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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0157800 | RHN41061.1 | 61.000 | 100 | 39 | 0 | 4 | 103 | 129 | 228 | 2.30e-34 | 129 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0157800 | A0A396GLK9 | 61.000 | 100 | 39 | 0 | 4 | 103 | 129 | 228 | 1.10e-34 | 129 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0111670 | Msa0157800 | 0.801936 | 7.115758e-49 | -8.615850e-47 |
| Msa0157800 | Msa1131820 | 0.813558 | 2.408876e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0157800 | MtrunA17_Chr8g0361961 | 61.000 | 100 | 39 | 0 | 4 | 103 | 129 | 228 | 2.12e-38 | 129 |
| Msa0157800 | MtrunA17_Chr8g0365081 | 56.000 | 100 | 44 | 0 | 4 | 103 | 10 | 109 | 3.30e-35 | 117 |
| Msa0157800 | MtrunA17_Chr7g0241461 | 50.505 | 99 | 47 | 1 | 5 | 103 | 244 | 340 | 5.79e-27 | 103 |
| Msa0157800 | MtrunA17_Chr6g0468941 | 50.962 | 104 | 45 | 2 | 4 | 103 | 109 | 210 | 1.44e-24 | 96.3 |
| Msa0157800 | MtrunA17_Chr1g0174781 | 50.602 | 83 | 41 | 0 | 9 | 91 | 66 | 148 | 4.98e-23 | 86.7 |
| Msa0157800 | MtrunA17_Chr3g0092441 | 45.098 | 102 | 54 | 1 | 2 | 103 | 121 | 220 | 2.27e-21 | 86.7 |
| Msa0157800 | MtrunA17_Chr7g0228501 | 45.263 | 95 | 47 | 1 | 9 | 98 | 31 | 125 | 3.53e-20 | 80.5 |
| Msa0157800 | MtrunA17_Chr6g0471791 | 45.263 | 95 | 52 | 0 | 9 | 103 | 231 | 325 | 7.69e-20 | 82.8 |
| Msa0157800 | MtrunA17_Chr4g0022371 | 43.158 | 95 | 54 | 0 | 9 | 103 | 80 | 174 | 1.72e-19 | 79.0 |
| Msa0157800 | MtrunA17_Chr5g0420971 | 43.158 | 95 | 54 | 0 | 9 | 103 | 38 | 132 | 1.80e-19 | 77.8 |
| Msa0157800 | MtrunA17_Chr4g0022701 | 43.158 | 95 | 54 | 0 | 9 | 103 | 80 | 174 | 1.89e-19 | 78.6 |
| Msa0157800 | MtrunA17_Chr2g0307161 | 42.574 | 101 | 55 | 1 | 6 | 103 | 60 | 160 | 3.71e-19 | 79.7 |
| Msa0157800 | MtrunA17_Chr1g0170921 | 43.158 | 95 | 54 | 0 | 9 | 103 | 138 | 232 | 4.09e-19 | 80.5 |
| Msa0157800 | MtrunA17_Chr8g0360331 | 46.988 | 83 | 44 | 0 | 9 | 91 | 156 | 238 | 4.93e-19 | 78.6 |
| Msa0157800 | MtrunA17_Chr8g0359621 | 40.000 | 95 | 57 | 0 | 9 | 103 | 242 | 336 | 1.28e-18 | 79.0 |
| Msa0157800 | MtrunA17_Chr6g0468441 | 41.837 | 98 | 55 | 1 | 6 | 103 | 245 | 340 | 1.48e-18 | 79.0 |
| Msa0157800 | MtrunA17_Chr7g0229991 | 41.584 | 101 | 56 | 1 | 6 | 103 | 105 | 205 | 2.26e-18 | 78.2 |
| Msa0157800 | MtrunA17_Chr5g0416811 | 42.105 | 95 | 55 | 0 | 9 | 103 | 255 | 349 | 2.40e-18 | 78.6 |
| Msa0157800 | MtrunA17_Chr8g0358671 | 42.105 | 95 | 55 | 0 | 9 | 103 | 255 | 349 | 2.67e-18 | 78.6 |
| Msa0157800 | MtrunA17_Chr1g0175271 | 42.105 | 95 | 55 | 0 | 9 | 103 | 62 | 156 | 1.56e-17 | 75.9 |
| Msa0157800 | MtrunA17_Chr3g0095531 | 41.053 | 95 | 56 | 0 | 9 | 103 | 190 | 284 | 7.15e-17 | 73.6 |
