Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG042198 | XP_039686869.1 | 64.881 | 168 | 53 | 2 | 1 | 162 | 1 | 168 | 7.53e-63 | 215 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG042198 | sp|Q3EBQ3|FRS2_ARATH | 57.895 | 95 | 39 | 1 | 44 | 137 | 41 | 135 | 3.52e-27 | 115 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG042198 | tr|A0A2K3NGL2|A0A2K3NGL2_TRIPR | 68.939 | 132 | 40 | 1 | 152 | 282 | 567 | 698 | 4.72e-50 | 187 |
| MsaG042198 | tr|A0A2K3NGL2|A0A2K3NGL2_TRIPR | 69.343 | 137 | 42 | 0 | 1 | 137 | 1 | 137 | 2.92e-54 | 198 |
| Gene ID | Type | Classification |
|---|---|---|
| MsaG042198 | TF | FAR1 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG042198 | MtrunA17_Chr2g0329031 | 55.769 | 104 | 45 | 1 | 35 | 137 | 8 | 111 | 2.89e-29 | 118 |
| MsaG042198 | MtrunA17_Chr2g0329031 | 35.366 | 164 | 96 | 3 | 152 | 305 | 534 | 697 | 1.31e-16 | 80.9 |
| MsaG042198 | MtrunA17_Chr3g0080351 | 47.826 | 115 | 43 | 1 | 40 | 137 | 75 | 189 | 6.17e-28 | 114 |
| MsaG042198 | MtrunA17_Chr3g0080351 | 36.667 | 90 | 57 | 0 | 152 | 241 | 596 | 685 | 1.41e-12 | 68.6 |
| MsaG042198 | MtrunA17_Chr1g0207551 | 53.000 | 100 | 45 | 1 | 40 | 137 | 33 | 132 | 8.13e-24 | 102 |
| MsaG042198 | MtrunA17_Chr2g0329361 | 34.074 | 135 | 74 | 4 | 17 | 136 | 28 | 162 | 2.07e-19 | 86.3 |
| MsaG042198 | MtrunA17_Chr7g0233911 | 35.115 | 131 | 72 | 3 | 39 | 158 | 32 | 160 | 4.19e-19 | 84.3 |
| MsaG042198 | MtrunA17_Chr3g0078041 | 29.167 | 144 | 94 | 3 | 6 | 144 | 16 | 156 | 3.36e-15 | 73.9 |
| MsaG042198 | MtrunA17_Chr5g0448761 | 39.623 | 106 | 56 | 3 | 40 | 137 | 59 | 164 | 1.63e-12 | 68.6 |
| MsaG042198 | MtrunA17_Chr2g0291581 | 32.812 | 128 | 82 | 2 | 9 | 136 | 43 | 166 | 6.96e-12 | 66.2 |
| MsaG042198 | MtrunA17_Chr4g0033611 | 31.373 | 102 | 67 | 1 | 38 | 136 | 73 | 174 | 1.19e-11 | 63.9 |
| MsaG042198 | MtrunA17_Chr6g0458391 | 37.624 | 101 | 59 | 1 | 41 | 137 | 225 | 325 | 1.70e-11 | 65.1 |
| MsaG042198 | MtrunA17_Chr2g0287061 | 35.714 | 98 | 54 | 1 | 40 | 137 | 182 | 270 | 3.65e-11 | 64.3 |
| MsaG042198 | MtrunA17_Chr2g0287061 | 30.841 | 107 | 65 | 1 | 30 | 136 | 18 | 115 | 4.53e-11 | 63.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG042198 | AT2G32250.6 | 57.895 | 95 | 39 | 1 | 44 | 137 | 41 | 135 | 3.58e-28 | 115 |
| MsaG042198 | AT2G32250.1 | 57.895 | 95 | 39 | 1 | 44 | 137 | 41 | 135 | 3.58e-28 | 115 |
