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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1146290 | XP_013448450.1 | 81.651 | 109 | 20 | 0 | 1 | 109 | 1 | 109 | 5.08e-58 | 184 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1146290 | sp|O03982|HIP39_ARATH | 58.824 | 68 | 27 | 1 | 1 | 67 | 1 | 68 | 7.38e-20 | 82.4 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1146290 | A0A072TYH4 | 81.651 | 109 | 20 | 0 | 1 | 109 | 1 | 109 | 2.43e-58 | 184 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0081360 | Msa1146290 | 0.801369 | 9.301786e-49 | -8.615850e-47 |
| Msa0197660 | Msa1146290 | 0.811212 | 7.839306e-51 | -8.615850e-47 |
| Msa1000250 | Msa1146290 | 0.805468 | 1.315820e-49 | -8.615850e-47 |
| Msa1017860 | Msa1146290 | 0.853626 | 2.110365e-61 | -8.615850e-47 |
| Msa0239800 | Msa1146290 | 0.813064 | 3.092869e-51 | -8.615850e-47 |
| Msa0306900 | Msa1146290 | 0.885182 | 1.013735e-71 | -8.615850e-47 |
| Msa0317510 | Msa1146290 | 0.811289 | 7.542902e-51 | -8.615850e-47 |
| Msa0926890 | Msa1146290 | 0.805760 | 1.142437e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1146290 | MtrunA17_Chr7g0233251 | 81.651 | 109 | 20 | 0 | 1 | 109 | 1 | 109 | 4.68e-62 | 184 |
| Msa1146290 | MtrunA17_Chr7g0233191 | 79.091 | 110 | 23 | 0 | 1 | 110 | 1 | 110 | 8.40e-61 | 181 |
| Msa1146290 | MtrunA17_Chr7g0233201 | 77.273 | 110 | 25 | 0 | 1 | 110 | 1 | 110 | 7.38e-60 | 179 |
| Msa1146290 | MtrunA17_Chr7g0233211 | 77.273 | 110 | 25 | 0 | 1 | 110 | 1 | 110 | 8.42e-60 | 179 |
| Msa1146290 | MtrunA17_Chr7g0233231 | 77.273 | 110 | 25 | 0 | 1 | 110 | 1 | 110 | 3.32e-59 | 177 |
| Msa1146290 | MtrunA17_Chr7g0233181 | 79.808 | 104 | 21 | 0 | 1 | 104 | 1 | 104 | 2.10e-56 | 170 |
| Msa1146290 | MtrunA17_Chr6g0469541 | 73.636 | 110 | 29 | 0 | 1 | 110 | 1 | 110 | 3.37e-55 | 167 |
| Msa1146290 | MtrunA17_Chr6g0469591 | 57.944 | 107 | 43 | 1 | 1 | 105 | 1 | 107 | 9.89e-35 | 115 |
| Msa1146290 | MtrunA17_Chr6g0469571 | 57.009 | 107 | 44 | 1 | 1 | 105 | 1 | 107 | 1.17e-34 | 115 |
| Msa1146290 | MtrunA17_Chr6g0469551 | 56.075 | 107 | 45 | 1 | 1 | 105 | 1 | 107 | 3.51e-34 | 114 |
| Msa1146290 | MtrunA17_Chr6g0469671 | 61.194 | 67 | 26 | 0 | 1 | 67 | 1 | 67 | 7.47e-26 | 92.8 |
| Msa1146290 | MtrunA17_Chr6g0469651 | 65.672 | 67 | 23 | 0 | 1 | 67 | 1 | 67 | 8.92e-26 | 93.6 |
| Msa1146290 | MtrunA17_Chr1g0202541 | 64.179 | 67 | 24 | 0 | 1 | 67 | 1 | 67 | 2.09e-25 | 92.8 |
| Msa1146290 | MtrunA17_Chr1g0202561 | 67.164 | 67 | 22 | 0 | 1 | 67 | 1 | 67 | 3.32e-25 | 92.4 |
| Msa1146290 | MtrunA17_Chr6g0469681 | 61.194 | 67 | 26 | 0 | 1 | 67 | 1 | 67 | 5.21e-25 | 91.3 |
| Msa1146290 | MtrunA17_Chr8g0387471 | 59.722 | 72 | 29 | 0 | 1 | 72 | 1 | 72 | 2.78e-24 | 89.7 |
