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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0780040658.01.T02 | KEH23791.1 | 90.476 | 84 | 8 | 0 | 1 | 84 | 1 | 84 | 3.31E-46 | 155 |
| MsG0780040658.01.T01 | XP_013449763.2 | 89.076 | 119 | 13 | 0 | 1 | 119 | 1 | 119 | 5.19E-58 | 188 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0780040658.01.T01 | Q94AX3 | 50 | 92 | 45 | 1 | 27 | 118 | 22 | 112 | 2.72E-23 | 92.4 |
| MsG0780040658.01.T02 | Q94AX3 | 46.25 | 80 | 43 | 0 | 4 | 83 | 33 | 112 | 7.79E-19 | 79.3 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0780040658.01.T01 | A0A396HAY6 | 89.076 | 119 | 13 | 0 | 1 | 119 | 1 | 119 | 2.48e-58 | 188 |
| MsG0780040658.01.T02 | A0A072U353 | 90.476 | 84 | 8 | 0 | 1 | 84 | 1 | 84 | 1.58e-46 | 155 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0080048509.01 | MsG0780040658.01 | 0.840010 | 1.124568e-57 | 1.580989e-54 |
| MsG0180000367.01 | MsG0780040658.01 | 0.808323 | 3.276768e-50 | 1.868029e-47 |
| MsG0180001079.01 | MsG0780040658.01 | 0.845299 | 4.429350e-59 | 7.348695e-56 |
| MsG0180001513.01 | MsG0780040658.01 | 0.800091 | 1.695735e-48 | 7.826533e-46 |
| MsG0180001515.01 | MsG0780040658.01 | 0.818255 | 2.156475e-52 | 1.605979e-49 |
| MsG0180002808.01 | MsG0780040658.01 | 0.817966 | 2.507102e-52 | 1.852341e-49 |
| MsG0180003375.01 | MsG0780040658.01 | 0.824100 | 9.689871e-54 | 8.500406e-51 |
| MsG0180004059.01 | MsG0780040658.01 | 0.822658 | 2.105697e-53 | 1.773601e-50 |
| MsG0180004424.01 | MsG0780040658.01 | 0.810540 | 1.095729e-50 | 6.622572e-48 |
| MsG0180005353.01 | MsG0780040658.01 | 0.825380 | 4.837820e-54 | 4.402174e-51 |
| MsG0180005757.01 | MsG0780040658.01 | 0.843649 | 1.230700e-58 | 1.938557e-55 |
| MsG0280006316.01 | MsG0780040658.01 | 0.823833 | 1.119237e-53 | 9.745778e-51 |
| MsG0780040658.01 | MsG0780040878.01 | 0.807553 | 4.778659e-50 | 2.669537e-47 |
| MsG0780040658.01 | MsG0780040977.01 | 0.804867 | 1.758092e-49 | 9.166475e-47 |
| MsG0780040658.01 | MsG0780040991.01 | 0.822843 | 1.906745e-53 | 1.614473e-50 |
| MsG0780040658.01 | MsG0780041447.01 | 0.816535 | 5.259618e-52 | 3.736719e-49 |
| MsG0780040658.01 | MsG0880041978.01 | 0.808611 | 2.844470e-50 | 1.633677e-47 |
| MsG0780040658.01 | MsG0880042122.01 | 0.805250 | 1.461715e-49 | 7.695632e-47 |
| MsG0780040658.01 | MsG0880044968.01 | -0.800202 | 1.609893e-48 | 7.451113e-46 |
| MsG0780040658.01 | MsG0880046402.01 | 0.804898 | 1.731525e-49 | 9.035461e-47 |
