409 4:-92537829 MsaT023802.1:CDS
TTCTGCGAGATTTGCGGGAA+AGG 0.464202 4:-92538011 MsaT023802.1:CDS
TTCCACTTCTGCGAGATTTG+CGG 0.470603 4:-92538017 MsaT023802.1:CDS
GGACACGTGGAACGGTTTGA+AGG 0.476041 4:-92537624 MsaT023802.1:CDS
AATTGTGGAGGAGATTTGGT+TGG 0.477694 4:+92538229 None:intergenic
TAACTACCATTCCAAAATTG+TGG 0.494523 4:-92538072 MsaT023802.1:CDS
GGAAAAGCAAGCGCGTTTAA+CGG 0.496000 4:-92537904 MsaT023802.1:CDS
AAAATCAATGACGGCGGCGC+CGG 0.497008 4:-92537571 MsaT023802.1:CDS
CCCACACCTTCCTCTTCTGC+CGG 0.506138 4:+92537552 None:intergenic
GTCGAGTATAACTCGGTTGG+AGG 0.524381 4:+92538146 None:intergenic
AAATCATCAAAGAAACCTTC+CGG 0.527715 4:+92537489 None:intergenic
CCGGCGGTTGTTGAAGAGAA+AGG 0.528093 4:-92537594 MsaT023802.1:CDS
GACGAAGGAAAATGATTGCA+TGG 0.537494 4:-92537520 MsaT023802.1:CDS
TCCCGCAAATCTCGCAGAAG+TGG 0.537900 4:+92538015 None:intergenic
AAACAGAACACCGATTTCAA+CGG 0.538702 4:+92537819 None:intergenic
GAGTCACGTGAAACAGTGTA+GGG 0.546406 4:-92537706 MsaT023802.1:CDS
GATGATGACTTGACGAATTG+TGG 0.554147 4:+92538214 None:intergenic
TGTTATTGTTTCTGGACAAG+TGG 0.555781 4:+92538172 None:intergenic
CAATTACATTGACGATGACA+TGG 0.570490 4:-92538108 MsaT023802.1:CDS
CGAAAACTCACACGTGCGAT+CGG 0.572334 4:-92537767 MsaT023802.1:CDS
GGAGAAATTGTTTGGACACG+TGG 0.574657 4:-92537637 MsaT023802.1:CDS
CTCACACGTGCGATCGGTGT+CGG 0.577837 4:-92537761 MsaT023802.1:CDS
CGTATGCACATGCGCGCGCA+CGG 0.585406 4:-92537966 MsaT023802.1:CDS
CCTTTCTCTTCAACAACCGC+CGG 0.591632 4:+92537594 None:intergenic
TGCATGGATACGTTACCGGA+AGG 0.593308 4:-92537504 MsaT023802.1:CDS
GCCGGCAGAAGAGGAAGGTG+TGG 0.596313 4:-92537553 MsaT023802.1:CDS
AGAGTCACGTGAAACAGTGT+AGG 0.598901 4:-92537707 MsaT023802.1:CDS
GCGGCGCCGGCAGAAGAGGA+AGG 0.609998 4:-92537558 MsaT023802.1:CDS
GCGCGCGCATGTGCATACGC+AGG 0.610043 4:+92537970 None:intergenic
CCTGTCGAGTATAACTCGGT+TGG 0.613205 4:+92538143 None:intergenic
CCAACCGAGTTATACTCGAC+AGG 0.616167 4:-92538143 MsaT023802.1:CDS
ACGGTTTGAAGGACACTCGC+CGG 0.617915 4:-92537613 MsaT023802.1:CDS
CCGGCAGAAGAGGAAGGTGT+GGG 0.619763 4:-92537552 MsaT023802.1:CDS
AATTGTTTGGACACGTGGAA+CGG 0.620552 4:-92537632 MsaT023802.1:CDS
TCCACGTGGAAGTGTTCGTG+TGG 0.623338 4:-92537678 MsaT023802.1:CDS
ACCACCTGTCGAGTATAACT+CGG 0.632991 4:+92538139 None:intergenic
ATGAAGCGTTACGTAGCGTG+AGG 0.636493 4:-92537926 MsaT023802.1:CDS
AATTGTGGAACTCGACGCAG+TGG 0.638379 4:-92538057 MsaT023802.1:CDS
TTTCTCCTTCCTAGAAAACG+TGG 0.641293 4:+92537653 None:intergenic
ACACGTGCGATCGGTGTCGG+AGG 0.660805 4:-92537758 MsaT023802.1:CDS
AGAGAAAGGAAAATCAATGA+CGG 0.662591 4:-92537580 MsaT023802.1:CDS
TGAAGCGTTACGTAGCGTGA+GGG 0.667496 4:-92537925 MsaT023802.1:CDS
GAAAGGAAAATCAATGACGG+CGG 0.669060 4:-92537577 MsaT023802.1:CDS
GTTTGAAGGACACTCGCCGG+CGG 0.678907 4:-92537610 MsaT023802.1:CDS
ACCGAGTTATACTCGACAGG+TGG 0.698259 4:-92538140 MsaT023802.1:CDS
AGTGTAGGGGAGAGTCCACG+TGG 0.705085 4:-92537692 MsaT023802.1:CDS
GATGACTTGACGAATTGTGG+AGG 0.731309 4:+92538217 None:intergenic
AGTCACGTGAAACAGTGTAG+GGG 0.737402 4:-92537705 MsaT023802.1:CDS
TCCACACGAACACTTCCACG+TGG 0.747159 4:+92537677 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 92537470 92538330 92537470 ID=MsaG023802
Chr4 mRNA 92537470 92538330 92537470 ID=MsaT023802.1;Parent=MsaG023802
Chr4 exon 92537470 92538330 92537470 ID=MsaT023802.1.exon1;Parent=MsaT023802.1
Chr4 CDS 92537470 92538330 92537470 ID=cds.MsaT023802.1;Parent=MsaT023802.1
Gene Sequence

