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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0487710 | XP_003598034.1 | 95.333 | 150 | 7 | 0 | 1 | 150 | 1 | 150 | 4.87e-86 | 258 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0487710 | sp|P56331|IF1A_ONOVI | 80.795 | 151 | 22 | 3 | 1 | 150 | 1 | 145 | 4.84e-78 | 231 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0487710 | G7IYF3 | 95.333 | 150 | 7 | 0 | 1 | 150 | 1 | 150 | 2.33e-86 | 258 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0015090 | Msa0487710 | 0.803184 | 3.935416e-49 | -8.615850e-47 |
| Msa0043980 | Msa0487710 | 0.809502 | 1.833543e-50 | -8.615850e-47 |
| Msa0049750 | Msa0487710 | 0.805196 | 1.500448e-49 | -8.615850e-47 |
| Msa0051210 | Msa0487710 | 0.804055 | 2.595393e-49 | -8.615850e-47 |
| Msa0051450 | Msa0487710 | 0.806397 | 8.392265e-50 | -8.615850e-47 |
| Msa0101830 | Msa0487710 | 0.804904 | 1.726501e-49 | -8.615850e-47 |
| Msa0138020 | Msa0487710 | 0.808290 | 3.330037e-50 | -8.615850e-47 |
| Msa0153830 | Msa0487710 | 0.801811 | 7.550800e-49 | -8.615850e-47 |
| Msa0160960 | Msa0487710 | 0.806376 | 8.478262e-50 | -8.615850e-47 |
| Msa0196670 | Msa0487710 | 0.805323 | 1.411104e-49 | -8.615850e-47 |
| Msa0206010 | Msa0487710 | 0.804407 | 2.192687e-49 | -8.615850e-47 |
| Msa0376910 | Msa0487710 | 0.828405 | 9.156591e-55 | -8.615850e-47 |
| Msa0392280 | Msa0487710 | 0.942939 | 2.945552e-102 | -8.615850e-47 |
| Msa0401560 | Msa0487710 | 0.813185 | 2.909580e-51 | -8.615850e-47 |
| Msa0438040 | Msa0487710 | 0.804440 | 2.158432e-49 | -8.615850e-47 |
| Msa0471900 | Msa0487710 | 0.829840 | 4.108651e-55 | -8.615850e-47 |
| Msa0270960 | Msa0487710 | 0.804538 | 2.058805e-49 | -8.615850e-47 |
| Msa0319170 | Msa0487710 | 0.810272 | 1.251569e-50 | -8.615850e-47 |
| Msa0326110 | Msa0487710 | 0.801867 | 7.351332e-49 | -8.615850e-47 |
| Msa0346890 | Msa0487710 | 0.953038 | 6.593731e-111 | -8.615850e-47 |
| Msa0487710 | Msa0545050 | 0.801765 | 7.716055e-49 | -8.615850e-47 |
| Msa0487710 | Msa0808100 | 0.801430 | 9.036749e-49 | -8.615850e-47 |
| Msa0487710 | Msa0820850 | 0.803644 | 3.159168e-49 | -8.615850e-47 |
| Msa0487710 | Msa0861130 | 0.805523 | 1.281157e-49 | -8.615850e-47 |
| Msa0487710 | Msa0871430 | 0.801907 | 7.213017e-49 | -8.615850e-47 |
| Msa0487710 | Msa0994370 | 0.800225 | 1.592294e-48 | -8.615850e-47 |
| Msa0487710 | Msa1008400 | 0.822702 | 2.056124e-53 | -8.615850e-47 |
| Msa0487710 | Msa1013070 | 0.815179 | 1.055615e-51 | -8.615850e-47 |
| Msa0487710 | Msa1089460 | 0.801184 | 1.014872e-48 | -8.615850e-47 |
| Msa0487710 | Msa1094280 | 0.820853 | 5.505767e-53 | -8.615850e-47 |
