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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580025558.01.T01 | ACJ85026.1 | 100 | 118 | 0 | 0 | 1 | 118 | 100 | 217 | 9.65E-79 | 241 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580025558.01.T01 | O49686 | 76.724 | 116 | 23 | 2 | 1 | 115 | 73 | 185 | 3.52E-57 | 178 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580025558.01.T01 | B7FJU7 | 100.000 | 118 | 0 | 0 | 1 | 118 | 100 | 217 | 4.61e-79 | 241 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0180000011.01 | MsG0580025558.01 | 0.822587 | 2.187413e-53 | 1.838837e-50 |
| MsG0180000302.01 | MsG0580025558.01 | 0.806408 | 8.344508e-50 | 4.525650e-47 |
| MsG0180001548.01 | MsG0580025558.01 | -0.824563 | 7.543876e-54 | 6.706641e-51 |
| MsG0180002523.01 | MsG0580025558.01 | -0.823654 | 1.232943e-53 | 1.068211e-50 |
| MsG0180004792.01 | MsG0580025558.01 | -0.801557 | 8.511983e-49 | 4.077188e-46 |
| MsG0180005005.01 | MsG0580025558.01 | -0.806227 | 9.112104e-50 | 4.919508e-47 |
| MsG0180005636.01 | MsG0580025558.01 | 0.805816 | 1.112047e-49 | 5.940898e-47 |
| MsG0180006028.01 | MsG0580025558.01 | -0.806921 | 6.505266e-50 | 3.574918e-47 |
| MsG0180006255.01 | MsG0580025558.01 | 0.839111 | 1.926436e-57 | 2.633684e-54 |
| MsG0280011218.01 | MsG0580025558.01 | -0.800402 | 1.466081e-48 | 6.820236e-46 |
| MsG0280011362.01 | MsG0580025558.01 | -0.822964 | 1.786954e-53 | 1.518205e-50 |
| MsG0480018569.01 | MsG0580025558.01 | 0.812556 | 3.995258e-51 | 2.548191e-48 |
| MsG0480019812.01 | MsG0580025558.01 | -0.821664 | 3.579299e-53 | 2.930539e-50 |
| MsG0480020797.01 | MsG0580025558.01 | 0.816296 | 5.950121e-52 | 4.200055e-49 |
| MsG0480022154.01 | MsG0580025558.01 | -0.800105 | 1.684892e-48 | 7.779157e-46 |
| MsG0480022240.01 | MsG0580025558.01 | -0.822493 | 2.299608e-53 | 1.927823e-50 |
| MsG0580025558.01 | MsG0580025564.01 | -0.817835 | 2.683473e-52 | 1.975688e-49 |
| MsG0580025558.01 | MsG0580025565.01 | -0.812076 | 5.085054e-51 | 3.201698e-48 |
| MsG0580025558.01 | MsG0580029237.01 | -0.845600 | 3.671469e-59 | 6.150138e-56 |
| MsG0580025558.01 | MsG0680034725.01 | -0.842954 | 1.885386e-58 | 2.904918e-55 |
| MsG0580025558.01 | MsG0680034730.01 | -0.842943 | 1.898552e-58 | 2.924103e-55 |
| MsG0580025558.01 | MsG0680035665.01 | -0.816166 | 6.363084e-52 | 4.475347e-49 |
| MsG0580025558.01 | MsG0780037052.01 | 0.807701 | 4.444147e-50 | 2.492294e-47 |
| MsG0580025558.01 | MsG0880042512.01 | -0.822955 | 1.795786e-53 | 1.525307e-50 |
| MsG0580025558.01 | MsG0880045312.01 | -0.828321 | 9.596323e-55 | 9.505349e-52 |
| MsG0380015520.01 | MsG0580025558.01 | 0.829193 | 5.901942e-55 | 5.997767e-52 |
| MsG0280007598.01 | MsG0580025558.01 | 0.807453 | 5.018718e-50 | 2.796489e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580025558.01.T01 | MTR_5g030500 | 100.000 | 118 | 0 | 0 | 1 | 118 | 100 | 217 | 1.30e-82 | 241 |
