AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016026

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016026 MtrunA17_Chr3g0123941 93.827 324 20 0 1 324 10 333 0.0 615
MsaG016026 MtrunA17_Chr8g0382121 51.389 288 117 6 12 285 5 283 1.62e-97 290
MsaG016026 MtrunA17_Chr1g0200421 60.123 163 61 1 113 271 236 398 2.99e-71 229
MsaG016026 MtrunA17_Chr2g0320341 58.282 163 62 1 111 267 227 389 1.83e-69 221
MsaG016026 MtrunA17_Chr7g0263941 37.179 156 90 3 104 259 39 186 1.25e-27 111
MsaG016026 MtrunA17_Chr2g0326381 35.632 174 96 5 104 268 37 203 2.97e-27 110
MsaG016026 MtrunA17_Chr8g0373541 34.615 182 107 5 104 285 38 207 5.07e-27 110
MsaG016026 MtrunA17_Chr1g0181381 36.538 156 92 3 104 259 43 191 7.35e-27 110
MsaG016026 MtrunA17_Chr8g0342421 35.897 156 92 3 104 259 67 214 8.15e-27 110
MsaG016026 MtrunA17_Chr3g0141431 37.736 159 92 4 104 262 27 178 2.61e-26 107
MsaG016026 MtrunA17_Chr4g0029521 35.897 156 93 4 104 259 43 191 2.89e-26 108
MsaG016026 MtrunA17_Chr4g0040571 34.706 170 95 4 98 259 30 191 5.98e-26 107
MsaG016026 MtrunA17_Chr1g0191991 32.609 184 112 4 104 287 68 239 6.68e-26 107
MsaG016026 MtrunA17_Chr7g0268961 35.762 151 89 3 109 259 32 174 9.23e-26 107
MsaG016026 MtrunA17_Chr1g0185121 35.897 156 93 3 104 259 45 193 9.38e-26 106
MsaG016026 MtrunA17_Chr2g0330171 35.256 156 93 3 104 259 51 198 3.56e-25 105
MsaG016026 MtrunA17_Chr1g0210821 34.228 149 90 3 111 259 56 196 9.22e-25 104
MsaG016026 MtrunA17_Chr1g0199101 34.899 149 89 3 111 259 59 199 2.20e-24 103
MsaG016026 MtrunA17_Chr1g0163001 34.228 149 90 3 111 259 55 195 2.22e-23 100
MsaG016026 MtrunA17_Chr1g0151351 35.099 151 91 3 109 259 51 194 2.28e-23 100
MsaG016026 MtrunA17_Chr1g0162971 33.557 149 91 3 111 259 53 193 3.36e-23 99.4
MsaG016026 MtrunA17_Chr6g0479921 38.255 149 83 4 109 256 39 179 2.00e-22 97.4
MsaG016026 MtrunA17_Chr8g0375521 38.000 150 83 5 109 256 37 178 5.53e-22 95.9
MsaG016026 MtrunA17_Chr2g0328921 35.583 163 93 7 130 284 153 311 1.70e-21 92.8
MsaG016026 MtrunA17_Chr4g0026521 34.884 172 101 8 121 285 123 290 1.99e-21 92.4
MsaG016026 MtrunA17_Chr5g0422571 38.000 150 84 7 130 273 116 262 2.60e-21 92.0
MsaG016026 MtrunA17_Chr2g0321291 36.420 162 92 7 130 284 148 305 3.56e-21 92.0
MsaG016026 MtrunA17_Chr1g0173841 36.025 161 93 7 130 284 230 386 3.67e-21 93.2
