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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1040340 | ABD32861.1 | 86.047 | 172 | 13 | 4 | 1 | 163 | 1 | 170 | 1.07e-78 | 241 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1040340 | Q2HUY8 | 86.047 | 172 | 13 | 4 | 1 | 163 | 1 | 170 | 5.11e-79 | 241 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0045550 | Msa1040340 | 0.803453 | 3.461446e-49 | -8.615850e-47 |
| Msa0698440 | Msa1040340 | 0.825315 | 5.012274e-54 | -8.615850e-47 |
| Msa0193540 | Msa1040340 | 0.824030 | 1.006389e-53 | -8.615850e-47 |
| Msa0226180 | Msa1040340 | 0.804404 | 2.195217e-49 | -8.615850e-47 |
| Msa0235470 | Msa1040340 | 0.816999 | 4.138631e-52 | -8.615850e-47 |
| Msa0422180 | Msa1040340 | 0.826294 | 2.936007e-54 | -8.615850e-47 |
| Msa0481280 | Msa1040340 | 0.801058 | 1.076849e-48 | -8.615850e-47 |
| Msa1008750 | Msa1040340 | 0.801042 | 1.084859e-48 | -8.615850e-47 |
| Msa1040340 | Msa1050740 | 0.811644 | 6.315887e-51 | -8.615850e-47 |
| Msa1040340 | Msa1098250 | 0.832468 | 9.292064e-56 | -8.615850e-47 |
| Msa1040340 | Msa1098270 | 0.834361 | 3.133576e-56 | -8.615850e-47 |
| Msa1040340 | Msa1130530 | 0.810056 | 1.393533e-50 | -8.615850e-47 |
| Msa1040340 | Msa1143020 | 0.826934 | 2.065170e-54 | -8.615850e-47 |
| Msa1040340 | Msa1144040 | 0.804885 | 1.742576e-49 | -8.615850e-47 |
| Msa1040340 | Msa1263290 | -0.817022 | 4.089891e-52 | -8.615850e-47 |
| Msa1040340 | Msa1270660 | 0.808794 | 2.599799e-50 | -8.615850e-47 |
| Msa1040340 | Msa1270730 | 0.803263 | 3.789644e-49 | -8.615850e-47 |
| Msa1040340 | Msa1332050 | 0.806262 | 8.959116e-50 | -8.615850e-47 |
| Msa1040340 | Msa1352540 | -0.813774 | 2.158627e-51 | -8.615850e-47 |
| Msa1040340 | Msa1426570 | 0.813249 | 2.816354e-51 | -8.615850e-47 |
| Msa0274630 | Msa1040340 | 0.809238 | 2.088292e-50 | -8.615850e-47 |
| Msa0296980 | Msa1040340 | -0.816784 | 4.626955e-52 | -8.615850e-47 |
| Msa0314060 | Msa1040340 | 0.816874 | 4.415151e-52 | -8.615850e-47 |
| Msa0571780 | Msa1040340 | 0.804098 | 2.542940e-49 | -8.615850e-47 |
| Msa0847880 | Msa1040340 | 0.809191 | 2.137869e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1040340 | MtrunA17_Chr7g0271201 | 86.408 | 103 | 10 | 3 | 1 | 101 | 1 | 101 | 8.05e-37 | 124 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 26 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACCGTACAAAATTTGATTT+TGG | 0.148787 | 7_1:-77695324 | Msa1040340:CDS |
| AATATGTGGATTGCATTCTT+TGG | 0.251961 | 7_1:+77694990 | None:intergenic |
| AACTTTACGAATTTGATTCT+TGG | 0.278934 | 7_1:+77695269 | None:intergenic |
| CAATCCACATATTGAATCAT+TGG | 0.351585 | 7_1:-77694980 | Msa1040340:CDS |
