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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0306900 | XP_013448450.1 | 80.734 | 109 | 21 | 0 | 1 | 109 | 1 | 109 | 4.46e-57 | 182 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0306900 | sp|O03982|HIP39_ARATH | 58.824 | 68 | 27 | 1 | 1 | 67 | 1 | 68 | 9.35e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0306900 | A0A072TYH4 | 80.734 | 109 | 21 | 0 | 1 | 109 | 1 | 109 | 2.13e-57 | 182 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0052800 | Msa0306900 | 0.808264 | 3.373339e-50 | -8.615850e-47 |
| Msa0097590 | Msa0306900 | 0.811948 | 5.423788e-51 | -8.615850e-47 |
| Msa0097610 | Msa0306900 | 0.807346 | 5.285601e-50 | -8.615850e-47 |
| Msa0259220 | Msa0306900 | 0.803381 | 3.582642e-49 | -8.615850e-47 |
| Msa0306900 | Msa0336310 | 0.801635 | 8.204148e-49 | -8.615850e-47 |
| Msa0306900 | Msa0479200 | 0.803184 | 3.934387e-49 | -8.615850e-47 |
| Msa0306900 | Msa0967380 | 0.814215 | 1.726157e-51 | -8.615850e-47 |
| Msa0306900 | Msa1000250 | 0.805777 | 1.133140e-49 | -8.615850e-47 |
| Msa0306900 | Msa1017860 | 0.844096 | 9.343221e-59 | -8.615850e-47 |
| Msa0306900 | Msa1146290 | 0.885182 | 1.013735e-71 | -8.615850e-47 |
| Msa0306900 | Msa1173170 | 0.814501 | 1.492256e-51 | -8.615850e-47 |
| Msa0306900 | Msa1390690 | 0.803303 | 3.717367e-49 | -8.615850e-47 |
| Msa0306900 | Msa1392900 | 0.800417 | 1.455202e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0306900 | MtrunA17_Chr7g0233251 | 80.734 | 109 | 21 | 0 | 1 | 109 | 1 | 109 | 4.10e-61 | 182 |
| Msa0306900 | MtrunA17_Chr7g0233191 | 78.182 | 110 | 24 | 0 | 1 | 110 | 1 | 110 | 7.06e-60 | 179 |
| Msa0306900 | MtrunA17_Chr7g0233201 | 76.364 | 110 | 26 | 0 | 1 | 110 | 1 | 110 | 6.20e-59 | 176 |
| Msa0306900 | MtrunA17_Chr7g0233211 | 76.364 | 110 | 26 | 0 | 1 | 110 | 1 | 110 | 6.34e-59 | 176 |
| Msa0306900 | MtrunA17_Chr7g0233231 | 76.364 | 110 | 26 | 0 | 1 | 110 | 1 | 110 | 2.47e-58 | 175 |
| Msa0306900 | MtrunA17_Chr7g0233181 | 78.846 | 104 | 22 | 0 | 1 | 104 | 1 | 104 | 2.19e-55 | 167 |
| Msa0306900 | MtrunA17_Chr6g0469541 | 72.727 | 110 | 30 | 0 | 1 | 110 | 1 | 110 | 4.38e-54 | 164 |
| Msa0306900 | MtrunA17_Chr6g0469591 | 57.944 | 107 | 43 | 1 | 1 | 105 | 1 | 107 | 1.02e-34 | 115 |
| Msa0306900 | MtrunA17_Chr6g0469571 | 57.009 | 107 | 44 | 1 | 1 | 105 | 1 | 107 | 1.27e-34 | 115 |
| Msa0306900 | MtrunA17_Chr6g0469551 | 56.075 | 107 | 45 | 1 | 1 | 105 | 1 | 107 | 3.92e-34 | 114 |
| Msa0306900 | MtrunA17_Chr6g0469671 | 61.194 | 67 | 26 | 0 | 1 | 67 | 1 | 67 | 8.70e-26 | 92.8 |
| Msa0306900 | MtrunA17_Chr6g0469651 | 65.672 | 67 | 23 | 0 | 1 | 67 | 1 | 67 | 1.15e-25 | 93.2 |
| Msa0306900 | MtrunA17_Chr1g0202541 | 64.179 | 67 | 24 | 0 | 1 | 67 | 1 | 67 | 2.93e-25 | 92.4 |