MsaG016026 MtrunA17_Chr7g0258011 36.025 161 93 7 130 284 191 347 3.71e-21 92.4
MsaG016026 MtrunA17_Chr8g0352011 32.240 183 113 7 103 278 154 332 8.88e-21 91.3
MsaG016026 MtrunA17_Chr2g0324991 35.135 148 88 4 113 260 6 145 1.19e-20 86.7
MsaG016026 MtrunA17_Chr1g0198651 36.242 149 78 6 130 268 117 258 4.38e-20 88.6
MsaG016026 MtrunA17_Chr4g0053341 36.000 150 87 7 121 265 79 224 1.48e-19 85.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016026 AT1G34370.3 58.788 165 62 2 113 271 19 183 1.40e-69 219
MsaG016026 AT1G34370.2 58.788 165 62 2 113 271 229 393 1.29e-68 223
MsaG016026 AT1G34370.1 58.788 165 62 2 113 271 229 393 1.29e-68 223
MsaG016026 AT5G22890.1 58.125 160 61 1 113 266 202 361 2.66e-66 213
MsaG016026 AT5G66730.1 37.821 156 89 3 104 259 37 184 1.90e-27 112
MsaG016026 AT5G44160.1 35.897 156 92 4 104 259 42 189 4.69e-27 110
MsaG016026 AT5G44160.2 36.424 151 88 4 109 259 8 150 7.53e-27 109
MsaG016026 AT1G03840.1 37.086 151 87 4 109 259 51 193 1.23e-26 110
MsaG016026 AT1G03840.2 36.913 149 86 4 111 259 51 191 4.73e-26 108
MsaG016026 AT5G60470.2 33.918 171 101 4 86 256 36 194 4.81e-26 107
MsaG016026 AT3G45260.2 35.762 151 90 3 109 259 49 192 4.85e-26 107
MsaG016026 AT3G45260.1 35.762 151 90 3 109 259 49 192 4.85e-26 107
MsaG016026 AT5G60470.3 33.918 171 101 4 86 256 32 190 5.66e-26 107
MsaG016026 AT5G03150.1 35.065 154 93 4 106 259 60 206 5.88e-26 108
MsaG016026 AT1G55110.3 37.086 151 88 4 109 259 73 216 1.41e-25 106
MsaG016026 AT1G55110.1 37.086 151 88 4 109 259 73 216 1.41e-25 106
MsaG016026 AT1G55110.2 37.086 151 88 4 109 259 73 216 1.41e-25 106
MsaG016026 AT5G60470.1 35.616 146 87 3 111 256 47 185 3.71e-25 105
MsaG016026 AT3G50700.1 35.897 156 92 3 104 259 39 186 1.46e-24 103
MsaG016026 AT3G13810.4 34.503 171 98 4 109 279 80 236 1.79e-24 103
MsaG016026 AT3G13810.1 34.503 171 98 4 109 279 80 236 1.79e-24 103
MsaG016026 AT3G13810.6 34.503 171 98 4 109 279 61 217 1.85e-24 103
MsaG016026 AT3G13810.5 34.503 171 98 4 109 279 75 231 2.02e-24 103
MsaG016026 AT2G02070.2 33.962 159 95 4 101 259 56 204 2.28e-24 103
MsaG016026 AT2G02070.1 33.962 159 95 4 101 259 56 204 2.28e-24 103
MsaG016026 AT1G14580.1 30.653 199 111 7 78 259 17 205 2.35e-24 103
MsaG016026 AT1G14580.2 30.653 199 111 7 78 259 17 205 2.35e-24 103
MsaG016026 AT1G14580.3 30.653 199 111 7 78 259 31 219 3.34e-24 102
