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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0285800 | RHN73765.1 | 76.733 | 202 | 31 | 3 | 2 | 203 | 4 | 189 | 6.79e-95 | 285 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0285800 | sp|Q4PSU4|AGL61_ARATH | 29.032 | 155 | 100 | 6 | 45 | 194 | 65 | 214 | 1.53e-12 | 67.8 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0285800 | A0A396JBD2 | 76.733 | 202 | 31 | 3 | 2 | 203 | 4 | 189 | 3.24e-95 | 285 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0285800 | TF | MADS-M-type |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0285800 | MtrunA17_Chr2g0302091 | 76.733 | 202 | 31 | 3 | 2 | 203 | 4 | 189 | 6.24e-99 | 285 |
| Msa0285800 | MtrunA17_Chr3g0093131 | 62.105 | 190 | 60 | 6 | 17 | 204 | 1 | 180 | 3.54e-65 | 199 |
| Msa0285800 | MtrunA17_Chr8g0345001 | 50.000 | 178 | 82 | 5 | 31 | 204 | 3 | 177 | 6.47e-46 | 150 |
| Msa0285800 | MtrunA17_Chr4g0018951 | 34.559 | 136 | 75 | 3 | 63 | 197 | 31 | 153 | 2.54e-18 | 78.6 |
| Msa0285800 | MtrunA17_Chr2g0333981 | 37.037 | 162 | 90 | 6 | 43 | 197 | 5 | 161 | 5.80e-18 | 77.8 |
| Msa0285800 | MtrunA17_Chr8g0379021 | 34.810 | 158 | 94 | 6 | 43 | 197 | 10 | 161 | 3.14e-14 | 67.8 |
| Msa0285800 | MtrunA17_Chr8g0355091 | 33.529 | 170 | 89 | 8 | 31 | 191 | 2 | 156 | 1.17e-13 | 67.4 |
| Msa0285800 | MtrunA17_Chr1g0206991 | 34.177 | 158 | 92 | 7 | 44 | 194 | 7 | 159 | 7.74e-13 | 64.3 |
| Msa0285800 | MtrunA17_Chr2g0292791 | 32.370 | 173 | 93 | 8 | 31 | 194 | 2 | 159 | 8.03e-13 | 65.1 |
| Msa0285800 | MtrunA17_Chr1g0206701 | 33.962 | 159 | 85 | 7 | 44 | 191 | 7 | 156 | 9.25e-13 | 65.1 |
| Msa0285800 | MtrunA17_Chr3g0099421 | 33.333 | 162 | 88 | 6 | 44 | 194 | 32 | 184 | 1.03e-12 | 65.1 |
| Msa0285800 | MtrunA17_Chr1g0149391 | 32.099 | 162 | 90 | 7 | 44 | 194 | 7 | 159 | 1.55e-11 | 61.6 |
| Msa0285800 | MtrunA17_Chr3g0089141 | 32.374 | 139 | 80 | 5 | 63 | 194 | 28 | 159 | 4.87e-11 | 60.1 |
| Msa0285800 | MtrunA17_Chr1g0208581 | 33.333 | 171 | 94 | 7 | 31 | 194 | 2 | 159 | 5.89e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0285800 | AT2G24840.1 | 29.032 | 155 | 100 | 6 | 45 | 194 | 65 | 214 | 1.55e-13 | 67.8 |
| Msa0285800 | AT5G60440.1 | 30.573 | 157 | 97 | 6 | 45 | 194 | 9 | 160 | 3.44e-13 | 67.4 |
Find 28 sgRNAs with CRISPR-Local
Find 100 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGAAGACTTTAAGAATTCTT+TGG | 0.239126 | 2_3:+25768970 | Msa0285800:CDS |
| GTGCTTCATATTGAAGCCTT+AGG | 0.338858 | 2_3:-25768820 | None:intergenic |
| TAGAATTATTCCACCAATCA+TGG | 0.397833 | 2_3:-25768922 | None:intergenic |
| TGAAGAAGAGCAGGATACTT+TGG | 0.413235 | 2_3:+25768856 | Msa0285800:CDS |
| TGATGTTGAATGTAACAAAC+TGG | 0.415899 | 2_3:+25768441 | Msa0285800:CDS |
| TGCTTCATATTGAAGCCTTA+GGG | 0.444644 | 2_3:-25768819 | None:intergenic |
