AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039482

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039482 MtrunA17_Chr7g0258831 95.254 295 12 1 1 293 1 295 0.0 541
MsaG039482 MtrunA17_Chr1g0175651 67.754 276 79 6 1 273 1 269 2.42e-114 331
MsaG039482 MtrunA17_Chr2g0308611 80.263 152 20 2 135 283 181 325 1.65e-77 239
MsaG039482 MtrunA17_Chr4g0055851 64.398 191 50 3 87 272 58 235 7.67e-73 225
MsaG039482 MtrunA17_Chr5g0399491 63.441 186 62 3 95 279 78 258 8.44e-70 218
MsaG039482 MtrunA17_Chr4g0054421 77.600 125 26 1 148 270 115 239 1.21e-65 206
MsaG039482 MtrunA17_Chr8g0335131 66.279 172 45 3 108 269 90 258 1.27e-64 205
MsaG039482 MtrunA17_Chr5g0400781 67.626 139 45 0 149 287 114 252 1.35e-64 204
MsaG039482 MtrunA17_Chr1g0151971 62.590 139 50 1 157 293 129 267 1.40e-55 181
MsaG039482 MtrunA17_Chr4g0044091 65.323 124 36 2 153 269 59 182 2.52e-48 159
MsaG039482 MtrunA17_Chr3g0135331 67.939 131 40 2 149 278 136 265 5.15e-48 162
MsaG039482 MtrunA17_Chr2g0299031 56.618 136 55 2 136 270 63 195 1.84e-40 140
MsaG039482 MtrunA17_Chr4g0071411 58.772 114 43 1 160 269 90 203 8.00e-36 128
MsaG039482 MtrunA17_Chr7g0217111 44.737 114 59 1 139 248 61 174 1.40e-19 86.3
MsaG039482 MtrunA17_Chr6g0450991 40.146 137 80 1 155 291 64 198 2.39e-19 85.9
MsaG039482 MtrunA17_Chr5g0416391 45.283 106 54 1 150 251 69 174 2.03e-18 83.2
MsaG039482 MtrunA17_Chr1g0179581 45.977 87 47 0 154 240 24 110 2.73e-18 78.6
MsaG039482 MtrunA17_Chr4g0060031 48.077 104 52 1 144 245 79 182 4.06e-18 83.2
MsaG039482 MtrunA17_Chr8g0362151 41.085 129 69 3 130 251 46 174 4.30e-18 82.4
MsaG039482 MtrunA17_Chr6g0453021 39.726 146 77 3 110 244 44 189 2.24e-17 80.1
MsaG039482 MtrunA17_Chr5g0415941 47.872 94 42 1 158 244 87 180 3.25e-17 80.5
MsaG039482 MtrunA17_Chr7g0265521 41.935 93 54 0 153 245 58 150 4.53e-17 78.6
MsaG039482 MtrunA17_Chr3g0119291 45.283 106 49 2 149 245 48 153 1.64e-16 77.4
MsaG039482 MtrunA17_Chr8g0362751 45.745 94 44 1 158 244 89 182 3.48e-16 77.0
MsaG039482 MtrunA17_Chr8g0381741 43.750 112 53 2 141 245 40 148 1.84e-15 75.5
MsaG039482 MtrunA17_Chr3g0123691 34.000 200 106 6 89 279 8 190 2.82e-15 74.7
MsaG039482 MtrunA17_Chr8g0346251 42.683 82 47 0 162 243 45 126 4.81e-12 64.7
MsaG039482 MtrunA17_Chr3g0127511 41.935 93 47 1 161 246 41 133 5.86e-12 64.3
MsaG039482 MtrunA17_Chr5g0410711 30.769 130 89 1 125 254 60 188 3.07e-11 63.9
MsaG039482 MtrunA17_Chr2g0331581 35.246 122 60 1 161 282 145 247 6.42e-11 62.8
