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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0118060 | XP_039689765.1 | 82.051 | 195 | 35 | 0 | 1 | 195 | 25 | 219 | 3.49e-114 | 343 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0118060 | A0A072V9G8 | 76.884 | 199 | 42 | 1 | 1 | 195 | 139 | 337 | 7.02e-104 | 314 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0118050 | Msa0118060 | 0.838792 | 2.329601e-57 | -8.615850e-47 |
| Msa0118060 | Msa0232850 | 0.817868 | 2.637737e-52 | -8.615850e-47 |
| Msa0118060 | Msa0267000 | 0.822816 | 1.934951e-53 | -8.615850e-47 |
| Msa0118060 | Msa0267010 | 0.813878 | 2.047664e-51 | -8.615850e-47 |
| Msa0118060 | Msa0365500 | 0.822886 | 1.862931e-53 | -8.615850e-47 |
| Msa0118060 | Msa0414420 | 0.805618 | 1.223963e-49 | -8.615850e-47 |
| Msa0118060 | Msa0452900 | 0.851404 | 9.074389e-61 | -8.615850e-47 |
| Msa0118060 | Msa0548060 | 0.814184 | 1.752797e-51 | -8.615850e-47 |
| Msa0118060 | Msa0726140 | 0.805375 | 1.375933e-49 | -8.615850e-47 |
| Msa0118060 | Msa0743810 | 0.806829 | 6.802887e-50 | -8.615850e-47 |
| Msa0118060 | Msa0745060 | 0.838258 | 3.200638e-57 | -8.615850e-47 |
| Msa0118060 | Msa0825860 | 0.847590 | 1.050056e-59 | -8.615850e-47 |
| Msa0118060 | Msa0846330 | 0.811721 | 6.077532e-51 | -8.615850e-47 |
| Msa0118060 | Msa0846350 | 0.810157 | 1.325314e-50 | -8.615850e-47 |
| Msa0118060 | Msa0865320 | 0.828619 | 8.127525e-55 | -8.615850e-47 |
| Msa0118060 | Msa0957860 | 0.823316 | 1.478723e-53 | -8.615850e-47 |
| Msa0118060 | Msa0957960 | 0.824002 | 1.022001e-53 | -8.615850e-47 |
| Msa0118060 | Msa1025360 | 0.825299 | 5.056543e-54 | -8.615850e-47 |
| Msa0118060 | Msa1025370 | 0.818881 | 1.555437e-52 | -8.615850e-47 |
| Msa0118060 | Msa1044830 | 0.808669 | 2.763993e-50 | -8.615850e-47 |
| Msa0118060 | Msa1044840 | 0.823484 | 1.351025e-53 | -8.615850e-47 |
| Msa0118060 | Msa1092990 | 0.842671 | 2.243182e-58 | -8.615850e-47 |
| Msa0118060 | Msa1100980 | 0.831510 | 1.602556e-55 | -8.615850e-47 |
| Msa0118060 | Msa1135740 | 0.811837 | 5.731928e-51 | -8.615850e-47 |
| Msa0118060 | Msa1187940 | 0.827487 | 1.522254e-54 | -8.615850e-47 |
| Msa0118060 | Msa1269670 | 0.846315 | 2.346882e-59 | -8.615850e-47 |
| Msa0118060 | Msa1270230 | 0.820682 | 6.027906e-53 | -8.615850e-47 |
| Msa0118060 | Msa1270240 | 0.813529 | 2.444293e-51 | -8.615850e-47 |
| Msa0118060 | Msa1270270 | 0.841650 | 4.178883e-58 | -8.615850e-47 |
