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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0680032504.01.T01 | XP_013448347.2 | 73.81 | 210 | 19 | 1 | 1 | 174 | 330 | 539 | 4.42E-100 | 308 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0680032504.01.T01 | O82175 | 38.049 | 205 | 85 | 4 | 3 | 174 | 599 | 794 | 1.54E-36 | 137 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0680032504.01.T01 | A0A396H1J2 | 73.810 | 210 | 19 | 1 | 1 | 174 | 330 | 539 | 2.11e-100 | 308 |
| Gene ID | Type | Classification |
|---|---|---|
| MsG0680032504.01.T01 | TR | SET |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0680032504.01.T01 | MTR_7g445710 | 73.934 | 211 | 18 | 2 | 1 | 174 | 333 | 543 | 7.29e-103 | 306 |
| MsG0680032504.01.T01 | MTR_7g445530 | 69.613 | 181 | 18 | 2 | 1 | 144 | 333 | 513 | 4.18e-79 | 244 |
| MsG0680032504.01.T01 | MTR_7g450730 | 59.048 | 210 | 25 | 2 | 1 | 174 | 321 | 505 | 1.23e-73 | 229 |
| MsG0680032504.01.T01 | MTR_5g013420 | 37.395 | 238 | 70 | 5 | 2 | 174 | 866 | 1089 | 4.78e-38 | 138 |
| MsG0680032504.01.T01 | MTR_5g013420 | 36.975 | 238 | 71 | 5 | 2 | 174 | 866 | 1089 | 8.20e-37 | 135 |
| MsG0680032504.01.T01 | MTR_4g010830 | 35.294 | 238 | 75 | 5 | 2 | 174 | 757 | 980 | 2.55e-35 | 130 |
| MsG0680032504.01.T01 | MTR_7g445600 | 54.135 | 133 | 46 | 3 | 12 | 144 | 239 | 356 | 2.65e-32 | 118 |
| MsG0680032504.01.T01 | MTR_4g010550 | 34.742 | 213 | 94 | 6 | 2 | 174 | 257 | 464 | 5.34e-24 | 97.8 |
| MsG0680032504.01.T01 | MTR_7g084090 | 29.524 | 210 | 97 | 6 | 3 | 174 | 561 | 757 | 3.38e-20 | 87.4 |
| MsG0680032504.01.T01 | MTR_8g078490 | 29.651 | 172 | 101 | 6 | 15 | 174 | 1090 | 1253 | 7.81e-17 | 77.8 |
| MsG0680032504.01.T01 | MTR_7g088370 | 30.286 | 175 | 92 | 8 | 15 | 169 | 536 | 700 | 3.17e-16 | 75.9 |
| MsG0680032504.01.T01 | MTR_4g132610 | 30.939 | 181 | 87 | 8 | 15 | 174 | 884 | 1047 | 3.96e-16 | 75.5 |
| MsG0680032504.01.T01 | MTR_8g042750 | 32.609 | 184 | 92 | 9 | 15 | 169 | 503 | 683 | 4.29e-16 | 75.5 |
| MsG0680032504.01.T01 | MTR_3g011440 | 30.645 | 186 | 94 | 9 | 15 | 169 | 478 | 659 | 4.88e-16 | 75.1 |
| MsG0680032504.01.T01 | MTR_1g048950 | 30.994 | 171 | 92 | 6 | 13 | 174 | 380 | 533 | 3.53e-15 | 72.8 |
| MsG0680032504.01.T01 | MTR_6g061200 | 26.738 | 187 | 103 | 6 | 3 | 174 | 498 | 665 | 7.74e-14 | 68.9 |
| MsG0680032504.01.T01 | MTR_5g018850 | 28.729 | 181 | 91 | 8 | 15 | 174 | 1344 | 1507 | 1.90e-13 | 67.8 |
| MsG0680032504.01.T01 | MTR_8g071030 | 28.244 | 131 | 64 | 2 | 3 | 104 | 544 | 673 | 2.82e-11 | 61.6 |
| MsG0680032504.01.T01 | MTR_8g078505 | 26.946 | 167 | 99 | 6 | 15 | 169 | 378 | 533 | 7.66e-11 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0680032504.01.T01 | AT2G35160 | 38.049 | 205 | 85 | 4 | 3 | 174 | 599 | 794 | 1.57e-37 | 137 |
