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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0239840 | ABN08857.1 | 98.630 | 146 | 2 | 0 | 1 | 146 | 1 | 146 | 6.83e-99 | 290 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0239840 | A2Q5F7 | 98.630 | 146 | 2 | 0 | 1 | 146 | 1 | 146 | 3.26e-99 | 290 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0239840 | Msa0239870 | 0.941967 | 1.649784e-101 | -8.615850e-47 |
| Msa0239840 | Msa0317540 | 0.945223 | 4.561234e-104 | -8.615850e-47 |
| Msa0239840 | Msa0527910 | 0.807127 | 5.884016e-50 | -8.615850e-47 |
| Msa0239840 | Msa0791240 | 0.829378 | 5.322694e-55 | -8.615850e-47 |
| Msa0239840 | Msa1144310 | 0.931021 | 6.983059e-94 | -8.615850e-47 |
| Msa0239840 | Msa1173900 | 0.801879 | 7.309152e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0239840 | MtrunA17_Chr2g0290931 | 98.630 | 146 | 2 | 0 | 1 | 146 | 1 | 146 | 6.28e-103 | 290 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 24 sgRNAs with CRISPR-Local
Find 26 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGAGCTTGAAGCAGAAGATT+TGG | 0.301631 | 2_2:+14415720 | Msa0239840:CDS |
| GAGAAAGGTTGTTTAGCATT+TGG | 0.326273 | 2_2:+14415478 | Msa0239840:CDS |
| GCCATTTGAGGTTAATAGAT+TGG | 0.344754 | 2_2:+14415699 | Msa0239840:CDS |
| CCAAGACAACACTTGTTTCA+AGG | 0.366636 | 2_2:+14415597 | Msa0239840:CDS |
| AAATCCTCCATTGATCCCTT+TGG | 0.386929 | 2_2:-14415670 | None:intergenic |
| TTCTGGTATTGATTTCTTTG+AGG | 0.395501 | 2_2:+14415624 | Msa0239840:CDS |
| ACTTGTTTCAAGGTTTCTTC+TGG | 0.404656 | 2_2:+14415607 | Msa0239840:CDS |
| TCCAATCTATTAACCTCAAA+TGG | 0.414962 | 2_2:-14415700 | None:intergenic |
| CCTTGAAACAAGTGTTGTCT+TGG | 0.422034 | 2_2:-14415597 | None:intergenic |
| TTGGAGTGTTTGATTTCCCT+TGG | 0.432978 | 2_2:+14415497 | Msa0239840:CDS |
| ATGATGTTGAAGCAAAGATT+TGG | 0.461294 | 2_2:+14415371 | Msa0239840:CDS |
| AGGGATCAATGGAGGATTTG+TGG | 0.464367 | 2_2:+14415674 | Msa0239840:CDS |
| GGATTTGTGGCTGCCATTTG+AGG | 0.474098 | 2_2:+14415687 | Msa0239840:CDS |
| GATTTCCCTTGGTTGAAAGA+TGG | 0.486271 | 2_2:+14415508 | Msa0239840:CDS |
| TGAGGCTCCAAAGGGATCAA+TGG | 0.510645 | 2_2:+14415663 | Msa0239840:CDS |
| AAGAATGAAGTGGAAGAGAA+AGG | 0.519180 | 2_2:+14415463 | Msa0239840:CDS |
| TAGATTGTGTGAGGCTCCAA+AGG | 0.564320 | 2_2:+14415654 | Msa0239840:CDS |
| AGATTGTGTGAGGCTCCAAA+GGG | 0.596314 | 2_2:+14415655 | Msa0239840:CDS |
| CACCAAGGAAAAGAATGAAG+TGG | 0.603149 | 2_2:+14415453 | Msa0239840:CDS |
| TGACACCATCTTTCAACCAA+GGG | 0.626669 | 2_2:-14415513 | None:intergenic |
| ATGACACCATCTTTCAACCA+AGG | 0.654692 | 2_2:-14415514 | None:intergenic |
| GGCTCCAAAGGGATCAATGG+AGG | 0.655913 | 2_2:+14415666 | Msa0239840:CDS |
| GGAAAATGATAGATTGTGTG+AGG | 0.713281 | 2_2:+14415645 | Msa0239840:CDS |