| Msa0118060 | Msa1283330 | 0.829358 | 5.382767e-55 | -8.615850e-47 |
| Msa0118060 | Msa1285930 | 0.807055 | 6.092242e-50 | -8.615850e-47 |
| Msa0118060 | Msa1287810 | 0.817769 | 2.777688e-52 | -8.615850e-47 |
| Msa0118060 | Msa1404000 | 0.805926 | 1.054204e-49 | -8.615850e-47 |
| Msa0118060 | Msa1415310 | 0.809081 | 2.257222e-50 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0118060 | MtrunA17_Chr3g0101861 | 71.429 | 196 | 55 | 1 | 1 | 195 | 25 | 220 | 9.41e-103 | 303 |
| Msa0118060 | MtrunA17_Chr1g0206501 | 53.731 | 201 | 87 | 1 | 1 | 195 | 266 | 466 | 7.56e-67 | 213 |
| Msa0118060 | MtrunA17_Chr1g0173691 | 50.794 | 126 | 56 | 2 | 76 | 195 | 1 | 126 | 6.21e-38 | 134 |
| Msa0118060 | MtrunA17_Chr7g0269671 | 51.562 | 128 | 53 | 3 | 76 | 195 | 1 | 127 | 1.28e-37 | 132 |
| Msa0118060 | MtrunA17_Chr2g0308591 | 83.051 | 59 | 6 | 1 | 57 | 111 | 45 | 103 | 7.24e-26 | 95.9 |
| Msa0118060 | MtrunA17_Chr7g0269661 | 69.811 | 53 | 16 | 0 | 1 | 53 | 176 | 228 | 8.17e-19 | 80.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 27 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCATAAATTCTTCTTACATC+TGG | 0.298534 | 1_3:-40314048 | Msa0118060:CDS |
| ATTTCTGCATTTCCATCATT+TGG | 0.302976 | 1_3:+40313896 | None:intergenic |
| AATTAACAAAACTGATCATA+TGG | 0.340712 | 1_3:-40314243 | Msa0118060:CDS |
| AAATGCAGAAATTGATATAT+CGG | 0.425213 | 1_3:-40313885 | Msa0118060:CDS |
| TAGCGACCGTCAAAACTATC+TGG | 0.426894 | 1_3:+40314395 | None:intergenic |
| AATGTCTGAACGATCCGCTC+TGG | 0.430977 | 1_3:+40314081 | None:intergenic |
| AAAGCAAAATTTATGAGCCA+TGG | 0.442105 | 1_3:+40314210 | None:intergenic |
| CATAAATTCTTCTTACATCT+GGG | 0.477819 | 1_3:-40314047 | Msa0118060:CDS |
| AGGCTAGTCAAGCCAAATGA+TGG | 0.514123 | 1_3:-40313908 | Msa0118060:CDS |
| GAATGTGCAGTCCTTCCTCC+AGG | 0.517333 | 1_3:+40314346 | None:intergenic |
| TATGAATGGCTGTTGAAAGT+TGG | 0.519129 | 1_3:-40313938 | Msa0118060:CDS |
| ATTAACAAAACTGATCATAT+GGG | 0.533357 | 1_3:-40314242 | Msa0118060:CDS |
| CGATCCGCTCTGGGTACGAC+AGG | 0.540216 | 1_3:+40314091 | None:intergenic |
| CACTATTATTGCCTGGAGGA+AGG | 0.540516 | 1_3:-40314357 | Msa0118060:CDS |
| ATGTCTGAACGATCCGCTCT+GGG | 0.547703 | 1_3:+40314082 | None:intergenic |
| ATAGCAGCACTATTATTGCC+TGG | 0.555012 | 1_3:-40314364 | Msa0118060:CDS |
| AAGCAAAATTTATGAGCCAT+GGG | 0.560911 | 1_3:+40314211 | None:intergenic |
| TAATAGTGCTGCTATACCAC+TGG | 0.576992 | 1_3:+40314372 | None:intergenic |