| MsG0580025558.01.T01 | MTR_1g016480 | 66.019 | 103 | 33 | 1 | 3 | 105 | 95 | 195 | 2.07e-45 | 146 |
| MsG0580025558.01.T01 | MTR_4g014460 | 58.333 | 108 | 42 | 1 | 3 | 110 | 106 | 210 | 2.51e-40 | 133 |
| MsG0580025558.01.T01 | MTR_5g083270 | 60.748 | 107 | 36 | 2 | 1 | 107 | 103 | 203 | 2.59e-40 | 133 |
| MsG0580025558.01.T01 | MTR_3g071740 | 54.310 | 116 | 47 | 2 | 1 | 116 | 122 | 231 | 2.12e-39 | 131 |
| MsG0580025558.01.T01 | MTR_8g027805 | 51.852 | 108 | 47 | 2 | 1 | 107 | 72 | 175 | 7.10e-32 | 111 |
| MsG0580025558.01.T01 | MTR_3g090980 | 51.376 | 109 | 48 | 2 | 1 | 108 | 75 | 179 | 1.17e-31 | 110 |
| MsG0580025558.01.T01 | MTR_1g028380 | 53.211 | 109 | 46 | 2 | 1 | 108 | 73 | 177 | 1.53e-31 | 110 |
| MsG0580025558.01.T01 | MTR_7g070050 | 62.617 | 107 | 38 | 1 | 3 | 107 | 70 | 176 | 2.73e-31 | 109 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580025558.01.T01 | AT4G17870 | 76.724 | 116 | 23 | 2 | 1 | 115 | 73 | 185 | 3.59e-58 | 178 |
| MsG0580025558.01.T01 | AT5G46790 | 78.704 | 108 | 23 | 0 | 1 | 108 | 100 | 207 | 1.78e-50 | 159 |
| MsG0580025558.01.T01 | AT5G46790 | 78.704 | 108 | 23 | 0 | 1 | 108 | 100 | 207 | 1.78e-50 | 159 |
| MsG0580025558.01.T01 | AT2G26040 | 69.000 | 100 | 30 | 1 | 3 | 102 | 79 | 177 | 1.45e-44 | 143 |
| MsG0580025558.01.T01 | AT1G73000 | 59.091 | 110 | 43 | 1 | 1 | 108 | 97 | 206 | 4.08e-42 | 138 |
| MsG0580025558.01.T01 | AT5G05440 | 59.434 | 106 | 37 | 2 | 1 | 106 | 101 | 200 | 8.95e-37 | 124 |
| MsG0580025558.01.T01 | AT2G40330 | 54.545 | 110 | 49 | 1 | 2 | 111 | 105 | 213 | 3.16e-36 | 123 |
| MsG0580025558.01.T01 | AT4G01026 | 56.075 | 107 | 42 | 2 | 2 | 107 | 78 | 180 | 8.41e-36 | 122 |
| MsG0580025558.01.T01 | AT1G01360 | 52.336 | 107 | 46 | 2 | 2 | 107 | 76 | 178 | 3.83e-32 | 112 |
| MsG0580025558.01.T01 | AT5G53160 | 49.533 | 107 | 51 | 1 | 1 | 107 | 73 | 176 | 9.02e-31 | 108 |
| MsG0580025558.01.T01 | AT4G27920 | 50.000 | 108 | 49 | 2 | 1 | 107 | 69 | 172 | 5.88e-30 | 106 |
| MsG0580025558.01.T01 | AT2G38310 | 56.140 | 114 | 44 | 2 | 3 | 116 | 97 | 204 | 5.72e-29 | 104 |
| MsG0580025558.01.T01 | AT5G45870 | 57.692 | 104 | 39 | 1 | 4 | 107 | 55 | 153 | 7.04e-24 | 90.1 |
| MsG0580025558.01.T01 | AT5G45860 | 57.692 | 104 | 40 | 1 | 4 | 107 | 55 | 154 | 9.49e-24 | 89.7 |
| MsG0580025558.01.T01 | AT4G18620 | 54.455 | 101 | 43 | 2 | 7 | 107 | 63 | 160 | 6.15e-20 | 80.1 |
| MsG0580025558.01.T01 | AT5G53160 | 54.348 | 46 | 21 | 0 | 1 | 46 | 73 | 118 | 5.04e-11 | 57.0 |
Find 32 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTACTTCCGTTCACGGTTT+CGG | 0.321183 | 5:-20459105 | MsG0580025558.01.T01:CDS |
| TGAGATCTGGACCGTTGTTT+TGG | 0.357741 | 5:-20459064 | MsG0580025558.01.T01:CDS |
| GACGACGAACGTCGTGTTAC+CGG | 0.369543 | 5:-20459174 | MsG0580025558.01.T01:CDS |
| CGTTCCGTTACTTCCGTTCA+CGG | 0.394929 | 5:-20459111 | MsG0580025558.01.T01:CDS |