| MsG0680032504.01.T01 | AT2G35160 | 38.049 | 205 | 85 | 4 | 3 | 174 | 599 | 794 | 1.57e-37 | 137 |
| MsG0680032504.01.T01 | AT2G35160 | 38.049 | 205 | 85 | 4 | 3 | 174 | 599 | 794 | 1.57e-37 | 137 |
| MsG0680032504.01.T01 | AT2G35160 | 38.049 | 205 | 85 | 4 | 3 | 174 | 599 | 794 | 1.57e-37 | 137 |
| MsG0680032504.01.T01 | AT2G35160 | 38.049 | 205 | 85 | 4 | 3 | 174 | 563 | 758 | 1.72e-37 | 136 |
| MsG0680032504.01.T01 | AT2G22740 | 35.268 | 224 | 93 | 5 | 3 | 174 | 567 | 790 | 3.12e-35 | 130 |
| MsG0680032504.01.T01 | AT2G22740 | 35.268 | 224 | 93 | 5 | 3 | 174 | 567 | 790 | 3.12e-35 | 130 |
| MsG0680032504.01.T01 | AT5G04940 | 31.492 | 181 | 96 | 8 | 15 | 169 | 487 | 665 | 1.62e-14 | 70.9 |
| MsG0680032504.01.T01 | AT5G04940 | 31.492 | 181 | 96 | 8 | 15 | 169 | 487 | 665 | 1.62e-14 | 70.9 |
| MsG0680032504.01.T01 | AT1G73100 | 28.962 | 183 | 98 | 7 | 15 | 169 | 486 | 664 | 2.71e-13 | 67.4 |
| MsG0680032504.01.T01 | AT2G23740 | 35.632 | 87 | 50 | 2 | 15 | 95 | 1209 | 1295 | 9.33e-11 | 60.1 |
| MsG0680032504.01.T01 | AT2G23740 | 35.632 | 87 | 50 | 2 | 15 | 95 | 1216 | 1302 | 9.88e-11 | 60.1 |
| MsG0680032504.01.T01 | AT2G23740 | 35.632 | 87 | 50 | 2 | 15 | 95 | 1216 | 1302 | 9.88e-11 | 60.1 |
| MsG0680032504.01.T01 | AT2G23740 | 35.632 | 87 | 50 | 2 | 15 | 95 | 1216 | 1302 | 9.88e-11 | 60.1 |
Find 29 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTACCACTTGAAGCTTCTA+AGG | 0.221245 | 6:+43300910 | None:intergenic |
| ACCATTGATGCTGCTAAGTT+TGG | 0.302862 | 6:-43300851 | MsG0680032504.01.T01:intron |
| TCAGAGAATGCAATTCCTTT+TGG | 0.305406 | 6:-43301103 | MsG0680032504.01.T01:CDS |
| TTCATATATGGTTGATAGTA+AGG | 0.403159 | 6:-43300951 | MsG0680032504.01.T01:CDS |
| ATTATATTCACAAGGTCTAT+AGG | 0.407539 | 6:-43300988 | MsG0680032504.01.T01:CDS |
| GTGGGAAGAGGATTCATATA+TGG | 0.450043 | 6:-43300963 | MsG0680032504.01.T01:CDS |
| GGTCTATAGGTCGTGGGAAG+AGG | 0.454401 | 6:-43300975 | MsG0680032504.01.T01:CDS |
| GATCAAGTGATTGATTCAAA+TGG | 0.480841 | 6:-43300669 | MsG0680032504.01.T01:CDS |
| TCAAGACTAAAGCGAAAGGA+TGG | 0.483022 | 6:-43301135 | MsG0680032504.01.T01:CDS |
| ACCAAACTTAGCAGCATCAA+TGG | 0.491542 | 6:+43300850 | None:intergenic |
| AAAGTCAGCTCATTCATGCT+TGG | 0.503473 | 6:+43300711 | None:intergenic |
| TTCACAAGGTCTATAGGTCG+TGG | 0.504274 | 6:-43300982 | MsG0680032504.01.T01:CDS |
| AAGACGAAAGCATGTTATTG+TGG | 0.528019 | 6:-43300639 | MsG0680032504.01.T01:CDS |
| TCACAAATAAAACTTCCAAA+AGG | 0.534102 | 6:+43301088 | None:intergenic |
| CAAGACTAAAGCGAAAGGAT+GGG | 0.536026 | 6:-43301134 | MsG0680032504.01.T01:CDS |