| MsG0780040658.01 | MsG0880046463.01 | 0.860398 | 2.123437e-63 | 5.796425e-60 |
| MsG0780040658.01 | MsG0880047450.01 | 0.821840 | 3.260682e-53 | 2.683099e-50 |
| MsG0280011267.01 | MsG0780040658.01 | 0.803850 | 2.863370e-49 | 1.454280e-46 |
| MsG0380013226.01 | MsG0780040658.01 | 0.811645 | 6.310837e-51 | 3.927602e-48 |
| MsG0380014410.01 | MsG0780040658.01 | 0.809096 | 2.240357e-50 | 1.303439e-47 |
| MsG0380014734.01 | MsG0780040658.01 | 0.822604 | 2.167601e-53 | 1.823066e-50 |
| MsG0680032026.01 | MsG0780040658.01 | 0.800905 | 1.157321e-48 | 5.453361e-46 |
| MsG0680032461.01 | MsG0780040658.01 | 0.800809 | 1.211052e-48 | 5.692081e-46 |
| MsG0680033015.01 | MsG0780040658.01 | 0.829159 | 6.015538e-55 | 6.106736e-52 |
| MsG0680033347.01 | MsG0780040658.01 | 0.804384 | 2.216347e-49 | 1.141180e-46 |
| MsG0680034974.01 | MsG0780040658.01 | 0.812732 | 3.656723e-51 | 2.343123e-48 |
| MsG0680034978.01 | MsG0780040658.01 | 0.813390 | 2.621883e-51 | 1.710077e-48 |
| MsG0480019980.01 | MsG0780040658.01 | 0.816842 | 4.489504e-52 | 3.216608e-49 |
| MsG0480020722.01 | MsG0780040658.01 | 0.816056 | 6.732280e-52 | 4.721006e-49 |
| MsG0480020814.01 | MsG0780040658.01 | 0.813679 | 2.265503e-51 | 1.489179e-48 |
| MsG0480021436.01 | MsG0780040658.01 | 0.811138 | 8.133895e-51 | 4.995276e-48 |
| MsG0480022242.01 | MsG0780040658.01 | -0.800360 | 1.494913e-48 | 6.947174e-46 |
| MsG0480022309.01 | MsG0780040658.01 | 0.805730 | 1.159158e-49 | 6.179290e-47 |
| MsG0480022833.01 | MsG0780040658.01 | 0.823044 | 1.712170e-53 | 1.458026e-50 |
| MsG0480023322.01 | MsG0780040658.01 | 0.840334 | 9.255675e-58 | 1.314077e-54 |
| MsG0580024207.01 | MsG0780040658.01 | 0.817538 | 3.130456e-52 | 2.286052e-49 |
| MsG0580025007.01 | MsG0780040658.01 | 0.824685 | 7.058360e-54 | 6.297548e-51 |
| MsG0580025023.01 | MsG0780040658.01 | 0.825546 | 4.419741e-54 | 4.040745e-51 |
| MsG0580025024.01 | MsG0780040658.01 | 0.834434 | 3.004994e-56 | 3.565786e-53 |
| MsG0380015659.01 | MsG0780040658.01 | 0.805406 | 1.355580e-49 | 7.165946e-47 |
| MsG0380017901.01 | MsG0780040658.01 | 0.811190 | 7.923859e-51 | 4.872915e-48 |
| MsG0480018362.01 | MsG0780040658.01 | 0.803996 | 2.670004e-49 | 1.361178e-46 |
| MsG0480018439.01 | MsG0780040658.01 | 0.834391 | 3.080293e-56 | 3.650339e-53 |
| MsG0480018440.01 | MsG0780040658.01 | 0.816110 | 6.546036e-52 | 4.597032e-49 |
| MsG0580026492.01 | MsG0780040658.01 | 0.803602 | 3.223219e-49 | 1.626637e-46 |
| MsG0580026521.01 | MsG0780040658.01 | 0.818371 | 2.030202e-52 | 1.516983e-49 |