| Msa0487710 | Msa1107260 | 0.801863 | 7.367219e-49 | -8.615850e-47 |
| Msa0487710 | Msa1122150 | 0.805054 | 1.606509e-49 | -8.615850e-47 |
| Msa0487710 | Msa1150900 | 0.807519 | 4.857455e-50 | -8.615850e-47 |
| Msa0487710 | Msa1270660 | 0.828162 | 1.047730e-54 | -8.615850e-47 |
| Msa0487710 | Msa1270730 | 0.841025 | 6.102098e-58 | -8.615850e-47 |
| Msa0487710 | Msa1295930 | 0.802579 | 5.247774e-49 | -8.615850e-47 |
| Msa0487710 | Msa1323290 | 0.804693 | 1.911278e-49 | -8.615850e-47 |
| Msa0487710 | Msa1335230 | 0.836254 | 1.042385e-56 | -8.615850e-47 |
| Msa0487710 | Msa1377080 | 0.805844 | 1.097064e-49 | -8.615850e-47 |
| Msa0487710 | Msa1397120 | 0.819771 | 9.749630e-53 | -8.615850e-47 |
| Msa0487710 | Msa1403890 | 0.829591 | 4.726296e-55 | -8.615850e-47 |
| Msa0487710 | Msa1407600 | 0.803599 | 3.227984e-49 | -8.615850e-47 |
| Msa0487710 | Msa1419840 | 0.800269 | 1.560190e-48 | -8.615850e-47 |
| Msa0487710 | Msa1423820 | 0.826600 | 2.481903e-54 | -8.615850e-47 |
| Msa0487710 | Msa1428780 | 0.810087 | 1.371964e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0487710 | MtrunA17_Chr3g0077491 | 95.333 | 150 | 7 | 0 | 1 | 150 | 1 | 150 | 4.48e-90 | 258 |
| Msa0487710 | MtrunA17_Chr8g0347791 | 84.000 | 150 | 20 | 1 | 1 | 150 | 1 | 146 | 1.39e-74 | 219 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0487710 | AT2G04520.1 | 82.000 | 150 | 22 | 2 | 1 | 150 | 1 | 145 | 3.70e-77 | 226 |
| Msa0487710 | AT5G35680.1 | 80.000 | 150 | 25 | 2 | 1 | 150 | 1 | 145 | 2.86e-71 | 211 |
| Msa0487710 | AT5G35680.2 | 80.000 | 150 | 25 | 2 | 1 | 150 | 1 | 145 | 2.86e-71 | 211 |
| Msa0487710 | AT5G35680.3 | 86.179 | 123 | 13 | 1 | 1 | 123 | 1 | 119 | 1.65e-69 | 207 |
Find 35 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTTGGATTACGTGATTATC+AGG | 0.304283 | 3_4:-6836206 | Msa0487710:CDS |
| ACGAGCTTCCGGAATCTATT+AGG | 0.305997 | 3_4:-6836120 | Msa0487710:CDS |
| AACGGAGATATCATTCTTGT+TGG | 0.394753 | 3_4:-6836223 | Msa0487710:CDS |
| GAAGGCTTATGACGAGCTTC+CGG | 0.397993 | 3_4:-6836131 | Msa0487710:CDS |
| TTGAGGATGAGGATATTGAT+AGG | 0.400368 | 3_4:-6836027 | Msa0487710:CDS |
| GTAAGATGCATAAGAAGGTT+TGG | 0.408295 | 3_4:-6836252 | Msa0487710:CDS |
| AGGCTTAATGAAGGGATTGC+TGG | 0.437830 | 3_4:-6836100 | Msa0487710:CDS |
| GCGTCCGTTTCCGAGCATAT+TGG | 0.444772 | 3_4:+6836336 | None:intergenic |
| TCATTAAGCCTAATAGATTC+CGG | 0.444954 | 3_4:+6836112 | None:intergenic |
| TTCAACAATCTCGCCTCATC+CGG | 0.480596 | 3_4:+6836151 | None:intergenic |
| ATGCCGAAGAACAAGGGAAA+AGG | 0.492369 | 3_4:-6836451 | Msa0487710:CDS |
| GCTCGGAAACGGACGCTTGG+AGG | 0.497540 | 3_4:-6836329 | Msa0487710:CDS |