| AGAAGCTTCAAGTGGTAAAG+AGG | 0.540440 | 6:-43300906 | MsG0680032504.01.T01:CDS |
| TTACCACTTGAAGCTTCTAA+GGG | 0.542917 | 6:+43300911 | None:intergenic |
| CCCTCCACTCTTAAGAGCAC+AGG | 0.546581 | 6:+43301207 | None:intergenic |
| ATTGATGATCGATGTGATAG+TGG | 0.558469 | 6:-43300881 | MsG0680032504.01.T01:CDS |
| TCCTGTGCTCTTAAGAGTGG+AGG | 0.560747 | 6:-43301208 | MsG0680032504.01.T01:CDS |
| ACTATCACATCGATCATCAA+TGG | 0.565161 | 6:+43300883 | None:intergenic |
| AAGACTAAAGCGAAAGGATG+GGG | 0.572218 | 6:-43301133 | MsG0680032504.01.T01:CDS |
| TGTTCCTGTGCTCTTAAGAG+TGG | 0.599372 | 6:-43301211 | MsG0680032504.01.T01:CDS |
| CCTGTGCTCTTAAGAGTGGA+GGG | 0.600581 | 6:-43301207 | MsG0680032504.01.T01:CDS |
| AATCTCATCAATACAGTCGA+CGG | 0.610597 | 6:+43300601 | None:intergenic |
| ATGATCGATGTGATAGTGGT+AGG | 0.614728 | 6:-43300877 | MsG0680032504.01.T01:CDS |
| TCACAAGGTCTATAGGTCGT+GGG | 0.621148 | 6:-43300981 | MsG0680032504.01.T01:CDS |
| TATTAGCAATTATATTCACA+AGG | 0.626162 | 6:-43300996 | MsG0680032504.01.T01:CDS |
| CAACCCTTAGAAGCTTCAAG+TGG | 0.647600 | 6:-43300914 | MsG0680032504.01.T01:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATTAGCAATTATATTCACA+AGG | - | Chr6:43300829-43300848 | MsG0680032504.01.T01:intron | 20.0% |
| !!! | AGTTTTATTTGTGAGTATTT+AGG | - | Chr6:43300746-43300765 | MsG0680032504.01.T01:intron | 20.0% |
| ! | ATTATATTCACAAGGTCTAT+AGG | - | Chr6:43300837-43300856 | MsG0680032504.01.T01:intron | 25.0% |
| ! | TCACAAATAAAACTTCCAAA+AGG | + | Chr6:43300740-43300759 | None:intergenic | 25.0% |
| !! | ATCTGATTTTTCTTTACTCT+AGG | + | Chr6:43300650-43300669 | None:intergenic | 25.0% |
| !!! | TTCATATATGGTTGATAGTA+AGG | - | Chr6:43300874-43300893 | MsG0680032504.01.T01:CDS | 25.0% |
| AACAAATGAGAGAACAACTA+TGG | + | Chr6:43301021-43301040 | None:intergenic | 30.0% | |
| ! | GATCAAGTGATTGATTCAAA+TGG | - | Chr6:43301156-43301175 | MsG0680032504.01.T01:CDS | 30.0% |
| !! | ATTTTCAAGACTAAAGCGAA+AGG | - | Chr6:43300686-43300705 | MsG0680032504.01.T01:CDS | 30.0% |
| ACTATCACATCGATCATCAA+TGG | + | Chr6:43300945-43300964 | None:intergenic | 35.0% | |
| TTACCACTTGAAGCTTCTAA+GGG | + | Chr6:43300917-43300936 | None:intergenic | 35.0% | |
| TTTACCACTTGAAGCTTCTA+AGG | + | Chr6:43300918-43300937 | None:intergenic | 35.0% | |
| ! | AAGACGAAAGCATGTTATTG+TGG | - | Chr6:43301186-43301205 | MsG0680032504.01.T01:CDS | 35.0% |
| ! | ATTGATGATCGATGTGATAG+TGG | - | Chr6:43300944-43300963 | MsG0680032504.01.T01:CDS | 35.0% |
| ! | TCAGAGAATGCAATTCCTTT+TGG | - | Chr6:43300722-43300741 | MsG0680032504.01.T01:CDS | 35.0% |
| AAAGTCAGCTCATTCATGCT+TGG | + | Chr6:43301117-43301136 | None:intergenic | 40.0% | |