| MsG0580028302.01 | MsG0780040658.01 | 0.804301 | 2.307173e-49 | 1.185402e-46 |
| MsG0580029291.01 | MsG0780040658.01 | 0.802137 | 6.470649e-49 | 3.145413e-46 |
| MsG0280006546.01 | MsG0780040658.01 | 0.803657 | 3.139578e-49 | 1.586576e-46 |
| MsG0280008226.01 | MsG0780040658.01 | 0.803782 | 2.957341e-49 | 1.499346e-46 |
| MsG0280008659.01 | MsG0780040658.01 | 0.852014 | 6.095827e-61 | 1.256480e-57 |
| MsG0280010425.01 | MsG0780040658.01 | 0.808567 | 2.906860e-50 | 1.667654e-47 |
| MsG0780035930.01 | MsG0780040658.01 | 0.813647 | 2.302065e-51 | 1.511922e-48 |
| MsG0780036376.01 | MsG0780040658.01 | 0.817819 | 2.705284e-52 | 1.990864e-49 |
| MsG0780038519.01 | MsG0780040658.01 | 0.805943 | 1.045954e-49 | 5.605988e-47 |
| MsG0780038657.01 | MsG0780040658.01 | 0.801930 | 7.137888e-49 | 3.451453e-46 |
| MsG0780039237.01 | MsG0780040658.01 | 0.801950 | 7.070856e-49 | 3.420756e-46 |
| MsG0780039923.01 | MsG0780040658.01 | 0.824463 | 7.961961e-54 | 7.057099e-51 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0780040658.01.T02 | MTR_7g095250 | 90.476 | 84 | 8 | 0 | 1 | 84 | 1 | 84 | 4.01e-50 | 155 |
| MsG0780040658.01.T02 | MTR_1g071720 | 61.628 | 86 | 28 | 5 | 1 | 83 | 36 | 119 | 4.09e-26 | 95.1 |
| MsG0780040658.01.T02 | MTR_1g071720 | 61.628 | 86 | 28 | 5 | 1 | 83 | 36 | 119 | 4.10e-26 | 95.1 |
| MsG0780040658.01.T02 | MTR_1g103420 | 46.341 | 82 | 43 | 1 | 2 | 83 | 37 | 117 | 5.81e-21 | 82.4 |
| MsG0780040658.01.T02 | MTR_5g006940 | 45.783 | 83 | 44 | 1 | 1 | 83 | 36 | 117 | 2.46e-19 | 78.2 |
| MsG0780040658.01.T01 | MTR_7g095250 | 90.476 | 84 | 8 | 0 | 36 | 119 | 1 | 84 | 7.30e-50 | 156 |
| MsG0780040658.01.T01 | MTR_1g071720 | 59.322 | 118 | 43 | 5 | 4 | 118 | 4 | 119 | 2.04e-37 | 125 |
| MsG0780040658.01.T01 | MTR_1g071720 | 59.322 | 118 | 43 | 5 | 4 | 118 | 4 | 119 | 2.26e-37 | 125 |
| MsG0780040658.01.T01 | MTR_1g103420 | 44.144 | 111 | 54 | 3 | 13 | 118 | 10 | 117 | 2.02e-24 | 92.8 |
| MsG0780040658.01.T01 | MTR_5g006940 | 40.179 | 112 | 65 | 2 | 7 | 118 | 8 | 117 | 1.23e-22 | 88.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0780040658.01.T02 | AT2G48140 | 46.250 | 80 | 43 | 0 | 4 | 83 | 33 | 112 | 2.21e-20 | 79.0 |
| MsG0780040658.01.T02 | AT2G48140 | 46.250 | 80 | 43 | 0 | 4 | 83 | 33 | 112 | 7.94e-20 | 79.3 |
| MsG0780040658.01.T02 | AT1G05450 | 44.737 | 76 | 38 | 2 | 4 | 79 | 39 | 110 | 3.41e-15 | 67.4 |
| MsG0780040658.01.T01 | AT2G48140 | 50.000 | 92 | 45 | 1 | 27 | 118 | 22 | 112 | 1.55e-24 | 90.9 |