| Msa0306900 | MtrunA17_Chr1g0202561 | 67.164 | 67 | 22 | 0 | 1 | 67 | 1 | 67 | 3.74e-25 | 92.0 |
| Msa0306900 | MtrunA17_Chr6g0469681 | 61.194 | 67 | 26 | 0 | 1 | 67 | 1 | 67 | 5.81e-25 | 91.3 |
| Msa0306900 | MtrunA17_Chr8g0387471 | 59.722 | 72 | 29 | 0 | 1 | 72 | 1 | 72 | 3.53e-24 | 89.4 |
| Msa0306900 | MtrunA17_Chr1g0202501 | 43.103 | 116 | 54 | 2 | 1 | 104 | 1 | 116 | 1.08e-22 | 85.5 |
| Msa0306900 | MtrunA17_Chr1g0202581 | 59.701 | 67 | 26 | 1 | 1 | 67 | 1 | 66 | 1.33e-21 | 82.8 |
| Msa0306900 | MtrunA17_Chr1g0204291 | 59.701 | 67 | 26 | 1 | 1 | 67 | 1 | 66 | 2.53e-21 | 82.0 |
| Msa0306900 | MtrunA17_Chr7g0248671 | 58.209 | 67 | 28 | 0 | 1 | 67 | 1 | 67 | 4.31e-21 | 82.8 |
| Msa0306900 | MtrunA17_Chr8g0348361 | 58.209 | 67 | 28 | 0 | 1 | 67 | 1 | 67 | 6.41e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0306900 | AT1G01490.1 | 58.824 | 68 | 27 | 1 | 1 | 67 | 1 | 68 | 9.50e-21 | 82.4 |
| Msa0306900 | AT1G01490.2 | 58.824 | 68 | 27 | 1 | 1 | 67 | 1 | 68 | 9.50e-21 | 82.4 |
| Msa0306900 | AT1G01490.4 | 57.576 | 66 | 27 | 1 | 3 | 67 | 30 | 95 | 2.31e-19 | 79.3 |
| Msa0306900 | AT5G52760.1 | 37.037 | 108 | 66 | 2 | 2 | 109 | 4 | 109 | 1.64e-14 | 64.7 |
| Msa0306900 | AT5G52740.1 | 46.269 | 67 | 34 | 1 | 1 | 67 | 1 | 65 | 8.34e-13 | 60.5 |
| Msa0306900 | AT5G52750.1 | 43.939 | 66 | 37 | 0 | 3 | 68 | 5 | 70 | 2.00e-11 | 57.4 |
Find 18 sgRNAs with CRISPR-Local
Find 80 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGCTTGGACACTGCCTTTAC+TGG | 0.181442 | 2_3:+66172192 | None:intergenic |
| AAGACAGCATCTAGCCTTTC+AGG | 0.206805 | 2_3:-66172741 | Msa0306900:intron |
| TAGGTTTCAATGTATTGAAT+TGG | 0.333492 | 2_3:+66172084 | None:intergenic |
| CAGTGTCCAAGCTAAGAAAA+TGG | 0.399021 | 2_3:-66172182 | Msa0306900:CDS |
| TTAACAGAAAGTAGTGTTGA+AGG | 0.440878 | 2_3:-66172802 | Msa0306900:intron |
| TTCTGTTGAATCTCTAAAAG+AGG | 0.445440 | 2_3:-66172142 | Msa0306900:CDS |
| CGAGAAGAAATTGACATTGA+AGG | 0.460415 | 2_3:-66172226 | Msa0306900:CDS |
| GAGAAGAAATTGACATTGAA+GGG | 0.511122 | 2_3:-66172225 | Msa0306900:CDS |
| GGGGTCATCTGATAGTAATA+CGG | 0.532976 | 2_3:+66172060 | None:intergenic |
| AATCTCGAAAATATTGTGGT+GGG | 0.543098 | 2_3:+66172040 | None:intergenic |
| TAATCTCGAAAATATTGTGG+TGG | 0.564645 | 2_3:+66172039 | None:intergenic |
| AAATTCAATATGTACCTGAA+AGG | 0.592630 | 2_3:+66172727 | None:intergenic |
| ATCTCGAAAATATTGTGGTG+GGG | 0.596272 | 2_3:+66172041 | None:intergenic |
| CATCTGATAGTAATACGGAT+AGG | 0.615334 | 2_3:+66172065 | None:intergenic |
| TAGTAATCTCGAAAATATTG+TGG | 0.619288 | 2_3:+66172036 | None:intergenic |
| ACAGAAAGTAGTGTTGAAGG+TGG | 0.627460 | 2_3:-66172799 | Msa0306900:intron |
| AGAAGAAATTGACATTGAAG+GGG | 0.633714 | 2_3:-66172224 | Msa0306900:CDS |
