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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1221240 | XP_003610146.1 | 96.212 | 132 | 5 | 0 | 1 | 132 | 1 | 132 | 1.53e-87 | 261 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0004480 | Msa1221240 | 0.824494 | 7.828621e-54 | -8.615850e-47 |
| Msa0011050 | Msa1221240 | 0.820693 | 5.993796e-53 | -8.615850e-47 |
| Msa0052780 | Msa1221240 | 0.807489 | 4.929524e-50 | -8.615850e-47 |
| Msa0077370 | Msa1221240 | 0.803307 | 3.710066e-49 | -8.615850e-47 |
| Msa0090380 | Msa1221240 | 0.827223 | 1.761461e-54 | -8.615850e-47 |
| Msa0097570 | Msa1221240 | 0.814121 | 1.810038e-51 | -8.615850e-47 |
| Msa0104810 | Msa1221240 | 0.808782 | 2.615657e-50 | -8.615850e-47 |
| Msa0611060 | Msa1221240 | 0.829998 | 3.761093e-55 | -8.615850e-47 |
| Msa0618550 | Msa1221240 | 0.805629 | 1.217029e-49 | -8.615850e-47 |
| Msa0693750 | Msa1221240 | 0.801520 | 8.662720e-49 | -8.615850e-47 |
| Msa0696100 | Msa1221240 | 0.802976 | 4.344863e-49 | -8.615850e-47 |
| Msa0744640 | Msa1221240 | 0.833992 | 3.876676e-56 | -8.615850e-47 |
| Msa0787790 | Msa1221240 | 0.826012 | 3.426174e-54 | -8.615850e-47 |
| Msa0816630 | Msa1221240 | 0.817069 | 3.991483e-52 | -8.615850e-47 |
| Msa0841730 | Msa1221240 | 0.832567 | 8.784162e-56 | -8.615850e-47 |
| Msa0137860 | Msa1221240 | 0.823204 | 1.571248e-53 | -8.615850e-47 |
| Msa0151220 | Msa1221240 | 0.823535 | 1.314877e-53 | -8.615850e-47 |
| Msa0170770 | Msa1221240 | 0.831237 | 1.870015e-55 | -8.615850e-47 |
| Msa0223140 | Msa1221240 | 0.802323 | 5.925138e-49 | -8.615850e-47 |
| Msa0393100 | Msa1221240 | 0.801356 | 9.358716e-49 | -8.615850e-47 |
| Msa0402800 | Msa1221240 | 0.820903 | 5.364446e-53 | -8.615850e-47 |
| Msa1016960 | Msa1221240 | 0.814598 | 1.419930e-51 | -8.615850e-47 |
| Msa1031460 | Msa1221240 | 0.825593 | 4.307350e-54 | -8.615850e-47 |
| Msa1058200 | Msa1221240 | 0.826044 | 3.366925e-54 | -8.615850e-47 |
| Msa1070540 | Msa1221240 | 0.831279 | 1.826915e-55 | -8.615850e-47 |
| Msa1101240 | Msa1221240 | 0.834475 | 2.932958e-56 | -8.615850e-47 |
| Msa0264680 | Msa1221240 | 0.819012 | 1.452333e-52 | -8.615850e-47 |
| Msa0265480 | Msa1221240 | 0.820380 | 7.071499e-53 | -8.615850e-47 |
| Msa0302730 | Msa1221240 | 0.829513 | 4.936362e-55 | -8.615850e-47 |
| Msa0345050 | Msa1221240 | 0.802046 | 6.755348e-49 | -8.615850e-47 |
| Msa0345890 | Msa1221240 | 0.813954 | 1.970483e-51 | -8.615850e-47 |
| Msa1109670 | Msa1221240 | 0.806040 | 9.976087e-50 | -8.615850e-47 |
| Msa1114670 | Msa1221240 | 0.806786 | 6.945977e-50 | -8.615850e-47 |
| Msa1131790 | Msa1221240 | 0.824826 | 6.540998e-54 | -8.615850e-47 |
| Msa1159170 | Msa1221240 | 0.807839 | 4.153610e-50 | -8.615850e-47 |
| Msa1173150 | Msa1221240 | 0.813886 | 2.039653e-51 | -8.615850e-47 |
| Msa1180930 | Msa1221240 | 0.821793 | 3.341937e-53 | -8.615850e-47 |
| Msa1188350 | Msa1221240 | 0.804015 | 2.645241e-49 | -8.615850e-47 |
| Msa1217260 | Msa1221240 | 0.803881 | 2.820636e-49 | -8.615850e-47 |