| MsG0780040658.01.T01 | AT2G48140 | 50.000 | 92 | 45 | 1 | 27 | 118 | 22 | 112 | 2.77e-24 | 92.4 |
| MsG0780040658.01.T01 | AT1G05450 | 43.119 | 109 | 52 | 4 | 11 | 114 | 7 | 110 | 2.50e-18 | 77.0 |
| MsG0780040658.01.T01 | AT3G22620 | 40.187 | 107 | 61 | 3 | 9 | 114 | 5 | 109 | 2.04e-12 | 61.2 |
Find 21 sgRNAs with CRISPR-Local
Find 21 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCCTCAATAAATTTAGTTAA+TGG | 0.205789 | 7:+80739032 | MsG0780040658.01.T01:CDS |
| GTCTTTGATGGGCACTAATA+TGG | 0.225608 | 7:+80739178 | MsG0780040658.01.T01:CDS |
| CTACTTGTTGTGATTCATTA+AGG | 0.267679 | 7:+80739156 | MsG0780040658.01.T01:CDS |
| ATTGCAAGAACTTGGTTAAT+AGG | 0.287987 | 7:-80739248 | None:intergenic |
| AATTTATTGAGGAGATTAGA+AGG | 0.329326 | 7:-80739022 | None:intergenic |
| TGATTCATTAAGGTCTTTGA+TGG | 0.371159 | 7:+80739166 | MsG0780040658.01.T01:CDS |
| CCTTGTGCTAACATCATAAC+AGG | 0.384512 | 7:+80739104 | MsG0780040658.01.T01:CDS |
| ATAACAGGAAGCACTAATAA+TGG | 0.421549 | 7:+80739119 | MsG0780040658.01.T01:CDS |
| GAACTTGGTTAATAGGTAGT+TGG | 0.432984 | 7:-80739241 | None:intergenic |
| GAGCATTGGAAGACAACATA+AGG | 0.445627 | 7:-80739211 | None:intergenic |
| ACCATTAACTAAATTTATTG+AGG | 0.447694 | 7:-80739033 | None:intergenic |
| GAATCACAACAAGTAGTTGA+TGG | 0.473600 | 7:-80739149 | None:intergenic |
| AAAGAGACATTGCAAGAACT+TGG | 0.476462 | 7:-80739256 | None:intergenic |
| GATTCATTAAGGTCTTTGAT+GGG | 0.535229 | 7:+80739167 | MsG0780040658.01.T01:CDS |
| TAGTTGGAAAATTTGAGCAT+TGG | 0.538312 | 7:-80739225 | None:intergenic |
| TCTCAAGCATGTAATATCAA+AGG | 0.562021 | 7:+80739278 | MsG0780040658.01.T01:CDS |
| ATTTATTGAGGAGATTAGAA+GGG | 0.566760 | 7:-80739021 | None:intergenic |
| GGAGCTTCTCTTCAGTGCAA+AGG | 0.609225 | 7:+80739299 | MsG0780040658.01.T01:CDS |
| GTGATTTGAAAATAATTGAG+TGG | 0.613175 | 7:-80738984 | None:intergenic |
| CCTGTTATGATGTTAGCACA+AGG | 0.620375 | 7:-80739104 | None:intergenic |
| GAATGTACTGCTAATCATAG+AGG | 0.626353 | 7:-80739078 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ACCATTAACTAAATTTATTG+AGG | - | Chr7:80739036-80739055 | None:intergenic | 20.0% |
| !! | TCCTCAATAAATTTAGTTAA+TGG | + | Chr7:80739032-80739051 | MsG0780040658.01.T01:CDS | 20.0% |
| ! | AATTTATTGAGGAGATTAGA+AGG | - | Chr7:80739025-80739044 | None:intergenic | 25.0% |
| ! | ATTTATTGAGGAGATTAGAA+GGG | - | Chr7:80739024-80739043 | None:intergenic | 25.0% |
| ! | GTGATTTGAAAATAATTGAG+TGG | - | Chr7:80738987-80739006 | None:intergenic | 25.0% |
