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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1347360 | KEH18048.1 | 74.324 | 74 | 18 | 1 | 1 | 73 | 1 | 74 | 6.34e-29 | 108 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1347360 | sp|P93331|NOD1_MEDTR | 44.595 | 74 | 39 | 2 | 1 | 73 | 1 | 73 | 4.42e-12 | 58.5 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1347360 | A0A072TMH1 | 74.324 | 74 | 18 | 1 | 1 | 73 | 1 | 74 | 3.03e-29 | 108 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0023610 | Msa1347360 | 0.828027 | 1.129573e-54 | -8.615850e-47 |
| Msa0071340 | Msa1347360 | 0.813071 | 3.081036e-51 | -8.615850e-47 |
| Msa1347360 | Msa1359820 | 0.838580 | 2.642751e-57 | -8.615850e-47 |
| Msa1347360 | Msa1463140 | 0.836458 | 9.249185e-57 | -8.615850e-47 |
| Msa0627410 | Msa1347360 | 0.803227 | 3.855032e-49 | -8.615850e-47 |
| Msa0675510 | Msa1347360 | 0.820031 | 8.503063e-53 | -8.615850e-47 |
| Msa0153200 | Msa1347360 | 0.852989 | 3.213808e-61 | -8.615850e-47 |
| Msa0162580 | Msa1347360 | 0.815508 | 8.919869e-52 | -8.615850e-47 |
| Msa0211680 | Msa1347360 | 0.820605 | 6.278630e-53 | -8.615850e-47 |
| Msa1288000 | Msa1347360 | 0.808284 | 3.339816e-50 | -8.615850e-47 |
| Msa1310530 | Msa1347360 | 0.940662 | 1.588439e-100 | -8.615850e-47 |
| Msa0456200 | Msa1347360 | 0.804530 | 2.066637e-49 | -8.615850e-47 |
| Msa0999340 | Msa1347360 | 0.838543 | 2.701632e-57 | -8.615850e-47 |
| Msa0999390 | Msa1347360 | 0.814763 | 1.305312e-51 | -8.615850e-47 |
| Msa1006250 | Msa1347360 | 0.834701 | 2.574677e-56 | -8.615850e-47 |
| Msa0291600 | Msa1347360 | 0.804417 | 2.181584e-49 | -8.615850e-47 |
| Msa0352000 | Msa1347360 | 0.800029 | 1.745796e-48 | -8.615850e-47 |
| Msa0353690 | Msa1347360 | 0.809196 | 2.132239e-50 | -8.615850e-47 |
| Msa1131820 | Msa1347360 | 0.801831 | 7.480020e-49 | -8.615850e-47 |
| Msa1182730 | Msa1347360 | 0.988213 | 3.806852e-173 | -8.615850e-47 |
| Msa0533430 | Msa1347360 | 0.807490 | 4.927722e-50 | -8.615850e-47 |
| Msa0884920 | Msa1347360 | 0.839828 | 1.254152e-57 | -8.615850e-47 |
| Msa0912500 | Msa1347360 | 0.811223 | 7.795623e-51 | -8.615850e-47 |
| Msa0965750 | Msa1347360 | 0.806526 | 7.880535e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1347360 | MtrunA17_Chr8g0337731 | 74.324 | 74 | 18 | 1 | 1 | 73 | 1 | 74 | 5.83e-33 | 108 |
| Msa1347360 | MtrunA17_Chr8g0337721 | 71.622 | 74 | 20 | 1 | 1 | 73 | 1 | 74 | 3.28e-30 | 101 |
| Msa1347360 | MtrunA17_Chr8g0337781 | 54.795 | 73 | 33 | 0 | 1 | 73 | 1 | 73 | 9.72e-24 | 85.1 |
| Msa1347360 | MtrunA17_Chr8g0337741 | 59.722 | 72 | 28 | 1 | 3 | 73 | 1 | 72 | 1.25e-22 | 82.0 |