| MsaG042198 | AT2G32250.3 | 57.895 | 95 | 39 | 1 | 44 | 137 | 41 | 135 | 3.58e-28 | 115 |
| MsaG042198 | AT2G32250.5 | 57.895 | 95 | 39 | 1 | 44 | 137 | 41 | 135 | 3.71e-28 | 115 |
| MsaG042198 | AT2G32250.2 | 57.895 | 95 | 39 | 1 | 44 | 137 | 41 | 135 | 3.74e-28 | 115 |
| MsaG042198 | AT2G32250.4 | 57.895 | 95 | 39 | 1 | 44 | 137 | 41 | 135 | 3.74e-28 | 115 |
| MsaG042198 | AT2G32250.7 | 57.447 | 94 | 39 | 1 | 45 | 137 | 1 | 94 | 2.38e-27 | 113 |
| MsaG042198 | AT2G32250.8 | 57.447 | 94 | 39 | 1 | 45 | 137 | 1 | 94 | 2.40e-27 | 113 |
| MsaG042198 | AT3G22170.2 | 44.348 | 115 | 47 | 1 | 40 | 137 | 69 | 183 | 2.84e-26 | 110 |
| MsaG042198 | AT3G22170.2 | 40.909 | 88 | 51 | 1 | 152 | 239 | 591 | 677 | 5.07e-13 | 70.5 |
| MsaG042198 | AT3G22170.1 | 44.348 | 115 | 47 | 1 | 40 | 137 | 69 | 183 | 2.84e-26 | 110 |
| MsaG042198 | AT3G22170.1 | 40.909 | 88 | 51 | 1 | 152 | 239 | 591 | 677 | 5.07e-13 | 70.5 |
| MsaG042198 | AT1G76320.1 | 54.255 | 94 | 42 | 1 | 45 | 137 | 1 | 94 | 1.15e-25 | 108 |
| MsaG042198 | AT1G76320.1 | 41.111 | 90 | 53 | 0 | 152 | 241 | 517 | 606 | 5.73e-14 | 73.2 |
| MsaG042198 | AT1G76320.4 | 54.255 | 94 | 42 | 1 | 45 | 137 | 1 | 94 | 1.15e-25 | 108 |
| MsaG042198 | AT1G76320.4 | 41.111 | 90 | 53 | 0 | 152 | 241 | 517 | 606 | 5.73e-14 | 73.2 |
| MsaG042198 | AT1G76320.2 | 54.255 | 94 | 42 | 1 | 45 | 137 | 1 | 94 | 1.17e-25 | 108 |
| MsaG042198 | AT1G76320.2 | 41.111 | 90 | 53 | 0 | 152 | 241 | 517 | 606 | 6.21e-14 | 73.2 |
| MsaG042198 | AT1G76320.3 | 54.255 | 94 | 42 | 1 | 45 | 137 | 1 | 94 | 1.55e-25 | 107 |
| MsaG042198 | AT1G76320.3 | 41.111 | 90 | 53 | 0 | 152 | 241 | 517 | 606 | 7.92e-14 | 72.8 |
| MsaG042198 | AT4G15090.1 | 40.690 | 145 | 75 | 3 | 3 | 137 | 8 | 151 | 5.40e-24 | 103 |
| MsaG042198 | AT4G15090.1 | 38.636 | 88 | 54 | 0 | 152 | 239 | 582 | 669 | 2.28e-14 | 74.3 |
| MsaG042198 | AT4G15090.5 | 40.690 | 145 | 75 | 3 | 3 | 137 | 8 | 151 | 5.40e-24 | 103 |
| MsaG042198 | AT4G15090.5 | 38.636 | 88 | 54 | 0 | 152 | 239 | 582 | 669 | 2.28e-14 | 74.3 |
| MsaG042198 | AT4G15090.3 | 40.690 | 145 | 75 | 3 | 3 | 137 | 8 | 151 | 5.40e-24 | 103 |
| MsaG042198 | AT4G15090.3 | 38.636 | 88 | 54 | 0 | 152 | 239 | 582 | 669 | 2.28e-14 | 74.3 |
| MsaG042198 | AT4G15090.2 | 40.690 | 145 | 75 | 3 | 3 | 137 | 8 | 151 | 5.40e-24 | 103 |
| MsaG042198 | AT4G15090.2 | 38.636 | 88 | 54 | 0 | 152 | 239 | 582 | 669 | 2.28e-14 | 74.3 |
| MsaG042198 | AT4G15090.4 | 40.690 | 145 | 75 | 3 | 3 | 137 | 8 | 151 | 5.40e-24 | 103 |
