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 |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0772920 | sp|O82161|PHI1_TOBAC | 85.149 | 101 | 15 | 0 | 1 | 101 | 213 | 313 | 1.13e-55 | 177 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0772920 | G7KBB9 | 99.010 | 101 | 1 | 0 | 1 | 101 | 215 | 315 | 8.57e-64 | 204 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0731870 | Msa0772920 | 0.815725 | 7.980383e-52 | -8.615850e-47 |
| Msa0731880 | Msa0772920 | 0.869006 | 4.277179e-66 | -8.615850e-47 |
| Msa0731890 | Msa0772920 | 0.810072 | 1.382275e-50 | -8.615850e-47 |
| Msa0772920 | Msa0772980 | 0.883740 | 3.472985e-71 | -8.615850e-47 |
| Msa0772920 | Msa0810250 | 0.819781 | 9.695728e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0772920 | MtrunA17_Chr5g0426441 | 99.010 | 101 | 1 | 0 | 1 | 101 | 858 | 958 | 6.23e-63 | 205 |
| Msa0772920 | MtrunA17_Chr5g0426441 | 98.020 | 101 | 2 | 0 | 1 | 101 | 239 | 339 | 1.25e-62 | 204 |
| Msa0772920 | MtrunA17_Chr5g0426441 | 98.020 | 101 | 2 | 0 | 1 | 101 | 548 | 648 | 3.23e-62 | 202 |
| Msa0772920 | MtrunA17_Chr3g0116011 | 89.109 | 101 | 11 | 0 | 1 | 101 | 204 | 304 | 2.63e-59 | 183 |
| Msa0772920 | MtrunA17_Chr3g0116001 | 88.119 | 101 | 12 | 0 | 1 | 101 | 204 | 304 | 2.65e-58 | 181 |
| Msa0772920 | MtrunA17_Chr3g0115951 | 86.139 | 101 | 14 | 0 | 1 | 101 | 217 | 317 | 2.73e-58 | 181 |
| Msa0772920 | MtrunA17_Chr4g0050321 | 77.228 | 101 | 23 | 0 | 1 | 101 | 200 | 300 | 3.39e-51 | 162 |
| Msa0772920 | MtrunA17_Chr2g0279311 | 67.327 | 101 | 33 | 0 | 1 | 101 | 204 | 304 | 2.60e-46 | 150 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0772920 | AT4G08950.1 | 82.178 | 101 | 18 | 0 | 1 | 101 | 214 | 314 | 9.38e-55 | 172 |
| Msa0772920 | AT1G35140.1 | 78.218 | 101 | 22 | 0 | 1 | 101 | 209 | 309 | 6.26e-53 | 167 |
| Msa0772920 | AT5G64260.1 | 70.297 | 101 | 30 | 0 | 1 | 101 | 205 | 305 | 4.10e-47 | 152 |
| Msa0772920 | AT5G09440.1 | 64.356 | 101 | 24 | 2 | 1 | 101 | 190 | 278 | 1.41e-36 | 125 |
| Msa0772920 | AT3G02970.1 | 33.333 | 111 | 58 | 1 | 5 | 99 | 220 | 330 | 5.48e-15 | 68.9 |
| Msa0772920 | AT5G51550.1 | 41.237 | 97 | 54 | 3 | 3 | 98 | 237 | 331 | 5.48e-11 | 57.8 |
Find 28 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCAAGACCCACATCGTTATT+TGG | 0.213136 | 5_2:-47376735 | None:intergenic |
| TGGTTATGCTGGGGACCTTT+TGG | 0.299405 | 5_2:+47376899 | Msa0772920:CDS |
| GCTTCCAAAGGAGCTTCTTT+TGG | 0.308698 | 5_2:-47376834 | None:intergenic |
| AGCTCCTTTGGAAGCTGCTT+CGG | 0.362716 | 5_2:+47376842 | Msa0772920:CDS |
| AGGACCAAAAGAAGCTCCTT+TGG | 0.376105 | 5_2:+47376830 | Msa0772920:CDS |