| Msa1146290 | MtrunA17_Chr1g0202501 | 43.103 | 116 | 54 | 2 | 1 | 104 | 1 | 116 | 1.01e-22 | 85.5 |
| Msa1146290 | MtrunA17_Chr1g0202581 | 59.701 | 67 | 26 | 1 | 1 | 67 | 1 | 66 | 1.17e-21 | 83.2 |
| Msa1146290 | MtrunA17_Chr1g0204291 | 59.701 | 67 | 26 | 1 | 1 | 67 | 1 | 66 | 2.08e-21 | 82.4 |
| Msa1146290 | MtrunA17_Chr7g0248671 | 58.209 | 67 | 28 | 0 | 1 | 67 | 1 | 67 | 3.75e-21 | 82.8 |
| Msa1146290 | MtrunA17_Chr8g0348361 | 60.870 | 46 | 18 | 0 | 22 | 67 | 22 | 67 | 6.21e-13 | 60.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1146290 | AT1G01490.1 | 58.824 | 68 | 27 | 1 | 1 | 67 | 1 | 68 | 7.50e-21 | 82.4 |
| Msa1146290 | AT1G01490.2 | 58.824 | 68 | 27 | 1 | 1 | 67 | 1 | 68 | 7.50e-21 | 82.4 |
| Msa1146290 | AT1G01490.4 | 57.576 | 66 | 27 | 1 | 3 | 67 | 30 | 95 | 1.99e-19 | 79.3 |
| Msa1146290 | AT5G52760.1 | 37.037 | 108 | 66 | 2 | 2 | 109 | 4 | 109 | 1.82e-14 | 64.7 |
| Msa1146290 | AT5G52740.1 | 46.269 | 67 | 34 | 1 | 1 | 67 | 1 | 65 | 8.16e-13 | 60.5 |
| Msa1146290 | AT5G52750.1 | 43.939 | 66 | 37 | 0 | 3 | 68 | 5 | 70 | 1.76e-11 | 57.4 |
Find 18 sgRNAs with CRISPR-Local
Find 84 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGCTTGGACACTGCCTTTAC+TGG | 0.181442 | 7_4:+23649604 | None:intergenic |
| AAGACAGCATCTAGCCTTTC+AGG | 0.206805 | 7_4:-23650154 | Msa1146290:intron |
| TAGGTTTCAAAGTATTGAAT+TGG | 0.328085 | 7_4:+23649496 | None:intergenic |
| CAGTGTCCAAGCTAAGAAAA+TGG | 0.399021 | 7_4:-23649594 | Msa1146290:CDS |
| TTAACAGAAAGTAGTGTTGA+AGG | 0.440878 | 7_4:-23650215 | Msa1146290:intron |
| CGAGAAGAAATTGACATTGA+AGG | 0.460415 | 7_4:-23649638 | Msa1146290:CDS |
| TTCTGTTGAATCTCTGAAAG+AGG | 0.462287 | 7_4:-23649554 | Msa1146290:CDS |
| GAGAAGAAATTGACATTGAA+GGG | 0.511122 | 7_4:-23649637 | Msa1146290:CDS |
| GGGGTCATCTGATAGTAATA+CGG | 0.532976 | 7_4:+23649472 | None:intergenic |
| AATCTCGAAAATATTGTGGT+GGG | 0.543098 | 7_4:+23649452 | None:intergenic |
| TAATCTCGAAAATATTGTGG+TGG | 0.564645 | 7_4:+23649451 | None:intergenic |
| ATCTCGAAAATATTGTGGTG+GGG | 0.596272 | 7_4:+23649453 | None:intergenic |
| ACATTCAATATGTACCTGAA+AGG | 0.596374 | 7_4:+23650140 | None:intergenic |
| CATCTGATAGTAATACGGAT+AGG | 0.615334 | 7_4:+23649477 | None:intergenic |
| TAGTAATCTCGAAAATATTG+TGG | 0.619288 | 7_4:+23649448 | None:intergenic |
| ACAGAAAGTAGTGTTGAAGG+TGG | 0.627460 | 7_4:-23650212 | Msa1146290:intron |
| AGAAGAAATTGACATTGAAG+GGG | 0.633714 | 7_4:-23649636 | Msa1146290:CDS |
| GAAGAAATTGACATTGAAGG+GGG | 0.666381 | 7_4:-23649635 | Msa1146290:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTTTTATTTTTATTTTGC+AGG | - | chr7_4:23650132-23650151 | Msa1146290:intron | 10.0% |
| !!! | TTTTTTATTTTTATTTTGCA+GGG | - | chr7_4:23650133-23650152 | Msa1146290:intron | 10.0% |
| !!! | ATTTTTTATTTTTATTTTGC+AGG | - | chr7_4:23650132-23650151 | Msa1146290:intron | 10.0% |