| MsaG042198 | AT4G15090.4 | 38.636 | 88 | 54 | 0 | 152 | 239 | 582 | 669 | 2.28e-14 | 74.3 |
| MsaG042198 | AT4G19990.3 | 40.541 | 111 | 49 | 1 | 44 | 137 | 24 | 134 | 4.35e-19 | 88.6 |
| MsaG042198 | AT4G19990.4 | 40.541 | 111 | 49 | 1 | 44 | 137 | 24 | 134 | 4.35e-19 | 88.6 |
| MsaG042198 | AT4G19990.6 | 40.541 | 111 | 49 | 1 | 44 | 137 | 24 | 134 | 4.53e-19 | 88.6 |
| MsaG042198 | AT4G19990.2 | 40.541 | 111 | 49 | 1 | 44 | 137 | 24 | 134 | 4.53e-19 | 88.6 |
| MsaG042198 | AT4G19990.7 | 40.541 | 111 | 49 | 1 | 44 | 137 | 38 | 148 | 4.86e-19 | 88.6 |
| MsaG042198 | AT4G19990.5 | 40.541 | 111 | 49 | 1 | 44 | 137 | 24 | 134 | 5.09e-19 | 88.6 |
| MsaG042198 | AT3G59470.3 | 33.099 | 142 | 87 | 3 | 1 | 136 | 29 | 168 | 2.73e-16 | 77.8 |
| MsaG042198 | AT3G59470.1 | 33.099 | 142 | 87 | 3 | 1 | 136 | 29 | 168 | 2.73e-16 | 77.8 |
| MsaG042198 | AT3G59470.2 | 33.099 | 142 | 87 | 3 | 1 | 136 | 41 | 180 | 4.11e-16 | 77.4 |
| MsaG042198 | AT4G38180.1 | 40.000 | 105 | 56 | 2 | 40 | 137 | 72 | 176 | 4.45e-14 | 73.6 |
| MsaG042198 | AT2G43280.1 | 28.346 | 127 | 80 | 3 | 23 | 144 | 8 | 128 | 1.93e-13 | 68.9 |
| MsaG042198 | AT4G12850.4 | 32.353 | 102 | 60 | 2 | 40 | 136 | 10 | 107 | 5.36e-12 | 63.2 |
| MsaG042198 | AT3G07500.1 | 36.792 | 106 | 61 | 2 | 40 | 141 | 32 | 135 | 1.01e-11 | 63.9 |
| MsaG042198 | AT4G12850.2 | 29.323 | 133 | 82 | 4 | 40 | 165 | 10 | 137 | 1.11e-11 | 62.0 |
| MsaG042198 | AT4G12850.1 | 30.631 | 111 | 68 | 2 | 40 | 145 | 10 | 116 | 1.18e-11 | 63.2 |
| MsaG042198 | AT5G18960.2 | 38.614 | 101 | 52 | 2 | 40 | 139 | 210 | 301 | 6.80e-11 | 63.9 |
| MsaG042198 | AT5G18960.1 | 38.614 | 101 | 52 | 2 | 40 | 139 | 210 | 301 | 6.80e-11 | 63.9 |
| MsaG042198 | AT1G52520.1 | 34.375 | 96 | 63 | 0 | 41 | 136 | 85 | 180 | 8.54e-11 | 63.5 |
Find 59 sgRNAs with CRISPR-Local
Find sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATAAATTGTGATGGAAAA+TGG | 0.217768 | 8:-18463365 | MsaT042198.1:CDS |
| TAATAGTTGCACATTGTGTT+AGG | 0.281138 | 8:+18461807 | None:intergenic |
| ACCAACACATGAATCATTAT+TGG | 0.289874 | 8:+18463647 | None:intergenic |
| GATTCATGTGTTGGTGATTC+AGG | 0.295561 | 8:-18463639 | MsaT042198.1:CDS |
| CTCTTTATGCTAAATCTGTT+GGG | 0.330055 | 8:-18463545 | MsaT042198.1:CDS |
| AAACAAAAGGGGCTCCAAAA+AGG | 0.347040 | 8:-18461703 | MsaT042198.1:CDS |
| ATCCGGCAGCAAAGAGAAAA+AGG | 0.347075 | 8:-18461645 | MsaT042198.1:intron |
