AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005624

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005624 MtrunA17_Chr1g0210471 97.890 237 4 1 1 237 1 236 3.39e-173 478
MsaG005624 MtrunA17_Chr1g0162081 54.688 192 69 2 23 200 10 197 9.55e-63 199
MsaG005624 MtrunA17_Chr3g0104071 43.154 241 112 6 23 247 41 272 2.37e-57 186
MsaG005624 MtrunA17_Chr5g0429521 50.282 177 79 2 23 193 27 200 5.47e-55 180
MsaG005624 MtrunA17_Chr5g0436501 49.189 185 80 4 23 200 25 202 3.71e-54 176
MsaG005624 MtrunA17_Chr7g0241761 49.206 189 79 4 23 200 33 215 4.85e-54 177
MsaG005624 MtrunA17_Chr4g0062741 46.500 200 77 3 25 194 8 207 1.46e-53 176
MsaG005624 MtrunA17_Chr8g0365011 42.708 192 80 3 23 200 6 181 2.53e-41 144
MsaG005624 MtrunA17_Chr4g0055931 52.800 125 43 2 94 202 49 173 3.26e-35 129
MsaG005624 MtrunA17_Chr2g0331031 61.538 91 34 1 119 208 103 193 1.48e-32 122
MsaG005624 MtrunA17_Chr5g0432921 40.000 190 98 7 24 209 20 197 2.58e-32 119
MsaG005624 MtrunA17_Chr5g0432941 40.415 193 92 8 24 209 21 197 4.38e-31 115
MsaG005624 MtrunA17_Chr8g0389241 62.069 87 32 1 103 189 83 168 5.85e-30 114
MsaG005624 MtrunA17_Chr6g0488471 70.423 71 21 0 120 190 92 162 6.34e-30 114
MsaG005624 MtrunA17_Chr5g0415191 68.421 76 24 0 116 191 93 168 1.09e-26 106
MsaG005624 MtrunA17_Chr4g0059701 65.169 89 29 2 118 206 77 163 7.65e-26 103
MsaG005624 MtrunA17_Chr3g0092621 65.152 66 23 0 126 191 85 150 2.48e-24 96.7
MsaG005624 MtrunA17_Chr5g0409841 41.304 138 68 5 86 219 56 184 9.49e-24 96.7
MsaG005624 MtrunA17_Chr8g0364741 46.429 112 56 2 23 134 8 115 1.59e-23 92.8
MsaG005624 MtrunA17_Chr5g0440731 40.000 155 70 6 73 210 56 204 2.86e-23 96.7
MsaG005624 MtrunA17_Chr5g0440741 50.505 99 33 3 127 210 102 199 7.54e-23 95.1
MsaG005624 MtrunA17_Chr3g0135671 64.789 71 22 2 122 189 88 158 7.58e-23 94.0
MsaG005624 MtrunA17_Chr8g0364731 69.565 69 17 2 134 198 10 78 1.48e-20 86.7
MsaG005624 MtrunA17_Chr6g0452791 53.846 78 25 2 126 203 81 147 1.45e-19 83.6
MsaG005624 MtrunA17_Chr5g0409831 48.387 93 44 2 115 203 67 159 8.77e-18 80.1
MsaG005624 MtrunA17_Chr1g0155181 42.254 71 41 0 25 95 7 77 8.17e-16 71.2
MsaG005624 MtrunA17_Chr8g0357851 85.417 48 7 0 1 48 1 48 1.00e-15 69.7
MsaG005624 MtrunA17_Chr3g0144631 47.619 63 33 0 25 87 16 78 2.24e-15 69.7