MsaG016026 AT4G02670.1 36.424 151 89 3 109 259 63 206 6.32e-24 101
MsaG016026 AT4G02670.2 36.424 151 89 3 109 259 65 208 6.39e-24 101
MsaG016026 AT3G13810.2 34.320 169 97 4 111 279 83 237 1.14e-23 101
MsaG016026 AT3G13810.3 34.320 169 97 4 111 279 69 223 1.22e-23 101
MsaG016026 AT2G02080.1 34.228 149 90 4 111 259 66 206 1.52e-23 101
MsaG016026 AT2G02080.4 34.228 149 90 4 111 259 66 206 1.52e-23 101
MsaG016026 AT2G02080.5 34.228 149 90 4 111 259 66 206 1.52e-23 101
MsaG016026 AT2G02080.3 34.228 149 90 4 111 259 66 206 1.52e-23 101
MsaG016026 AT1G51220.1 36.747 166 89 8 130 291 180 333 1.84e-22 96.3
MsaG016026 AT1G34790.1 36.970 165 93 7 121 278 137 297 5.38e-22 94.4
MsaG016026 AT3G20880.1 35.220 159 95 6 130 284 258 412 5.42e-22 95.9
MsaG016026 AT1G25250.1 36.913 149 87 4 109 256 20 162 1.13e-21 94.7
MsaG016026 AT1G25250.3 36.913 149 87 4 109 256 43 185 1.25e-21 94.7
MsaG016026 AT1G08290.1 35.000 160 93 6 130 282 182 337 2.15e-21 93.6
MsaG016026 AT2G01940.1 36.842 152 82 6 109 256 54 195 5.25e-21 93.6
MsaG016026 AT1G68130.1 37.500 152 81 6 109 256 51 192 1.60e-20 92.0
MsaG016026 AT2G02080.6 32.847 137 84 3 123 259 1 129 4.07e-20 90.9
MsaG016026 AT2G02080.2 32.847 137 84 3 123 259 1 129 4.07e-20 90.9
MsaG016026 AT3G57670.1 31.818 198 116 8 109 291 189 382 1.45e-19 89.0
MsaG016026 AT1G13290.1 32.447 188 118 6 81 263 55 238 6.49e-19 85.9
MsaG016026 AT2G01940.3 37.143 140 74 6 109 244 54 183 2.19e-18 85.9

Find 96 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGAGTTCTTTCATGATTT+TGG 0.097161 3:-93364650 MsaT016026.1:CDS
TGGGTAGTGTGATGGGAATC+TGG 0.233101 3:+93365535 None:intergenic
CTATTGCTTTGATGAAGTTT+TGG 0.237371 3:-93364615 MsaT016026.1:CDS
GGACGACGACGCACGGTTAA+AGG 0.268870 3:+93365064 None:intergenic
TTTGCTGTGGATGAAGTATC+TGG 0.296757 3:+93365515 None:intergenic
GAAGAATTATTCGATGCTTT+CGG 0.349953 3:-93364897 MsaT016026.1:CDS
TCGAGTAAAGATGATGAAAT+TGG 0.358576 3:-93364680 MsaT016026.1:CDS
AACGCCGCCGCCCTCGTTCC+CGG 0.371943 3:-93365313 MsaT016026.1:CDS
TCTAGGAAGGATAAGTTGTT+TGG 0.372634 3:-93364809 MsaT016026.1:CDS
GAGGGCGGCGGCGTTGACTA+TGG 0.385405 3:+93365321 None:intergenic
GGTGGAGGACGGCAAAGATT+TGG 0.403975 3:+93365347 None:intergenic
GGACATGTTGCTTTGTTTGA+GGG 0.416752 3:-93364788 MsaT016026.1:CDS
CGAAGCGGAACTTGAGGGTC+GGG 0.417024 3:+93365478 None:intergenic