| TCTCTTTATGCTAAATCTGT+TGG | 0.349983 | 8:-18463546 | MsaT042198.1:CDS |
| TATGCTAAATCTGTTGGGTT+TGG | 0.363737 | 8:-18463540 | MsaT042198.1:CDS |
| ACTTATGCTTGCACAAGATA+TGG | 0.372382 | 8:-18463462 | MsaT042198.1:CDS |
| AAGTGGACATGGAGATTGTT+GGG | 0.428969 | 8:-18461772 | MsaT042198.1:CDS |
| TTGACTGTACTTCTTGCTGT+TGG | 0.432151 | 8:-18462034 | MsaT042198.1:CDS |
| ATTTGATCGTTTGTATGAAA+AGG | 0.436629 | 8:-18461903 | MsaT042198.1:CDS |
| AATAGTTGCACATTGTGTTA+GGG | 0.441703 | 8:+18461808 | None:intergenic |
| GGAATTTGAGTCACAAGAAA+AGG | 0.443890 | 8:-18463583 | MsaT042198.1:CDS |
| TAAGTCACATCAATAAATTC+CGG | 0.454638 | 8:+18463480 | None:intergenic |
| ATGGTTACTTCTAATATCCT+TGG | 0.457626 | 8:+18461970 | None:intergenic |
| ATAAGGAGTGGGATTGAGAA+AGG | 0.460341 | 8:-18461680 | MsaT042198.1:CDS |
| ATGGAAGCAGCCGATGGTAA+TGG | 0.467673 | 8:-18463717 | MsaT042198.1:CDS |
| CACACTATATACTGAGAAGA+TGG | 0.475164 | 8:-18461994 | MsaT042198.1:CDS |
| TATTAATAAATCGTTGAAAG+TGG | 0.481694 | 8:-18461789 | MsaT042198.1:CDS |
| TTAGGGCCTCCTCAAGTGTA+TGG | 0.484563 | 8:+18461825 | None:intergenic |
| TAACCCACGTCCTTGTTTGA+AGG | 0.497264 | 8:-18463415 | MsaT042198.1:CDS |
| TCAAATTCCATTCCGATACA+AGG | 0.498475 | 8:+18463597 | None:intergenic |
| TAAGCGTTCAAAGGTTTCTC+CGG | 0.501094 | 8:-18463499 | MsaT042198.1:CDS |
| CGCATCAAAATAAATTGTGA+TGG | 0.510056 | 8:-18463372 | MsaT042198.1:CDS |
| AATGGAGATCAAGTTGTTGA+TGG | 0.510882 | 8:-18463699 | MsaT042198.1:CDS |
| TAAGGAGTGGGATTGAGAAA+GGG | 0.513265 | 8:-18461679 | MsaT042198.1:CDS |
| GCTGTTGAGTTTCTTGAGGA+AGG | 0.515676 | 8:-18461881 | MsaT042198.1:CDS |
| AAAGTGGACATGGAGATTGT+TGG | 0.521550 | 8:-18461773 | MsaT042198.1:CDS |
| CAAAACTAGTAAGCGTTCAA+AGG | 0.522885 | 8:-18463508 | MsaT042198.1:CDS |
| ACCAATAATGATTCATGTGT+TGG | 0.526162 | 8:-18463648 | MsaT042198.1:CDS |
| AAAGGGCGTAAGAAAGCATC+CGG | 0.533979 | 8:-18461662 | MsaT042198.1:CDS |
| GATCAAGTTGTTGATGGGAA+TGG | 0.545355 | 8:-18463693 | MsaT042198.1:CDS |
| TTCACCTTCAAACAAGGACG+TGG | 0.545713 | 8:+18463411 | None:intergenic |
| TCAAGAACCTTGTATCGGAA+TGG | 0.545971 | 8:-18463604 | MsaT042198.1:CDS |
| ATGGAGATCAAGTTGTTGAT+GGG | 0.562373 | 8:-18463698 | MsaT042198.1:CDS |
| TGCATGCCATACACTTGAGG+AGG | 0.582997 | 8:-18461831 | MsaT042198.1:CDS |
| AAAGGCTGTTGAGTTTCTTG+AGG | 0.589596 | 8:-18461885 | MsaT042198.1:CDS |