MsaG005624 MtrunA17_Chr3g0141601 41.667 72 42 0 23 94 5 76 5.32e-15 68.9
MsaG005624 MtrunA17_Chr5g0404101 44.928 69 38 0 19 87 13 81 1.78e-14 67.8
MsaG005624 MtrunA17_Chr1g0192061 52.055 73 31 2 127 196 63 134 1.00e-13 68.2
MsaG005624 MtrunA17_Chr6g0449111 43.284 67 38 0 23 89 8 74 1.01e-13 65.1
MsaG005624 MtrunA17_Chr3g0113121 34.014 147 73 5 68 193 27 170 5.74e-13 66.6
MsaG005624 MtrunA17_Chr7g0255841 50.000 58 29 0 30 87 17 74 2.92e-12 61.6
MsaG005624 MtrunA17_Chr3g0081631 40.909 66 38 1 25 89 10 75 6.39e-12 60.8
MsaG005624 MtrunA17_Chr8g0373131 40.000 65 38 1 23 87 3 66 5.30e-11 57.8
MsaG005624 MtrunA17_Chr8g0373111 40.000 65 38 1 23 87 3 66 6.45e-11 57.4
MsaG005624 MtrunA17_Chr8g0373121 40.000 65 38 1 23 87 3 66 6.45e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005624 AT5G04760.1 64.322 199 64 3 23 221 4 195 1.09e-77 235
MsaG005624 AT5G08520.1 54.545 187 69 3 25 200 12 193 8.95e-60 192
MsaG005624 AT3G11280.2 51.497 167 75 2 25 191 33 193 1.12e-54 178
MsaG005624 AT3G11280.1 51.497 167 75 2 25 191 33 193 1.12e-54 178
MsaG005624 AT2G38090.1 44.976 209 98 4 6 198 7 214 1.69e-53 176
MsaG005624 AT5G05790.2 46.591 176 88 2 21 193 27 199 2.26e-52 172
MsaG005624 AT5G05790.1 46.591 176 88 2 21 193 27 199 2.26e-52 172
MsaG005624 AT1G49010.1 44.737 228 88 7 25 226 8 223 2.27e-52 174
MsaG005624 AT5G58900.1 47.778 180 79 2 25 193 34 209 3.20e-52 172
MsaG005624 AT5G01200.1 40.376 213 103 5 1 193 6 214 8.52e-45 152
MsaG005624 AT5G23650.1 39.407 236 117 4 23 242 11 236 1.22e-44 154
MsaG005624 AT3G10580.2 44.550 211 93 6 25 234 8 195 7.75e-43 147
MsaG005624 AT3G10580.1 48.315 178 75 5 25 201 8 169 1.34e-42 147
MsaG005624 AT4G09450.1 49.102 167 69 3 24 190 6 156 2.11e-41 142
MsaG005624 AT5G47390.1 66.265 83 26 1 120 202 91 171 1.41e-31 120
MsaG005624 AT5G61620.1 51.724 116 54 1 80 193 61 176 1.10e-28 112
MsaG005624 AT5G56840.1 65.432 81 24 2 120 196 86 166 3.29e-28 108
MsaG005624 AT1G70000.1 73.333 75 20 0 116 190 89 163 4.16e-28 108
MsaG005624 AT1G70000.2 73.333 75 20 0 116 190 89 163 4.16e-28 108
MsaG005624 AT3G16350.1 50.000 122 52 3 110 229 125 239 3.22e-25 103
MsaG005624 AT3G10590.1 38.021 192 106 7 24 208 6 191 1.40e-24 98.6
MsaG005624 AT1G19000.2 50.847 118 51 2 74 191 58 168 2.45e-23 97.1