| GCATAGAACTTGTTCTTGTC+CGG | 0.453036 | 2_3:-25768695 | None:intergenic |
| GTGATGTCAATTTCCATGAT+TGG | 0.461626 | 2_3:+25768909 | Msa0285800:CDS |
| ACGATGAATGACAGCATCAC+AGG | 0.499770 | 2_3:-25768729 | None:intergenic |
| ATCCTCGGCCATCATATGTC+CGG | 0.508496 | 2_3:-25768759 | None:intergenic |
| GACATATGATGGCCGAGGAT+GGG | 0.528388 | 2_3:+25768762 | Msa0285800:CDS |
| ATGAAATTGCTGAAACCCTA+AGG | 0.533334 | 2_3:+25768804 | Msa0285800:CDS |
| GAGTTCTCAAGACGCAAACT+CGG | 0.557665 | 2_3:+25768605 | Msa0285800:CDS |
| TGTCTGAAAAGAACACTGCT+AGG | 0.558447 | 2_3:+25768489 | Msa0285800:CDS |
| TCTTGTCCGGCGATTTGACG+AGG | 0.561634 | 2_3:-25768682 | None:intergenic |
| GGACATATGATGGCCGAGGA+TGG | 0.572212 | 2_3:+25768761 | Msa0285800:CDS |
| GGCACTCCTCGTCAAATCGC+CGG | 0.575658 | 2_3:+25768676 | Msa0285800:CDS |
| GCTTCTGAGAGAAAGAATGC+TGG | 0.579951 | 2_3:+25768512 | Msa0285800:CDS |
| GAACAACACTGAACAACACT+CGG | 0.583442 | 2_3:+25768534 | Msa0285800:CDS |
| GACCGGACATATGATGGCCG+AGG | 0.586444 | 2_3:+25768757 | Msa0285800:CDS |
| AATTTACGTGCAGCAAGCGA+AGG | 0.589056 | 2_3:+25769007 | Msa0285800:CDS |
| CGATGAATGACAGCATCACA+GGG | 0.591570 | 2_3:-25768728 | None:intergenic |
| GTCTGAAAAGAACACTGCTA+GGG | 0.626438 | 2_3:+25768490 | Msa0285800:CDS |
| ATGTCAATTTCCATGATTGG+TGG | 0.630551 | 2_3:+25768912 | Msa0285800:CDS |
| AAGAACAAGTTCTATGCATG+TGG | 0.639320 | 2_3:+25768701 | Msa0285800:CDS |
| GATGTTGAATGTAACAAACT+GGG | 0.728152 | 2_3:+25768442 | Msa0285800:CDS |
| GGAAGCTGTCAAAGTCACCG+AGG | 0.775043 | 2_3:+25768877 | Msa0285800:CDS |
| GATGAATGACAGCATCACAG+GGG | 0.800398 | 2_3:-25768727 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TACAAAACAAGAAAATTTAT+TGG | - | chr2_3:25768273-25768292 | None:intergenic | 15.0% |
| !! | TCTTAATTTATGTAAACAAA+CGG | - | chr2_3:25768343-25768362 | None:intergenic | 15.0% |
| !! | TACAAAACAAGAAAATTTAT+TGG | - | chr2_3:25768273-25768292 | None:intergenic | 15.0% |
| !! | TCTTAATTTATGTAAACAAA+CGG | - | chr2_3:25768343-25768362 | None:intergenic | 15.0% |
| !! | TTAATTTATGTAAACAAACG+GGG | - | chr2_3:25768341-25768360 | None:intergenic | 20.0% |
| !! | CTTAATTTATGTAAACAAAC+GGG | - | chr2_3:25768342-25768361 | None:intergenic | 20.0% |
| !! | TAAATTAAGAAACTGTGATT+TGG | + | chr2_3:25768353-25768372 | Msa0285800:intron | 20.0% |
| !! | AAATTAAGAAACTGTGATTT+GGG | + | chr2_3:25768354-25768373 | Msa0285800:intron | 20.0% |
| !! | TTAATTTATGTAAACAAACG+GGG | - | chr2_3:25768341-25768360 | None:intergenic | 20.0% |
| !! | CTTAATTTATGTAAACAAAC+GGG | - | chr2_3:25768342-25768361 | None:intergenic | 20.0% |
| !! | TAAATTAAGAAACTGTGATT+TGG | + | chr2_3:25768353-25768372 | Msa0285800:intron | 20.0% |
| !! | AAATTAAGAAACTGTGATTT+GGG | + | chr2_3:25768354-25768373 | Msa0285800:intron | 20.0% |
| ! | AAGAAAGAAGAAAAACTGAA+CGG | + | chr2_3:25768578-25768597 | Msa0285800:CDS | 25.0% |