| Msa1218160 | Msa1221240 | 0.832757 | 7.880099e-56 | -8.615850e-47 |
| Msa1221220 | Msa1221240 | 0.920107 | 1.944922e-87 | -8.615850e-47 |
| Msa1221240 | Msa1225580 | 0.830831 | 2.353002e-55 | -8.615850e-47 |
| Msa1221240 | Msa1246790 | 0.815120 | 1.087680e-51 | -8.615850e-47 |
| Msa1221240 | Msa1252000 | 0.814781 | 1.293381e-51 | -8.615850e-47 |
| Msa1221240 | Msa1262540 | 0.830270 | 3.227829e-55 | -8.615850e-47 |
| Msa1221240 | Msa1286220 | 0.828238 | 1.004888e-54 | -8.615850e-47 |
| Msa1221240 | Msa1350700 | 0.801165 | 1.024225e-48 | -8.615850e-47 |
| Msa1221240 | Msa1355510 | 0.820593 | 6.320577e-53 | -8.615850e-47 |
| Msa1221240 | Msa1362850 | 0.800647 | 1.306751e-48 | -8.615850e-47 |
| Msa1221240 | Msa1369320 | 0.825558 | 4.390372e-54 | -8.615850e-47 |
| Msa1221240 | Msa1413800 | 0.816521 | 5.298680e-52 | -8.615850e-47 |
| Msa1221240 | Msa1433410 | 0.821415 | 4.087163e-53 | -8.615850e-47 |
| Msa1221240 | Msa1436090 | 0.814367 | 1.597248e-51 | -8.615850e-47 |
| Msa1221240 | Msa1443620 | 0.824818 | 6.568832e-54 | -8.615850e-47 |
| Msa0488580 | Msa1221240 | 0.832849 | 7.475376e-56 | -8.615850e-47 |
| Msa0497860 | Msa1221240 | 0.813526 | 2.448365e-51 | -8.615850e-47 |
| Msa0584580 | Msa1221240 | 0.826886 | 2.120779e-54 | -8.615850e-47 |
| Msa0584600 | Msa1221240 | 0.830866 | 2.306946e-55 | -8.615850e-47 |
| Msa0590390 | Msa1221240 | 0.803510 | 3.367518e-49 | -8.615850e-47 |
| Msa0863940 | Msa1221240 | 0.805748 | 1.149237e-49 | -8.615850e-47 |
| Msa0863990 | Msa1221240 | 0.832452 | 9.379309e-56 | -8.615850e-47 |
| Msa0873910 | Msa1221240 | 0.801799 | 7.593917e-49 | -8.615850e-47 |
| Msa0945130 | Msa1221240 | 0.808081 | 3.689283e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1221240 | MtrunA17_Chr4g0072541 | 96.212 | 132 | 5 | 0 | 1 | 132 | 1 | 132 | 1.41e-91 | 261 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1221240 | AT5G57510.1 | 47.200 | 125 | 60 | 5 | 6 | 127 | 3 | 124 | 3.96e-25 | 93.2 |
Find 19 sgRNAs with CRISPR-Local
Find 23 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGCAGGGAACAAAAGAGTTC+TGG | 0.299960 | 8_1:-84778658 | Msa1221240:CDS |
| CATTGCAGCTACGTTATTGC+AGG | 0.354632 | 8_1:-84778675 | Msa1221240:CDS |
| CTCCATCTCCTTGTCTTCAA+AGG | 0.416512 | 8_1:-84778795 | Msa1221240:CDS |
| GTTCCATGTGTGGTTGAGTA+TGG | 0.434971 | 8_1:+84778930 | None:intergenic |
| CCTACGAACGGCGGTGCAAA+AGG | 0.470375 | 8_1:-84778974 | Msa1221240:CDS |
| CTTATTGTCCTTTGAAGACA+AGG | 0.489660 | 8_1:+84778787 | None:intergenic |
| CTAAGTTTCAACGATCGTCC+TGG | 0.511331 | 8_1:-84778865 | Msa1221240:CDS |
| GTCCTTTGAAGACAAGGAGA+TGG | 0.521798 | 8_1:+84778793 | None:intergenic |
| TTCAGATGAAACTGATTCAG+AGG | 0.544944 | 8_1:-84778827 | Msa1221240:CDS |
| CCACCATACTCAACCACACA+TGG | 0.550819 | 8_1:-84778933 | Msa1221240:CDS |
| TTTGCACCGCCGTTCGTAGG+CGG | 0.568746 | 8_1:+84778977 | None:intergenic |
| TCAGATGAAACTGATTCAGA+GGG | 0.570568 | 8_1:-84778826 | Msa1221240:CDS |
| GAAGAACACATCATCAATCC+AGG | 0.580359 | 8_1:+84778847 | None:intergenic |