| GAAGAAATTGACATTGAAGG+GGG | 0.666381 | 2_3:-66172223 | Msa0306900:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATATATTGTTTTATAAAGTT+AGG | + | chr2_3:66172555-66172574 | None:intergenic | 10.0% |
| !! | TAACTTTATAAAACAATATA+TGG | - | chr2_3:66172554-66172573 | Msa0306900:intron | 10.0% |
| !!! | ATTTTTTATTTTTATTTTGC+AGG | - | chr2_3:66172719-66172738 | Msa0306900:intron | 10.0% |
| !!! | TTTTTTATTTTTATTTTGCA+GGG | - | chr2_3:66172720-66172739 | Msa0306900:intron | 10.0% |
| !!! | ATATATTGTTTTATAAAGTT+AGG | + | chr2_3:66172555-66172574 | None:intergenic | 10.0% |
| !! | TAACTTTATAAAACAATATA+TGG | - | chr2_3:66172554-66172573 | Msa0306900:intron | 10.0% |
| !!! | ATTTTTTATTTTTATTTTGC+AGG | - | chr2_3:66172719-66172738 | Msa0306900:intron | 10.0% |
| !!! | TTTTTTATTTTTATTTTGCA+GGG | - | chr2_3:66172720-66172739 | Msa0306900:intron | 10.0% |
| !!! | TTTTTATTTTTATTTTGCAG+GGG | - | chr2_3:66172721-66172740 | Msa0306900:intron | 15.0% |
| !!! | TTTTTATTTTTATTTTGCAG+GGG | - | chr2_3:66172721-66172740 | Msa0306900:intron | 15.0% |
| !! | AAGGATATAACAACAAAAAA+GGG | + | chr2_3:66172121-66172140 | None:intergenic | 20.0% |
| !! | AAAGGATATAACAACAAAAA+AGG | + | chr2_3:66172122-66172141 | None:intergenic | 20.0% |
| !!! | TATCCTTTCATATTTTAGAA+TGG | - | chr2_3:66172134-66172153 | Msa0306900:CDS | 20.0% |
| !! | AAAAATAAAATCGATCATGA+TGG | + | chr2_3:66172443-66172462 | None:intergenic | 20.0% |
| !! | CACAAAAGTCAAATTAAATT+AGG | + | chr2_3:66172663-66172682 | None:intergenic | 20.0% |
| !! | AAGGATATAACAACAAAAAA+GGG | + | chr2_3:66172121-66172140 | None:intergenic | 20.0% |
| !! | AAAGGATATAACAACAAAAA+AGG | + | chr2_3:66172122-66172141 | None:intergenic | 20.0% |
| !!! | TATCCTTTCATATTTTAGAA+TGG | - | chr2_3:66172134-66172153 | Msa0306900:CDS | 20.0% |
| !! | AAAAATAAAATCGATCATGA+TGG | + | chr2_3:66172443-66172462 | None:intergenic | 20.0% |
| !! | CACAAAAGTCAAATTAAATT+AGG | + | chr2_3:66172663-66172682 | None:intergenic | 20.0% |
| !!! | CTTCCATTCTAAAATATGAA+AGG | + | chr2_3:66172140-66172159 | None:intergenic | 25.0% |
| ! | AAATTCAATATGTACCTGAA+AGG | + | chr2_3:66172271-66172290 | None:intergenic | 25.0% |
| ! | TAAGTTGTGTTCAAAAGTTT+AGG | - | chr2_3:66172341-66172360 | Msa0306900:intron | 25.0% |
| ! | AAGTTGTGTTCAAAAGTTTA+GGG | - | chr2_3:66172342-66172361 | Msa0306900:intron | 25.0% |
| ! | TGAAGATGATAAAAGATTAC+AGG | + | chr2_3:66172411-66172430 | None:intergenic | 25.0% |
| ! | AATGAATCTTTCGTGTTATA+TGG | + | chr2_3:66172702-66172721 | None:intergenic | 25.0% |
| ! | TAGGTTTCAATGTATTGAAT+TGG | + | chr2_3:66172914-66172933 | None:intergenic | 25.0% |
| ! | TAGTAATCTCGAAAATATTG+TGG | + | chr2_3:66172962-66172981 | None:intergenic | 25.0% |
| !!! | CTTCCATTCTAAAATATGAA+AGG | + | chr2_3:66172140-66172159 | None:intergenic | 25.0% |