MsaG005624 AT1G19000.1 50.847 118 51 2 74 191 58 168 2.45e-23 97.1
MsaG005624 AT3G10585.1 38.323 167 67 4 25 190 7 138 4.52e-23 93.2
MsaG005624 AT1G74840.2 65.333 75 26 0 117 191 88 162 1.54e-22 93.6
MsaG005624 AT1G74840.1 65.333 75 26 0 117 191 88 162 2.40e-22 94.0
MsaG005624 AT3G10595.1 31.792 173 85 6 25 195 6 147 4.22e-18 80.5
MsaG005624 AT1G75250.2 42.667 75 41 1 13 87 2 74 2.73e-16 73.2
MsaG005624 AT1G75250.1 42.667 75 41 1 13 87 2 74 4.56e-16 73.6
MsaG005624 AT4G39250.1 39.474 76 46 0 25 100 14 89 4.91e-15 69.7
MsaG005624 AT2G18328.1 49.180 61 31 0 29 89 15 75 4.93e-13 63.5
MsaG005624 AT2G21650.1 41.096 73 43 0 25 97 14 86 6.62e-12 61.2
MsaG005624 AT1G19510.1 44.068 59 33 0 29 87 16 74 8.06e-12 61.2
MsaG005624 AT4G36570.1 59.091 44 18 0 25 68 12 55 5.83e-11 57.4

Find 97 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTATTGGGCTGACCAAATT+TGG 0.115459 1:+83638543 MsaT005624.1:CDS
CCAATCTCCTTTCCCAAATT+TGG 0.134856 1:-83638556 None:intergenic
CTGTGCAGGCTGTTTCTTAT+TGG 0.143950 1:+83638528 MsaT005624.1:intron
GTAAGTCTGCGACGGAAATT+AGG 0.198649 1:+83637490 MsaT005624.1:CDS
TCTCTTTCTTCACCGAATTC+TGG 0.216560 1:-83638656 None:intergenic
CTGTGCCTATTGATCAGAAC+TGG 0.289180 1:+83638730 MsaT005624.1:CDS
TGTGCAGGCTGTTTCTTATT+GGG 0.291908 1:+83638529 MsaT005624.1:intron
CCAAATTTGGGAAAGGAGAT+TGG 0.329445 1:+83638556 MsaT005624.1:CDS
CCGCGTCGTGGCGGCGGTGG+TGG 0.329644 1:-83637349 None:intergenic
TGATATACTGGAAATTGATT+CGG 0.359965 1:+83637536 MsaT005624.1:CDS
TGGTGGTGGATTGGCTGAAT+GGG 0.366393 1:+83637602 MsaT005624.1:CDS
AGCTTTGGTTCATGATATAC+TGG 0.372414 1:+83637524 MsaT005624.1:CDS
CAGGATCAAATGAGTGCATA+TGG 0.389179 1:+83638825 MsaT005624.1:CDS
GATGGTGCCGGAGGATTTAC+CGG 0.392546 1:+83637434 MsaT005624.1:CDS
TAGGGATCACTATGAAGCTT+TGG 0.393734 1:+83637509 MsaT005624.1:CDS
GTGGTGGTGGATTGGCTGAA+TGG 0.393857 1:+83637601 MsaT005624.1:CDS
CGGCCACCGCGTCGTGGCGG+CGG 0.396563 1:-83637355 None:intergenic
TTATTGGGCTGACCAAATTT+GGG 0.397453 1:+83638544 MsaT005624.1:CDS
CACAACTGCGCACCATGGTA+AGG 0.400797 1:+83642275 MsaT005624.1:CDS
TCTTCGAATCAAATTTCGTT+TGG 0.406289 1:+83637627 MsaT005624.1:CDS
AATTGATTCGGGTCGGGTTG+AGG 0.410540 1:+83637548 MsaT005624.1:CDS
GTACTTTCTTCGCCAGAATT+CGG 0.412820 1:+83638644 MsaT005624.1:CDS