MsaG039482 MtrunA17_Chr5g0403691 38.889 108 61 1 135 242 35 137 9.77e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039482 AT5G06710.1 51.402 321 92 9 1 273 1 305 1.27e-86 263
MsaG039482 AT4G37790.1 81.967 122 22 0 149 270 117 238 3.58e-69 216
MsaG039482 AT5G47370.1 55.217 230 86 7 52 271 22 244 8.99e-69 215
MsaG039482 AT2G44910.1 49.237 262 98 7 46 272 17 278 1.44e-67 213
MsaG039482 AT3G60390.1 57.843 204 59 4 87 269 77 274 9.93e-66 208
MsaG039482 AT2G22800.1 77.049 122 28 0 149 270 104 225 3.71e-65 206
MsaG039482 AT4G16780.1 62.857 175 57 3 106 272 70 244 3.90e-65 206
MsaG039482 AT4G17460.1 54.430 237 83 9 52 271 21 249 1.53e-62 199
MsaG039482 AT2G01430.1 61.029 136 51 2 135 270 116 249 1.53e-47 160
MsaG039482 AT5G06710.4 42.412 257 84 9 1 209 1 241 1.32e-39 140
MsaG039482 AT1G70920.1 58.015 131 46 2 142 270 51 174 1.47e-39 137
MsaG039482 AT1G70920.2 58.015 131 46 2 142 270 21 144 1.53e-39 136
MsaG039482 AT2G01430.2 62.667 75 28 0 135 209 116 190 1.49e-23 96.3
MsaG039482 AT5G06710.2 36.087 230 83 10 1 182 1 214 1.80e-18 82.8
MsaG039482 AT5G06710.3 36.087 230 83 10 1 182 1 214 1.80e-18 82.8
MsaG039482 AT1G26960.1 39.744 156 81 5 143 291 57 206 2.89e-18 82.8
MsaG039482 AT1G69780.1 45.872 109 56 2 140 245 64 172 3.72e-18 83.2
MsaG039482 AT2G36610.1 42.157 102 51 1 153 246 66 167 3.77e-17 78.2
MsaG039482 AT5G03790.1 39.823 113 67 1 153 264 72 184 4.19e-17 79.0
MsaG039482 AT3G01220.1 42.857 119 56 2 144 250 65 183 5.58e-17 79.7
MsaG039482 AT5G15150.1 45.000 120 55 4 136 247 92 208 1.66e-16 78.6
MsaG039482 AT3G01470.1 46.739 92 49 0 158 249 68 159 6.82e-16 76.3
MsaG039482 AT2G22430.1 45.455 99 50 1 154 248 58 156 4.71e-15 74.7
MsaG039482 AT5G65310.2 42.857 98 49 1 155 245 51 148 6.62e-15 73.9
MsaG039482 AT5G65310.1 42.857 98 49 1 155 245 69 166 7.12e-15 73.9
MsaG039482 AT1G27045.5 56.061 66 29 0 158 223 25 90 1.75e-14 70.9
MsaG039482 AT1G27045.3 56.061 66 29 0 158 223 25 90 1.75e-14 70.9
MsaG039482 AT1G27045.2 56.061 66 29 0 158 223 17 82 1.96e-14 70.5
MsaG039482 AT1G27045.1 56.061 66 29 0 158 223 68 133 2.40e-14 71.2
MsaG039482 AT1G27045.4 45.098 102 48 2 158 252 68 168 3.38e-14 71.2
MsaG039482 AT2G18550.1 45.361 97 52 1 148 244 52 147 5.39e-14 70.1
MsaG039482 AT4G40060.1 42.857 98 52 1 154 247 55 152 5.99e-14 71.2
MsaG039482 AT2G46680.2 41.758 91 53 0 153 243 27 117 1.09e-13 70.1
MsaG039482 AT5G03790.2 42.045 88 51 0 153 240 72 159 1.13e-13 68.6
MsaG039482 AT2G46680.1 41.758 91 53 0 153 243 27 117 1.26e-13 69.7