TGTTCGAAGATGAGGAGAAA+GGG 0.422088 3:-93364748 MsaT016026.1:CDS
AAAGGCTTCGCTAAAGCTTC+CGG 0.425013 3:+93365082 None:intergenic
CGGTTCTCGTGTCCGTTTGA+AGG 0.428660 3:-93365037 MsaT016026.1:CDS
GGAATCTTCCACGGCGGTGA+GGG 0.432442 3:+93365243 None:intergenic
GAGCGTTGGTGGTGATGGAT+TGG 0.440346 3:+93365404 None:intergenic
TGCCGCATATCTCGCAGAAA+TGG 0.442862 3:+93365170 None:intergenic
GAATGAAGATCCTATGGAAA+TGG 0.446675 3:-93364705 MsaT016026.1:CDS
TGGACATGTTGCTTTGTTTG+AGG 0.450086 3:-93364789 MsaT016026.1:CDS
GAAATTCAAAGCATTGAAAT+CGG 0.454219 3:-93364990 MsaT016026.1:CDS
TCCGCTTCGGAATCTATCCT+TGG 0.455820 3:-93365464 MsaT016026.1:CDS
TCAAGCGCGACGCGAATCTC+CGG 0.460817 3:-93365141 MsaT016026.1:CDS
CGGATTTGAAGAGTCATATG+AGG 0.460927 3:-93364877 MsaT016026.1:CDS
GGCACCGGGAACGAGGGCGG+CGG 0.463287 3:+93365309 None:intergenic
GATTCCGAAGCGGAACTTGA+GGG 0.464978 3:+93365473 None:intergenic
GGAGGAGAAGACGGAGGCAC+CGG 0.465619 3:+93365294 None:intergenic
AGCGTTGGTGGTGATGGATT+GGG 0.484580 3:+93365405 None:intergenic
GAATCTTCCACGGCGGTGAG+GGG 0.490348 3:+93365244 None:intergenic
GGGTAGTGTGATGGGAATCT+GGG 0.490735 3:+93365536 None:intergenic
AAGTATCTGGGTAGTGTGAT+GGG 0.491876 3:+93365528 None:intergenic
GAGCTCCACAATTTCGCAAT+CGG 0.498272 3:+93365222 None:intergenic
GACGGAGGCACCGGGAACGA+GGG 0.499392 3:+93365303 None:intergenic
ATGTTCGAAGATGAGGAGAA+AGG 0.499866 3:-93364749 MsaT016026.1:CDS
CTAAGTGGAAGTGTTCTTGT+GGG 0.500097 3:-93364841 MsaT016026.1:CDS
GACAGGAGCGTTGGTGGTGA+TGG 0.501841 3:+93365399 None:intergenic
CGTGTGCTCTCATGTGCATC+CGG 0.503672 3:+93365122 None:intergenic
TTACTCGATGCCATTTCCAT+AGG 0.504832 3:+93364695 None:intergenic
GTGTGATGGGAATCTGGGTT+CGG 0.507152 3:+93365541 None:intergenic
TGGATTGGGACAGGAAGGTT+CGG 0.516488 3:+93365419 None:intergenic
TGGTGGTGATGGATTGGGAC+AGG 0.519067 3:+93365410 None:intergenic
AATCTTCCACGGCGGTGAGG+GGG 0.520341 3:+93365245 None:intergenic
TTTCTGTTACATCCTTCAAA+CGG 0.521111 3:+93365025 None:intergenic
AGATTCCGATTGCGAAATTG+TGG 0.528555 3:-93365227 MsaT016026.1:CDS
TGAGGAGAATGAAGATCCTA+TGG 0.533388 3:-93364711 MsaT016026.1:CDS
TAAAGATGATGAAATTGGTA+TGG 0.536892 3:-93364675 MsaT016026.1:CDS
AGATTACACGAATACATCTT+CGG 0.537959 3:+93364929 None:intergenic
TTCTGCGAGATATGCGGCAA+AGG 0.541688 3:-93365166 MsaT016026.1:CDS