CAGAACTGGGTTCCTCCTCC+TGG 0.418709 1:+83638744 MsaT005624.1:CDS
CCACCGCGTCGTGGCGGCGG+TGG 0.422019 1:-83637352 None:intergenic
GATATACTGGAAATTGATTC+GGG 0.424201 1:+83637537 MsaT005624.1:CDS
GGAACCCAGTTCTGATCAAT+AGG 0.426296 1:-83638735 None:intergenic
GTTCGAGCGAGCTCTGTTGA+TGG 0.427794 1:+83637416 MsaT005624.1:CDS
TAAGTCTGCGACGGAAATTA+GGG 0.429071 1:+83637491 MsaT005624.1:CDS
ATGCGCCTTCCAAGCACAGC+AGG 0.431050 1:-83642310 None:intergenic
CTGTGTTCTTCTTCAGTCCA+TGG 0.441575 1:-83637696 None:intergenic
TTATCCGTCAAACGATTTGC+AGG 0.442120 1:+83638806 MsaT005624.1:CDS
CGCTTAAGATAATAATCTAA+AGG 0.444470 1:-83642252 None:intergenic
TGATCCTGCAAATCGTTTGA+CGG 0.446093 1:-83638810 None:intergenic
ATTTCCGTCGCAGACTTACC+TGG 0.452535 1:-83637486 None:intergenic
TGGGTTCCTCCTCCTGGTGG+TGG 0.475189 1:+83638750 MsaT005624.1:CDS
AAGATCGCGGAACAAGTTCC+AGG 0.479111 1:+83637468 MsaT005624.1:CDS
AAACGACAAAATAGATGTAT+CGG 0.481957 1:+83637307 None:intergenic
GCCGAGTTATTCTGATGAAT+CGG 0.482612 1:+83637572 MsaT005624.1:CDS
GAATCGGCTGTGAGTGGTGG+TGG 0.484996 1:+83637588 MsaT005624.1:CDS
ACTGGAAATTGATTCGGGTC+GGG 0.496104 1:+83637542 MsaT005624.1:CDS
GAGATTGGAGAAGCATTTCA+AGG 0.497665 1:+83638571 MsaT005624.1:CDS
GCGATCTTCTCCCACCGGTC+CGG 0.507834 1:-83637453 None:intergenic
GCTTAAGATAATAATCTAAA+GGG 0.511015 1:-83642251 None:intergenic
GGCTGTGAGTGGTGGTGGAT+TGG 0.511900 1:+83637593 MsaT005624.1:CDS
TACTGGAAATTGATTCGGGT+CGG 0.512665 1:+83637541 MsaT005624.1:CDS
CACCGGTCCGGTAAATCCTC+CGG 0.521987 1:-83637441 None:intergenic
TGTCCATTGCAAATTGTTTG+TGG 0.522812 1:-83642334 None:intergenic
CCACCACCGCCGCCACGACG+CGG 0.524799 1:+83637349 MsaT005624.1:CDS
GCGAGCTCTGTTGATGGTGC+CGG 0.528587 1:+83637422 MsaT005624.1:CDS
GTATCGGGAGTCAGTTGCTA+TGG 0.535551 1:+83637323 MsaT005624.1:CDS
TGTTGCATTGAACCACCACC+AGG 0.537371 1:-83638762 None:intergenic
AACGACAAAATAGATGTATC+GGG 0.540302 1:+83637308 None:intergenic
GTCCACTGAGTTGGTTGAGT+CGG 0.541227 1:-83637375 None:intergenic
TCGTTATCACCGCCATGTCT+CGG 0.543106 1:-83637657 None:intergenic
GGTGATAACGAGAGGAAGAA+AGG 0.548667 1:+83637669 MsaT005624.1:CDS
TGCGCCTTCCAAGCACAGCA+GGG 0.549426 1:-83642309 None:intergenic
ACAACTGCGCACCATGGTAA+GGG 0.550073 1:+83642276 MsaT005624.1:CDS