| TTACATCTGGGATGAATGTG+AGG | 0.579872 | 1_3:-40314035 | Msa0118060:CDS |
| CATATGGGATGAAGCACCCA+TGG | 0.592361 | 1_3:-40314227 | Msa0118060:CDS |
| AACTCCACATGTATTATAGA+CGG | 0.622746 | 1_3:-40314292 | Msa0118060:CDS |
| TGTTGAAAGTTGGTGAAGGA+AGG | 0.633000 | 1_3:-40313928 | Msa0118060:CDS |
| CCGGTAAATCATATATGTGG+CGG | 0.656652 | 1_3:-40314447 | None:intergenic |
| TGGCTGTTGAAAGTTGGTGA+AGG | 0.661679 | 1_3:-40313932 | Msa0118060:CDS |
| TACACCGTCTATAATACATG+TGG | 0.662637 | 1_3:+40314288 | None:intergenic |
| TTTACCTGTCGTACCCAGAG+CGG | 0.688522 | 1_3:-40314095 | Msa0118060:CDS |
| GCAGCACTATTATTGCCTGG+AGG | 0.759334 | 1_3:-40314361 | Msa0118060:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AGTTAAAAATGTTTTATGAA+TGG | - | chr1_3:40314349-40314368 | Msa0118060:CDS | 15.0% |
| !! | AATTAACAAAACTGATCATA+TGG | - | chr1_3:40314058-40314077 | Msa0118060:CDS | 20.0% |
| !! | ATTAACAAAACTGATCATAT+GGG | - | chr1_3:40314059-40314078 | Msa0118060:CDS | 20.0% |
| !! | AAATGCAGAAATTGATATAT+CGG | - | chr1_3:40314416-40314435 | Msa0118060:CDS | 20.0% |
| !! | ATGTCCTTTGATAAGATTTT+TGG | - | chr1_3:40314144-40314163 | Msa0118060:CDS | 25.0% |
| !! | TGTCCTTTGATAAGATTTTT+GGG | - | chr1_3:40314145-40314164 | Msa0118060:CDS | 25.0% |
| ! | CATAAATTCTTCTTACATCT+GGG | - | chr1_3:40314254-40314273 | Msa0118060:CDS | 25.0% |
| AACTCCACATGTATTATAGA+CGG | - | chr1_3:40314009-40314028 | Msa0118060:CDS | 30.0% | |
| AAGCAAAATTTATGAGCCAT+GGG | + | chr1_3:40314093-40314112 | None:intergenic | 30.0% | |
| AAAGCAAAATTTATGAGCCA+TGG | + | chr1_3:40314094-40314113 | None:intergenic | 30.0% | |
| ! | GTCCTTTGATAAGATTTTTG+GGG | - | chr1_3:40314146-40314165 | Msa0118060:CDS | 30.0% |
| !! | TCCTTTGATAAGATTTTTGG+GGG | - | chr1_3:40314147-40314166 | Msa0118060:CDS | 30.0% |
| !!! | GGAAAAGTTATTGTTTTTGG+AGG | - | chr1_3:40314168-40314187 | Msa0118060:CDS | 30.0% |
| GCATAAATTCTTCTTACATC+TGG | - | chr1_3:40314253-40314272 | Msa0118060:CDS | 30.0% | |
| ATTTCTGCATTTCCATCATT+TGG | + | chr1_3:40314408-40314427 | None:intergenic | 30.0% | |
| TACACCGTCTATAATACATG+TGG | + | chr1_3:40314016-40314035 | None:intergenic | 35.0% | |
| TCCCCCAAAAATCTTATCAA+AGG | + | chr1_3:40314151-40314170 | None:intergenic | 35.0% | |
| ! | GGGGGAAAAGTTATTGTTTT+TGG | - | chr1_3:40314165-40314184 | Msa0118060:CDS | 35.0% |
| ! | TTGTTGCAGACGCATATTTT+TGG | + | chr1_3:40314304-40314323 | None:intergenic | 35.0% |