| Msa1347360 | MtrunA17_Chr8g0337711 | 49.315 | 73 | 37 | 0 | 1 | 73 | 1 | 73 | 2.33e-20 | 76.6 |
| Msa1347360 | MtrunA17_Chr8g0337061 | 40.278 | 72 | 42 | 1 | 1 | 71 | 9 | 80 | 3.24e-13 | 58.5 |
| Msa1347360 | MtrunA17_Chr6g0458787 | 44.595 | 74 | 39 | 2 | 1 | 73 | 1 | 73 | 4.14e-13 | 58.2 |
| Msa1347360 | MtrunA17_Chr6g0458744 | 44.595 | 74 | 39 | 2 | 1 | 73 | 37 | 109 | 1.21e-12 | 57.8 |
| Msa1347360 | MtrunA17_Chr6g0458644 | 44.595 | 74 | 39 | 2 | 1 | 73 | 37 | 109 | 1.21e-12 | 57.8 |
| Msa1347360 | MtrunA17_Chr6g0458701 | 44.595 | 74 | 39 | 2 | 1 | 73 | 37 | 109 | 1.58e-12 | 57.4 |
| Msa1347360 | MtrunA17_Chr6g0458807 | 41.892 | 74 | 41 | 2 | 1 | 73 | 1 | 73 | 1.59e-12 | 56.6 |
| Msa1347360 | MtrunA17_Chr8g0337751 | 46.575 | 73 | 32 | 2 | 1 | 73 | 1 | 66 | 1.31e-11 | 54.3 |
| 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 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATGGAGATGAAAACACTTCT+TGG | 0.303033 | tig0009650:+64790 | Msa1347360:CDS |
| TGTGACTTTGTTTGCAAGAA+TGG | 0.416156 | tig0009650:+65351 | Msa1347360:CDS |
| GTGACTTTGTTTGCAAGAAT+GGG | 0.440082 | tig0009650:+65352 | Msa1347360:CDS |
| CACACACTTCACTTAGAGTT+GGG | 0.463643 | tig0009650:-65332 | None:intergenic |
| TTCTTTGCTAGTTCATGCGT+TGG | 0.502913 | tig0009650:+65309 | Msa1347360:CDS |
| TCACACACTTCACTTAGAGT+TGG | 0.517794 | tig0009650:-65333 | None:intergenic |
| AAGAATGGGGACAAATTACC+AGG | 0.567345 | tig0009650:+65366 | Msa1347360:CDS |
| GAAGCTGTGGTGCATATTGA+AGG | 0.581749 | tig0009650:+65267 | Msa1347360:CDS |
| GAGCAGCTAAGAGAATAAAG+AGG | 0.606301 | tig0009650:-64825 | None:intergenic |
| TGACTTTGTTTGCAAGAATG+GGG | 0.653532 | tig0009650:+65353 | Msa1347360:CDS |
| GTAAAATGCAGAAGAAGCTG+TGG | 0.696941 | tig0009650:+65254 | Msa1347360:intron |
| AATGGGGACAAATTACCAGG+TGG | 0.759307 | tig0009650:+65369 | Msa1347360:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTATATGCTTTTTTTGAACA+AGG | + | tig0009650:64854-64873 | Msa1347360:intron | 20.0% |
| !!! | TAAGCAAATTTTCATCTTTA+AGG | + | tig0009650:64959-64978 | Msa1347360:intron | 20.0% |
| !!! | TAAGCAAATTTTCATCTTTA+AGG | - | tig0009650:64959-64978 | None:intergenic | 20.0% |
| !! | AATTTGCTTATAAATGAGAC+CGG | - | tig0009650:65049-65068 | None:intergenic | 25.0% |
| !! | AATTTGCTTATAAATGAGAC+CGG | + | tig0009650:65049-65068 | Msa1347360:intron | 25.0% |
| !!! | TTTTTTTGAACAAGGCTTGT+AGG | + | tig0009650:64862-64881 | Msa1347360:intron | 30.0% |
| ! | GAACTTTAGAAGAGAAAAGA+AGG | - | tig0009650:64911-64930 | None:intergenic | 30.0% |
| CATTGAATAAACGATGTTTG+TGG | + | tig0009650:64984-65003 | Msa1347360:intron | 30.0% | |