MsaG039482 AT4G36740.1 41.837 98 56 1 147 244 45 141 5.11e-12 64.3
MsaG039482 AT4G36740.2 41.837 98 56 1 147 244 46 142 5.39e-12 64.3
MsaG039482 AT3G61890.1 42.169 83 48 0 161 243 33 115 1.45e-11 63.5

Find 80 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTTCACGACTACTGTTTC+TGG 0.182434 7:-89556753 None:intergenic
CTTCGAATTCCTTGGCTTAA+TGG 0.196606 7:+89556386 MsaT039482.1:CDS
ACTAGCGATGATGAAGAAAA+TGG 0.264544 7:+89556791 MsaT039482.1:CDS
AATATGACGCTGCACTATTC+GGG 0.319466 7:-89556685 None:intergenic
CTCTAACAGAAGAAAATAAA+AGG 0.327202 7:+89557627 MsaT039482.1:CDS
CTCCACTTCTTCGAATTCCT+TGG 0.331599 7:+89556378 MsaT039482.1:CDS
TAATATGACGCTGCACTATT+CGG 0.334434 7:-89556686 None:intergenic
CCACTGACGCCAACCGGAAT+TGG 0.348785 7:-89556628 None:intergenic
TATCGGACGGGAACCAATTC+CGG 0.356079 7:+89556615 MsaT039482.1:CDS
GAAGAAACTCAGACTCTCTA+AGG 0.373372 7:+89556823 MsaT039482.1:CDS
TTGTTTAGTGGCAGTGGTTC+CGG 0.381277 7:-89557768 None:intergenic
CACTTCCGTTTGCTTTAACT+TGG 0.385691 7:-89557573 None:intergenic
GTCCACGTCAAGTAGAAGTT+TGG 0.395922 7:+89557415 MsaT039482.1:CDS
AATCGAGATGGTTTGTTTAG+TGG 0.400673 7:-89557780 None:intergenic
TCATTATTGGCGGTGCCCAC+CGG 0.402169 7:-89557807 None:intergenic
GGCTGCAGTTGGTGTGGAAC+CGG 0.416952 7:+89556586 MsaT039482.1:intron
ATGGAGCTGGCTTTGAGCTT+AGG 0.426776 7:+89556173 MsaT039482.1:CDS
CTATGTGTCCTTCTTGTGAA+AGG 0.437758 7:+89557729 MsaT039482.1:CDS
GAGTCTGAGTTTCTTCCTTG+TGG 0.443252 7:-89556816 None:intergenic
CCAATTCCGGTTGGCGTCAG+TGG 0.453064 7:+89556628 MsaT039482.1:CDS
TATCCTCCACTGACGCCAAC+CGG 0.456571 7:-89556634 None:intergenic
AGTTCAATCACCGATGGAGC+TGG 0.459835 7:+89556160 None:intergenic
TGTGGAACCGGCGAGGGTAT+CGG 0.464515 7:+89556598 MsaT039482.1:CDS
AGAAAATAAAAGGTTACAAA+AGG 0.465210 7:+89557637 MsaT039482.1:CDS
GATGGTTTGTTTAGTGGCAG+TGG 0.466617 7:-89557774 None:intergenic
TTCGAAGAAGTGGAGAAGGC+TGG 0.476464 7:-89556370 None:intergenic
GTGGAGAAGGCTGGGAGTGA+AGG 0.477756 7:-89556361 None:intergenic
CACATAGTGAGAGTGGTAGC+TGG 0.479169 7:-89557713 None:intergenic
CAGAAACAGTAGTCGTGAAG+AGG 0.481552 7:+89556754 MsaT039482.1:CDS
GAGTGAAGGACCGGTGTTGA+AGG 0.484612 7:-89556347 None:intergenic
GGCAGTGGTTCCGGTGGTGT+TGG 0.486933 7:-89557759 None:intergenic
GGAAGAAGATTGAGCTGAAT+GGG 0.496713 7:-89556326 None:intergenic
TGAAACTGCAGCTCCCTCTT+CGG 0.499081 7:-89556660 None:intergenic
CAAGTTAAAGCAAACGGAAG+TGG 0.499846 7:+89557574 MsaT039482.1:CDS
AGTGGTTCCGGTGGTGTTGG+TGG 0.508654 7:-89557756 None:intergenic