| ACTACTGCTCGAAATGGATT+TGG | 0.361001 | 7_1:-77695120 | Msa1040340:CDS |
| CACTACTAGGTGACCCATTA+GGG | 0.368316 | 7_1:+77695058 | None:intergenic |
| TCACTACTAGGTGACCCATT+AGG | 0.381962 | 7_1:+77695057 | None:intergenic |
| CACCGTCACTACCTCCTCTT+TGG | 0.383526 | 7_1:+77695397 | None:intergenic |
| AATGTATTGGAAAACCCTAA+TGG | 0.409235 | 7_1:-77695072 | Msa1040340:CDS |
| AATAGTACTACTGCTCGAAA+TGG | 0.417979 | 7_1:-77695126 | Msa1040340:CDS |
| TCAACCAATGATTCAATATG+TGG | 0.425060 | 7_1:+77694976 | None:intergenic |
| ATGTATTGGAAAACCCTAAT+GGG | 0.448914 | 7_1:-77695071 | Msa1040340:CDS |
| GGATCATTAGGGTCACTACT+AGG | 0.487924 | 7_1:+77695045 | None:intergenic |
| TCTTTGGTAACCGTTTCGAT+TGG | 0.500194 | 7_1:+77695413 | None:intergenic |
| GGTAAGGTGGTGATTATTCA+AGG | 0.506037 | 7_1:-77695159 | Msa1040340:CDS |
| GGTGGTGATTATTCAAGGTG+AGG | 0.564226 | 7_1:-77695154 | Msa1040340:CDS |
| GTGGTGATTATTCAAGGTGA+GGG | 0.564991 | 7_1:-77695153 | Msa1040340:CDS |
| GAAGAGATCTCCAATCGAAA+CGG | 0.567195 | 7_1:-77695423 | Msa1040340:CDS |
| AAATGTCAGTAGCAGAGGTA+AGG | 0.573413 | 7_1:-77695175 | Msa1040340:CDS |
| AATGTAAATGTCAGTAGCAG+AGG | 0.601557 | 7_1:-77695180 | Msa1040340:CDS |
| AATCGAAACGGTTACCAAAG+AGG | 0.604417 | 7_1:-77695411 | Msa1040340:CDS |
| AAGACGAAGAAGATGCAACT+CGG | 0.617969 | 7_1:-77695365 | Msa1040340:CDS |
| TGTCAGTAGCAGAGGTAAGG+TGG | 0.619373 | 7_1:-77695172 | Msa1040340:CDS |
| TACCAAAGAGGAGGTAGTGA+CGG | 0.624361 | 7_1:-77695399 | Msa1040340:CDS |
| TGCTGTTGTTGATGATGACG+AGG | 0.641934 | 7_1:+77695221 | None:intergenic |
| CGAAACGGTTACCAAAGAGG+AGG | 0.685843 | 7_1:-77695408 | Msa1040340:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATAAAAATTTAGGATCATTA+GGG | + | chr7_1:77695382-77695401 | None:intergenic | 15.0% |
| !!! | AATAAAAATTTAGGATCATT+AGG | + | chr7_1:77695383-77695402 | None:intergenic | 15.0% |
| !! | TTCTTCTCTAATAAAAATTT+AGG | + | chr7_1:77695392-77695411 | None:intergenic | 15.0% |
| !!! | TTCCAAAATCAAATTTTGTA+CGG | + | chr7_1:77695094-77695113 | None:intergenic | 20.0% |
| !!! | CAAAATTTGATTTTGGAAAA+AGG | - | chr7_1:77695096-77695115 | Msa1040340:CDS | 20.0% |
| !!! | AACCGTACAAAATTTGATTT+TGG | - | chr7_1:77695089-77695108 | Msa1040340:CDS | 25.0% |
| ! | AACTTTACGAATTTGATTCT+TGG | + | chr7_1:77695147-77695166 | None:intergenic | 25.0% |
| ! | TTTACATTCCTAGAAAAAGA+CGG | + | chr7_1:77695221-77695240 | None:intergenic | 25.0% |
| ! | TTAGGGTTTTCCAATACATT+GGG | + | chr7_1:77695341-77695360 | None:intergenic | 30.0% |
| ! | ATTAGGGTTTTCCAATACAT+TGG | + | chr7_1:77695342-77695361 | None:intergenic | 30.0% |
| AATGTATTGGAAAACCCTAA+TGG | - | chr7_1:77695341-77695360 | Msa1040340:CDS | 30.0% | |
