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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0680033427.01.T01 | RHN59409.1 | 61.702 | 94 | 26 | 2 | 8 | 101 | 11 | 94 | 7.99E-26 | 104 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0680033427.01.T01 | A0A396I1E2 | 61.702 | 94 | 26 | 2 | 8 | 101 | 11 | 94 | 3.82e-26 | 104 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0080048463.01 | MsG0680033427.01 | 0.808761 | 2.641998e-50 | 1.523403e-47 |
| MsG0080048464.01 | MsG0680033427.01 | 0.806250 | 9.013155e-50 | 4.868844e-47 |
| MsG0080048826.01 | MsG0680033427.01 | 0.810996 | 8.730399e-51 | 5.342174e-48 |
| MsG0180000650.01 | MsG0680033427.01 | 0.808304 | 3.307209e-50 | 1.884358e-47 |
| MsG0180004025.01 | MsG0680033427.01 | 0.805846 | 1.095907e-49 | 5.859231e-47 |
| MsG0180006096.01 | MsG0680033427.01 | 0.838916 | 2.163778e-57 | 2.940562e-54 |
| MsG0280006309.01 | MsG0680033427.01 | 0.804814 | 1.803356e-49 | 9.389368e-47 |
| MsG0380012005.01 | MsG0680033427.01 | 0.825861 | 3.721168e-54 | 3.433166e-51 |
| MsG0380012007.01 | MsG0680033427.01 | 0.800791 | 1.220814e-48 | 5.735378e-46 |
| MsG0380013853.01 | MsG0680033427.01 | 0.802874 | 4.559641e-49 | 2.258516e-46 |
| MsG0680030992.01 | MsG0680033427.01 | 0.825440 | 4.682933e-54 | 4.268355e-51 |
| MsG0680033427.01 | MsG0680033465.01 | 0.807672 | 4.507663e-50 | 2.525997e-47 |
| MsG0680033427.01 | MsG0780039178.01 | 0.807527 | 4.839808e-50 | 2.701941e-47 |
| MsG0680033427.01 | MsG0780041387.01 | 0.800331 | 1.515284e-48 | 7.036667e-46 |
| MsG0680033427.01 | MsG0880042622.01 | 0.810761 | 9.815180e-51 | 5.967930e-48 |
| MsG0680033427.01 | MsG0880042700.01 | 0.821545 | 3.813598e-53 | 3.111997e-50 |
| MsG0680033427.01 | MsG0880045765.01 | 0.802742 | 4.856719e-49 | 2.397615e-46 |
| MsG0680033427.01 | MsG0880045992.01 | 0.803284 | 3.752291e-49 | 1.878079e-46 |
| MsG0680033427.01 | MsG0880047267.01 | 0.808572 | 2.899823e-50 | 1.663831e-47 |
| MsG0480018653.01 | MsG0680033427.01 | 0.806417 | 8.308928e-50 | 4.507361e-47 |
| MsG0480018911.01 | MsG0680033427.01 | 0.804553 | 2.044064e-49 | 1.057033e-46 |
| MsG0480020025.01 | MsG0680033427.01 | 0.803359 | 3.620535e-49 | 1.815608e-46 |
| MsG0480020887.01 | MsG0680033427.01 | 0.809758 | 1.614776e-50 | 9.562424e-48 |
| MsG0480021561.01 | MsG0680033427.01 | 0.804423 | 2.175706e-49 | 1.121320e-46 |
| MsG0480021869.01 | MsG0680033427.01 | 0.816899 | 4.359380e-52 | 3.128148e-49 |
| MsG0380015533.01 | MsG0680033427.01 | 0.818865 | 1.568422e-52 | 1.187994e-49 |
| MsG0380016191.01 | MsG0680033427.01 | -0.810987 | 8.770279e-51 | 5.365340e-48 |
| MsG0380017202.01 | MsG0680033427.01 | 0.800210 | 1.603987e-48 | 7.425342e-46 |
| MsG0380017293.01 | MsG0680033427.01 | 0.818925 | 1.519909e-52 | 1.153241e-49 |