| ATGTGGCACAAGTTTCACCA+AGG | 0.735233 | 2_2:+14415438 | Msa0239840:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATGATGTTGAAGCAAAGATT+TGG | + | chr2_2:14415371-14415390 | Msa0239840:CDS | 30.0% | |
| GCTAAAAAAAGAGATGTATG+TGG | + | chr2_2:14415421-14415440 | Msa0239840:CDS | 30.0% | |
| !! | TTCTGGTATTGATTTCTTTG+AGG | + | chr2_2:14415624-14415643 | Msa0239840:CDS | 30.0% |
| TCCAATCTATTAACCTCAAA+TGG | - | chr2_2:14415703-14415722 | None:intergenic | 30.0% | |
| ! | TTCCACTTCATTCTTTTCCT+TGG | - | chr2_2:14415458-14415477 | None:intergenic | 35.0% |
| AAGAATGAAGTGGAAGAGAA+AGG | + | chr2_2:14415463-14415482 | Msa0239840:CDS | 35.0% | |
| GAGAAAGGTTGTTTAGCATT+TGG | + | chr2_2:14415478-14415497 | Msa0239840:CDS | 35.0% | |
| ACTTGTTTCAAGGTTTCTTC+TGG | + | chr2_2:14415607-14415626 | Msa0239840:CDS | 35.0% | |
| GGAAAATGATAGATTGTGTG+AGG | + | chr2_2:14415645-14415664 | Msa0239840:CDS | 35.0% | |
| ! | GCCATTTGAGGTTAATAGAT+TGG | + | chr2_2:14415699-14415718 | Msa0239840:CDS | 35.0% |
| CACCAAGGAAAAGAATGAAG+TGG | + | chr2_2:14415453-14415472 | Msa0239840:CDS | 40.0% | |
| ! | TTGGAGTGTTTGATTTCCCT+TGG | + | chr2_2:14415497-14415516 | Msa0239840:CDS | 40.0% |
| GATTTCCCTTGGTTGAAAGA+TGG | + | chr2_2:14415508-14415527 | Msa0239840:CDS | 40.0% | |
| TGACACCATCTTTCAACCAA+GGG | - | chr2_2:14415516-14415535 | None:intergenic | 40.0% | |
| ATGACACCATCTTTCAACCA+AGG | - | chr2_2:14415517-14415536 | None:intergenic | 40.0% | |
| ! | CCTTGAAACAAGTGTTGTCT+TGG | - | chr2_2:14415600-14415619 | None:intergenic | 40.0% |
| CCAAGACAACACTTGTTTCA+AGG | + | chr2_2:14415597-14415616 | Msa0239840:CDS | 40.0% | |
| AAATCCTCCATTGATCCCTT+TGG | - | chr2_2:14415673-14415692 | None:intergenic | 40.0% | |
| ATGTGGCACAAGTTTCACCA+AGG | + | chr2_2:14415438-14415457 | Msa0239840:CDS | 45.0% | |
| TAGATTGTGTGAGGCTCCAA+AGG | + | chr2_2:14415654-14415673 | Msa0239840:CDS | 45.0% | |
| AGATTGTGTGAGGCTCCAAA+GGG | + | chr2_2:14415655-14415674 | Msa0239840:CDS | 45.0% | |
| AGGGATCAATGGAGGATTTG+TGG | + | chr2_2:14415674-14415693 | Msa0239840:CDS | 45.0% | |
| GGAGCTTGAAGCAGAAGATT+TGG | + | chr2_2:14415720-14415739 | Msa0239840:CDS | 45.0% | |
| TGAGGCTCCAAAGGGATCAA+TGG | + | chr2_2:14415663-14415682 | Msa0239840:CDS | 50.0% | |
| ! | GGATTTGTGGCTGCCATTTG+AGG | + | chr2_2:14415687-14415706 | Msa0239840:CDS | 50.0% |
| GGCTCCAAAGGGATCAATGG+AGG | + | chr2_2:14415666-14415685 | Msa0239840:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 14415334 | 14415774 | 14415334 | ID=Msa0239840;Name=Msa0239840 |
| chr2_2 | mRNA | 14415334 | 14415774 | 14415334 | ID=Msa0239840-mRNA-1;Parent=Msa0239840;Name=Msa0239840-mRNA-1;_AED=0.17;_eAED=0.17;_QI=0|-1|0|1|-1|1|1|0|146 |
| chr2_2 | exon | 14415334 | 14415774 | 14415334 | ID=Msa0239840-mRNA-1:exon:5998;Parent=Msa0239840-mRNA-1 |
| chr2_2 | CDS | 14415334 | 14415774 | 14415334 | ID=Msa0239840-mRNA-1:cds;Parent=Msa0239840-mRNA-1 |
| Gene Sequence |
| Protein sequence |