| TGAAGGGATTGCTGGTGGGA+TGG | 0.507121 | 3_4:-6836092 | Msa0487710:CDS |
| ACGTGATTATCAGGATGATA+AGG | 0.510200 | 3_4:-6836197 | Msa0487710:CDS |
| TATGCTCGGAAACGGACGCT+TGG | 0.513890 | 3_4:-6836332 | Msa0487710:CDS |
| GGATGAGGCGAGATTGTTGA+AGG | 0.519335 | 3_4:-6836149 | Msa0487710:CDS |
| GAATCTATTAGGCTTAATGA+AGG | 0.530788 | 3_4:-6836109 | Msa0487710:CDS |
| ATCAACCATGCCGAAGAACA+AGG | 0.554015 | 3_4:-6836458 | None:intergenic |
| ATTGAAATATATGCCGGATG+AGG | 0.555641 | 3_4:-6836164 | Msa0487710:CDS |
| GTAACCAATATGCTCGGAAA+CGG | 0.559215 | 3_4:-6836340 | Msa0487710:CDS |
| CCGCGGTAAGATGCATAAGA+AGG | 0.576217 | 3_4:-6836257 | Msa0487710:CDS |
| AAGAAGGTTTGGATTGCTAA+CGG | 0.592201 | 3_4:-6836241 | Msa0487710:CDS |
| CCGAAGAACAAGGGAAAAGG+AGG | 0.596700 | 3_4:-6836448 | Msa0487710:CDS |
| CTTAATGAAGGGATTGCTGG+TGG | 0.602290 | 3_4:-6836097 | Msa0487710:CDS |
| AATCTATTAGGCTTAATGAA+GGG | 0.608999 | 3_4:-6836108 | Msa0487710:CDS |
| ATGGATGATCATGATGATGA+TGG | 0.612732 | 3_4:-6836073 | Msa0487710:CDS |
| TGTCATATTGAAATATATGC+CGG | 0.619355 | 3_4:-6836170 | Msa0487710:CDS |
| TCAACCATGCCGAAGAACAA+GGG | 0.623500 | 3_4:-6836457 | None:intergenic |
| GGAGGAAAGAATCGAAAGCG+AGG | 0.627611 | 3_4:-6836430 | Msa0487710:CDS |
| CCTTCTTATGCATCTTACCG+CGG | 0.648150 | 3_4:+6836257 | None:intergenic |
| GAACTCATCTTCAAAGAAGA+CGG | 0.648957 | 3_4:-6836379 | Msa0487710:CDS |
| GCACAGGTAACCAATATGCT+CGG | 0.649194 | 3_4:-6836346 | Msa0487710:CDS |
| TTAATGAAGGGATTGCTGGT+GGG | 0.657015 | 3_4:-6836096 | Msa0487710:CDS |
| AGACGGTCAAGAATACGCAC+AGG | 0.669279 | 3_4:-6836362 | Msa0487710:CDS |
| AAACGTCTCTGTCATATCCG+CGG | 0.693679 | 3_4:-6836274 | Msa0487710:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TAATGATTATGTTCATTTTG+AGG | - | chr3_4:6836428-6836447 | Msa0487710:CDS | 20.0% |
| ! | TGTCATATTGAAATATATGC+CGG | - | chr3_4:6836302-6836321 | Msa0487710:CDS | 25.0% |
| ! | AATCTATTAGGCTTAATGAA+GGG | - | chr3_4:6836364-6836383 | Msa0487710:CDS | 25.0% |
| TCATTAAGCCTAATAGATTC+CGG | + | chr3_4:6836363-6836382 | None:intergenic | 30.0% | |
| GAATCTATTAGGCTTAATGA+AGG | - | chr3_4:6836363-6836382 | Msa0487710:CDS | 30.0% | |
| !! | TTATGTTCATTTTGAGGATG+AGG | - | chr3_4:6836434-6836453 | Msa0487710:CDS | 30.0% |
| GAACTCATCTTCAAAGAAGA+CGG | - | chr3_4:6836093-6836112 | Msa0487710:CDS | 35.0% | |
| GTAAGATGCATAAGAAGGTT+TGG | - | chr3_4:6836220-6836239 | Msa0487710:CDS | 35.0% | |
| AAGAAGGTTTGGATTGCTAA+CGG | - | chr3_4:6836231-6836250 | Msa0487710:CDS | 35.0% | |
| AACGGAGATATCATTCTTGT+TGG | - | chr3_4:6836249-6836268 | Msa0487710:CDS | 35.0% | |
| TGTTGGATTACGTGATTATC+AGG | - | chr3_4:6836266-6836285 | Msa0487710:CDS | 35.0% | |