AGCCAAGGAATTCGAAGAAG+TGG 0.519113 7:-89556380 None:intergenic
CTAGCGATGATGAAGAAAAT+GGG 0.520663 7:+89556792 MsaT039482.1:CDS
AGGAAGAAGATTGAGCTGAA+TGG 0.527689 7:-89556327 None:intergenic
CAGGACCAAGTTAAAGCAAA+CGG 0.533115 7:+89557568 MsaT039482.1:intron
TATGTGTCCTTCTTGTGAAA+GGG 0.534150 7:+89557730 MsaT039482.1:CDS
CAATCTTCTTCCTTCAACAC+CGG 0.539071 7:+89556337 MsaT039482.1:CDS
GCAGAAACAGAAACTTGCTC+TGG 0.539316 7:+89557374 MsaT039482.1:intron
AGAACCGTTGTCATTATTGG+CGG 0.539567 7:-89557817 None:intergenic
AAGCTCAAAGCCAGCTCCAT+CGG 0.539731 7:-89556170 None:intergenic
TCGAAGAAGTGGAGAAGGCT+GGG 0.542272 7:-89556369 None:intergenic
TTCCCGTCCGATACCCTCGC+CGG 0.546401 7:-89556605 None:intergenic
GAAGGCTGGGAGTGAAGGAC+CGG 0.549545 7:-89556356 None:intergenic
GCTAAACCATGTTCTTCAAG+TGG 0.554300 7:-89556263 None:intergenic
GTGGCGACCCTTTCACAAGA+AGG 0.556254 7:-89557737 None:intergenic
AGAAACAGTAGTCGTGAAGA+GGG 0.560398 7:+89556755 MsaT039482.1:CDS
CAGTAGTCGTGAAGAGGGTG+CGG 0.564654 7:+89556760 MsaT039482.1:CDS
TATTATTACAGGATTGAGAG+TGG 0.576136 7:-89556885 None:intergenic
CCCACCGGTGGTAATCGAGA+TGG 0.582759 7:-89557792 None:intergenic
AGGGTCGCCACCAACACCAC+CGG 0.588362 7:+89557749 MsaT039482.1:CDS
ATTCCGGTTGGCGTCAGTGG+AGG 0.590366 7:+89556631 MsaT039482.1:CDS
TGCATACCACTTGAAGAACA+TGG 0.591621 7:+89556257 MsaT039482.1:CDS
GCTGGAAGTTGCATGTAGAA+TGG 0.591856 7:-89557695 None:intergenic
ACCATCTCGATTACCACCGG+TGG 0.592762 7:+89557791 MsaT039482.1:CDS
AGAAGATTGAGCTGAATGGG+TGG 0.595515 7:-89556323 None:intergenic
AACCGGCGAGGGTATCGGAC+GGG 0.598422 7:+89556603 MsaT039482.1:CDS
AGAAGGACACATAGTGAGAG+TGG 0.600200 7:-89557720 None:intergenic
TGCAGCGTCATATTATCAGA+TGG 0.603249 7:+89556694 MsaT039482.1:CDS
GGAATTCGAAGAAGTGGAGA+AGG 0.603265 7:-89556374 None:intergenic
AACCAAACTTCTACTTGACG+TGG 0.605331 7:-89557417 None:intergenic
TTATTGGCGGTGCCCACCGG+TGG 0.607951 7:-89557804 None:intergenic
AGTTGGTGTGGAACCGGCGA+GGG 0.608228 7:+89556592 MsaT039482.1:intron
TTACTTGCACCATTAAGCCA+AGG 0.608481 7:-89556395 None:intergenic
GGTTTCAGAATAGAAGAGCA+AGG 0.612001 7:+89557436 MsaT039482.1:CDS
GTTTACGGCTGCAGTTGGTG+TGG 0.612070 7:+89556580 MsaT039482.1:intron
CAGTTGGTGTGGAACCGGCG+AGG 0.613503 7:+89556591 MsaT039482.1:intron
GGACGGGAACCAATTCCGGT+TGG 0.613561 7:+89556619 MsaT039482.1:CDS
ATGAAGAAAATGGGTCCACA+AGG 0.617090 7:+89556801 MsaT039482.1:CDS
GAGCTGAATGGGTGGATCTG+AGG 0.625502 7:-89556315 None:intergenic
