AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG011184

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011184 MtrunA17_Chr2g0333611 92.342 222 14 3 14 234 1 220 1.36e-146 407
MsaG011184 MtrunA17_Chr2g0333621 46.798 203 93 3 37 231 118 313 1.07e-51 170
MsaG011184 MtrunA17_Chr8g0336681 46.231 199 94 3 45 233 144 339 1.08e-50 168
MsaG011184 MtrunA17_Chr4g0002801 47.692 195 86 3 47 230 142 331 3.64e-50 166
MsaG011184 MtrunA17_Chr4g0002781 47.396 192 88 3 47 230 164 350 5.18e-48 161
MsaG011184 MtrunA17_Chr2g0333641 45.128 195 95 3 37 226 117 304 1.48e-43 149
MsaG011184 MtrunA17_Chr5g0400661 43.316 187 85 5 56 225 148 330 1.07e-41 144
MsaG011184 MtrunA17_Chr5g0400621 42.553 188 94 4 50 230 150 330 7.32e-41 142
MsaG011184 MtrunA17_Chr2g0280161 43.258 178 90 4 54 225 174 346 3.57e-40 141
MsaG011184 MtrunA17_Chr5g0400671 41.304 184 101 4 48 229 145 323 4.34e-39 137
MsaG011184 MtrunA17_Chr4g0054581 41.667 204 101 7 38 231 181 376 6.23e-39 138
MsaG011184 MtrunA17_Chr7g0249811 45.745 188 92 4 47 233 154 332 2.58e-38 135
MsaG011184 MtrunA17_Chr2g0307131 36.364 198 123 3 38 234 161 356 5.91e-38 135
MsaG011184 MtrunA17_Chr4g0049331 40.449 178 90 4 56 225 134 303 1.52e-37 133
MsaG011184 MtrunA17_Chr2g0333541 43.541 209 93 6 31 225 67 264 6.07e-37 130
MsaG011184 MtrunA17_Chr6g0468491 39.109 202 114 4 34 231 115 311 2.86e-36 130
MsaG011184 MtrunA17_Chr4g0054561 39.785 186 102 5 50 231 148 327 1.46e-35 128
MsaG011184 MtrunA17_Chr4g0033391 36.082 194 119 2 38 231 130 318 4.15e-35 127
MsaG011184 MtrunA17_Chr2g0307141 37.288 177 109 2 56 231 182 357 8.66e-35 127
MsaG011184 MtrunA17_Chr4g0033291 39.894 188 108 2 44 231 144 326 2.46e-34 125
MsaG011184 MtrunA17_Chr4g0054621 34.419 215 116 4 35 231 132 339 5.34e-34 124
MsaG011184 MtrunA17_Chr4g0054551 37.968 187 104 5 50 231 148 327 1.24e-33 123
MsaG011184 MtrunA17_Chr4g0033281 36.181 199 99 4 44 231 142 323 8.79e-33 121
MsaG011184 MtrunA17_Chr7g0225901 36.967 211 106 8 16 209 40 240 1.56e-32 119
MsaG011184 MtrunA17_Chr4g0054571 37.745 204 104 4 43 231 136 331 2.62e-29 112
MsaG011184 MtrunA17_Chr6g0468461 34.021 194 101 4 16 209 145 311 4.88e-28 108
MsaG011184 MtrunA17_Chr5g0400641 36.810 163 89 4 60 215 1 156 9.11e-27 101
MsaG011184 MtrunA17_Chr4g0002831 37.725 167 92 4 60 225 45 200 5.70e-26 100
MsaG011184 MtrunA17_Chr7g0233441 30.667 225 123 5 1 225 1 192 1.56e-25 99.0
MsaG011184 MtrunA17_Chr4g0002851 30.131 229 119 7 1 225 1 192 3.20e-25 98.2
MsaG011184 MtrunA17_Chr8g0336671 52.308 65 29 1 23 87 3 65 3.95e-14 65.5
MsaG011184 MtrunA17_Chr1g0185621 28.777 139 91 2 58 188 476 614 3.79e-13 68.2