| MsG0380017931.01 | MsG0680033427.01 | 0.804100 | 2.540788e-49 | 1.298710e-46 |
| MsG0580026174.01 | MsG0680033427.01 | 0.802090 | 6.615211e-49 | 3.211911e-46 |
| MsG0580027980.01 | MsG0680033427.01 | 0.813615 | 2.339966e-51 | 1.535491e-48 |
| MsG0280007118.01 | MsG0680033427.01 | 0.807947 | 3.941308e-50 | 2.224510e-47 |
| MsG0280008112.01 | MsG0680033427.01 | 0.800503 | 1.397645e-48 | 6.518499e-46 |
| MsG0280009421.01 | MsG0680033427.01 | 0.816740 | 4.732413e-52 | 3.381068e-49 |
| MsG0280010184.01 | MsG0680033427.01 | 0.803561 | 3.287922e-49 | 1.657585e-46 |
| MsG0280010349.01 | MsG0680033427.01 | 0.814769 | 1.301701e-51 | 8.811921e-49 |
| MsG0280010517.01 | MsG0680033427.01 | 0.807844 | 4.145054e-50 | 2.333202e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0680033427.01.T01 | MTR_0039s0180 | 52.308 | 130 | 20 | 3 | 1 | 120 | 25 | 122 | 1.04e-28 | 101 |
| MsG0680033427.01.T01 | MTR_7g012300 | 56.000 | 75 | 9 | 1 | 70 | 120 | 76 | 150 | 1.31e-12 | 60.8 |
| MsG0680033427.01.T01 | MTR_2g043940 | 69.231 | 52 | 11 | 1 | 71 | 117 | 309 | 360 | 3.44e-12 | 62.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 20 sgRNAs with CRISPR-Local
Find 46 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAACTCATTCAAGTTTATCT+TGG | 0.318471 | 6:-64680583 | None:intergenic |
| TGAATTTGAAGTGGACGATT+TGG | 0.365773 | 6:+64680550 | MsG0680033427.01.T01:CDS |
| GTTGGTTCGCATAGGAATAC+TGG | 0.430904 | 6:+64679617 | MsG0680033427.01.T01:CDS |
| CTATGCTTTAAAATGAAAGA+AGG | 0.447841 | 6:+64679587 | None:intergenic |
| TCAAAGTCCTGCTGAAGGAT+TGG | 0.458477 | 6:+64679640 | MsG0680033427.01.T01:CDS |
| TATCAATGAAGATGTTGAAA+AGG | 0.471255 | 6:+64680386 | MsG0680033427.01.T01:CDS |
| GCACTTGATCTAGCTTGAAA+AGG | 0.475883 | 6:-64679668 | None:intergenic |
| ATGAAAGAAGGATTAGATGT+TGG | 0.479493 | 6:+64679599 | MsG0680033427.01.T01:CDS |
| GGTAAATCCAATCCTTCAGC+AGG | 0.513476 | 6:-64679647 | None:intergenic |
| GAATTTCTCGAGGGCAACAT+AGG | 0.521093 | 6:+64680450 | MsG0680033427.01.T01:CDS |
| AAAGTTGCATGAGAAGCTGC+AGG | 0.542000 | 6:+64679739 | MsG0680033427.01.T01:CDS |
| CATCGATGATGAATTTGAAG+TGG | 0.587100 | 6:+64680541 | MsG0680033427.01.T01:CDS |
| GATTAGATGTTGGTTCGCAT+AGG | 0.608038 | 6:+64679609 | MsG0680033427.01.T01:CDS |
| ACTGGTCAAAGTCCTGCTGA+AGG | 0.637349 | 6:+64679635 | MsG0680033427.01.T01:CDS |
| CGTAGATGATGAATTTCTCG+AGG | 0.639155 | 6:+64680440 | MsG0680033427.01.T01:CDS |
| TGAAAAGGATGACATAGATG+AGG | 0.643538 | 6:+64680401 | MsG0680033427.01.T01:CDS |
| AAGTTGCATGAGAAGCTGCA+GGG | 0.645609 | 6:+64679740 | MsG0680033427.01.T01:CDS |
| GAGATTGTAGAAGTTGTAGA+CGG | 0.666328 | 6:+64679785 | MsG0680033427.01.T01:CDS |
| ACAACTTCTACAATCTCTTG+AGG | 0.669504 | 6:-64679779 | None:intergenic |