| Msa0157800 | MtrunA17_Chr2g0311261 | 43.373 | 83 | 47 | 0 | 9 | 91 | 68 | 150 | 7.30e-17 | 73.6 |
| Msa0157800 | MtrunA17_Chr7g0226831 | 43.373 | 83 | 47 | 0 | 9 | 91 | 255 | 337 | 1.65e-16 | 73.6 |
| Msa0157800 | MtrunA17_Chr0c01g0488971 | 40.000 | 95 | 57 | 0 | 9 | 103 | 123 | 217 | 1.72e-16 | 73.2 |
| Msa0157800 | MtrunA17_Chr3g0096291 | 46.341 | 82 | 42 | 1 | 5 | 86 | 244 | 323 | 1.22e-15 | 70.5 |
| Msa0157800 | MtrunA17_Chr6g0478901 | 38.947 | 95 | 58 | 0 | 9 | 103 | 254 | 348 | 1.75e-15 | 70.5 |
| Msa0157800 | MtrunA17_Chr3g0095591 | 41.111 | 90 | 53 | 0 | 14 | 103 | 2 | 91 | 2.88e-15 | 69.7 |
| Msa0157800 | MtrunA17_Chr7g0229161 | 39.583 | 96 | 57 | 1 | 9 | 103 | 123 | 218 | 3.14e-15 | 69.3 |
| Msa0157800 | MtrunA17_Chr7g0230881 | 48.438 | 64 | 31 | 1 | 9 | 70 | 190 | 253 | 1.07e-12 | 61.6 |
| Msa0157800 | MtrunA17_Chr6g0468221 | 36.905 | 84 | 53 | 0 | 20 | 103 | 6 | 89 | 1.92e-12 | 59.7 |
| Msa0157800 | MtrunA17_Chr6g0469341 | 38.462 | 91 | 54 | 1 | 1 | 91 | 250 | 338 | 1.19e-11 | 59.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 22 sgRNAs with CRISPR-Local
Find 22 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTCAACTTATCTCAACTTA+TGG | 0.281252 | 1_4:+25962149 | Msa0157800:CDS |
| TCTGAAGTAGTTTCCCTTGA+TGG | 0.307427 | 1_4:-25961987 | Msa0157790:intron |
| ATGAAGTGAGCAAGCATATA+TGG | 0.324807 | 1_4:-25962204 | Msa0157790:intron |
| TTCAGATATAAGTCTTGTAT+AGG | 0.346983 | 1_4:-25961959 | Msa0157790:intron |
| TCAGATATAAGTCTTGTATA+GGG | 0.385774 | 1_4:-25961958 | Msa0157790:intron |
| GGGTCTTCCTTTGATATTAG+TGG | 0.418897 | 1_4:-25962180 | Msa0157790:intron |
| ATATCTGAAATCTTCCATCA+AGG | 0.506523 | 1_4:+25961973 | Msa0157800:CDS |
| TCTATCAGACATGGAATCAA+AGG | 0.513545 | 1_4:+25961921 | None:intergenic |
| GAAGATAGTTGAGAAGAAGA+AGG | 0.523583 | 1_4:+25962095 | Msa0157800:CDS |
| GAAGAGCTTGGAACTTGCAC+AGG | 0.529413 | 1_4:+25962039 | Msa0157800:CDS |
| GGTCTTCCTTTGATATTAGT+GGG | 0.531645 | 1_4:-25962179 | Msa0157790:intron |
| GTAGCTTCTGATGAAGAGCT+TGG | 0.535240 | 1_4:+25962027 | Msa0157800:CDS |
| TATCTGAAATCTTCCATCAA+GGG | 0.544329 | 1_4:+25961974 | Msa0157800:CDS |
| TCTTCTCAACTATCTTCATG+TGG | 0.550671 | 1_4:-25962089 | Msa0157790:intron |
| CTATCAGACATGGAATCAAA+GGG | 0.555083 | 1_4:+25961922 | None:intergenic |
| GGACTTCCCACTAATATCAA+AGG | 0.589900 | 1_4:+25962173 | Msa0157800:CDS |
| ATAAGTTGAGGCTTGTCTGA+AGG | 0.590802 | 1_4:-25962137 | Msa0157790:intron |
| CCATAAGTTGAGATAAGTTG+AGG | 0.598378 | 1_4:-25962149 | Msa0157790:intron |
| CAACTTATCTCAACTTATGG+AGG | 0.605548 | 1_4:+25962152 | Msa0157800:CDS |
| AAGTGAGCAAGCATATATGG+AGG | 0.641410 | 1_4:-25962201 | Msa0157790:intron |