| AATAACGATGTGGGTCTTGA+TGG | 0.390121 | 5_2:+47376738 | Msa0772920:CDS |
| TATAACGCAAATGGTGATAA+TGG | 0.393265 | 5_2:+47376945 | Msa0772920:CDS |
| TCTTTATACCAATGTAGAAC+AGG | 0.426635 | 5_2:-47377012 | None:intergenic |
| GGAGCTTATCCTGGTTATGC+TGG | 0.426719 | 5_2:+47376888 | Msa0772920:CDS |
| GGAACCGTGACCAATCCTTT+TGG | 0.427628 | 5_2:+47376792 | Msa0772920:CDS |
| TGAAAATATCCATTACCAAA+AGG | 0.461381 | 5_2:-47376807 | None:intergenic |
| GAAGCTGCTTCGGCTTGTAC+CGG | 0.475241 | 5_2:+47376852 | Msa0772920:CDS |
| TGTACCGGTGTTTATGCTAA+AGG | 0.481549 | 5_2:+47376867 | Msa0772920:CDS |
| TATGCTAAAGGAGCTTATCC+TGG | 0.497752 | 5_2:+47376879 | Msa0772920:CDS |
| ATATCCATTACCAAAAGGAT+TGG | 0.518887 | 5_2:-47376802 | None:intergenic |
| TCGTTATTTGGTGCAACCAA+TGG | 0.521248 | 5_2:-47376723 | None:intergenic |
| GAGCTTATCCTGGTTATGCT+GGG | 0.526776 | 5_2:+47376889 | Msa0772920:CDS |
| GGTGCTAGCTATAACGCAAA+TGG | 0.528973 | 5_2:+47376936 | Msa0772920:CDS |
| CGATGTGGGTCTTGATGGAA+TGG | 0.552866 | 5_2:+47376743 | Msa0772920:CDS |
| ACGCAAATGGTGATAATGGA+AGG | 0.560708 | 5_2:+47376949 | Msa0772920:CDS |
| AAAAGGTCCCCAGCATAACC+AGG | 0.566674 | 5_2:-47376897 | None:intergenic |
| AACGTCAGCCTGTTCTACAT+TGG | 0.611115 | 5_2:+47377004 | Msa0772920:CDS |
| GGTTGCACCAAATAACGATG+TGG | 0.628110 | 5_2:+47376728 | Msa0772920:CDS |
| AGCTTATCCTGGTTATGCTG+GGG | 0.628401 | 5_2:+47376890 | Msa0772920:CDS |
| ATTACCAAAAGGATTGGTCA+CGG | 0.640683 | 5_2:-47376796 | None:intergenic |
| CAAGCCGAAGCAGCTTCCAA+AGG | 0.645366 | 5_2:-47376846 | None:intergenic |
| GTTGCACCAAATAACGATGT+GGG | 0.661869 | 5_2:+47376729 | Msa0772920:CDS |
| AGCTCCTTTAGCATAAACAC+CGG | 0.684494 | 5_2:-47376871 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TGAAAATATCCATTACCAAA+AGG | - | chr5_2:47376810-47376829 | None:intergenic | 25.0% |
| !!! | TTTGGTAATGGATATTTTCA+AGG | + | chr5_2:47376810-47376829 | Msa0772920:CDS | 25.0% |
| ATATCCATTACCAAAAGGAT+TGG | - | chr5_2:47376805-47376824 | None:intergenic | 30.0% | |
| TATAACGCAAATGGTGATAA+TGG | + | chr5_2:47376945-47376964 | Msa0772920:CDS | 30.0% | |
| !! | ATTACCAAAAGGATTGGTCA+CGG | - | chr5_2:47376799-47376818 | None:intergenic | 35.0% |
| GTTGCACCAAATAACGATGT+GGG | + | chr5_2:47376729-47376748 | Msa0772920:CDS | 40.0% | |
| TCAAGACCCACATCGTTATT+TGG | - | chr5_2:47376738-47376757 | None:intergenic | 40.0% | |
| AATAACGATGTGGGTCTTGA+TGG | + | chr5_2:47376738-47376757 | Msa0772920:CDS | 40.0% | |
| !!! | AATGTCGCTAGTCTTTTAGC+TGG | + | chr5_2:47376771-47376790 | Msa0772920:CDS | 40.0% |
| ! | GTGACCAATCCTTTTGGTAA+TGG | + | chr5_2:47376798-47376817 | Msa0772920:CDS | 40.0% |