| TCACAATTCACCTTCAAACA+AGG | 0.590844 | 8:+18463405 | None:intergenic |
| AACTTGATCTCCATTACCAT+CGG | 0.591637 | 8:+18463707 | None:intergenic |
| TAAATCGTTGAAAGTGGACA+TGG | 0.595141 | 8:-18461783 | MsaT042198.1:CDS |
| GCAGCTACAGGATCAAGTAG+TGG | 0.599827 | 8:+18461728 | None:intergenic |
| GATAGTCAAGAACCTTGTAT+CGG | 0.602299 | 8:-18463609 | MsaT042198.1:CDS |
| AGGACGTGGGTTATCTGCAG+TGG | 0.603045 | 8:+18463425 | None:intergenic |
| GAAGCTGACGGCGAAGAGAG+CGG | 0.606466 | 8:-18460385 | MsaT042198.1:CDS |
| CATCTTCTCAGTATATAGTG+TGG | 0.608685 | 8:+18461995 | None:intergenic |
| CATTAAAGATCACAATCATG+AGG | 0.619087 | 8:-18463328 | MsaT042198.1:intron |
| GAAGAGAGCGGCAAACGTCG+TGG | 0.625238 | 8:-18460328 | MsaT042198.1:CDS |
| CTTCTCAGTATATAGTGTGG+TGG | 0.634249 | 8:+18461998 | None:intergenic |
| TTGTTTGAAGGTGAATTGTG+AGG | 0.641630 | 8:-18463403 | MsaT042198.1:CDS |
| ACATTAATGGAAGCAGCCGA+TGG | 0.655426 | 8:-18463723 | None:intergenic |
| AGTGGACATGGAGATTGTTG+GGG | 0.662212 | 8:-18461771 | MsaT042198.1:CDS |
| GAGAGCGGCGAACACCGTCG+TGG | 0.675899 | 8:-18460370 | MsaT042198.1:CDS |
| GTCGTCGTGATTGAAGCTGA+CGG | 0.677752 | 8:-18460397 | MsaT042198.1:CDS |
| TCACCTTCAAACAAGGACGT+GGG | 0.684403 | 8:+18463412 | None:intergenic |
| GACGTTCTTTCTCTCCACGA+CGG | 0.684607 | 8:+18460356 | None:intergenic |
| GAACGTCGTCGTGAAGAGAG+CGG | 0.693610 | 8:-18460340 | MsaT042198.1:CDS |
| TATACTGAGAAGATGGACCA+AGG | 0.700620 | 8:-18461987 | MsaT042198.1:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr8 | gene | 18460300 | 18463739 | 18460300 | ID=MsaG042198 |
| Chr8 | mRNA | 18460300 | 18463739 | 18460300 | ID=MsaT042198.1;Parent=MsaG042198 |
| Chr8 | exon | 18460300 | 18460422 | 18460300 | ID=MsaT042198.1.exon4;Parent=MsaT042198.1 |
| Chr8 | CDS | 18460300 | 18460422 | 18460300 | ID=cds.MsaT042198.1;Parent=MsaT042198.1 |
| Chr8 | exon | 18461646 | 18462063 | 18461646 | ID=MsaT042198.1.exon3;Parent=MsaT042198.1 |
| Chr8 | CDS | 18461646 | 18462063 | 18461646 | ID=cds.MsaT042198.1;Parent=MsaT042198.1 |
| Chr8 | exon | 18462273 | 18462313 | 18462273 | ID=MsaT042198.1.exon2;Parent=MsaT042198.1 |
| Chr8 | CDS | 18462273 | 18462313 | 18462273 | ID=cds.MsaT042198.1;Parent=MsaT042198.1 |
| Chr8 | exon | 18463329 | 18463739 | 18463329 | ID=MsaT042198.1.exon1;Parent=MsaT042198.1 |
| Chr8 | CDS | 18463329 | 18463739 | 18463329 | ID=cds.MsaT042198.1;Parent=MsaT042198.1 |
| Gene Sequence |
| Protein sequence |