| AAGACTAAAGCGAAAGGATG+GGG | - | Chr6:43300692-43300711 | MsG0680032504.01.T01:CDS | 40.0% | |
| ACCAAACTTAGCAGCATCAA+TGG | + | Chr6:43300978-43300997 | None:intergenic | 40.0% | |
| ACCATTGATGCTGCTAAGTT+TGG | - | Chr6:43300974-43300993 | MsG0680032504.01.T01:CDS | 40.0% | |
| AGAAGCTTCAAGTGGTAAAG+AGG | - | Chr6:43300919-43300938 | MsG0680032504.01.T01:CDS | 40.0% | |
| CAAGACTAAAGCGAAAGGAT+GGG | - | Chr6:43300691-43300710 | MsG0680032504.01.T01:CDS | 40.0% | |
| GTGGGAAGAGGATTCATATA+TGG | - | Chr6:43300862-43300881 | MsG0680032504.01.T01:CDS | 40.0% | |
| TCAAGACTAAAGCGAAAGGA+TGG | - | Chr6:43300690-43300709 | MsG0680032504.01.T01:CDS | 40.0% | |
| ! | TTTGCGATGATGATGATCTG+AGG | - | Chr6:43301055-43301074 | MsG0680032504.01.T01:CDS | 40.0% |
| !! | ATGATCGATGTGATAGTGGT+AGG | - | Chr6:43300948-43300967 | MsG0680032504.01.T01:CDS | 40.0% |
| CAACCCTTAGAAGCTTCAAG+TGG | - | Chr6:43300911-43300930 | MsG0680032504.01.T01:CDS | 45.0% | |
| GCTGCATATAGCATGATGTG+TGG | + | Chr6:43301084-43301103 | None:intergenic | 45.0% | |
| TCACAAGGTCTATAGGTCGT+GGG | - | Chr6:43300844-43300863 | MsG0680032504.01.T01:intron | 45.0% | |
| TGTTCCTGTGCTCTTAAGAG+TGG | - | Chr6:43300614-43300633 | MsG0680032504.01.T01:CDS | 45.0% | |
| TTCACAAGGTCTATAGGTCG+TGG | - | Chr6:43300843-43300862 | MsG0680032504.01.T01:intron | 45.0% | |
| !! | CTAAGTTTGGTAACGTGGCA+AGG | - | Chr6:43300987-43301006 | MsG0680032504.01.T01:CDS | 45.0% |
| !! | TGCTGCTAAGTTTGGTAACG+TGG | - | Chr6:43300982-43301001 | MsG0680032504.01.T01:CDS | 45.0% |
| CCTGTGCTCTTAAGAGTGGA+GGG | - | Chr6:43300618-43300637 | MsG0680032504.01.T01:CDS | 50.0% | |
| TCCTGTGCTCTTAAGAGTGG+AGG | - | Chr6:43300617-43300636 | MsG0680032504.01.T01:CDS | 50.0% | |
| GGTCTATAGGTCGTGGGAAG+AGG | - | Chr6:43300850-43300869 | MsG0680032504.01.T01:intron | 55.0% | |
| ! | CCCTCCACTCTTAAGAGCAC+AGG | + | Chr6:43300621-43300640 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr6 | gene | 43300608 | 43301239 | 43300608 | ID=MsG0680032504.01;Name=MsG0680032504.01 |
| Chr6 | mRNA | 43300608 | 43301239 | 43300608 | ID=MsG0680032504.01.T01;Parent=MsG0680032504.01;Name=MsG0680032504.01.T01;_AED=0.10;_eAED=0.10;_QI=0|0|0|1|1|1|2|0|174 |
| Chr6 | exon | 43300852 | 43301239 | 43300852 | ID=MsG0680032504.01.T01:exon:15851;Parent=MsG0680032504.01.T01 |
| Chr6 | exon | 43300608 | 43300744 | 43300608 | ID=MsG0680032504.01.T01:exon:15852;Parent=MsG0680032504.01.T01 |
| Chr6 | CDS | 43300852 | 43301239 | 43300852 | ID=MsG0680032504.01.T01:cds;Parent=MsG0680032504.01.T01 |
| Chr6 | CDS | 43300608 | 43300744 | 43300608 | ID=MsG0680032504.01.T01:cds;Parent=MsG0680032504.01.T01 |
| Gene Sequence |
| Protein sequence |