| ATTGCAAGAACTTGGTTAAT+AGG | - | Chr7:80739251-80739270 | None:intergenic | 30.0% | |
| GATTCATTAAGGTCTTTGAT+GGG | + | Chr7:80739167-80739186 | MsG0780040658.01.T01:CDS | 30.0% | |
| TAGTTGGAAAATTTGAGCAT+TGG | - | Chr7:80739228-80739247 | None:intergenic | 30.0% | |
| TCTCAAGCATGTAATATCAA+AGG | + | Chr7:80739278-80739297 | MsG0780040658.01.T01:CDS | 30.0% | |
| TGATTCATTAAGGTCTTTGA+TGG | + | Chr7:80739166-80739185 | MsG0780040658.01.T01:CDS | 30.0% | |
| !! | ATAACAGGAAGCACTAATAA+TGG | + | Chr7:80739119-80739138 | MsG0780040658.01.T01:CDS | 30.0% |
| !! | CTACTTGTTGTGATTCATTA+AGG | + | Chr7:80739156-80739175 | MsG0780040658.01.T01:CDS | 30.0% |
| AAAGAGACATTGCAAGAACT+TGG | - | Chr7:80739259-80739278 | None:intergenic | 35.0% | |
| GAACTTGGTTAATAGGTAGT+TGG | - | Chr7:80739244-80739263 | None:intergenic | 35.0% | |
| GAATCACAACAAGTAGTTGA+TGG | - | Chr7:80739152-80739171 | None:intergenic | 35.0% | |
| GAATGTACTGCTAATCATAG+AGG | - | Chr7:80739081-80739100 | None:intergenic | 35.0% | |
| CCTGTTATGATGTTAGCACA+AGG | - | Chr7:80739107-80739126 | None:intergenic | 40.0% | |
| CCTTGTGCTAACATCATAAC+AGG | + | Chr7:80739104-80739123 | MsG0780040658.01.T01:CDS | 40.0% | |
| ! | GTCTTTGATGGGCACTAATA+TGG | + | Chr7:80739178-80739197 | MsG0780040658.01.T01:CDS | 40.0% |
| !! | GAGCATTGGAAGACAACATA+AGG | - | Chr7:80739214-80739233 | None:intergenic | 40.0% |
| GGAGCTTCTCTTCAGTGCAA+AGG | + | Chr7:80739299-80739318 | MsG0780040658.01.T01:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr7 | gene | 80738978 | 80739337 | 80738978 | ID=MsG0780040658.01;Name=MsG0780040658.01 |
| Chr7 | mRNA | 80738978 | 80739337 | 80738978 | ID=MsG0780040658.01.T01;Parent=MsG0780040658.01;Name=MsG0780040658.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|0|1|0|119 |
| Chr7 | exon | 80738978 | 80739337 | 80738978 | ID=MsG0780040658.01.T01:exon:37978;Parent=MsG0780040658.01.T01 |
| Chr7 | CDS | 80738978 | 80739337 | 80738978 | ID=MsG0780040658.01.T01:cds;Parent=MsG0780040658.01.T01 |
| Chr7 | mRNA | 80739083 | 80739337 | 80739083 | ID=MsG0780040658.01.T02;Parent=MsG0780040658.01;Name=MsG0780040658.01.T02;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|0|1|0|84 |
| Chr7 | exon | 80739083 | 80739337 | 80739083 | ID=MsG0780040658.01.T02:exon:37979;Parent=MsG0780040658.01.T02 |
| Chr7 | CDS | 80739083 | 80739337 | 80739083 | ID=MsG0780040658.01.T02:cds;Parent=MsG0780040658.01.T02 |
| Gene Sequence |
| Protein sequence |