| CTTCAGAAGCTACAACACGT+TGG | 0.658839 | 1_4:+25962003 | Msa0157800:CDS |
| AGTGAGCAAGCATATATGGA+GGG | 0.682286 | 1_4:-25962200 | Msa0157790:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TCAGATATAAGTCTTGTATA+GGG | - | chr1_4:25961961-25961980 | Msa0157790:intron | 25.0% |
| !! | TTCAGATATAAGTCTTGTAT+AGG | - | chr1_4:25961962-25961981 | Msa0157790:intron | 25.0% |
| ! | ATATCTGAAATCTTCCATCA+AGG | + | chr1_4:25961973-25961992 | Msa0157800:CDS | 30.0% |
| ! | TATCTGAAATCTTCCATCAA+GGG | + | chr1_4:25961974-25961993 | Msa0157800:CDS | 30.0% |
| TCTTCTCAACTATCTTCATG+TGG | - | chr1_4:25962092-25962111 | Msa0157790:intron | 35.0% | |
| GAAGATAGTTGAGAAGAAGA+AGG | + | chr1_4:25962095-25962114 | Msa0157800:CDS | 35.0% | |
| ! | CCATAAGTTGAGATAAGTTG+AGG | - | chr1_4:25962152-25962171 | Msa0157790:intron | 35.0% |
| CCTCAACTTATCTCAACTTA+TGG | + | chr1_4:25962149-25962168 | Msa0157800:CDS | 35.0% | |
| CAACTTATCTCAACTTATGG+AGG | + | chr1_4:25962152-25962171 | Msa0157800:CDS | 35.0% | |
| GGTCTTCCTTTGATATTAGT+GGG | - | chr1_4:25962182-25962201 | Msa0157790:intron | 35.0% | |
| ATGAAGTGAGCAAGCATATA+TGG | - | chr1_4:25962207-25962226 | Msa0157790:intron | 35.0% | |
| ! | TCTGAAGTAGTTTCCCTTGA+TGG | - | chr1_4:25961990-25962009 | Msa0157790:intron | 40.0% |
| !!! | AGTGATCTCAGTTTTGACTC+TGG | + | chr1_4:25962065-25962084 | Msa0157800:CDS | 40.0% |
| !!! | GTGATCTCAGTTTTGACTCT+GGG | + | chr1_4:25962066-25962085 | Msa0157800:CDS | 40.0% |
| ! | ATAAGTTGAGGCTTGTCTGA+AGG | - | chr1_4:25962140-25962159 | Msa0157790:intron | 40.0% |
| GGACTTCCCACTAATATCAA+AGG | + | chr1_4:25962173-25962192 | Msa0157800:CDS | 40.0% | |
| GGGTCTTCCTTTGATATTAG+TGG | - | chr1_4:25962183-25962202 | Msa0157790:intron | 40.0% | |
| AGTGAGCAAGCATATATGGA+GGG | - | chr1_4:25962203-25962222 | Msa0157790:intron | 40.0% | |
| AAGTGAGCAAGCATATATGG+AGG | - | chr1_4:25962204-25962223 | Msa0157790:intron | 40.0% | |
| CTTCAGAAGCTACAACACGT+TGG | + | chr1_4:25962003-25962022 | Msa0157800:CDS | 45.0% | |
| GTAGCTTCTGATGAAGAGCT+TGG | + | chr1_4:25962027-25962046 | Msa0157800:CDS | 45.0% | |
| GAAGAGCTTGGAACTTGCAC+AGG | + | chr1_4:25962039-25962058 | Msa0157800:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 25961931 | 25962242 | 25961931 | ID=Msa0157800;Name=Msa0157800 |
| chr1_4 | mRNA | 25961931 | 25962242 | 25961931 | ID=Msa0157800-mRNA-1;Parent=Msa0157800;Name=Msa0157800-mRNA-1;_AED=0.35;_eAED=0.38;_QI=0|-1|0|1|-1|1|1|0|103 |
| chr1_4 | exon | 25961931 | 25962242 | 25961931 | ID=Msa0157800-mRNA-1:exon:8666;Parent=Msa0157800-mRNA-1 |
| chr1_4 | CDS | 25961931 | 25962242 | 25961931 | ID=Msa0157800-mRNA-1:cds;Parent=Msa0157800-mRNA-1 |
| Gene Sequence |
| Protein sequence |