CGGAGGATTTACCGGACCGG+TGG 0.556040 1:+83637442 MsaT005624.1:CDS
CGCCTTCCAAGCACAGCAGG+GGG 0.563933 1:-83642307 None:intergenic
GCGCCTTCCAAGCACAGCAG+GGG 0.568690 1:-83642308 None:intergenic
TTTGGTTCGAAGCCGAGACA+TGG 0.569715 1:+83637645 MsaT005624.1:CDS
GTTCCGCGATCTTCTCCCAC+CGG 0.572597 1:-83637458 None:intergenic
AACTGGGTTCCTCCTCCTGG+TGG 0.574702 1:+83638747 MsaT005624.1:CDS
GGGCTGACCAAATTTGGGAA+AGG 0.576808 1:+83638549 MsaT005624.1:CDS
CTCGCTCGAACAGCTTGTCA+TGG 0.578069 1:-83637404 None:intergenic
GGGATGATTGCCCCTTACCA+TGG 0.579577 1:-83642287 None:intergenic
CAGTTCTGATCAATAGGCAC+AGG 0.581958 1:-83638729 None:intergenic
GCATGGCTAGCCACCTGAGT+TGG 0.585938 1:-83638615 None:intergenic
CAACTGCGCACCATGGTAAG+GGG 0.587511 1:+83642277 MsaT005624.1:CDS
TGCCGGAGGATTTACCGGAC+CGG 0.588914 1:+83637439 MsaT005624.1:CDS
TGGTCTCGAGTCCACTGAGT+TGG 0.594247 1:-83637384 None:intergenic
TGTGACAAGAACACCAACTC+AGG 0.595788 1:+83638602 MsaT005624.1:CDS
AGCTCTGTTGATGGTGCCGG+AGG 0.598113 1:+83637425 MsaT005624.1:CDS
AGTCGGCCACCGCGTCGTGG+CGG 0.599166 1:-83637358 None:intergenic
AGGATCAAATGAGTGCATAT+GGG 0.599865 1:+83638826 MsaT005624.1:CDS
AGAGGAAGAAAGGAACTCCA+TGG 0.603418 1:+83637679 MsaT005624.1:CDS
AGAATTCGGTGAAGAAAGAG+AGG 0.605688 1:+83638658 MsaT005624.1:CDS
TGTGCCTATTGATCAGAACT+GGG 0.607519 1:+83638731 MsaT005624.1:CDS
TTGAGTCGGCCACCGCGTCG+TGG 0.614569 1:-83637361 None:intergenic
CCACCGCCGCCACGACGCGG+TGG 0.616473 1:+83637352 MsaT005624.1:CDS
ATTGAACCACCACCAGGAGG+AGG 0.621879 1:-83638756 None:intergenic
ATGCCACAAACAATTTGCAA+TGG 0.640316 1:+83642331 MsaT005624.1:CDS
TCTGATGAATCGGCTGTGAG+TGG 0.640798 1:+83637582 MsaT005624.1:CDS
GGCCGACTCAACCAACTCAG+TGG 0.643487 1:+83637373 MsaT005624.1:CDS
TATTCATGACATTACATCGG+TGG 0.643904 1:+83638692 MsaT005624.1:CDS
GGAGGATTTACCGGACCGGT+GGG 0.645323 1:+83637443 MsaT005624.1:CDS
GACATGGCGGTGATAACGAG+AGG 0.648245 1:+83637661 MsaT005624.1:CDS
GATGAATCGGCTGTGAGTGG+TGG 0.651355 1:+83637585 MsaT005624.1:CDS
AGTTCCAGGTAAGTCTGCGA+CGG 0.655266 1:+83637482 MsaT005624.1:CDS
GGACCGGTGGGAGAAGATCG+CGG 0.663194 1:+83637455 MsaT005624.1:CDS
GACAAGAACACCAACTCAGG+TGG 0.663453 1:+83638605 MsaT005624.1:CDS
GCCGATTCATCAGAATAACT+CGG 0.668580 1:-83637573 None:intergenic
AAGCGCACAACTGCGCACCA+TGG 0.674306 1:+83642270 MsaT005624.1:CDS