| !!! | TTTTTTATTTTTATTTTGCA+GGG | - | chr7_4:23650133-23650152 | Msa1146290:intron | 10.0% |
| !!! | TTTTTATTTTTATTTTGCAG+GGG | - | chr7_4:23650134-23650153 | Msa1146290:intron | 15.0% |
| !!! | TTTTTATTTTTATTTTGCAG+GGG | - | chr7_4:23650134-23650153 | Msa1146290:intron | 15.0% |
| !! | AAGGATATAACAACAAAAAA+GGG | + | chr7_4:23649533-23649552 | None:intergenic | 20.0% |
| !! | AAAGGATATAACAACAAAAA+AGG | + | chr7_4:23649534-23649553 | None:intergenic | 20.0% |
| !!! | TATCCTTTCATATTTTAGAA+TGG | - | chr7_4:23649546-23649565 | Msa1146290:CDS | 20.0% |
| !! | AAAAATAAAATCGATCATGA+TGG | + | chr7_4:23649855-23649874 | None:intergenic | 20.0% |
| !! | CACAAAAGTCAAATTAAATT+AGG | + | chr7_4:23650076-23650095 | None:intergenic | 20.0% |
| !! | AAGGATATAACAACAAAAAA+GGG | + | chr7_4:23649533-23649552 | None:intergenic | 20.0% |
| !! | AAAGGATATAACAACAAAAA+AGG | + | chr7_4:23649534-23649553 | None:intergenic | 20.0% |
| !!! | TATCCTTTCATATTTTAGAA+TGG | - | chr7_4:23649546-23649565 | Msa1146290:CDS | 20.0% |
| !! | AAAAATAAAATCGATCATGA+TGG | + | chr7_4:23649855-23649874 | None:intergenic | 20.0% |
| !! | CACAAAAGTCAAATTAAATT+AGG | + | chr7_4:23650076-23650095 | None:intergenic | 20.0% |
| !!! | CTTCCATTCTAAAATATGAA+AGG | + | chr7_4:23649552-23649571 | None:intergenic | 25.0% |
| ! | TAAGTTGTGTTCAAAAGTTT+AGG | - | chr7_4:23649753-23649772 | Msa1146290:intron | 25.0% |
| ! | AAGTTGTGTTCAAAAGTTTA+GGG | - | chr7_4:23649754-23649773 | Msa1146290:intron | 25.0% |
| ! | TGAAGATGATAAAAGATTAC+AGG | + | chr7_4:23649823-23649842 | None:intergenic | 25.0% |
| ! | AATGAATCTTTCGTGTTATA+TGG | + | chr7_4:23650115-23650134 | None:intergenic | 25.0% |
| !!! | TAGGTTTCAAAGTATTGAAT+TGG | + | chr7_4:23650327-23650346 | None:intergenic | 25.0% |
| ! | TAGTAATCTCGAAAATATTG+TGG | + | chr7_4:23650375-23650394 | None:intergenic | 25.0% |
| !!! | CTTCCATTCTAAAATATGAA+AGG | + | chr7_4:23649552-23649571 | None:intergenic | 25.0% |
| ! | TAAGTTGTGTTCAAAAGTTT+AGG | - | chr7_4:23649753-23649772 | Msa1146290:intron | 25.0% |
| ! | AAGTTGTGTTCAAAAGTTTA+GGG | - | chr7_4:23649754-23649773 | Msa1146290:intron | 25.0% |
| ! | TGAAGATGATAAAAGATTAC+AGG | + | chr7_4:23649823-23649842 | None:intergenic | 25.0% |
| ! | AATGAATCTTTCGTGTTATA+TGG | + | chr7_4:23650115-23650134 | None:intergenic | 25.0% |
| !!! | TAGGTTTCAAAGTATTGAAT+TGG | + | chr7_4:23650327-23650346 | None:intergenic | 25.0% |
| ! | TAGTAATCTCGAAAATATTG+TGG | + | chr7_4:23650375-23650394 | None:intergenic | 25.0% |
| ! | TTTAGAATGGAAGTAATTGC+TGG | - | chr7_4:23649559-23649578 | Msa1146290:CDS | 30.0% |
| ! | TTAACAGAAAGTAGTGTTGA+AGG | - | chr7_4:23649605-23649624 | Msa1146290:CDS | 30.0% |
| ACATTCAATATGTACCTGAA+AGG | + | chr7_4:23649683-23649702 | None:intergenic | 30.0% | |