| ! | AATTCTATGCCAATCAAAAA+CGG | + | chr2_3:25768655-25768674 | Msa0285800:CDS | 25.0% |
| !! | TGAAGACTTTAAGAATTCTT+TGG | + | chr2_3:25768970-25768989 | Msa0285800:CDS | 25.0% |
| !!! | AATTCTTTGGAGAGTTTTAA+GGG | + | chr2_3:25768983-25769002 | Msa0285800:CDS | 25.0% |
| ! | AAGAAAGAAGAAAAACTGAA+CGG | + | chr2_3:25768578-25768597 | Msa0285800:CDS | 25.0% |
| ! | AATTCTATGCCAATCAAAAA+CGG | + | chr2_3:25768655-25768674 | Msa0285800:CDS | 25.0% |
| !! | TGAAGACTTTAAGAATTCTT+TGG | + | chr2_3:25768970-25768989 | Msa0285800:CDS | 25.0% |
| !!! | AATTCTTTGGAGAGTTTTAA+GGG | + | chr2_3:25768983-25769002 | Msa0285800:CDS | 25.0% |
| ATATCATGAAAGTGAGTGAT+TGG | + | chr2_3:25768295-25768314 | Msa0285800:intron | 30.0% | |
| TATCATGAAAGTGAGTGATT+GGG | + | chr2_3:25768296-25768315 | Msa0285800:intron | 30.0% | |
| TGATGTTGAATGTAACAAAC+TGG | + | chr2_3:25768441-25768460 | Msa0285800:CDS | 30.0% | |
| GATGTTGAATGTAACAAACT+GGG | + | chr2_3:25768442-25768461 | Msa0285800:CDS | 30.0% | |
| TAGAATTATTCCACCAATCA+TGG | - | chr2_3:25768925-25768944 | None:intergenic | 30.0% | |
| !! | GAATTCTTTGGAGAGTTTTA+AGG | + | chr2_3:25768982-25769001 | Msa0285800:CDS | 30.0% |
| ATATCATGAAAGTGAGTGAT+TGG | + | chr2_3:25768295-25768314 | Msa0285800:intron | 30.0% | |
| TATCATGAAAGTGAGTGATT+GGG | + | chr2_3:25768296-25768315 | Msa0285800:intron | 30.0% | |
| TGATGTTGAATGTAACAAAC+TGG | + | chr2_3:25768441-25768460 | Msa0285800:CDS | 30.0% | |
| GATGTTGAATGTAACAAACT+GGG | + | chr2_3:25768442-25768461 | Msa0285800:CDS | 30.0% | |
| TAGAATTATTCCACCAATCA+TGG | - | chr2_3:25768925-25768944 | None:intergenic | 30.0% | |
| !! | GAATTCTTTGGAGAGTTTTA+AGG | + | chr2_3:25768982-25769001 | Msa0285800:CDS | 30.0% |
| AAGAACAAGTTCTATGCATG+TGG | + | chr2_3:25768701-25768720 | Msa0285800:CDS | 35.0% | |
| ATGAAATTGCTGAAACCCTA+AGG | + | chr2_3:25768804-25768823 | Msa0285800:CDS | 35.0% | |
| TGCTTCATATTGAAGCCTTA+GGG | - | chr2_3:25768822-25768841 | None:intergenic | 35.0% | |
| AGAAAAACTTGAAGAAGAGC+AGG | + | chr2_3:25768847-25768866 | Msa0285800:CDS | 35.0% | |
| GTGATGTCAATTTCCATGAT+TGG | + | chr2_3:25768909-25768928 | Msa0285800:CDS | 35.0% | |
| ATGTCAATTTCCATGATTGG+TGG | + | chr2_3:25768912-25768931 | Msa0285800:CDS | 35.0% | |
| AAGAACAAGTTCTATGCATG+TGG | + | chr2_3:25768701-25768720 | Msa0285800:CDS | 35.0% | |
| ATGAAATTGCTGAAACCCTA+AGG | + | chr2_3:25768804-25768823 | Msa0285800:CDS | 35.0% | |
| TGCTTCATATTGAAGCCTTA+GGG | - | chr2_3:25768822-25768841 | None:intergenic | 35.0% | |
| AGAAAAACTTGAAGAAGAGC+AGG | + | chr2_3:25768847-25768866 | Msa0285800:CDS | 35.0% | |
| GTGATGTCAATTTCCATGAT+TGG | + | chr2_3:25768909-25768928 | Msa0285800:CDS | 35.0% | |
| ATGTCAATTTCCATGATTGG+TGG | + | chr2_3:25768912-25768931 | Msa0285800:CDS | 35.0% | |
| ! | ACTGTGATTTGGGACTTTGT+TGG | + | chr2_3:25768364-25768383 | Msa0285800:intron | 40.0% |