MsaG011184 MtrunA17_Chr7g0275821 25.294 170 118 4 58 227 253 413 4.08e-13 67.8
MsaG011184 MtrunA17_Chr2g0298751 22.581 217 142 4 30 233 34 237 1.01e-11 62.8
MsaG011184 MtrunA17_Chr5g0411341 29.787 188 107 8 58 228 494 673 2.57e-11 62.8
MsaG011184 MtrunA17_Chr8g0386921 47.273 55 29 0 58 112 407 461 9.44e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011184 AT4G37850.2 40.306 196 102 5 38 225 133 321 5.74e-35 127
MsaG011184 AT4G37850.1 40.306 196 102 5 38 225 133 321 5.74e-35 127
MsaG011184 AT2G22760.1 37.634 186 99 5 40 217 106 282 1.30e-34 125
MsaG011184 AT2G22760.2 38.202 178 93 5 40 209 106 274 3.28e-32 119
MsaG011184 AT2G22770.1 38.542 192 91 5 55 225 130 315 1.98e-31 117
MsaG011184 AT2G22750.2 37.688 199 96 5 49 231 118 304 2.07e-29 112
MsaG011184 AT2G22750.5 37.688 199 96 5 49 231 142 328 3.13e-29 112
MsaG011184 AT2G22750.3 37.688 199 96 5 49 231 146 332 3.79e-29 112
MsaG011184 AT2G22750.1 37.688 199 95 6 49 231 118 303 6.01e-28 108
MsaG011184 AT2G22750.4 37.688 199 95 6 49 231 146 331 9.61e-28 108
MsaG011184 AT4G09820.1 32.394 142 76 3 43 184 349 470 1.55e-15 75.5
MsaG011184 AT5G57150.3 25.822 213 125 7 1 197 9 204 2.13e-13 67.4
MsaG011184 AT5G57150.2 25.822 213 125 7 1 197 9 204 2.38e-13 67.4
MsaG011184 AT4G29930.6 24.554 224 137 7 3 218 10 209 3.02e-13 67.0
MsaG011184 AT5G57150.4 25.822 213 125 7 1 197 9 204 4.40e-13 67.4
MsaG011184 AT5G57150.1 25.217 230 140 7 1 215 9 221 5.43e-13 66.6
MsaG011184 AT4G29930.2 23.394 218 144 5 3 218 10 206 6.20e-13 66.2
MsaG011184 AT5G57150.5 25.943 212 125 7 1 197 9 203 1.51e-12 65.1
MsaG011184 AT5G46760.1 25.824 182 104 3 58 213 416 592 1.63e-12 66.6
MsaG011184 AT1G63650.3 29.412 153 86 4 54 186 402 552 3.16e-12 65.9
MsaG011184 AT1G63650.1 29.412 153 86 4 54 186 402 552 3.16e-12 65.9
MsaG011184 AT1G63650.2 29.412 153 86 4 54 186 402 552 3.16e-12 65.9
MsaG011184 AT5G41315.2 26.752 157 90 3 54 186 446 601 3.53e-12 65.9
MsaG011184 AT5G41315.3 26.752 157 90 3 54 186 443 598 3.62e-12 65.9
MsaG011184 AT5G41315.1 26.752 157 90 3 54 186 438 593 3.75e-12 65.9
MsaG011184 AT4G29930.5 23.469 196 128 4 3 196 10 185 4.69e-12 63.9
MsaG011184 AT1G12860.1 24.713 174 123 3 58 224 268 440 6.83e-12 64.7
MsaG011184 AT1G01260.1 27.586 174 100 5 54 227 430 577 7.96e-12 64.7
MsaG011184 AT1G01260.2 27.586 174 100 5 54 227 430 577 7.96e-12 64.7
MsaG011184 AT1G01260.3 27.586 174 100 5 54 227 430 577 7.96e-12 64.7
MsaG011184 AT2G46510.1 39.394 66 40 0 58 123 396 461 8.62e-12 64.7
MsaG011184 AT4G17880.1 28.415 183 105 7 58 228 417 585 3.46e-11 62.8
MsaG011184 AT4G29930.1 23.013 239 148 8 3 218 10 235 3.57e-11 61.6