| GTAGATGATGAATTTCTCGA+GGG | 0.693006 | 6:+64680441 | MsG0680033427.01.T01:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAAAACAAATTTCCTATTTG+CGG | + | Chr6:64680231-64680250 | MsG0680033427.01.T01:intron | 20.0% |
| ! | AAGTTGCAGAAACTTAAAAA+TGG | + | Chr6:64680175-64680194 | MsG0680033427.01.T01:intron | 25.0% |
| ! | AGTTGCAGAAACTTAAAAAT+GGG | + | Chr6:64680176-64680195 | MsG0680033427.01.T01:intron | 25.0% |
| ! | GAACTTATGATTATGTTGTT+TGG | + | Chr6:64680001-64680020 | MsG0680033427.01.T01:intron | 25.0% |
| ! | TATCAATGAAGATGTTGAAA+AGG | + | Chr6:64680386-64680405 | MsG0680033427.01.T01:CDS | 25.0% |
| ! | TGTAATGATTGAATAAGGAA+GGG | + | Chr6:64680201-64680220 | MsG0680033427.01.T01:intron | 25.0% |
| ! | TTGTAATGATTGAATAAGGA+AGG | + | Chr6:64680200-64680219 | MsG0680033427.01.T01:intron | 25.0% |
| !! | CATAGTTATTGTTGGTTAAA+AGG | - | Chr6:64680333-64680352 | None:intergenic | 25.0% |
| !! | CTTTTAACCAACAATAACTA+TGG | + | Chr6:64680331-64680350 | MsG0680033427.01.T01:intron | 25.0% |
| !!! | AATTTTGTTTCTGCAATTTG+TGG | + | Chr6:64680084-64680103 | MsG0680033427.01.T01:intron | 25.0% |
| ACATCAACCATAGTTATTGT+TGG | - | Chr6:64680341-64680360 | None:intergenic | 30.0% | |
| AGGATGATATAGATGATAAG+AGG | + | Chr6:64680487-64680506 | MsG0680033427.01.T01:intron | 30.0% | |
| ATGAAAGAAGGATTAGATGT+TGG | + | Chr6:64679599-64679618 | MsG0680033427.01.T01:CDS | 30.0% | |
| CCTAGATGATGAAATTTAAG+AGG | + | Chr6:64680514-64680533 | MsG0680033427.01.T01:intron | 30.0% | |
| CCTCTTAAATTTCATCATCT+AGG | - | Chr6:64680517-64680536 | None:intergenic | 30.0% | |
| ! | AAGTGCTAAGTTGAAAAAGA+TGG | + | Chr6:64679685-64679704 | MsG0680033427.01.T01:CDS | 30.0% |
| !!! | GTGTGTTTTACTTGTTGTTT+TGG | + | Chr6:64680263-64680282 | MsG0680033427.01.T01:intron | 30.0% |
| !!! | TTTTGGTTTTTATTTGTGCG+AGG | + | Chr6:64680280-64680299 | MsG0680033427.01.T01:intron | 30.0% |
| ACAACTTCTACAATCTCTTG+AGG | - | Chr6:64679782-64679801 | None:intergenic | 35.0% | |
| ACACGCAAATTAACAAGTTC+AGG | - | Chr6:64679957-64679976 | None:intergenic | 35.0% | |
| AGTGACATCACTTGAAATGT+AGG | + | Chr6:64679925-64679944 | MsG0680033427.01.T01:intron | 35.0% | |
| CATAGGTGATGAATTTCAAG+AGG | + | Chr6:64680467-64680486 | MsG0680033427.01.T01:intron | 35.0% | |
| CATCGATGATGAATTTGAAG+TGG | + | Chr6:64680541-64680560 | MsG0680033427.01.T01:CDS | 35.0% | |
| GAGATTGTAGAAGTTGTAGA+CGG | + | Chr6:64679785-64679804 | MsG0680033427.01.T01:CDS | 35.0% | |
| GGGCTTGTAATGATTGAATA+AGG | + | Chr6:64680196-64680215 | MsG0680033427.01.T01:intron | 35.0% | |
| GTAGATGATGAATTTCTCGA+GGG | + | Chr6:64680441-64680460 | MsG0680033427.01.T01:CDS | 35.0% | |
| TGAAAAGGATGACATAGATG+AGG | + | Chr6:64680401-64680420 | MsG0680033427.01.T01:CDS | 35.0% | |
| ! | TGAATTTGAAGTGGACGATT+TGG | + | Chr6:64680550-64680569 | MsG0680033427.01.T01:CDS | 35.0% |