| AGTTGTGTTCAAAAGTTTAG+GGG | - | chr7_4:23649755-23649774 | Msa1146290:intron | 30.0% | |
| !!! | TAGGTTTTATTCTCAAACGA+CGG | + | chr7_4:23650057-23650076 | None:intergenic | 30.0% |
| GAGAAGAAATTGACATTGAA+GGG | - | chr7_4:23650183-23650202 | Msa1146290:CDS | 30.0% | |
| AGAAGAAATTGACATTGAAG+GGG | - | chr7_4:23650184-23650203 | Msa1146290:CDS | 30.0% | |
| AATCTCGAAAATATTGTGGT+GGG | + | chr7_4:23650371-23650390 | None:intergenic | 30.0% | |
| TAATCTCGAAAATATTGTGG+TGG | + | chr7_4:23650372-23650391 | None:intergenic | 30.0% | |
| ! | TTTAGAATGGAAGTAATTGC+TGG | - | chr7_4:23649559-23649578 | Msa1146290:CDS | 30.0% |
| ! | TTAACAGAAAGTAGTGTTGA+AGG | - | chr7_4:23649605-23649624 | Msa1146290:CDS | 30.0% |
| ACATTCAATATGTACCTGAA+AGG | + | chr7_4:23649683-23649702 | None:intergenic | 30.0% | |
| AGTTGTGTTCAAAAGTTTAG+GGG | - | chr7_4:23649755-23649774 | Msa1146290:intron | 30.0% | |
| !!! | TAGGTTTTATTCTCAAACGA+CGG | + | chr7_4:23650057-23650076 | None:intergenic | 30.0% |
| GAGAAGAAATTGACATTGAA+GGG | - | chr7_4:23650183-23650202 | Msa1146290:CDS | 30.0% | |
| AGAAGAAATTGACATTGAAG+GGG | - | chr7_4:23650184-23650203 | Msa1146290:CDS | 30.0% | |
| AATCTCGAAAATATTGTGGT+GGG | + | chr7_4:23650371-23650390 | None:intergenic | 30.0% | |
| TAATCTCGAAAATATTGTGG+TGG | + | chr7_4:23650372-23650391 | None:intergenic | 30.0% | |
| CAGGTACATATTGAATGTCA+TGG | - | chr7_4:23649685-23649704 | Msa1146290:intron | 35.0% | |
| GTTGTGTTCAAAAGTTTAGG+GGG | - | chr7_4:23649756-23649775 | Msa1146290:intron | 35.0% | |
| TTGTGTTCAAAAGTTTAGGG+GGG | - | chr7_4:23649757-23649776 | Msa1146290:intron | 35.0% | |
| ACACTTTGCTCAAAACAGAA+AGG | - | chr7_4:23649900-23649919 | Msa1146290:intron | 35.0% | |
| CGAGAAGAAATTGACATTGA+AGG | - | chr7_4:23650182-23650201 | Msa1146290:CDS | 35.0% | |
| GAAGAAATTGACATTGAAGG+GGG | - | chr7_4:23650185-23650204 | Msa1146290:CDS | 35.0% | |
| ! | TTGACACCATTTTCTTAGCT+TGG | + | chr7_4:23650235-23650254 | None:intergenic | 35.0% |
| ! | TTCTGTTGAATCTCTGAAAG+AGG | - | chr7_4:23650266-23650285 | Msa1146290:intron | 35.0% |
| CATCTGATAGTAATACGGAT+AGG | + | chr7_4:23650346-23650365 | None:intergenic | 35.0% | |
| ATCTCGAAAATATTGTGGTG+GGG | + | chr7_4:23650370-23650389 | None:intergenic | 35.0% | |
| CAGGTACATATTGAATGTCA+TGG | - | chr7_4:23649685-23649704 | Msa1146290:intron | 35.0% | |
| GTTGTGTTCAAAAGTTTAGG+GGG | - | chr7_4:23649756-23649775 | Msa1146290:intron | 35.0% | |
| TTGTGTTCAAAAGTTTAGGG+GGG | - | chr7_4:23649757-23649776 | Msa1146290:intron | 35.0% | |
| ACACTTTGCTCAAAACAGAA+AGG | - | chr7_4:23649900-23649919 | Msa1146290:intron | 35.0% | |
| CGAGAAGAAATTGACATTGA+AGG | - | chr7_4:23650182-23650201 | Msa1146290:CDS | 35.0% | |
| GAAGAAATTGACATTGAAGG+GGG | - | chr7_4:23650185-23650204 | Msa1146290:CDS | 35.0% | |