ATATGACGCTGCACTATTCG+GGG 0.636746 7:-89556684 None:intergenic
CCATCTCGATTACCACCGGT+GGG 0.643789 7:+89557792 MsaT039482.1:CDS
CAAACCATCTCGATTACCAC+CGG 0.647502 7:+89557788 MsaT039482.1:CDS
GTGGAGGATACTACCGAAGA+GGG 0.653723 7:+89556647 MsaT039482.1:CDS
GAACCGGCGAGGGTATCGGA+CGG 0.663132 7:+89556602 MsaT039482.1:CDS
TTTAGTGGCAGTGGTTCCGG+TGG 0.663174 7:-89557765 None:intergenic
AGTGGAGGATACTACCGAAG+AGG 0.669703 7:+89556646 MsaT039482.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 89556173 89557826 89556173 ID=MsaG039482
Chr7 mRNA 89556173 89557826 89556173 ID=MsaT039482.1;Parent=MsaG039482
Chr7 exon 89556173 89556413 89556173 ID=MsaT039482.1.exon1;Parent=MsaT039482.1
Chr7 CDS 89556173 89556413 89556173 ID=cds.MsaT039482.1;Parent=MsaT039482.1
Chr7 exon 89556594 89556898 89556594 ID=MsaT039482.1.exon2;Parent=MsaT039482.1
Chr7 CDS 89556594 89556898 89556594 ID=cds.MsaT039482.1;Parent=MsaT039482.1
Chr7 exon 89557378 89557457 89557378 ID=MsaT039482.1.exon3;Parent=MsaT039482.1
Chr7 CDS 89557378 89557457 89557378 ID=cds.MsaT039482.1;Parent=MsaT039482.1
Chr7 exon 89557571 89557826 89557571 ID=MsaT039482.1.exon4;Parent=MsaT039482.1
Chr7 CDS 89557571 89557826 89557571 ID=cds.MsaT039482.1;Parent=MsaT039482.1
Gene Sequence

>MsaT039482.1

ATGGAGCTGGCTTTGAGCTTAGGCGACACACCGAAAACATTCTCTTTGTTTGAAAACCCTACAAAATTACCCAACAAAACTTTCTGCATACCACTTGAAGAACATGGTTTAGCTGAAAAATCCTTAAACCAAAAAAGTGATTCCTCAGATCCACCCATTCAGCTCAATCTTCTTCCTTCAACACCGGTCCTTCACTCCCAGCCTTCTCCACTTCTTCGAATTCCTTGGCTTAATGGTGCAATTGGTGTGGAACCGGCGAGGGTATCGGACGGGAACCAATTCCGGTTGGCGTCAGTGGAGGATACTACCGAAGAGGGAGCTGCAGTTTCATCCCCGAATAGTGCAGCGTCATATTATCAGATGGATTTTTCTATCATGAATGGTAATGGAGATGCTGCAGCCAGAAACAGTAGTCGTGAAGAGGGTGCGGATAGAAATACTAGCGATGATGAAGAAAATGGGTCCACAAGGAAGAAACTCAGACTCTCTAAGGAACAATCAGCTTTTCTTGAAGATAGCTTCAAAGAACACACCACTCTCAATCCTAAACAGAAACTTGCTCTGGCAAAACAATTAAATCTTCGTCCACGTCAAGTAGAAGTTTGGTTTCAGAATAGAAGAGCAAGGACCAAGTTAAAGCAAACGGAAGTGGATTGTGAGTACTTAAAAAGATGTTGTGAGACTCTAACAGAAGAAAATAAAAGGTTACAAAAGGAACTTCAAGAATTGAGAGCTTTGAAAACTTCTCAACCATTCTACATGCAACTTCCAGCTACCACTCTCACTATGTGTCCTTCTTGTGAAAGGGTCGCCACCAACACCACCGGAACCACTGCCACTAAACAAACCATCTCGATTACCACCGGTGGGCACCGCCAATAA
Protein sequence

>MsaT039482.1

MELALSLGDTPKTFSLFENPTKLPNKTFCIPLEEHGLAEKSLNQKSDSSDPPIQLNLLPSTPVLHSQPSPLLRIPWLNGAIGVEPARVSDGNQFRLASVEDTTEEGAAVSSPNSAASYYQMDFSIMNGNGDAAARNSSREEGADRNTSDDEENGSTRKKLRLSKEQSAFLEDSFKEHTTLNPKQKLALAKQLNLRPRQVEVWFQNRRARTKLKQTEVDCEYLKRCCETLTEENKRLQKELQELRALKTSQPFYMQLPATTLTMCPSCERVATNTTGTTATKQTISITTGGHRQ*