| ATGTATTGGAAAACCCTAAT+GGG | - | chr7_1:77695342-77695361 | Msa1040340:CDS | 30.0% | |
| ! | AATATGTGGATTGCATTCTT+TGG | + | chr7_1:77695426-77695445 | None:intergenic | 30.0% |
| CAATCCACATATTGAATCAT+TGG | - | chr7_1:77695433-77695452 | Msa1040340:CDS | 30.0% | |
| TCAACCAATGATTCAATATG+TGG | + | chr7_1:77695440-77695459 | None:intergenic | 30.0% | |
| AATGTAAATGTCAGTAGCAG+AGG | - | chr7_1:77695233-77695252 | Msa1040340:CDS | 35.0% | |
| AATAGTACTACTGCTCGAAA+TGG | - | chr7_1:77695287-77695306 | Msa1040340:CDS | 35.0% | |
| GAAGAGATCTCCAATCGAAA+CGG | - | chr7_1:77694990-77695009 | Msa1040340:CDS | 40.0% | |
| ! | TCTTTGGTAACCGTTTCGAT+TGG | + | chr7_1:77695003-77695022 | None:intergenic | 40.0% |
| AATCGAAACGGTTACCAAAG+AGG | - | chr7_1:77695002-77695021 | Msa1040340:CDS | 40.0% | |
| AAGACGAAGAAGATGCAACT+CGG | - | chr7_1:77695048-77695067 | Msa1040340:CDS | 40.0% | |
| AAATGTCAGTAGCAGAGGTA+AGG | - | chr7_1:77695238-77695257 | Msa1040340:CDS | 40.0% | |
| GGTAAGGTGGTGATTATTCA+AGG | - | chr7_1:77695254-77695273 | Msa1040340:CDS | 40.0% | |
| GTGGTGATTATTCAAGGTGA+GGG | - | chr7_1:77695260-77695279 | Msa1040340:CDS | 40.0% | |
| ! | ACTACTGCTCGAAATGGATT+TGG | - | chr7_1:77695293-77695312 | Msa1040340:CDS | 40.0% |
| ! | TTTTTCGCGTCCCAATGTAT+TGG | - | chr7_1:77695328-77695347 | Msa1040340:CDS | 40.0% |
| TACCAAAGAGGAGGTAGTGA+CGG | - | chr7_1:77695014-77695033 | Msa1040340:CDS | 45.0% | |
| !! | TGCTGTTGTTGATGATGACG+AGG | + | chr7_1:77695195-77695214 | None:intergenic | 45.0% |
| ! | CAGCAACACCGTCTTTTTCT+AGG | - | chr7_1:77695210-77695229 | Msa1040340:CDS | 45.0% |
| GGTGGTGATTATTCAAGGTG+AGG | - | chr7_1:77695259-77695278 | Msa1040340:CDS | 45.0% | |
| CACTACTAGGTGACCCATTA+GGG | + | chr7_1:77695358-77695377 | None:intergenic | 45.0% | |
| TCACTACTAGGTGACCCATT+AGG | + | chr7_1:77695359-77695378 | None:intergenic | 45.0% | |
| GGATCATTAGGGTCACTACT+AGG | + | chr7_1:77695371-77695390 | None:intergenic | 45.0% | |
| CGAAACGGTTACCAAAGAGG+AGG | - | chr7_1:77695005-77695024 | Msa1040340:CDS | 50.0% | |
| TGTCAGTAGCAGAGGTAAGG+TGG | - | chr7_1:77695241-77695260 | Msa1040340:CDS | 50.0% | |
| CACCGTCACTACCTCCTCTT+TGG | + | chr7_1:77695019-77695038 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_1 | gene | 77694972 | 77695463 | 77694972 | ID=Msa1040340;Name=Msa1040340 |
| chr7_1 | mRNA | 77694972 | 77695463 | 77694972 | ID=Msa1040340-mRNA-1;Parent=Msa1040340;Name=Msa1040340-mRNA-1;_AED=0.09;_eAED=0.09;_QI=0|-1|0|1|-1|1|1|0|163 |
| chr7_1 | exon | 77694972 | 77695463 | 77694972 | ID=Msa1040340-mRNA-1:exon:20568;Parent=Msa1040340-mRNA-1 |
| chr7_1 | CDS | 77694972 | 77695463 | 77694972 | ID=Msa1040340-mRNA-1:cds;Parent=Msa1040340-mRNA-1 |
| Gene Sequence |
| Protein sequence |
