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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0588140 | AES86647.1 | 96.721 | 122 | 4 | 0 | 1 | 122 | 1 | 122 | 6.13e-81 | 243 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0588140 | G7JJB1 | 96.721 | 122 | 4 | 0 | 1 | 122 | 1 | 122 | 2.93e-81 | 243 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0017510 | Msa0588140 | 0.821929 | 3.109004e-53 | -8.615850e-47 |
| Msa0027260 | Msa0588140 | 0.806225 | 9.121867e-50 | -8.615850e-47 |
| Msa0110970 | Msa0588140 | 0.811015 | 8.649459e-51 | -8.615850e-47 |
| Msa0157290 | Msa0588140 | 0.822004 | 2.986122e-53 | -8.615850e-47 |
| Msa0197420 | Msa0588140 | 0.824541 | 7.632121e-54 | -8.615850e-47 |
| Msa0197930 | Msa0588140 | 0.800788 | 1.222820e-48 | -8.615850e-47 |
| Msa0392420 | Msa0588140 | 0.813976 | 1.948338e-51 | -8.615850e-47 |
| Msa0392460 | Msa0588140 | 0.807072 | 6.042242e-50 | -8.615850e-47 |
| Msa0392490 | Msa0588140 | 0.820137 | 8.038095e-53 | -8.615850e-47 |
| Msa0475790 | Msa0588140 | 0.813681 | 2.263305e-51 | -8.615850e-47 |
| Msa0239570 | Msa0588140 | 0.806817 | 6.843321e-50 | -8.615850e-47 |
| Msa0277180 | Msa0588140 | 0.801625 | 8.244617e-49 | -8.615850e-47 |
| Msa0287650 | Msa0588140 | 0.801576 | 8.436061e-49 | -8.615850e-47 |
| Msa0300120 | Msa0588140 | 0.803296 | 3.729736e-49 | -8.615850e-47 |
| Msa0316810 | Msa0588140 | 0.803937 | 2.746125e-49 | -8.615850e-47 |
| Msa0317280 | Msa0588140 | 0.821701 | 3.509583e-53 | -8.615850e-47 |
| Msa0344570 | Msa0588140 | 0.802550 | 5.320289e-49 | -8.615850e-47 |
| Msa0487570 | Msa0588140 | 0.818240 | 2.172916e-52 | -8.615850e-47 |
| Msa0487630 | Msa0588140 | 0.823252 | 1.530807e-53 | -8.615850e-47 |
| Msa0527550 | Msa0588140 | 0.812463 | 4.187151e-51 | -8.615850e-47 |
| Msa0531380 | Msa0588140 | 0.803728 | 3.034665e-49 | -8.615850e-47 |
| Msa0535040 | Msa0588140 | 0.804937 | 1.699584e-49 | -8.615850e-47 |
| Msa0547720 | Msa0588140 | 0.809496 | 1.838703e-50 | -8.615850e-47 |
| Msa0552810 | Msa0588140 | 0.804896 | 1.733746e-49 | -8.615850e-47 |
| Msa0574890 | Msa0588140 | 0.800263 | 1.564748e-48 | -8.615850e-47 |
| Msa0588140 | Msa0630830 | 0.804671 | 1.931452e-49 | -8.615850e-47 |
| Msa0588140 | Msa0750880 | 0.801057 | 1.077391e-48 | -8.615850e-47 |
| Msa0588140 | Msa0818310 | 0.805474 | 1.311815e-49 | -8.615850e-47 |
| Msa0588140 | Msa0880140 | 0.819255 | 1.278164e-52 | -8.615850e-47 |
| Msa0588140 | Msa0902760 | 0.820991 | 5.119757e-53 | -8.615850e-47 |
| Msa0588140 | Msa0936340 | 0.847090 | 1.440586e-59 | -8.615850e-47 |
| Msa0588140 | Msa0968590 | 0.808123 | 3.615508e-50 | -8.615850e-47 |
| Msa0588140 | Msa1013400 | 0.821235 | 4.498012e-53 | -8.615850e-47 |
| Msa0588140 | Msa1066490 | 0.810811 | 9.575165e-51 | -8.615850e-47 |