| TGTCTGAAAAGAACACTGCT+AGG | + | chr2_3:25768489-25768508 | Msa0285800:CDS | 40.0% | |
| GTCTGAAAAGAACACTGCTA+GGG | + | chr2_3:25768490-25768509 | Msa0285800:CDS | 40.0% | |
| GAACAACACTGAACAACACT+CGG | + | chr2_3:25768534-25768553 | Msa0285800:CDS | 40.0% | |
| ! | GCATAGAACTTGTTCTTGTC+CGG | - | chr2_3:25768698-25768717 | None:intergenic | 40.0% |
| ! | GTCATTCATCGTTTTCTGAC+CGG | + | chr2_3:25768740-25768759 | Msa0285800:CDS | 40.0% |
| ! | TTTTCTGACCGGACATATGA+TGG | + | chr2_3:25768751-25768770 | Msa0285800:CDS | 40.0% |
| ! | CTTCTTCTTTTTCCCATCCT+CGG | - | chr2_3:25768777-25768796 | None:intergenic | 40.0% |
| GTGCTTCATATTGAAGCCTT+AGG | - | chr2_3:25768823-25768842 | None:intergenic | 40.0% | |
| TGAAGAAGAGCAGGATACTT+TGG | + | chr2_3:25768856-25768875 | Msa0285800:CDS | 40.0% | |
| ! | ACTGTGATTTGGGACTTTGT+TGG | + | chr2_3:25768364-25768383 | Msa0285800:intron | 40.0% |
| TGTCTGAAAAGAACACTGCT+AGG | + | chr2_3:25768489-25768508 | Msa0285800:CDS | 40.0% | |
| GTCTGAAAAGAACACTGCTA+GGG | + | chr2_3:25768490-25768509 | Msa0285800:CDS | 40.0% | |
| GAACAACACTGAACAACACT+CGG | + | chr2_3:25768534-25768553 | Msa0285800:CDS | 40.0% | |
| ! | GCATAGAACTTGTTCTTGTC+CGG | - | chr2_3:25768698-25768717 | None:intergenic | 40.0% |
| ! | GTCATTCATCGTTTTCTGAC+CGG | + | chr2_3:25768740-25768759 | Msa0285800:CDS | 40.0% |
| ! | TTTTCTGACCGGACATATGA+TGG | + | chr2_3:25768751-25768770 | Msa0285800:CDS | 40.0% |
| ! | CTTCTTCTTTTTCCCATCCT+CGG | - | chr2_3:25768777-25768796 | None:intergenic | 40.0% |
| GTGCTTCATATTGAAGCCTT+AGG | - | chr2_3:25768823-25768842 | None:intergenic | 40.0% | |
| TGAAGAAGAGCAGGATACTT+TGG | + | chr2_3:25768856-25768875 | Msa0285800:CDS | 40.0% | |
| ! | AGTGATTGGGTTTTTGCCGT+AGG | + | chr2_3:25768309-25768328 | Msa0285800:intron | 45.0% |
| ! | GTGATTGGGTTTTTGCCGTA+GGG | + | chr2_3:25768310-25768329 | Msa0285800:intron | 45.0% |
| ! | GCTTCTGAGAGAAAGAATGC+TGG | + | chr2_3:25768512-25768531 | Msa0285800:CDS | 45.0% |
| GAGTTCTCAAGACGCAAACT+CGG | + | chr2_3:25768605-25768624 | Msa0285800:CDS | 45.0% | |
| GATGAATGACAGCATCACAG+GGG | - | chr2_3:25768730-25768749 | None:intergenic | 45.0% | |
| CGATGAATGACAGCATCACA+GGG | - | chr2_3:25768731-25768750 | None:intergenic | 45.0% | |
| ACGATGAATGACAGCATCAC+AGG | - | chr2_3:25768732-25768751 | None:intergenic | 45.0% | |
| ! | GACATCACTCTTTTGTGCCT+CGG | - | chr2_3:25768897-25768916 | None:intergenic | 45.0% |
| AATTTACGTGCAGCAAGCGA+AGG | + | chr2_3:25769007-25769026 | Msa0285800:CDS | 45.0% | |
| ! | AGTGATTGGGTTTTTGCCGT+AGG | + | chr2_3:25768309-25768328 | Msa0285800:intron | 45.0% |
| ! | GTGATTGGGTTTTTGCCGTA+GGG | + | chr2_3:25768310-25768329 | Msa0285800:intron | 45.0% |
| ! | GCTTCTGAGAGAAAGAATGC+TGG | + | chr2_3:25768512-25768531 | Msa0285800:CDS | 45.0% |