| ! | TGTTGGTTAAAAGGACAATC+AGG | - | Chr6:64680324-64680343 | None:intergenic | 35.0% |
| !! | ACTTGTTAATTTGCGTGTCT+AGG | + | Chr6:64679959-64679978 | MsG0680033427.01.T01:intron | 35.0% |
| !! | CTTGTTAATTTGCGTGTCTA+GGG | + | Chr6:64679960-64679979 | MsG0680033427.01.T01:intron | 35.0% |
| !! | TTTGTTGTTCTTATGCAGCA+AGG | + | Chr6:64680363-64680382 | MsG0680033427.01.T01:intron | 35.0% |
| ACACAATCAAAGTCCAACCT+TGG | - | Chr6:64680046-64680065 | None:intergenic | 40.0% | |
| CACTCAACATAACCGCAAAT+AGG | - | Chr6:64680246-64680265 | None:intergenic | 40.0% | |
| CGTAGATGATGAATTTCTCG+AGG | + | Chr6:64680440-64680459 | MsG0680033427.01.T01:CDS | 40.0% | |
| GAATTGTTTAAGCGTGTCCA+AGG | + | Chr6:64680026-64680045 | MsG0680033427.01.T01:intron | 40.0% | |
| ! | GCACTTGATCTAGCTTGAAA+AGG | - | Chr6:64679671-64679690 | None:intergenic | 40.0% |
| !! | GATTAGATGTTGGTTCGCAT+AGG | + | Chr6:64679609-64679628 | MsG0680033427.01.T01:CDS | 40.0% |
| AAAGTTGCATGAGAAGCTGC+AGG | + | Chr6:64679739-64679758 | MsG0680033427.01.T01:CDS | 45.0% | |
| AAGTTGCATGAGAAGCTGCA+GGG | + | Chr6:64679740-64679759 | MsG0680033427.01.T01:CDS | 45.0% | |
| GAATTTCTCGAGGGCAACAT+AGG | + | Chr6:64680450-64680469 | MsG0680033427.01.T01:CDS | 45.0% | |
| GGTAAATCCAATCCTTCAGC+AGG | - | Chr6:64679650-64679669 | None:intergenic | 45.0% | |
| TCAAAGTCCTGCTGAAGGAT+TGG | + | Chr6:64679640-64679659 | MsG0680033427.01.T01:CDS | 45.0% | |
| TGTTTAAGCGTGTCCAAGGT+TGG | + | Chr6:64680030-64680049 | MsG0680033427.01.T01:intron | 45.0% | |
| !! | GTTGGTTCGCATAGGAATAC+TGG | + | Chr6:64679617-64679636 | MsG0680033427.01.T01:CDS | 45.0% |
| ACTGGTCAAAGTCCTGCTGA+AGG | + | Chr6:64679635-64679654 | MsG0680033427.01.T01:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr6 | gene | 64679599 | 64680601 | 64679599 | ID=MsG0680033427.01;Name=MsG0680033427.01 |
| Chr6 | mRNA | 64679599 | 64680601 | 64679599 | ID=MsG0680033427.01.T01;Parent=MsG0680033427.01;Name=MsG0680033427.01.T01;_AED=0.78;_eAED=0.78;_QI=0|0|0|0.66|0.5|0.33|3|0|120 |
| Chr6 | exon | 64679599 | 64679806 | 64679599 | ID=MsG0680033427.01.T01:exon:4245;Parent=MsG0680033427.01.T01 |
| Chr6 | exon | 64680385 | 64680471 | 64680385 | ID=MsG0680033427.01.T01:exon:4246;Parent=MsG0680033427.01.T01 |
| Chr6 | exon | 64680534 | 64680601 | 64680534 | ID=MsG0680033427.01.T01:exon:4247;Parent=MsG0680033427.01.T01 |
| Chr6 | CDS | 64679599 | 64679806 | 64679599 | ID=MsG0680033427.01.T01:cds;Parent=MsG0680033427.01.T01 |
| Chr6 | CDS | 64680385 | 64680471 | 64680385 | ID=MsG0680033427.01.T01:cds;Parent=MsG0680033427.01.T01 |
| Chr6 | CDS | 64680534 | 64680601 | 64680534 | ID=MsG0680033427.01.T01:cds;Parent=MsG0680033427.01.T01 |
| Gene Sequence |
| Protein sequence |