| TATGAATGGCTGTTGAAAGT+TGG | - | chr1_3:40314363-40314382 | Msa0118060:CDS | 35.0% | |
| !!! | TCGTAGCCAGATAGTTTTGA+CGG | - | chr1_3:40313900-40313919 | Msa0118060:CDS | 40.0% |
| ! | TAATAGTGCTGCTATACCAC+TGG | + | chr1_3:40313932-40313951 | None:intergenic | 40.0% |
| ATAGCAGCACTATTATTGCC+TGG | - | chr1_3:40313937-40313956 | Msa0118060:CDS | 40.0% | |
| !!! | GAGTTTTCAAGTGCTGGTAT+GGG | + | chr1_3:40313994-40314013 | None:intergenic | 40.0% |
| ! | TTACATCTGGGATGAATGTG+AGG | - | chr1_3:40314266-40314285 | Msa0118060:CDS | 40.0% |
| !! | TGTTGAAAGTTGGTGAAGGA+AGG | - | chr1_3:40314373-40314392 | Msa0118060:CDS | 40.0% |
| TAGCGACCGTCAAAACTATC+TGG | + | chr1_3:40313909-40313928 | None:intergenic | 45.0% | |
| CACTATTATTGCCTGGAGGA+AGG | - | chr1_3:40313944-40313963 | Msa0118060:CDS | 45.0% | |
| !!! | GGAGTTTTCAAGTGCTGGTA+TGG | + | chr1_3:40313995-40314014 | None:intergenic | 45.0% |
| !!! | CATGTGGAGTTTTCAAGTGC+TGG | + | chr1_3:40314000-40314019 | None:intergenic | 45.0% |
| !! | TGGCTGTTGAAAGTTGGTGA+AGG | - | chr1_3:40314369-40314388 | Msa0118060:CDS | 45.0% |
| ! | AGGCTAGTCAAGCCAAATGA+TGG | - | chr1_3:40314393-40314412 | Msa0118060:CDS | 45.0% |
| GCAGCACTATTATTGCCTGG+AGG | - | chr1_3:40313940-40313959 | Msa0118060:CDS | 50.0% | |
| ! | CATATGGGATGAAGCACCCA+TGG | - | chr1_3:40314074-40314093 | Msa0118060:CDS | 50.0% |
| TTTACCTGTCGTACCCAGAG+CGG | - | chr1_3:40314206-40314225 | Msa0118060:CDS | 50.0% | |
| ATGTCTGAACGATCCGCTCT+GGG | + | chr1_3:40314222-40314241 | None:intergenic | 50.0% | |
| AATGTCTGAACGATCCGCTC+TGG | + | chr1_3:40314223-40314242 | None:intergenic | 50.0% | |
| !! | GTTTTGACGGTCGCTACCAG+TGG | - | chr1_3:40313913-40313932 | Msa0118060:CDS | 55.0% |
| GAATGTGCAGTCCTTCCTCC+AGG | + | chr1_3:40313958-40313977 | None:intergenic | 55.0% | |
| ! | CGATCCGCTCTGGGTACGAC+AGG | + | chr1_3:40314213-40314232 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 40313868 | 40314455 | 40313868 | ID=Msa0118060;Name=Msa0118060 |
| chr1_3 | mRNA | 40313868 | 40314455 | 40313868 | ID=Msa0118060-mRNA-1;Parent=Msa0118060;Name=Msa0118060-mRNA-1;_AED=0.46;_eAED=0.46;_QI=0|-1|0|1|-1|1|1|0|195 |
| chr1_3 | exon | 40313868 | 40314455 | 40313868 | ID=Msa0118060-mRNA-1:exon:12331;Parent=Msa0118060-mRNA-1 |
| chr1_3 | CDS | 40313868 | 40314455 | 40313868 | ID=Msa0118060-mRNA-1:cds;Parent=Msa0118060-mRNA-1 |
| Gene Sequence |
| Protein sequence |