| GAGTTCTCAAGACGCAAACT+CGG | + | chr2_3:25768605-25768624 | Msa0285800:CDS | 45.0% | |
| GATGAATGACAGCATCACAG+GGG | - | chr2_3:25768730-25768749 | None:intergenic | 45.0% | |
| CGATGAATGACAGCATCACA+GGG | - | chr2_3:25768731-25768750 | None:intergenic | 45.0% | |
| ACGATGAATGACAGCATCAC+AGG | - | chr2_3:25768732-25768751 | None:intergenic | 45.0% | |
| ! | GACATCACTCTTTTGTGCCT+CGG | - | chr2_3:25768897-25768916 | None:intergenic | 45.0% |
| AATTTACGTGCAGCAAGCGA+AGG | + | chr2_3:25769007-25769026 | Msa0285800:CDS | 45.0% | |
| !!! | CGAGGAGTGCCGTTTTTGAT+TGG | - | chr2_3:25768667-25768686 | None:intergenic | 50.0% |
| ATCCTCGGCCATCATATGTC+CGG | - | chr2_3:25768762-25768781 | None:intergenic | 50.0% | |
| GACATATGATGGCCGAGGAT+GGG | + | chr2_3:25768762-25768781 | Msa0285800:CDS | 50.0% | |
| !!! | CGAGGAGTGCCGTTTTTGAT+TGG | - | chr2_3:25768667-25768686 | None:intergenic | 50.0% |
| ATCCTCGGCCATCATATGTC+CGG | - | chr2_3:25768762-25768781 | None:intergenic | 50.0% | |
| GACATATGATGGCCGAGGAT+GGG | + | chr2_3:25768762-25768781 | Msa0285800:CDS | 50.0% | |
| ACAAACGGGGCTAAGCCCTA+CGG | - | chr2_3:25768328-25768347 | None:intergenic | 55.0% | |
| TCTTGTCCGGCGATTTGACG+AGG | - | chr2_3:25768685-25768704 | None:intergenic | 55.0% | |
| GGACATATGATGGCCGAGGA+TGG | + | chr2_3:25768761-25768780 | Msa0285800:CDS | 55.0% | |
| GGAAGCTGTCAAAGTCACCG+AGG | + | chr2_3:25768877-25768896 | Msa0285800:CDS | 55.0% | |
| ACAAACGGGGCTAAGCCCTA+CGG | - | chr2_3:25768328-25768347 | None:intergenic | 55.0% | |
| TCTTGTCCGGCGATTTGACG+AGG | - | chr2_3:25768685-25768704 | None:intergenic | 55.0% | |
| GGACATATGATGGCCGAGGA+TGG | + | chr2_3:25768761-25768780 | Msa0285800:CDS | 55.0% | |
| GGAAGCTGTCAAAGTCACCG+AGG | + | chr2_3:25768877-25768896 | Msa0285800:CDS | 55.0% | |
| GGCACTCCTCGTCAAATCGC+CGG | + | chr2_3:25768676-25768695 | Msa0285800:CDS | 60.0% | |
| GACCGGACATATGATGGCCG+AGG | + | chr2_3:25768757-25768776 | Msa0285800:CDS | 60.0% | |
| GGCACTCCTCGTCAAATCGC+CGG | + | chr2_3:25768676-25768695 | Msa0285800:CDS | 60.0% | |
| GACCGGACATATGATGGCCG+AGG | + | chr2_3:25768757-25768776 | Msa0285800:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 25768221 | 25769036 | 25768221 | ID=Msa0285800;Name=Msa0285800 |
| chr2_3 | mRNA | 25768221 | 25769036 | 25768221 | ID=Msa0285800-mRNA-1;Parent=Msa0285800;Name=Msa0285800-mRNA-1;_AED=0.29;_eAED=0.30;_QI=0|0|0|0.5|1|1|2|0|204 |
| chr2_3 | exon | 25768221 | 25768224 | 25768221 | ID=Msa0285800-mRNA-1:exon:9514;Parent=Msa0285800-mRNA-1 |
| chr2_3 | exon | 25768426 | 25769036 | 25768426 | ID=Msa0285800-mRNA-1:exon:9515;Parent=Msa0285800-mRNA-1 |
| chr2_3 | CDS | 25768221 | 25768224 | 25768221 | ID=Msa0285800-mRNA-1:cds;Parent=Msa0285800-mRNA-1 |
| chr2_3 | CDS | 25768426 | 25769036 | 25768426 | ID=Msa0285800-mRNA-1:cds;Parent=Msa0285800-mRNA-1 |
| Gene Sequence |
| Protein sequence |
