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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0399820 | AES69384.1 | 88.060 | 67 | 8 | 0 | 1 | 67 | 1 | 67 | 1.11e-30 | 112 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0399820 | G7IZE0 | 88.060 | 67 | 8 | 0 | 1 | 67 | 1 | 67 | 5.32e-31 | 112 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0037180 | Msa0399820 | 0.842936 | 1.907079e-58 | -8.615850e-47 |
| Msa0037650 | Msa0399820 | -0.812590 | 3.926608e-51 | -8.615850e-47 |
| Msa0092220 | Msa0399820 | 0.834696 | 2.581683e-56 | -8.615850e-47 |
| Msa0145430 | Msa0399820 | 0.804979 | 1.665177e-49 | -8.615850e-47 |
| Msa0177320 | Msa0399820 | 0.831894 | 1.288777e-55 | -8.615850e-47 |
| Msa0216150 | Msa0399820 | -0.814115 | 1.816154e-51 | -8.615850e-47 |
| Msa0216340 | Msa0399820 | 0.809572 | 1.770658e-50 | -8.615850e-47 |
| Msa0375790 | Msa0399820 | 0.813329 | 2.704994e-51 | -8.615850e-47 |
| Msa0389080 | Msa0399820 | -0.805496 | 1.297719e-49 | -8.615850e-47 |
| Msa0399810 | Msa0399820 | 0.850648 | 1.481974e-60 | -8.615850e-47 |
| Msa0399820 | Msa0458220 | 0.812030 | 5.204334e-51 | -8.615850e-47 |
| Msa0399820 | Msa0504700 | 0.818520 | 1.878393e-52 | -8.615850e-47 |
| Msa0399820 | Msa0528930 | 0.872936 | 2.168240e-67 | -8.615850e-47 |
| Msa0399820 | Msa0600350 | 0.834540 | 2.825931e-56 | -8.615850e-47 |
| Msa0399820 | Msa0672950 | 0.811261 | 7.650136e-51 | -8.615850e-47 |
| Msa0399820 | Msa0672980 | 0.835612 | 1.516208e-56 | -8.615850e-47 |
| Msa0399820 | Msa0772490 | 0.804745 | 1.863546e-49 | -8.615850e-47 |
| Msa0399820 | Msa0779450 | -0.813236 | 2.835454e-51 | -8.615850e-47 |
| Msa0399820 | Msa0807870 | -0.812917 | 3.329815e-51 | -8.615850e-47 |
| Msa0399820 | Msa0873910 | 0.814475 | 1.511854e-51 | -8.615850e-47 |
| Msa0399820 | Msa0969380 | 0.813787 | 2.144912e-51 | -8.615850e-47 |
| Msa0399820 | Msa0969590 | 0.810772 | 9.763201e-51 | -8.615850e-47 |
| Msa0399820 | Msa0969720 | 0.817709 | 2.865276e-52 | -8.615850e-47 |
| Msa0399820 | Msa0975960 | 0.813217 | 2.862555e-51 | -8.615850e-47 |
| Msa0399820 | Msa1014550 | -0.803059 | 4.177011e-49 | -8.615850e-47 |
| Msa0399820 | Msa1055520 | -0.818771 | 1.647376e-52 | -8.615850e-47 |
| Msa0399820 | Msa1069340 | 0.822453 | 2.349622e-53 | -8.615850e-47 |
| Msa0399820 | Msa1121720 | -0.816197 | 6.261025e-52 | -8.615850e-47 |
| Msa0399820 | Msa1202470 | 0.809562 | 1.779568e-50 | -8.615850e-47 |
| Msa0399820 | Msa1249600 | 0.802864 | 4.582036e-49 | -8.615850e-47 |
| Msa0399820 | Msa1265020 | 0.800215 | 1.600314e-48 | -8.615850e-47 |
| Msa0399820 | Msa1273620 | -0.804770 | 1.841383e-49 | -8.615850e-47 |
| Msa0399820 | Msa1356100 | -0.815626 | 8.394670e-52 | -8.615850e-47 |