| ATGGAGATGAAAACACTTCT+TGG | + | tig0009650:64790-64809 | Msa1347360:CDS | 35.0% | |
| ! | TGTGACTTTGTTTGCAAGAA+TGG | + | tig0009650:65351-65370 | Msa1347360:CDS | 35.0% |
| ! | GTGACTTTGTTTGCAAGAAT+GGG | + | tig0009650:65352-65371 | Msa1347360:CDS | 35.0% |
| ! | TGACTTTGTTTGCAAGAATG+GGG | + | tig0009650:65353-65372 | Msa1347360:CDS | 35.0% |
| GAGCAGCTAAGAGAATAAAG+AGG | - | tig0009650:64828-64847 | None:intergenic | 40.0% | |
| TTGCTTATAAATGAGACCGG+AGG | - | tig0009650:65052-65071 | None:intergenic | 40.0% | |
| CATTGAATGAACGATGTCTG+TGG | - | tig0009650:65014-65033 | None:intergenic | 40.0% | |
| TTGCTTATAAATGAGACCGG+AGG | + | tig0009650:65052-65071 | Msa1347360:intron | 40.0% | |
| AATCAGAATCATATCGCCTC+CGG | - | tig0009650:65071-65090 | None:intergenic | 40.0% | |
| GTAAAATGCAGAAGAAGCTG+TGG | + | tig0009650:65254-65273 | Msa1347360:intron | 40.0% | |
| TTCTTTGCTAGTTCATGCGT+TGG | + | tig0009650:65309-65328 | Msa1347360:CDS | 40.0% | |
| CACACACTTCACTTAGAGTT+GGG | - | tig0009650:65335-65354 | None:intergenic | 40.0% | |
| TCACACACTTCACTTAGAGT+TGG | - | tig0009650:65336-65355 | None:intergenic | 40.0% | |
| AAGAATGGGGACAAATTACC+AGG | + | tig0009650:65366-65385 | Msa1347360:CDS | 40.0% | |
| GTTCTTTCGAGATACTCCTC+CGG | + | tig0009650:64927-64946 | Msa1347360:intron | 45.0% | |
| GAAGCTGTGGTGCATATTGA+AGG | + | tig0009650:65267-65286 | Msa1347360:CDS | 45.0% | |
| AATGGGGACAAATTACCAGG+TGG | + | tig0009650:65369-65388 | Msa1347360:CDS | 45.0% | |
| !! | TCATTTTTGCAGGAACCACC+TGG | - | tig0009650:65387-65406 | None:intergenic | 45.0% |
| AGGTGGTTCCTGCAAAAATG+AGG | + | tig0009650:65386-65405 | Msa1347360:CDS | 45.0% | |
| !! | CATGCACTCCTCATTTTTGC+AGG | - | tig0009650:65397-65416 | None:intergenic | 45.0% |
| !!! | TAATATTTTCAATTATTAAA+AGG | - | tig0009650:65117-65136 | None:intergenic | 5.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0009650 | gene | 64790 | 65428 | 64790 | ID=Msa1347360;Name=Msa1347360 |
| tig0009650 | mRNA | 64790 | 65428 | 64790 | ID=Msa1347360-mRNA-1;Parent=Msa1347360;Name=Msa1347360-mRNA-1;_AED=0.42;_eAED=0.42;_QI=0|0|0|1|1|1|2|0|73 |
| tig0009650 | exon | 64790 | 64847 | 64790 | ID=Msa1347360-mRNA-1:exon:5844;Parent=Msa1347360-mRNA-1 |
| tig0009650 | exon | 65265 | 65428 | 65265 | ID=Msa1347360-mRNA-1:exon:5845;Parent=Msa1347360-mRNA-1 |
| tig0009650 | CDS | 64790 | 64847 | 64790 | ID=Msa1347360-mRNA-1:cds;Parent=Msa1347360-mRNA-1 |
| tig0009650 | CDS | 65265 | 65428 | 65265 | ID=Msa1347360-mRNA-1:cds;Parent=Msa1347360-mRNA-1 |
| Gene Sequence |
| Protein sequence |