AAGTATTCATGACATTACAT+CGG 0.675179 1:+83638689 MsaT005624.1:CDS
TGCATTGAACCACCACCAGG+AGG 0.701355 1:-83638759 None:intergenic
CATGGACTGAAGAAGAACAC+AGG 0.714829 1:+83637697 MsaT005624.1:CDS
GGTTCGAAGCCGAGACATGG+CGG 0.716484 1:+83637648 MsaT005624.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 83637321 83642362 83637321 ID=MsaG005624
Chr1 mRNA 83637321 83642362 83637321 ID=MsaT005624.1;Parent=MsaG005624
Chr1 exon 83637321 83637718 83637321 ID=MsaT005624.1.exon1;Parent=MsaT005624.1
Chr1 CDS 83637321 83637718 83637321 ID=cds.MsaT005624.1;Parent=MsaT005624.1
Chr1 exon 83638536 83638847 83638536 ID=MsaT005624.1.exon2;Parent=MsaT005624.1
Chr1 CDS 83638536 83638847 83638536 ID=cds.MsaT005624.1;Parent=MsaT005624.1
Chr1 exon 83639869 83639892 83639869 ID=MsaT005624.1.exon3;Parent=MsaT005624.1
Chr1 CDS 83639869 83639892 83639869 ID=cds.MsaT005624.1;Parent=MsaT005624.1
Chr1 exon 83642248 83642362 83642248 ID=MsaT005624.1.exon4;Parent=MsaT005624.1
Chr1 CDS 83642248 83642362 83642248 ID=cds.MsaT005624.1;Parent=MsaT005624.1
Gene Sequence

>MsaT005624.1

ATGTATCGGGAGTCAGTTGCTATGGCTGCCACCACCGCCGCCACGACGCGGTGGCCGACTCAACCAACTCAGTGGACTCGAGACCATGACAAGCTGTTCGAGCGAGCTCTGTTGATGGTGCCGGAGGATTTACCGGACCGGTGGGAGAAGATCGCGGAACAAGTTCCAGGTAAGTCTGCGACGGAAATTAGGGATCACTATGAAGCTTTGGTTCATGATATACTGGAAATTGATTCGGGTCGGGTTGAGGTGCCGAGTTATTCTGATGAATCGGCTGTGAGTGGTGGTGGATTGGCTGAATGGGATTCTTCGAATCAAATTTCGTTTGGTTCGAAGCCGAGACATGGCGGTGATAACGAGAGGAAGAAAGGAACTCCATGGACTGAAGAAGAACACAGGCTGTTTCTTATTGGGCTGACCAAATTTGGGAAAGGAGATTGGAGAAGCATTTCAAGGAATGTTGTTGTGACAAGAACACCAACTCAGGTGGCTAGCCATGCTCAAAAGTACTTTCTTCGCCAGAATTCGGTGAAGAAAGAGAGGAAGAGATCAAGTATTCATGACATTACATCGGTGGACAGTAACTCAGCTCCTGTGCCTATTGATCAGAACTGGGTTCCTCCTCCTGGTGGTGGTTCAATGCAACAACAGTCTCAAGAAATGCATCATTATCCGTCAAACGATTTGCAGGATCAAATGAGTGCATATGGGGACGATCATAATGTGATTATAATCTACCCTTTAGATTATTATCTTAAGCGCACAACTGCGCACCATGGTAAGGGGCAATCATCCCCCTGCTGTGCTTGGAAGGCGCATGCCACAAACAATTTGCAATGGACACCTTGA
Protein sequence

>MsaT005624.1

MYRESVAMAATTAATTRWPTQPTQWTRDHDKLFERALLMVPEDLPDRWEKIAEQVPGKSATEIRDHYEALVHDILEIDSGRVEVPSYSDESAVSGGGLAEWDSSNQISFGSKPRHGGDNERKKGTPWTEEEHRLFLIGLTKFGKGDWRSISRNVVVTRTPTQVASHAQKYFLRQNSVKKERKRSSIHDITSVDSNSAPVPIDQNWVPPPGGGSMQQQSQEMHHYPSNDLQDQMSAYGDDHNVIIIYPLDYYLKRTTAHHGKGQSSPCCAWKAHATNNLQWTP*