| Msa0399820 | Msa1368390 | 0.809792 | 1.588244e-50 | -8.615850e-47 |
| Msa0399820 | Msa1398450 | -0.810082 | 1.375294e-50 | -8.615850e-47 |
| Msa0399820 | Msa1402300 | 0.813294 | 2.753328e-51 | -8.615850e-47 |
| Msa0399820 | Msa1439930 | 0.802712 | 4.924872e-49 | -8.615850e-47 |
| Msa0239560 | Msa0399820 | 0.811228 | 7.774874e-51 | -8.615850e-47 |
| Msa0256540 | Msa0399820 | 0.816368 | 5.733246e-52 | -8.615850e-47 |
| Msa0326170 | Msa0399820 | -0.811761 | 5.956743e-51 | -8.615850e-47 |
| Msa0334320 | Msa0399820 | 0.834557 | 2.797897e-56 | -8.615850e-47 |
| Msa0334450 | Msa0399820 | -0.811609 | 6.426430e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0399820 | MtrunA17_Chr3g0087931 | 88.060 | 67 | 8 | 0 | 1 | 67 | 1 | 67 | 1.02e-34 | 112 |
| Msa0399820 | MtrunA17_Chr3g0087921 | 89.552 | 67 | 7 | 0 | 1 | 67 | 1 | 67 | 5.14e-34 | 110 |
| Msa0399820 | MtrunA17_Chr3g0087911 | 88.060 | 67 | 8 | 0 | 1 | 67 | 1 | 67 | 4.82e-26 | 90.5 |
| Msa0399820 | MtrunA17_Chr3g0088011 | 78.261 | 69 | 10 | 3 | 1 | 67 | 1 | 66 | 7.87e-26 | 89.7 |
| Msa0399820 | MtrunA17_Chr3g0088251 | 78.261 | 69 | 10 | 3 | 1 | 67 | 1 | 66 | 4.56e-25 | 87.8 |
| Msa0399820 | MtrunA17_Chr3g0088031 | 80.328 | 61 | 10 | 2 | 9 | 67 | 1 | 61 | 8.73e-25 | 87.0 |
| Msa0399820 | MtrunA17_Chr3g0087981 | 72.727 | 66 | 16 | 2 | 4 | 67 | 3 | 68 | 1.70e-24 | 86.7 |
| Msa0399820 | MtrunA17_Chr3g0088021 | 75.362 | 69 | 12 | 3 | 1 | 67 | 1 | 66 | 7.32e-24 | 84.7 |
| Msa0399820 | MtrunA17_Chr3g0088041 | 93.182 | 44 | 3 | 0 | 24 | 67 | 23 | 66 | 1.07e-21 | 79.3 |
| Msa0399820 | MtrunA17_Chr3g0088071 | 83.333 | 48 | 8 | 0 | 20 | 67 | 19 | 66 | 2.04e-21 | 78.6 |
| Msa0399820 | MtrunA17_Chr3g0087941 | 86.364 | 66 | 9 | 0 | 2 | 67 | 3 | 68 | 3.36e-20 | 75.5 |
| Msa0399820 | MtrunA17_Chr3g0088271 | 80.851 | 47 | 9 | 0 | 21 | 67 | 19 | 65 | 5.82e-20 | 75.1 |
| Msa0399820 | MtrunA17_Chr3g0088081 | 88.095 | 42 | 5 | 0 | 26 | 67 | 24 | 65 | 7.49e-20 | 74.7 |
| Msa0399820 | MtrunA17_Chr3g0088001 | 73.846 | 65 | 16 | 1 | 4 | 67 | 3 | 67 | 2.16e-19 | 73.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 16 sgRNAs with CRISPR-Local
Find 16 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCAGCATCAGGACCTGGTGC+TGG | 0.401353 | 3_2:-23414106 | Msa0399800:CDS |
| CCAGCACCAGGTCCTGATGC+TGG | 0.415553 | 3_2:+23414106 | Msa0399820:CDS |
| GATCCGGCAGCTCCAGCATC+AGG | 0.425147 | 3_2:-23414118 | Msa0399800:CDS |
| GGTCCTGATGCTGGAGCTGC+CGG | 0.466366 | 3_2:+23414115 | Msa0399820:CDS |
| AACAGAACTTGCAACAGATC+CGG | 0.490985 | 3_2:-23414134 | Msa0399800:CDS |
| CTGGAGCTAACGACGGACTA+AGG | 0.507562 | 3_2:-23414087 | Msa0399800:intron |
| CTAACGACGGACTAAGGTCT+TGG | 0.511428 | 3_2:-23414081 | Msa0399800:intron |