GTTAATTGATCATTGCTGAC+AGG 0.542229 3:+93365382 None:intergenic
GGAGGCACCGGGAACGAGGG+CGG 0.542744 3:+93365306 None:intergenic
GTTGTTGTTGACTGAATCAA+AGG 0.542842 3:+93365267 None:intergenic
GAGGAGAAGACGGAGGCACC+GGG 0.543680 3:+93365295 None:intergenic
CCGACCCTCAAGTTCCGCTT+CGG 0.543888 3:-93365477 MsaT016026.1:CDS
GAGGACGGCAAAGATTTGGT+TGG 0.549075 3:+93365351 None:intergenic
AGACGGAGGCACCGGGAACG+AGG 0.549677 3:+93365302 None:intergenic
GTGTGAAGACTCATTTCAAG+AGG 0.550074 3:-93364961 MsaT016026.1:CDS
GAAGCGGAACTTGAGGGTCG+GGG 0.550186 3:+93365479 None:intergenic
ATTGCTGACAGGAGCGTTGG+TGG 0.551289 3:+93365393 None:intergenic
CGGAATCTTCCACGGCGGTG+AGG 0.555882 3:+93365242 None:intergenic
AGATTCCGAAGCGGAACTTG+AGG 0.557075 3:+93365472 None:intergenic
GGCAAAGATTTGGTTGGAGA+CGG 0.557743 3:+93365357 None:intergenic
AGGGAAGCAAGTTGTTGCTG+AGG 0.563220 3:-93364729 MsaT016026.1:CDS
AAGCGGAACTTGAGGGTCGG+GGG 0.565688 3:+93365480 None:intergenic
GAAGTATCTGGGTAGTGTGA+TGG 0.565886 3:+93365527 None:intergenic
AATTGTGGAGCTCGACGCCA+TGG 0.568707 3:-93365212 MsaT016026.1:CDS
ATCATTGCTGACAGGAGCGT+TGG 0.573157 3:+93365390 None:intergenic
AAAGGTCATGGAGGAGAAGA+CGG 0.577837 3:+93365285 None:intergenic
CGGATGCACATGAGAGCACA+CGG 0.577893 3:-93365121 MsaT016026.1:CDS
TGCTGTTATGTTCGAAGATG+AGG 0.583034 3:-93364756 MsaT016026.1:CDS
AACGGACACGAGAACCGTGT+TGG 0.584128 3:+93365043 None:intergenic
TTCGCAATCGGAATCTTCCA+CGG 0.585611 3:+93365234 None:intergenic
CGGCGGCGTTGACTATGGTA+TGG 0.588110 3:+93365326 None:intergenic
TCATCTTCGAACATAACAGC+AGG 0.589440 3:+93364758 None:intergenic
GGCAATGTGGTGAGTCTAAG+TGG 0.591829 3:-93364856 MsaT016026.1:CDS
GGTGATGGATTGGGACAGGA+AGG 0.593615 3:+93365414 None:intergenic
ATGTTCAGCTAGCAATTCCA+TGG 0.594022 3:+93365195 None:intergenic
TTGCTGTGGATGAAGTATCT+GGG 0.597399 3:+93365516 None:intergenic
CCGAAGCGGAACTTGAGGGT+CGG 0.601485 3:+93365477 None:intergenic
CCGTGCGTCGTCGTCCAACA+CGG 0.603358 3:-93365057 MsaT016026.1:CDS
GACTATGGTATGGTGGAGGA+CGG 0.605416 3:+93365336 None:intergenic
CCGTGTTGGACGACGACGCA+CGG 0.605601 3:+93365057 None:intergenic
TCTAAGTGGAAGTGTTCTTG+TGG 0.613240 3:-93364842 MsaT016026.1:CDS
CTCCATTTCTGCGAGATATG+CGG 0.627013 3:-93365172 MsaT016026.1:CDS
AAAGATTTGGTTGGAGACGG+CGG 0.627067 3:+93365360 None:intergenic
GTTGACTGAATCAAAGGTCA+TGG 0.628225 3:+93365273 None:intergenic