| ! | AAATTCAATATGTACCTGAA+AGG | + | chr2_3:66172271-66172290 | None:intergenic | 25.0% |
| ! | TAAGTTGTGTTCAAAAGTTT+AGG | - | chr2_3:66172341-66172360 | Msa0306900:intron | 25.0% |
| ! | AAGTTGTGTTCAAAAGTTTA+GGG | - | chr2_3:66172342-66172361 | Msa0306900:intron | 25.0% |
| ! | TGAAGATGATAAAAGATTAC+AGG | + | chr2_3:66172411-66172430 | None:intergenic | 25.0% |
| ! | AATGAATCTTTCGTGTTATA+TGG | + | chr2_3:66172702-66172721 | None:intergenic | 25.0% |
| ! | TAGGTTTCAATGTATTGAAT+TGG | + | chr2_3:66172914-66172933 | None:intergenic | 25.0% |
| ! | TAGTAATCTCGAAAATATTG+TGG | + | chr2_3:66172962-66172981 | None:intergenic | 25.0% |
| ! | TTAACAGAAAGTAGTGTTGA+AGG | - | chr2_3:66172193-66172212 | Msa0306900:CDS | 30.0% |
| AGTTGTGTTCAAAAGTTTAG+GGG | - | chr2_3:66172343-66172362 | Msa0306900:intron | 30.0% | |
| !!! | TAGGTTTTATTCTCAAACGA+CGG | + | chr2_3:66172644-66172663 | None:intergenic | 30.0% |
| GAGAAGAAATTGACATTGAA+GGG | - | chr2_3:66172770-66172789 | Msa0306900:CDS | 30.0% | |
| AGAAGAAATTGACATTGAAG+GGG | - | chr2_3:66172771-66172790 | Msa0306900:CDS | 30.0% | |
| ! | TTCTGTTGAATCTCTAAAAG+AGG | - | chr2_3:66172853-66172872 | Msa0306900:intron | 30.0% |
| AATCTCGAAAATATTGTGGT+GGG | + | chr2_3:66172958-66172977 | None:intergenic | 30.0% | |
| TAATCTCGAAAATATTGTGG+TGG | + | chr2_3:66172959-66172978 | None:intergenic | 30.0% | |
| ! | TTAACAGAAAGTAGTGTTGA+AGG | - | chr2_3:66172193-66172212 | Msa0306900:CDS | 30.0% |
| AGTTGTGTTCAAAAGTTTAG+GGG | - | chr2_3:66172343-66172362 | Msa0306900:intron | 30.0% | |
| !!! | TAGGTTTTATTCTCAAACGA+CGG | + | chr2_3:66172644-66172663 | None:intergenic | 30.0% |
| GAGAAGAAATTGACATTGAA+GGG | - | chr2_3:66172770-66172789 | Msa0306900:CDS | 30.0% | |
| AGAAGAAATTGACATTGAAG+GGG | - | chr2_3:66172771-66172790 | Msa0306900:CDS | 30.0% | |
| ! | TTCTGTTGAATCTCTAAAAG+AGG | - | chr2_3:66172853-66172872 | Msa0306900:intron | 30.0% |
| AATCTCGAAAATATTGTGGT+GGG | + | chr2_3:66172958-66172977 | None:intergenic | 30.0% | |
| TAATCTCGAAAATATTGTGG+TGG | + | chr2_3:66172959-66172978 | None:intergenic | 30.0% | |
| GTTGTGTTCAAAAGTTTAGG+GGG | - | chr2_3:66172344-66172363 | Msa0306900:intron | 35.0% | |
| TTGTGTTCAAAAGTTTAGGG+GGG | - | chr2_3:66172345-66172364 | Msa0306900:intron | 35.0% | |
| TACACTTGCTCAAAACAGAA+AGG | - | chr2_3:66172487-66172506 | Msa0306900:intron | 35.0% | |
| CGAGAAGAAATTGACATTGA+AGG | - | chr2_3:66172769-66172788 | Msa0306900:CDS | 35.0% | |
| GAAGAAATTGACATTGAAGG+GGG | - | chr2_3:66172772-66172791 | Msa0306900:CDS | 35.0% | |
| ! | TTGACACCATTTTCTTAGCT+TGG | + | chr2_3:66172822-66172841 | None:intergenic | 35.0% |
| CATCTGATAGTAATACGGAT+AGG | + | chr2_3:66172933-66172952 | None:intergenic | 35.0% | |
| ATCTCGAAAATATTGTGGTG+GGG | + | chr2_3:66172957-66172976 | None:intergenic | 35.0% | |