MsaG011184 AT1G12860.2 26.144 153 105 3 58 203 268 419 5.40e-11 62.0
MsaG011184 AT1G32640.1 25.000 140 98 2 58 193 453 589 6.41e-11 62.0

Find 50 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCATCCACGTAATGATAATT+TGG 0.206550 2:+82339740 MsaT011184.1:CDS
ATGCCAATGGCCTCCACTTC+AGG 0.214258 2:-82339783 None:intergenic
CCATGTGTAGCAGCATTATT+AGG 0.265823 2:-82338020 None:intergenic
GGAGAATTGGTTCTCTAATA+TGG 0.295421 2:+82337803 MsaT011184.1:CDS
CAGAAGCATCCAACAATAAT+AGG 0.297499 2:+82337978 MsaT011184.1:CDS
ACATAATGTCAGAGAGAAAA+AGG 0.300304 2:+82338084 MsaT011184.1:CDS
GAACAATGTCCTATTATTGT+TGG 0.353321 2:-82337987 None:intergenic
ATAGACAAGGTTTCTGTACT+TGG 0.374394 2:+82339600 MsaT011184.1:CDS
ACCAGCAGTGTGCTTCCATT+TGG 0.381044 2:+82339912 MsaT011184.1:CDS
TGGAGAATTGGTGGGAGAAT+TGG 0.381146 2:+82337790 MsaT011184.1:CDS
GTTCAAACTATTGTCAATGC+TGG 0.402081 2:+82339866 MsaT011184.1:CDS
CTATACCTAACATGGAGAAT+TGG 0.414546 2:+82337778 None:intergenic
AGAGAGATTCATAGCACTTT+CGG 0.417342 2:+82338121 MsaT011184.1:CDS
GGCAGATGGGTGAGGAATAC+AGG 0.417383 2:+82340051 MsaT011184.1:intron
ATTGATGACAAAGTTGAAAC+AGG 0.417457 2:+82340088 MsaT011184.1:CDS
TTCAGGGAGGAGCACATGAT+TGG 0.447101 2:-82339766 None:intergenic
TGCCAATGGCCTCCACTTCA+GGG 0.452486 2:-82339782 None:intergenic
AAACATTACCTTAGCAATGA+TGG 0.455229 2:-82339955 None:intergenic
CTCCCTGAAGTGGAGGCCAT+TGG 0.457623 2:+82339780 MsaT011184.1:CDS
CTACACATGGAAAGAATAAG+AGG 0.462322 2:+82338033 MsaT011184.1:CDS
TGTTGGATGCTTCTGATTGA+AGG 0.471742 2:-82337970 None:intergenic
CTTCTCTGATTCTATGCCAA+TGG 0.479471 2:-82339796 None:intergenic
TCCAAATGGAAGCACACTGC+TGG 0.484948 2:-82339913 None:intergenic
TTAATATCTATAGGATATGA+AGG 0.498841 2:+82337935 MsaT011184.1:intron
TAAAGAACGCATATCAATGC+TGG 0.499426 2:+82339650 MsaT011184.1:CDS
AGCAATGATGGTAATGTTGA+GGG 0.515073 2:-82339943 None:intergenic
CCTAATAATGCTGCTACACA+TGG 0.515165 2:+82338020 MsaT011184.1:CDS
TACCTAACATGGAGAATTGG+TGG 0.525198 2:+82337781 None:intergenic
TATGATACCCGGCTTGAAGA+AGG 0.532421 2:+82338145 MsaT011184.1:CDS
AAATGGAAGCACACTGCTGG+TGG 0.542174 2:-82339910 None:intergenic
GCACTTTCGGCTATGATACC+CGG 0.547609 2:+82338134 MsaT011184.1:CDS
TCATGTGCTCCTCCCTGAAG+TGG 0.548063 2:+82339770 MsaT011184.1:CDS
GGAACTGACCTTCTTCAAGC+CGG 0.556400 2:-82338153 None:intergenic
TAGCAATGATGGTAATGTTG+AGG 0.557198 2:-82339944 None:intergenic
TAAGAGGGTGAGAAGCTCAT+GGG 0.563045 2:+82338049 MsaT011184.1:CDS
CAACATTACCATCATTGCTA+AGG 0.570598 2:+82339947 MsaT011184.1:CDS
ATAAGAGGGTGAGAAGCTCA+TGG 0.579940 2:+82338048 MsaT011184.1:CDS