CGGCGTTGACTATGGTATGG+TGG 0.628323 3:+93365329 None:intergenic
CGTTGACTATGGTATGGTGG+AGG 0.634509 3:+93365332 None:intergenic
ATCGATGCTTGTCTGAACCA+AGG 0.654173 3:+93365447 None:intergenic
CGGGAATCAGTTCAAGACGC+CGG 0.682583 3:-93365101 MsaT016026.1:CDS
GACTGAATCAAAGGTCATGG+AGG 0.686847 3:+93365276 None:intergenic
GGATGCACATGAGAGCACAC+GGG 0.701290 3:-93365120 MsaT016026.1:CDS
ACCAAGGATAGATTCCGAAG+CGG 0.716599 3:+93365463 None:intergenic
GCAATCGGAATCTTCCACGG+CGG 0.729614 3:+93365237 None:intergenic
AAGAGTCATATGAGGCAATG+TGG 0.740474 3:-93364869 MsaT016026.1:CDS
GGTCATGGAGGAGAAGACGG+AGG 0.748482 3:+93365288 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 93364598 93365572 93364598 ID=MsaG016026
Chr3 mRNA 93364598 93365572 93364598 ID=MsaT016026.1;Parent=MsaG016026
Chr3 exon 93364598 93365572 93364598 ID=MsaT016026.1.exon1;Parent=MsaT016026.1
Chr3 CDS 93364598 93365572 93364598 ID=cds.MsaT016026.1;Parent=MsaT016026.1
Gene Sequence

>MsaT016026.1

ATGTCTAATCCGAACCCAGATTCCCATCACACTACCCAGATACTTCATCCACAGCAAAATCCAACTAATACCCCCGACCCTCAAGTTCCGCTTCGGAATCTATCCTTGGTTCAGACAAGCATCGATTCTCTCCGAACCTTCCTGTCCCAATCCATCACCACCAACGCTCCTGTCAGCAATGATCAATTAACCGCCGTCTCCAACCAAATCTTTGCCGTCCTCCACCATACCATAGTCAACGCCGCCGCCCTCGTTCCCGGTGCCTCCGTCTTCTCCTCCATGACCTTTGATTCAGTCAACAACAACCCCCTCACCGCCGTGGAAGATTCCGATTGCGAAATTGTGGAGCTCGACGCCATGGAATTGCTAGCTGAACATCTCCATTTCTGCGAGATATGCGGCAAAGGCTTCAAGCGCGACGCGAATCTCCGGATGCACATGAGAGCACACGGGAATCAGTTCAAGACGCCGGAAGCTTTAGCGAAGCCTTTAACCGTGCGTCGTCGTCCAACACGGTTCTCGTGTCCGTTTGAAGGATGTAACAGAAACAAGAAGCATAAGAAATTCAAAGCATTGAAATCGGTGATTTGTGTGAAGACTCATTTCAAGAGGAGTCATTGTCCGAAGATGTATTCGTGTAATCTTTGTCGTAAGAAGAATTATTCGATGCTTTCGGATTTGAAGAGTCATATGAGGCAATGTGGTGAGTCTAAGTGGAAGTGTTCTTGTGGGAGTACTTTTTCTAGGAAGGATAAGTTGTTTGGACATGTTGCTTTGTTTGAGGGTCATATGCCTGCTGTTATGTTCGAAGATGAGGAGAAAGGGAAGCAAGTTGTTGCTGAGGAGAATGAAGATCCTATGGAAATGGCATCGAGTAAAGATGATGAAATTGGTATGGATGAAGAGTTCTTTCATGATTTTGGGTCTATTGATAACTATTGCTTTGATGAAGTTTTGGGATTTCGTCGTAGCTAG
Protein sequence

>MsaT016026.1

MSNPNPDSHHTTQILHPQQNPTNTPDPQVPLRNLSLVQTSIDSLRTFLSQSITTNAPVSNDQLTAVSNQIFAVLHHTIVNAAALVPGASVFSSMTFDSVNNNPLTAVEDSDCEIVELDAMELLAEHLHFCEICGKGFKRDANLRMHMRAHGNQFKTPEALAKPLTVRRRPTRFSCPFEGCNRNKKHKKFKALKSVICVKTHFKRSHCPKMYSCNLCRKKNYSMLSDLKSHMRQCGESKWKCSCGSTFSRKDKLFGHVALFEGHMPAVMFEDEEKGKQVVAEENEDPMEMASSKDDEIGMDEEFFHDFGSIDNYCFDEVLGFRRS*