| CCATGTGTGGTTGAGTATGG+TGG | 0.585997 | 8_1:+84778933 | None:intergenic |
| GGATGACATTGATAAGAGAT+CGG | 0.600101 | 8_1:-84778749 | Msa1221240:CDS |
| TCAATGTCATCCTCATCTGA+AGG | 0.601031 | 8_1:+84778760 | None:intergenic |
| ATTGCAGCTACGTTATTGCA+GGG | 0.621027 | 8_1:-84778674 | Msa1221240:CDS |
| TCTACTAAGCCGCCTACGAA+CGG | 0.672450 | 8_1:-84778986 | Msa1221240:CDS |
| ACTAAGCCGCCTACGAACGG+CGG | 0.714763 | 8_1:-84778983 | Msa1221240:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AATAAGTTTTCCTTCAGATG+AGG | - | chr8_1:84778890-84778909 | Msa1221240:CDS | 30.0% |
| ! | TTCAGATGAAACTGATTCAG+AGG | - | chr8_1:84778833-84778852 | Msa1221240:CDS | 35.0% |
| ! | TCAGATGAAACTGATTCAGA+GGG | - | chr8_1:84778834-84778853 | Msa1221240:CDS | 35.0% |
| ! | CTTATTGTCCTTTGAAGACA+AGG | + | chr8_1:84778876-84778895 | None:intergenic | 35.0% |
| GGATGACATTGATAAGAGAT+CGG | - | chr8_1:84778911-84778930 | Msa1221240:CDS | 35.0% | |
| GAAGAACACATCATCAATCC+AGG | + | chr8_1:84778816-84778835 | None:intergenic | 40.0% | |
| TCAATGTCATCCTCATCTGA+AGG | + | chr8_1:84778903-84778922 | None:intergenic | 40.0% | |
| ATTGCAGCTACGTTATTGCA+GGG | - | chr8_1:84778986-84779005 | Msa1221240:CDS | 40.0% | |
| GTTCCATGTGTGGTTGAGTA+TGG | + | chr8_1:84778733-84778752 | None:intergenic | 45.0% | |
| ! | TTTTTGCAGCGTTCCATGTG+TGG | + | chr8_1:84778743-84778762 | None:intergenic | 45.0% |
| AACGCTGCAAAAATGCTTCG+CGG | - | chr8_1:84778750-84778769 | Msa1221240:CDS | 45.0% | |
| CTAAGTTTCAACGATCGTCC+TGG | - | chr8_1:84778795-84778814 | Msa1221240:CDS | 45.0% | |
| CTCCATCTCCTTGTCTTCAA+AGG | - | chr8_1:84778865-84778884 | Msa1221240:CDS | 45.0% | |
| ! | GTCCTTTGAAGACAAGGAGA+TGG | + | chr8_1:84778870-84778889 | None:intergenic | 45.0% |
| CATTGCAGCTACGTTATTGC+AGG | - | chr8_1:84778985-84779004 | Msa1221240:CDS | 45.0% | |
| TGCAGGGAACAAAAGAGTTC+TGG | - | chr8_1:84779002-84779021 | Msa1221240:CDS | 45.0% | |
| TCTACTAAGCCGCCTACGAA+CGG | - | chr8_1:84778674-84778693 | Msa1221240:CDS | 50.0% | |
| CCATGTGTGGTTGAGTATGG+TGG | + | chr8_1:84778730-84778749 | None:intergenic | 50.0% | |
| CCACCATACTCAACCACACA+TGG | - | chr8_1:84778727-84778746 | Msa1221240:CDS | 50.0% | |
| ACTAAGCCGCCTACGAACGG+CGG | - | chr8_1:84778677-84778696 | Msa1221240:CDS | 60.0% | |
| TTTGCACCGCCGTTCGTAGG+CGG | + | chr8_1:84778686-84778705 | None:intergenic | 60.0% | |
| ! | CCTTTTGCACCGCCGTTCGT+AGG | + | chr8_1:84778689-84778708 | None:intergenic | 60.0% |
| CCTACGAACGGCGGTGCAAA+AGG | - | chr8_1:84778686-84778705 | Msa1221240:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 84778642 | 84779040 | 84778642 | ID=Msa1221240;Name=Msa1221240 |
| chr8_1 | mRNA | 84778642 | 84779040 | 84778642 | ID=Msa1221240-mRNA-1;Parent=Msa1221240;Name=Msa1221240-mRNA-1;_AED=0.29;_eAED=0.29;_QI=0|-1|0|1|-1|1|1|0|132 |
| chr8_1 | exon | 84778642 | 84779040 | 84778642 | ID=Msa1221240-mRNA-1:exon:30458;Parent=Msa1221240-mRNA-1 |
| chr8_1 | CDS | 84778642 | 84779040 | 84778642 | ID=Msa1221240-mRNA-1:cds;Parent=Msa1221240-mRNA-1 |
| Gene Sequence |
| Protein sequence |