| TCCTCTTCAGTATTACCTTC+AGG | 0.411978 | 5:+20459021 | None:intergenic |
| GTGATAACGGTGGTGAGATC+TGG | 0.416625 | 5:-20459077 | MsG0580025558.01.T01:CDS |
| CTCTCGGTGCTAGTCGCCGC+CGG | 0.416895 | 5:+20459210 | None:intergenic |
| ACCGTCACGGTTCTTTCCTT+CGG | 0.424743 | 5:+20458939 | None:intergenic |
| CAATGTCATCTCCGGTCTCC+CGG | 0.474823 | 5:-20459229 | MsG0580025558.01.T01:CDS |
| GCTAGTCGCCGCCGGGAGAC+CGG | 0.484689 | 5:+20459218 | None:intergenic |
| TCCGTTCACGGTTTCGGTGA+CGG | 0.493319 | 5:-20459099 | MsG0580025558.01.T01:CDS |
| CGCGACGTCAATGTCATCTC+CGG | 0.522159 | 5:-20459237 | MsG0580025558.01.T01:CDS |
| GTCAAGAACGTCGAGTCTCT+CGG | 0.524491 | 5:+20459194 | None:intergenic |
| ACCGCCGATGATACTGAAAC+CGG | 0.530952 | 5:+20459155 | None:intergenic |
| GGTTTCGGTGACGGTGATAA+CGG | 0.543393 | 5:-20459090 | MsG0580025558.01.T01:CDS |
| CGGAACGGTAATTCTTCAAA+CGG | 0.546020 | 5:+20459127 | None:intergenic |
| TCTCGGTGCTAGTCGCCGCC+GGG | 0.563257 | 5:+20459211 | None:intergenic |
| ACCGTCACCGAAACCGTGAA+CGG | 0.574955 | 5:+20459098 | None:intergenic |
| GTGACTTACCGTCACCGTCA+CGG | 0.581808 | 5:+20458926 | None:intergenic |
| GAAACCGTGAACGGAAGTAA+CGG | 0.584827 | 5:+20459107 | None:intergenic |
| GGAAAGAACCGTGACGGTGA+CGG | 0.588055 | 5:-20458934 | MsG0580025558.01.T01:CDS |
| TACGTCGTTGATGTTCCTGA+AGG | 0.592427 | 5:-20459036 | MsG0580025558.01.T01:CDS |
| GTTACCGGTTTCAGTATCAT+CGG | 0.595373 | 5:-20459159 | MsG0580025558.01.T01:CDS |
| AAGCTTGCGTCTGTCACCGA+AGG | 0.615885 | 5:-20458955 | MsG0580025558.01.T01:CDS |
| TCCTGAAGGTAATACTGAAG+AGG | 0.617871 | 5:-20459022 | MsG0580025558.01.T01:CDS |
| ACCGGTTTCAGTATCATCGG+CGG | 0.669189 | 5:-20459156 | MsG0580025558.01.T01:CDS |
| ACCGAAGGAAAGAACCGTGA+CGG | 0.674541 | 5:-20458940 | MsG0580025558.01.T01:CDS |
| GACGTAAGATTCCAAAACAA+CGG | 0.691402 | 5:+20459053 | None:intergenic |
| TTCGGTGACGGTGATAACGG+TGG | 0.691549 | 5:-20459087 | MsG0580025558.01.T01:CDS |
| TGTCATCTCCGGTCTCCCGG+CGG | 0.695228 | 5:-20459226 | MsG0580025558.01.T01:CDS |
| CGTGAACGGAAGTAACGGAA+CGG | 0.712612 | 5:+20459112 | None:intergenic |
| CTGAAGATTAAGCTTCACAA+CGG | 0.714266 | 5:+20458978 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CTGAAGATTAAGCTTCACAA+CGG | + | Chr5:20459201-20459220 | None:intergenic | 35.0% | |
| GACGTAAGATTCCAAAACAA+CGG | + | Chr5:20459126-20459145 | None:intergenic | 35.0% | |
| CGGAACGGTAATTCTTCAAA+CGG | + | Chr5:20459052-20459071 | None:intergenic | 40.0% | |
| TCCTCTTCAGTATTACCTTC+AGG | + | Chr5:20459158-20459177 | None:intergenic | 40.0% | |
| TCCTGAAGGTAATACTGAAG+AGG | - | Chr5:20459154-20459173 | MsG0580025558.01.T01:CDS | 40.0% | |
| !! | GTTACCGGTTTCAGTATCAT+CGG | - | Chr5:20459017-20459036 | MsG0580025558.01.T01:CDS | 40.0% |
| GAAACCGTGAACGGAAGTAA+CGG | + | Chr5:20459072-20459091 | None:intergenic | 45.0% | |