| AAGGTCTTGGGCTGAGGCCA+CGG | 0.512034 | 3_2:-23414068 | Msa0399800:intron |
| CGGACTAAGGTCTTGGGCTG+AGG | 0.526965 | 3_2:-23414074 | Msa0399800:intron |
| TAACGACGGACTAAGGTCTT+GGG | 0.527224 | 3_2:-23414080 | Msa0399800:intron |
| GCAAGTTCTGTTGCTATGAT+CGG | 0.547029 | 3_2:+23414145 | Msa0399820:CDS |
| GCAGCTCCAGCATCAGGACC+TGG | 0.550326 | 3_2:-23414112 | Msa0399800:CDS |
| CCGTCGTTAGCTCCAGCACC+AGG | 0.556130 | 3_2:+23414094 | Msa0399820:CDS |
| GTCTTGGGCTGAGGCCACGG+TGG | 0.665088 | 3_2:-23414065 | Msa0399800:intron |
| CCTGGTGCTGGAGCTAACGA+CGG | 0.671877 | 3_2:-23414094 | Msa0399800:CDS |
| TGTCATCGTATTCGCCACCG+TGG | 0.714769 | 3_2:+23414051 | Msa0399820:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AACAGAACTTGCAACAGATC+CGG | - | chr3_2:23414137-23414156 | Msa0399800:CDS | 40.0% | |
| GCAAGTTCTGTTGCTATGAT+CGG | + | chr3_2:23414145-23414164 | Msa0399820:CDS | 40.0% | |
| !! | TAACGACGGACTAAGGTCTT+GGG | - | chr3_2:23414083-23414102 | Msa0399800:intron | 45.0% |
| !! | CTAACGACGGACTAAGGTCT+TGG | - | chr3_2:23414084-23414103 | Msa0399800:intron | 50.0% |
| TGTCATCGTATTCGCCACCG+TGG | + | chr3_2:23414051-23414070 | Msa0399820:CDS | 55.0% | |
| !! | CTGGAGCTAACGACGGACTA+AGG | - | chr3_2:23414090-23414109 | Msa0399800:CDS | 55.0% |
| AAGGTCTTGGGCTGAGGCCA+CGG | - | chr3_2:23414071-23414090 | Msa0399800:intron | 60.0% | |
| CGGACTAAGGTCTTGGGCTG+AGG | - | chr3_2:23414077-23414096 | Msa0399800:intron | 60.0% | |
| ! | CCTGGTGCTGGAGCTAACGA+CGG | - | chr3_2:23414097-23414116 | Msa0399800:CDS | 60.0% |
| CCGTCGTTAGCTCCAGCACC+AGG | + | chr3_2:23414094-23414113 | Msa0399820:CDS | 65.0% | |
| CCAGCATCAGGACCTGGTGC+TGG | - | chr3_2:23414109-23414128 | Msa0399800:CDS | 65.0% | |
| CCAGCACCAGGTCCTGATGC+TGG | + | chr3_2:23414106-23414125 | Msa0399820:CDS | 65.0% | |
| GCAGCTCCAGCATCAGGACC+TGG | - | chr3_2:23414115-23414134 | Msa0399800:CDS | 65.0% | |
| GGTCCTGATGCTGGAGCTGC+CGG | + | chr3_2:23414115-23414134 | Msa0399820:CDS | 65.0% | |
| GATCCGGCAGCTCCAGCATC+AGG | - | chr3_2:23414121-23414140 | Msa0399800:CDS | 65.0% | |
| GTCTTGGGCTGAGGCCACGG+TGG | - | chr3_2:23414068-23414087 | Msa0399800:intron | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 23414007 | 23414210 | 23414007 | ID=Msa0399820;Name=Msa0399820 |
| chr3_2 | mRNA | 23414007 | 23414210 | 23414007 | ID=Msa0399820-mRNA-1;Parent=Msa0399820;Name=Msa0399820-mRNA-1;_AED=0.40;_eAED=0.41;_QI=0|-1|0|1|-1|1|1|0|67 |
| chr3_2 | exon | 23414007 | 23414210 | 23414007 | ID=Msa0399820-mRNA-1:exon:4970;Parent=Msa0399820-mRNA-1 |
| chr3_2 | CDS | 23414007 | 23414210 | 23414007 | ID=Msa0399820-mRNA-1:cds;Parent=Msa0399820-mRNA-1 |
| Gene Sequence |
| Protein sequence |