GAACTGACCTTCTTCAAGCC+GGG 0.582458 2:-82338152 None:intergenic
ATCAACTGCGAGAAACATGA+AGG 0.584639 2:+82339837 MsaT011184.1:CDS
CACTGCTGGTGGAAACATAG+AGG 0.588212 2:-82339899 None:intergenic
ACCTAACATGGAGAATTGGT+GGG 0.590580 2:+82337782 None:intergenic
TGTGCTCCTCCCTGAAGTGG+AGG 0.603078 2:+82339773 MsaT011184.1:CDS
AGAAGCTCATGGGAGATACA+AGG 0.603853 2:+82338059 MsaT011184.1:CDS
GAATCCAAATTATCATTACG+TGG 0.646914 2:-82339744 None:intergenic
CATTGGCATAGAATCAGAGA+AGG 0.647651 2:+82339797 MsaT011184.1:CDS
TACACATGGAAAGAATAAGA+GGG 0.651853 2:+82338034 MsaT011184.1:CDS
TAATATCTATAGGATATGAA+GGG 0.651855 2:+82337936 MsaT011184.1:intron
TGGAGCAACAATGTTATGAG+AGG 0.657981 2:+82339670 MsaT011184.1:CDS
TTTACTTGTATAGATAGACA+AGG 0.695353 2:+82339587 MsaT011184.1:intron
CAATGGCCTCCACTTCAGGG+AGG 0.758935 2:-82339779 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 82337789 82340136 82337789 ID=MsaG011184
Chr2 mRNA 82337789 82340136 82337789 ID=MsaT011184.1;Parent=MsaG011184
Chr2 exon 82337789 82337824 82337789 ID=MsaT011184.1.exon1;Parent=MsaT011184.1
Chr2 CDS 82337789 82337824 82337789 ID=cds.MsaT011184.1;Parent=MsaT011184.1
Chr2 exon 82337948 82338166 82337948 ID=MsaT011184.1.exon2;Parent=MsaT011184.1
Chr2 CDS 82337948 82338166 82337948 ID=cds.MsaT011184.1;Parent=MsaT011184.1
Chr2 exon 82339600 82339968 82339600 ID=MsaT011184.1.exon3;Parent=MsaT011184.1
Chr2 CDS 82339600 82339968 82339600 ID=cds.MsaT011184.1;Parent=MsaT011184.1
Chr2 exon 82340056 82340136 82340056 ID=MsaT011184.1.exon4;Parent=MsaT011184.1
Chr2 CDS 82340056 82340136 82340056 ID=cds.MsaT011184.1;Parent=MsaT011184.1
Gene Sequence

>MsaT011184.1

ATGGAGAATTGGTGGGAGAATTGGTTCTCTAATATGGATATGAAGGGTAGTGATAACTCCTTCAATCAGAAGCATCCAACAATAATAGGACATTGTTCTAATTCAGTGCCTAATAATGCTGCTACACATGGAAAGAATAAGAGGGTGAGAAGCTCATGGGAGATACAAGGTCACATAATGTCAGAGAGAAAAAGGAGACAAGAAATGGCAGAGAGATTCATAGCACTTTCGGCTATGATACCCGGCTTGAAGAAGATAGACAAGGTTTCTGTACTTGGTGAAGCTATTAATTACGTGAAACAACTTAAAGAACGCATATCAATGCTGGAGCAACAATGTTATGAGAGGAATAAAAAAAGTAGCAAGTCCATAATCTCTATTAAAAAATTTCAATCTCATCCACGTAATGATAATTTGGATTCCAATCATGTGCTCCTCCCTGAAGTGGAGGCCATTGGCATAGAATCAGAGAAGGAACTAGTACTTATTAAAATCAACTGCGAGAAACATGAAGGCATTTTGTTCAAACTATTGTCAATGCTGGAAAATATGCACCTCTATGTTTCCACCAGCAGTGTGCTTCCATTTGGAAAAAATACCCTCAACATTACCATCATTGCTAAGATGGGTGAGGAATACAGGATAACAATAGAAGAATTGATGACAAAGTTGAAACAGGATGTTTTGAAGTTATATGACATGTAA
Protein sequence

>MsaT011184.1

MENWWENWFSNMDMKGSDNSFNQKHPTIIGHCSNSVPNNAATHGKNKRVRSSWEIQGHIMSERKRRQEMAERFIALSAMIPGLKKIDKVSVLGEAINYVKQLKERISMLEQQCYERNKKSSKSIISIKKFQSHPRNDNLDSNHVLLPEVEAIGIESEKELVLIKINCEKHEGILFKLLSMLENMHLYVSTSSVLPFGKNTLNITIIAKMGEEYRITIEELMTKLKQDVLKLYDM*