| GTTACTTCCGTTCACGGTTT+CGG | - | Chr5:20459071-20459090 | MsG0580025558.01.T01:CDS | 45.0% | |
| TACGTCGTTGATGTTCCTGA+AGG | - | Chr5:20459140-20459159 | MsG0580025558.01.T01:CDS | 45.0% | |
| ! | TGAGATCTGGACCGTTGTTT+TGG | - | Chr5:20459112-20459131 | MsG0580025558.01.T01:CDS | 45.0% |
| ACCGAAGGAAAGAACCGTGA+CGG | - | Chr5:20459236-20459255 | MsG0580025558.01.T01:CDS | 50.0% | |
| ACCGCCGATGATACTGAAAC+CGG | + | Chr5:20459024-20459043 | None:intergenic | 50.0% | |
| ACCGTCACGGTTCTTTCCTT+CGG | + | Chr5:20459240-20459259 | None:intergenic | 50.0% | |
| CGTTCCGTTACTTCCGTTCA+CGG | - | Chr5:20459065-20459084 | MsG0580025558.01.T01:CDS | 50.0% | |
| GTCAAGAACGTCGAGTCTCT+CGG | + | Chr5:20458985-20459004 | None:intergenic | 50.0% | |
| ! | ACCGGTTTCAGTATCATCGG+CGG | - | Chr5:20459020-20459039 | MsG0580025558.01.T01:CDS | 50.0% |
| ! | CGTGAACGGAAGTAACGGAA+CGG | + | Chr5:20459067-20459086 | None:intergenic | 50.0% |
| ! | GGTTTCGGTGACGGTGATAA+CGG | - | Chr5:20459086-20459105 | MsG0580025558.01.T01:CDS | 50.0% |
| !! | GTGATAACGGTGGTGAGATC+TGG | - | Chr5:20459099-20459118 | MsG0580025558.01.T01:CDS | 50.0% |
| AAGCTTGCGTCTGTCACCGA+AGG | - | Chr5:20459221-20459240 | MsG0580025558.01.T01:CDS | 55.0% | |
| ACCGTCACCGAAACCGTGAA+CGG | + | Chr5:20459081-20459100 | None:intergenic | 55.0% | |
| CAATGTCATCTCCGGTCTCC+CGG | - | Chr5:20458947-20458966 | MsG0580025558.01.T01:CDS | 55.0% | |
| CGCGACGTCAATGTCATCTC+CGG | - | Chr5:20458939-20458958 | MsG0580025558.01.T01:CDS | 55.0% | |
| GACGACGAACGTCGTGTTAC+CGG | - | Chr5:20459002-20459021 | MsG0580025558.01.T01:CDS | 55.0% | |
| GGAAAGAACCGTGACGGTGA+CGG | - | Chr5:20459242-20459261 | MsG0580025558.01.T01:CDS | 55.0% | |
| GTGACTTACCGTCACCGTCA+CGG | + | Chr5:20459253-20459272 | None:intergenic | 55.0% | |
| TCCGTTCACGGTTTCGGTGA+CGG | - | Chr5:20459077-20459096 | MsG0580025558.01.T01:CDS | 55.0% | |
| !! | TTCGGTGACGGTGATAACGG+TGG | - | Chr5:20459089-20459108 | MsG0580025558.01.T01:CDS | 55.0% |
| TGTCATCTCCGGTCTCCCGG+CGG | - | Chr5:20458950-20458969 | MsG0580025558.01.T01:CDS | 65.0% | |
| !! | CTCTCGGTGCTAGTCGCCGC+CGG | + | Chr5:20458969-20458988 | None:intergenic | 70.0% |
| !! | TCTCGGTGCTAGTCGCCGCC+GGG | + | Chr5:20458968-20458987 | None:intergenic | 70.0% |
| GCTAGTCGCCGCCGGGAGAC+CGG | + | Chr5:20458961-20458980 | None:intergenic | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr5 | gene | 20458921 | 20459277 | 20458921 | ID=MsG0580025558.01;Name=MsG0580025558.01 |
| Chr5 | mRNA | 20458921 | 20459277 | 20458921 | ID=MsG0580025558.01.T01;Parent=MsG0580025558.01;Name=MsG0580025558.01.T01;_AED=0.37;_eAED=0.37;_QI=0|-1|0|1|-1|1|1|0|118 |
| Chr5 | exon | 20458921 | 20459277 | 20458921 | ID=MsG0580025558.01.T01:exon:23324;Parent=MsG0580025558.01.T01 |
| Chr5 | CDS | 20458921 | 20459277 | 20458921 | ID=MsG0580025558.01.T01:cds;Parent=MsG0580025558.01.T01 |
| Gene Sequence |
| Protein sequence |