| ! | TGTACCGGTGTTTATGCTAA+AGG | + | chr5_2:47376867-47376886 | Msa0772920:CDS | 40.0% |
| AGCTCCTTTAGCATAAACAC+CGG | - | chr5_2:47376874-47376893 | None:intergenic | 40.0% | |
| TATGCTAAAGGAGCTTATCC+TGG | + | chr5_2:47376879-47376898 | Msa0772920:CDS | 40.0% | |
| !!! | CACTTGTTTTGTCCACCAAA+AGG | - | chr5_2:47376917-47376936 | None:intergenic | 40.0% |
| !! | CTTTTGGTGGACAAAACAAG+TGG | + | chr5_2:47376915-47376934 | Msa0772920:CDS | 40.0% |
| !! | ACGCAAATGGTGATAATGGA+AGG | + | chr5_2:47376949-47376968 | Msa0772920:CDS | 40.0% |
| !!! | GTTTTAGGATCAACAATCGC+AGG | - | chr5_2:47376987-47377006 | None:intergenic | 40.0% |
| GGTTGCACCAAATAACGATG+TGG | + | chr5_2:47376728-47376747 | Msa0772920:CDS | 45.0% | |
| AGGACCAAAAGAAGCTCCTT+TGG | + | chr5_2:47376830-47376849 | Msa0772920:CDS | 45.0% | |
| ! | GCTTCCAAAGGAGCTTCTTT+TGG | - | chr5_2:47376837-47376856 | None:intergenic | 45.0% |
| GAGCTTATCCTGGTTATGCT+GGG | + | chr5_2:47376889-47376908 | Msa0772920:CDS | 45.0% | |
| AGCTTATCCTGGTTATGCTG+GGG | + | chr5_2:47376890-47376909 | Msa0772920:CDS | 45.0% | |
| GGTGCTAGCTATAACGCAAA+TGG | + | chr5_2:47376936-47376955 | Msa0772920:CDS | 45.0% | |
| ! | GTAGAACAGGCTGACGTTTT+AGG | - | chr5_2:47377002-47377021 | None:intergenic | 45.0% |
| AACGTCAGCCTGTTCTACAT+TGG | + | chr5_2:47377004-47377023 | Msa0772920:CDS | 45.0% | |
| CGATGTGGGTCTTGATGGAA+TGG | + | chr5_2:47376743-47376762 | Msa0772920:CDS | 50.0% | |
| ! | GGAACCGTGACCAATCCTTT+TGG | + | chr5_2:47376792-47376811 | Msa0772920:CDS | 50.0% |
| ! | AGCTCCTTTGGAAGCTGCTT+CGG | + | chr5_2:47376842-47376861 | Msa0772920:CDS | 50.0% |
| GGAGCTTATCCTGGTTATGC+TGG | + | chr5_2:47376888-47376907 | Msa0772920:CDS | 50.0% | |
| AAAAGGTCCCCAGCATAACC+AGG | - | chr5_2:47376900-47376919 | None:intergenic | 50.0% | |
| ! | TGGTTATGCTGGGGACCTTT+TGG | + | chr5_2:47376899-47376918 | Msa0772920:CDS | 50.0% |
| ! | TTATGCTGGGGACCTTTTGG+TGG | + | chr5_2:47376902-47376921 | Msa0772920:CDS | 50.0% |
| CAAGCCGAAGCAGCTTCCAA+AGG | - | chr5_2:47376849-47376868 | None:intergenic | 55.0% | |
| ! | GAAGCTGCTTCGGCTTGTAC+CGG | + | chr5_2:47376852-47376871 | Msa0772920:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_2 | gene | 47376726 | 47377031 | 47376726 | ID=Msa0772920;Name=Msa0772920 |
| chr5_2 | mRNA | 47376726 | 47377031 | 47376726 | ID=Msa0772920-mRNA-1;Parent=Msa0772920;Name=Msa0772920-mRNA-1;_AED=0.45;_eAED=0.46;_QI=0|-1|0|1|-1|1|1|0|101 |
| chr5_2 | exon | 47376726 | 47377031 | 47376726 | ID=Msa0772920-mRNA-1:exon:14236;Parent=Msa0772920-mRNA-1 |
| chr5_2 | CDS | 47376726 | 47377031 | 47376726 | ID=Msa0772920-mRNA-1:cds;Parent=Msa0772920-mRNA-1 |
| Gene Sequence |
| Protein sequence |