| GTTGTGTTCAAAAGTTTAGG+GGG | - | chr2_3:66172344-66172363 | Msa0306900:intron | 35.0% | |
| TTGTGTTCAAAAGTTTAGGG+GGG | - | chr2_3:66172345-66172364 | Msa0306900:intron | 35.0% | |
| TACACTTGCTCAAAACAGAA+AGG | - | chr2_3:66172487-66172506 | Msa0306900:intron | 35.0% | |
| CGAGAAGAAATTGACATTGA+AGG | - | chr2_3:66172769-66172788 | Msa0306900:CDS | 35.0% | |
| GAAGAAATTGACATTGAAGG+GGG | - | chr2_3:66172772-66172791 | Msa0306900:CDS | 35.0% | |
| ! | TTGACACCATTTTCTTAGCT+TGG | + | chr2_3:66172822-66172841 | None:intergenic | 35.0% |
| CATCTGATAGTAATACGGAT+AGG | + | chr2_3:66172933-66172952 | None:intergenic | 35.0% | |
| ATCTCGAAAATATTGTGGTG+GGG | + | chr2_3:66172957-66172976 | None:intergenic | 35.0% | |
| ! | ACAGAAAGTAGTGTTGAAGG+TGG | - | chr2_3:66172196-66172215 | Msa0306900:CDS | 40.0% |
| CAGTGTCCAAGCTAAGAAAA+TGG | - | chr2_3:66172813-66172832 | Msa0306900:intron | 40.0% | |
| GGGGTCATCTGATAGTAATA+CGG | + | chr2_3:66172938-66172957 | None:intergenic | 40.0% | |
| ! | ACAGAAAGTAGTGTTGAAGG+TGG | - | chr2_3:66172196-66172215 | Msa0306900:CDS | 40.0% |
| CAGTGTCCAAGCTAAGAAAA+TGG | - | chr2_3:66172813-66172832 | Msa0306900:intron | 40.0% | |
| GGGGTCATCTGATAGTAATA+CGG | + | chr2_3:66172938-66172957 | None:intergenic | 40.0% | |
| ! | AAGACAGCATCTAGCCTTTC+AGG | - | chr2_3:66172254-66172273 | Msa0306900:CDS | 45.0% |
| GGGGGATATTGATCCAGTAA+AGG | - | chr2_3:66172790-66172809 | Msa0306900:CDS | 45.0% | |
| ! | AAGACAGCATCTAGCCTTTC+AGG | - | chr2_3:66172254-66172273 | Msa0306900:CDS | 45.0% |
| GGGGGATATTGATCCAGTAA+AGG | - | chr2_3:66172790-66172809 | Msa0306900:CDS | 45.0% | |
| AGCTTGGACACTGCCTTTAC+TGG | + | chr2_3:66172806-66172825 | None:intergenic | 50.0% | |
| AGCTTGGACACTGCCTTTAC+TGG | + | chr2_3:66172806-66172825 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 66172026 | 66172991 | 66172026 | ID=Msa0306900;Name=Msa0306900 |
| chr2_3 | mRNA | 66172026 | 66172991 | 66172026 | ID=Msa0306900-mRNA-1;Parent=Msa0306900;Name=Msa0306900-mRNA-1;_AED=0.03;_eAED=0.03;_QI=0|0|0|0.66|1|1|3|0|110 |
| chr2_3 | exon | 66172986 | 66172991 | 66172986 | ID=Msa0306900-mRNA-1:exon:22000;Parent=Msa0306900-mRNA-1 |
| chr2_3 | exon | 66172742 | 66172817 | 66172742 | ID=Msa0306900-mRNA-1:exon:21999;Parent=Msa0306900-mRNA-1 |
| chr2_3 | exon | 66172026 | 66172276 | 66172026 | ID=Msa0306900-mRNA-1:exon:21998;Parent=Msa0306900-mRNA-1 |
| chr2_3 | CDS | 66172986 | 66172991 | 66172986 | ID=Msa0306900-mRNA-1:cds;Parent=Msa0306900-mRNA-1 |
| chr2_3 | CDS | 66172742 | 66172817 | 66172742 | ID=Msa0306900-mRNA-1:cds;Parent=Msa0306900-mRNA-1 |
| chr2_3 | CDS | 66172026 | 66172276 | 66172026 | ID=Msa0306900-mRNA-1:cds;Parent=Msa0306900-mRNA-1 |
| Gene Sequence |
| Protein sequence |