| Msa0588140 | Msa1078170 | 0.804604 | 1.994230e-49 | -8.615850e-47 |
| Msa0588140 | Msa1093530 | 0.823355 | 1.448241e-53 | -8.615850e-47 |
| Msa0588140 | Msa1093840 | 0.813582 | 2.378991e-51 | -8.615850e-47 |
| Msa0588140 | Msa1123380 | 0.807704 | 4.439124e-50 | -8.615850e-47 |
| Msa0588140 | Msa1126510 | 0.808956 | 2.400209e-50 | -8.615850e-47 |
| Msa0588140 | Msa1127140 | 0.800013 | 1.758975e-48 | -8.615850e-47 |
| Msa0588140 | Msa1134110 | 0.801715 | 7.901555e-49 | -8.615850e-47 |
| Msa0588140 | Msa1166400 | 0.804400 | 2.199662e-49 | -8.615850e-47 |
| Msa0588140 | Msa1193290 | 0.810829 | 9.488790e-51 | -8.615850e-47 |
| Msa0588140 | Msa1207270 | 0.810927 | 9.035199e-51 | -8.615850e-47 |
| Msa0588140 | Msa1218550 | 0.806016 | 1.009489e-49 | -8.615850e-47 |
| Msa0588140 | Msa1218600 | 0.819883 | 9.193705e-53 | -8.615850e-47 |
| Msa0588140 | Msa1221060 | 0.810127 | 1.344942e-50 | -8.615850e-47 |
| Msa0588140 | Msa1251160 | 0.840552 | 8.120449e-58 | -8.615850e-47 |
| Msa0588140 | Msa1303240 | 0.815735 | 7.938065e-52 | -8.615850e-47 |
| Msa0588140 | Msa1303250 | 0.833531 | 5.056691e-56 | -8.615850e-47 |
| Msa0588140 | Msa1346370 | 0.807587 | 4.698781e-50 | -8.615850e-47 |
| Msa0588140 | Msa1361400 | 0.805156 | 1.529048e-49 | -8.615850e-47 |
| Msa0588140 | Msa1361410 | 0.809393 | 1.934754e-50 | -8.615850e-47 |
| Msa0588140 | Msa1374550 | 0.819122 | 1.370939e-52 | -8.615850e-47 |
| Msa0588140 | Msa1430240 | 0.812473 | 4.165144e-51 | -8.615850e-47 |
| Msa0588140 | Msa1436570 | 0.801361 | 9.336823e-49 | -8.615850e-47 |
| Msa0588140 | Msa1451160 | 0.808784 | 2.612843e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0588140 | MtrunA17_Chr4g0004361 | 96.721 | 122 | 4 | 0 | 1 | 122 | 8 | 129 | 6.04e-85 | 243 |
| Msa0588140 | MtrunA17_Chr4g0004431 | 75.806 | 124 | 28 | 2 | 1 | 122 | 8 | 131 | 4.67e-53 | 163 |
| Msa0588140 | MtrunA17_Chr4g0004411 | 65.854 | 123 | 39 | 3 | 1 | 122 | 11 | 131 | 1.38e-52 | 162 |
| Msa0588140 | MtrunA17_Chr4g0004371 | 74.797 | 123 | 30 | 1 | 1 | 122 | 23 | 145 | 7.43e-51 | 157 |
| Msa0588140 | MtrunA17_Chr4g0004381 | 72.072 | 111 | 29 | 2 | 1 | 110 | 11 | 120 | 3.48e-50 | 155 |
| Msa0588140 | MtrunA17_Chr4g0004441 | 72.034 | 118 | 31 | 2 | 1 | 116 | 11 | 128 | 6.60e-47 | 147 |
| Msa0588140 | MtrunA17_Chr4g0004401 | 71.250 | 80 | 23 | 0 | 1 | 80 | 23 | 102 | 3.90e-32 | 109 |
| Msa0588140 | MtrunA17_Chr4g0004421 | 52.128 | 94 | 37 | 3 | 35 | 122 | 1 | 92 | 9.95e-12 | 57.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 12 sgRNAs with CRISPR-Local
Find 17 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATGATCTTGAAACATTATC+AGG | 0.342182 | 4_2:+10336305 | None:intergenic |
| AATTCATTGACACATACAAT+AGG | 0.384648 | 4_2:+10336479 | None:intergenic |