>MsaT023802.1

ATGGATTCTATTCAAAGCTTCATATCCCAATCCATTCAAACAAACACAGTCCTCCCCAAACAAAACTTAGACTCACTCTCCAACCAAATCTCCTCCACAATTCGTCAAGTCATCATCAACGCAACTGCTCTTCTCGCCACTTGTCCAGAAACAATAACAATTCCTCCAACCGAGTTATACTCGACAGGTGGTGAGAAAACCAATTACATTGACGATGACATGGCAAATCCCATTCATAACTACCATTCCAAAATTGTGGAACTCGACGCAGTGGAACTGCTTGCGAAGCACTTCCACTTCTGCGAGATTTGCGGGAAAGGTTTCACGCGCGATGCAAACCTGCGTATGCACATGCGCGCGCACGGAGAACAGTTCAAGACACATGAAGCGTTACGTAGCGTGAGGGAAAAGCAAGCGCGTTTAACGGCGACGCGATTTTCTTGTCCTTATGAAGGTTGCAAACGTAACAGGTTACACAAGAAGTTCAATCCGTTGAAATCGGTGTTCTGTTTGAAGAACCATTTCAAGAGAAGTCATTGTCCGAAAACTCACACGTGCGATCGGTGTCGGAGGAAGAGTTTTGCGGTGGTGTCGGATTTGAAGAGTCACGTGAAACAGTGTAGGGGAGAGTCCACGTGGAAGTGTTCGTGTGGAACCACGTTTTCTAGGAAGGAGAAATTGTTTGGACACGTGGAACGGTTTGAAGGACACTCGCCGGCGGTTGTTGAAGAGAAAGGAAAATCAATGACGGCGGCGCCGGCAGAAGAGGAAGGTGTGGGTAGATTTTTGACGAAGGAAAATGATTGCATGGATACGTTACCGGAAGGTTTCTTTGATGATTTGGATAAATTTTGGGTTTGA
Protein sequence

>MsaT023802.1

MDSIQSFISQSIQTNTVLPKQNLDSLSNQISSTIRQVIINATALLATCPETITIPPTELYSTGGEKTNYIDDDMANPIHNYHSKIVELDAVELLAKHFHFCEICGKGFTRDANLRMHMRAHGEQFKTHEALRSVREKQARLTATRFSCPYEGCKRNRLHKKFNPLKSVFCLKNHFKRSHCPKTHTCDRCRRKSFAVVSDLKSHVKQCRGESTWKCSCGTTFSRKEKLFGHVERFEGHSPAVVEEKGKSMTAAPAEEEGVGRFLTKENDCMDTLPEGFFDDLDKFWV*