| ACGTGATTATCAGGATGATA+AGG | - | chr3_4:6836275-6836294 | Msa0487710:CDS | 35.0% | |
| ATTGAAATATATGCCGGATG+AGG | - | chr3_4:6836308-6836327 | Msa0487710:CDS | 35.0% | |
| ! | ATGGATGATCATGATGATGA+TGG | - | chr3_4:6836399-6836418 | Msa0487710:CDS | 35.0% |
| TTGAGGATGAGGATATTGAT+AGG | - | chr3_4:6836445-6836464 | Msa0487710:CDS | 35.0% | |
| GTAACCAATATGCTCGGAAA+CGG | - | chr3_4:6836132-6836151 | Msa0487710:CDS | 40.0% | |
| TTAATGAAGGGATTGCTGGT+GGG | - | chr3_4:6836376-6836395 | Msa0487710:CDS | 40.0% | |
| ATGCCGAAGAACAAGGGAAA+AGG | - | chr3_4:6836021-6836040 | Msa0487710:CDS | 45.0% | |
| ! | CCTCCTTTTCCCTTGTTCTT+CGG | + | chr3_4:6836027-6836046 | None:intergenic | 45.0% |
| GCACAGGTAACCAATATGCT+CGG | - | chr3_4:6836126-6836145 | Msa0487710:CDS | 45.0% | |
| AAACGTCTCTGTCATATCCG+CGG | - | chr3_4:6836198-6836217 | Msa0487710:CDS | 45.0% | |
| CCTTCTTATGCATCTTACCG+CGG | + | chr3_4:6836218-6836237 | None:intergenic | 45.0% | |
| TTCAACAATCTCGCCTCATC+CGG | + | chr3_4:6836324-6836343 | None:intergenic | 45.0% | |
| ACGAGCTTCCGGAATCTATT+AGG | - | chr3_4:6836352-6836371 | Msa0487710:CDS | 45.0% | |
| AGGCTTAATGAAGGGATTGC+TGG | - | chr3_4:6836372-6836391 | Msa0487710:CDS | 45.0% | |
| CTTAATGAAGGGATTGCTGG+TGG | - | chr3_4:6836375-6836394 | Msa0487710:CDS | 45.0% | |
| CCGAAGAACAAGGGAAAAGG+AGG | - | chr3_4:6836024-6836043 | Msa0487710:CDS | 50.0% | |
| GGAGGAAAGAATCGAAAGCG+AGG | - | chr3_4:6836042-6836061 | Msa0487710:CDS | 50.0% | |
| AGACGGTCAAGAATACGCAC+AGG | - | chr3_4:6836110-6836129 | Msa0487710:CDS | 50.0% | |
| CCGCGGTAAGATGCATAAGA+AGG | - | chr3_4:6836215-6836234 | Msa0487710:CDS | 50.0% | |
| GGATGAGGCGAGATTGTTGA+AGG | - | chr3_4:6836323-6836342 | Msa0487710:CDS | 50.0% | |
| GAAGGCTTATGACGAGCTTC+CGG | - | chr3_4:6836341-6836360 | Msa0487710:CDS | 50.0% | |
| GCGTCCGTTTCCGAGCATAT+TGG | + | chr3_4:6836139-6836158 | None:intergenic | 55.0% | |
| TATGCTCGGAAACGGACGCT+TGG | - | chr3_4:6836140-6836159 | Msa0487710:CDS | 55.0% | |
| TGAAGGGATTGCTGGTGGGA+TGG | - | chr3_4:6836380-6836399 | Msa0487710:CDS | 55.0% | |
| GCTCGGAAACGGACGCTTGG+AGG | - | chr3_4:6836143-6836162 | Msa0487710:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 6836021 | 6836473 | 6836021 | ID=Msa0487710;Name=Msa0487710 |
| chr3_4 | mRNA | 6836021 | 6836473 | 6836021 | ID=Msa0487710-mRNA-1;Parent=Msa0487710;Name=Msa0487710-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|150 |
| chr3_4 | exon | 6836021 | 6836473 | 6836021 | ID=Msa0487710-mRNA-1:exon:2374;Parent=Msa0487710-mRNA-1 |
| chr3_4 | CDS | 6836021 | 6836473 | 6836021 | ID=Msa0487710-mRNA-1:cds;Parent=Msa0487710-mRNA-1 |
| Gene Sequence |
| Protein sequence |