| TACTTACAAAATTTCGATGA+TGG | 0.419906 | 4_2:-10336341 | Msa0588140:CDS |
| TAGCAAGCTTGAAATCTTTG+TGG | 0.460073 | 4_2:-10336439 | Msa0588140:CDS |
| ATTCATTGACACATACAATA+GGG | 0.488536 | 4_2:+10336480 | None:intergenic |
| GAAGAAATATTTGAGATGAA+TGG | 0.578432 | 4_2:-10336221 | Msa0588140:CDS |
| TTGTCAAGTTATGAGAGACT+TGG | 0.579166 | 4_2:-10336509 | Msa0588140:CDS |
| TGAAACATTATCAGGATCAG+TGG | 0.593398 | 4_2:+10336313 | None:intergenic |
| CAAGCTTGAAATCTTTGTGG+AGG | 0.605933 | 4_2:-10336436 | Msa0588140:CDS |
| GGACGGTGCTGCGAATCGAG+CGG | 0.615500 | 4_2:+10336280 | None:intergenic |
| TTCGGATCATATATAAACAC+AGG | 0.624759 | 4_2:+10336368 | None:intergenic |
| CATAACTTGACAAAATGCTG+TGG | 0.627732 | 4_2:+10336519 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATATTTTTCTCAAAAATTT+TGG | + | chr4_2:10336512-10336531 | None:intergenic | 10.0% |
| !!! | AAATTTTGTAAGTAAGAGTT+CGG | + | chr4_2:10336421-10336440 | None:intergenic | 20.0% |
| !!! | TTTTTCTCAAAAATTTTGGA+CGG | + | chr4_2:10336508-10336527 | None:intergenic | 20.0% |
| ! | ATTCATTGACACATACAATA+GGG | + | chr4_2:10336291-10336310 | None:intergenic | 25.0% |
| ! | AATTCATTGACACATACAAT+AGG | + | chr4_2:10336292-10336311 | None:intergenic | 25.0% |
| ! | TACTTACAAAATTTCGATGA+TGG | - | chr4_2:10336427-10336446 | Msa0588140:CDS | 25.0% |
| ! | AATGATCTTGAAACATTATC+AGG | + | chr4_2:10336466-10336485 | None:intergenic | 25.0% |
| ! | TGAGAAAAATATTGAAGTGA+TGG | - | chr4_2:10336519-10336538 | Msa0588140:CDS | 25.0% |
| !! | GAAGAAATATTTGAGATGAA+TGG | - | chr4_2:10336547-10336566 | Msa0588140:CDS | 25.0% |
| AGATCAAGAGAGAAAAAAAG+AGG | - | chr4_2:10336356-10336375 | Msa0588140:CDS | 30.0% | |
| TTCGGATCATATATAAACAC+AGG | + | chr4_2:10336403-10336422 | None:intergenic | 30.0% | |
| CATAACTTGACAAAATGCTG+TGG | + | chr4_2:10336252-10336271 | None:intergenic | 35.0% | |
| TTGTCAAGTTATGAGAGACT+TGG | - | chr4_2:10336259-10336278 | Msa0588140:CDS | 35.0% | |
| TAGCAAGCTTGAAATCTTTG+TGG | - | chr4_2:10336329-10336348 | Msa0588140:CDS | 35.0% | |
| TGAAACATTATCAGGATCAG+TGG | + | chr4_2:10336458-10336477 | None:intergenic | 35.0% | |
| CAAGCTTGAAATCTTTGTGG+AGG | - | chr4_2:10336332-10336351 | Msa0588140:CDS | 40.0% | |
| !! | GGACGGTGCTGCGAATCGAG+CGG | + | chr4_2:10336491-10336510 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 10336211 | 10336579 | 10336211 | ID=Msa0588140;Name=Msa0588140 |
| chr4_2 | mRNA | 10336211 | 10336579 | 10336211 | ID=Msa0588140-mRNA-1;Parent=Msa0588140;Name=Msa0588140-mRNA-1;_AED=0.41;_eAED=0.41;_QI=0|-1|0|1|-1|1|1|0|122 |
| chr4_2 | exon | 10336211 | 10336579 | 10336211 | ID=Msa0588140-mRNA-1:exon:2930;Parent=Msa0588140-mRNA-1 |
| chr4_2 | CDS | 10336211 | 10336579 | 10336211 | ID=Msa0588140-mRNA-1:cds;Parent=Msa0588140-mRNA-1 |
| Gene Sequence |
| Protein sequence |