| ! | TTGACACCATTTTCTTAGCT+TGG | + | chr7_4:23650235-23650254 | None:intergenic | 35.0% |
| ! | TTCTGTTGAATCTCTGAAAG+AGG | - | chr7_4:23650266-23650285 | Msa1146290:intron | 35.0% |
| CATCTGATAGTAATACGGAT+AGG | + | chr7_4:23650346-23650365 | None:intergenic | 35.0% | |
| ATCTCGAAAATATTGTGGTG+GGG | + | chr7_4:23650370-23650389 | None:intergenic | 35.0% | |
| ! | ACAGAAAGTAGTGTTGAAGG+TGG | - | chr7_4:23649608-23649627 | Msa1146290:CDS | 40.0% |
| CAGTGTCCAAGCTAAGAAAA+TGG | - | chr7_4:23650226-23650245 | Msa1146290:intron | 40.0% | |
| GGGGTCATCTGATAGTAATA+CGG | + | chr7_4:23650351-23650370 | None:intergenic | 40.0% | |
| ! | ACAGAAAGTAGTGTTGAAGG+TGG | - | chr7_4:23649608-23649627 | Msa1146290:CDS | 40.0% |
| CAGTGTCCAAGCTAAGAAAA+TGG | - | chr7_4:23650226-23650245 | Msa1146290:intron | 40.0% | |
| GGGGTCATCTGATAGTAATA+CGG | + | chr7_4:23650351-23650370 | None:intergenic | 40.0% | |
| ! | AAGACAGCATCTAGCCTTTC+AGG | - | chr7_4:23649666-23649685 | Msa1146290:CDS | 45.0% |
| GGGGGATATTGATCCAGTAA+AGG | - | chr7_4:23650203-23650222 | Msa1146290:CDS | 45.0% | |
| ! | AAGACAGCATCTAGCCTTTC+AGG | - | chr7_4:23649666-23649685 | Msa1146290:CDS | 45.0% |
| GGGGGATATTGATCCAGTAA+AGG | - | chr7_4:23650203-23650222 | Msa1146290:CDS | 45.0% | |
| !!! | ATATATTTTTTTATAAAGTT+AGG | + | chr7_4:23649968-23649987 | None:intergenic | 5.0% |
| !! | TAACTTTATAAAAAAATATA+TGG | - | chr7_4:23649967-23649986 | Msa1146290:intron | 5.0% |
| !!! | ATATATTTTTTTATAAAGTT+AGG | + | chr7_4:23649968-23649987 | None:intergenic | 5.0% |
| !! | TAACTTTATAAAAAAATATA+TGG | - | chr7_4:23649967-23649986 | Msa1146290:intron | 5.0% |
| AGCTTGGACACTGCCTTTAC+TGG | + | chr7_4:23650219-23650238 | None:intergenic | 50.0% | |
| AGCTTGGACACTGCCTTTAC+TGG | + | chr7_4:23650219-23650238 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 23649438 | 23650404 | 23649438 | ID=Msa1146290;Name=Msa1146290 |
| chr7_4 | mRNA | 23649438 | 23650404 | 23649438 | ID=Msa1146290-mRNA-1;Parent=Msa1146290;Name=Msa1146290-mRNA-1;_AED=0.03;_eAED=0.03;_QI=0|0|0|0.66|1|1|3|0|110 |
| chr7_4 | exon | 23650399 | 23650404 | 23650399 | ID=Msa1146290-mRNA-1:exon:5967;Parent=Msa1146290-mRNA-1 |
| chr7_4 | exon | 23650155 | 23650230 | 23650155 | ID=Msa1146290-mRNA-1:exon:5966;Parent=Msa1146290-mRNA-1 |
| chr7_4 | exon | 23649438 | 23649688 | 23649438 | ID=Msa1146290-mRNA-1:exon:5965;Parent=Msa1146290-mRNA-1 |
| chr7_4 | CDS | 23650399 | 23650404 | 23650399 | ID=Msa1146290-mRNA-1:cds;Parent=Msa1146290-mRNA-1 |
| chr7_4 | CDS | 23650155 | 23650230 | 23650155 | ID=Msa1146290-mRNA-1:cds;Parent=Msa1146290-mRNA-1 |
| chr7_4 | CDS | 23649438 | 23649688 | 23649438 | ID=Msa1146290-mRNA-1:cds;Parent=Msa1146290-mRNA-1 |
| Gene Sequence |
| Protein sequence |
