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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0103620 | XP_003588379.2 | 78.947 | 247 | 19 | 5 | 1 | 238 | 32 | 254 | 2.79e-120 | 365 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0103620 | G7IB43 | 78.947 | 247 | 19 | 5 | 1 | 238 | 32 | 254 | 1.33e-120 | 365 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0002020 | Msa0103620 | 0.810931 | 9.016286e-51 | -8.615850e-47 |
| Msa0058730 | Msa0103620 | 0.814862 | 1.241369e-51 | -8.615850e-47 |
| Msa0103620 | Msa0103640 | 0.851252 | 1.001786e-60 | -8.615850e-47 |
| Msa0103620 | Msa0149990 | 0.849573 | 2.964709e-60 | -8.615850e-47 |
| Msa0103620 | Msa1224810 | 0.804690 | 1.914364e-49 | -8.615850e-47 |
| Msa0103620 | Msa1348850 | 0.805253 | 1.459552e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0103620 | MtrunA17_Chr1g0146181 | 78.947 | 247 | 19 | 5 | 1 | 238 | 32 | 254 | 2.57e-124 | 365 |
| Msa0103620 | MtrunA17_Chr3g0140131 | 42.857 | 210 | 93 | 7 | 34 | 238 | 74 | 261 | 5.51e-36 | 134 |
| Msa0103620 | MtrunA17_Chr8g0390121 | 30.734 | 218 | 132 | 6 | 34 | 238 | 65 | 276 | 3.25e-17 | 80.9 |
| Msa0103620 | MtrunA17_Chr3g0140141 | 47.761 | 67 | 35 | 0 | 172 | 238 | 153 | 219 | 3.97e-13 | 68.6 |
| Msa0103620 | MtrunA17_Chr7g0265381 | 71.795 | 39 | 11 | 0 | 200 | 238 | 3 | 41 | 3.90e-11 | 62.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0103620 | AT5G19670.1 | 53.521 | 71 | 33 | 0 | 168 | 238 | 204 | 274 | 9.18e-18 | 82.8 |
| Msa0103620 | AT5G19670.2 | 53.521 | 71 | 33 | 0 | 168 | 238 | 204 | 274 | 9.18e-18 | 82.8 |
| Msa0103620 | AT5G25820.1 | 28.082 | 292 | 150 | 9 | 1 | 238 | 32 | 317 | 9.52e-18 | 82.8 |
| Msa0103620 | AT5G11610.2 | 44.156 | 77 | 42 | 1 | 163 | 238 | 137 | 213 | 1.08e-13 | 70.5 |
| Msa0103620 | AT4G32790.1 | 49.254 | 67 | 34 | 0 | 172 | 238 | 194 | 260 | 1.18e-13 | 70.9 |
| Msa0103620 | AT4G32790.3 | 49.254 | 67 | 34 | 0 | 172 | 238 | 194 | 260 | 1.18e-13 | 70.9 |
| Msa0103620 | AT4G32790.2 | 49.254 | 67 | 34 | 0 | 172 | 238 | 194 | 260 | 1.18e-13 | 70.9 |
| Msa0103620 | AT5G11610.3 | 47.059 | 68 | 35 | 1 | 172 | 238 | 146 | 213 | 1.22e-13 | 70.1 |
| Msa0103620 | AT5G11610.1 | 44.156 | 77 | 42 | 1 | 163 | 238 | 137 | 213 | 2.25e-13 | 69.7 |
Find 32 sgRNAs with CRISPR-Local
Find 76 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAGAATGATCCAAATCTTTA+TGG | 0.195262 | 1_3:+10847626 | Msa0103620:CDS |
| AATAGAACATTGCCATAATT+TGG | 0.209213 | 1_3:-10846882 | None:intergenic |
| CAGTATGTTGAACCAAATTA+TGG | 0.217581 | 1_3:+10846870 | None:intergenic |
| ATGGAAACATTATGATAAAT+TGG | 0.239209 | 1_3:-10847650 | None:intergenic |
| ATGGACACTGTTTCAATAAC+TGG | 0.254430 | 1_3:+10847038 | Msa0103620:CDS |
| AAAGGTGGACTTAAATTTCT+TGG | 0.262697 | 1_3:-10847197 | None:intergenic |
| AGTTGCATTAACTTTCTCTA+TGG | 0.303467 | 1_3:-10847015 | None:intergenic |
| ATTGTACTTTCTGATGATAT+TGG | 0.345521 | 1_3:-10846930 | None:intergenic |
| TAAATTGGACCATAAAGATT+TGG | 0.346934 | 1_3:-10847635 | None:intergenic |
| TTTGGATCATTCTTTACAAT+TGG | 0.380163 | 1_3:-10847617 | None:intergenic |
| AGAGAAAGTTAATGCAACTA+TGG | 0.384410 | 1_3:+10847019 | Msa0103620:CDS |
| AAATTTCTTGGTGCATTCTC+AGG | 0.395870 | 1_3:-10847185 | None:intergenic |
| AACACTGCAGTTGTAATATT+CGG | 0.396074 | 1_3:-10847239 | None:intergenic |
| AGAAATTTAAGTCCACCTTT+TGG | 0.418043 | 1_3:+10847200 | Msa0103620:CDS |
| ACTGTCGTGACTTCTTTAAT+CGG | 0.473806 | 1_3:-10847398 | None:intergenic |
| CTTGGTGCATTCTCAGGAGA+AGG | 0.478902 | 1_3:-10847179 | None:intergenic |
| TGAATTTCTTGACGCTCCTT+AGG | 0.491776 | 1_3:-10847371 | None:intergenic |
| TATCGGCAGCACTGTGCCTA+AGG | 0.500519 | 1_3:+10847355 | Msa0103620:CDS |
| CCATGCTTCTTATCGATCAA+TGG | 0.504024 | 1_3:+10847451 | Msa0103620:CDS |
| TTTAGTCCATCGTCACAGAA+TGG | 0.536684 | 1_3:+10847305 | Msa0103620:CDS |
| CCGACACTTGTAGAACCAAA+AGG | 0.545542 | 1_3:-10847215 | None:intergenic |
| ATGATTCAAAATTGTGACAT+TGG | 0.552021 | 1_3:-10846970 | None:intergenic |
| TTGCCACCATTCTGTGACGA+TGG | 0.563406 | 1_3:-10847311 | None:intergenic |
| TGAGTAATACCTCTTGAACA+TGG | 0.569127 | 1_3:-10847669 | None:intergenic |
| TGTTGATCAAGAGTTACTAC+AGG | 0.570250 | 1_3:+10847571 | Msa0103620:CDS |
| ATAATGTTTCCATGTTCAAG+AGG | 0.579284 | 1_3:+10847660 | Msa0103620:CDS |
| TTGTCACAAAACAAATCTCA+AGG | 0.596759 | 1_3:+10847080 | Msa0103620:CDS |
| CCATTGATCGATAAGAAGCA+TGG | 0.612207 | 1_3:-10847451 | None:intergenic |
| CAAGACAAGAGTTCTTCTAT+CGG | 0.618834 | 1_3:+10847338 | Msa0103620:CDS |
| TCAACATTTGAAAACCACCT+AGG | 0.621168 | 1_3:-10847554 | None:intergenic |
| AGTCCATCGTCACAGAATGG+TGG | 0.628464 | 1_3:+10847308 | Msa0103620:CDS |
| ACACTTGTAGAACCAAAAGG+TGG | 0.693355 | 1_3:-10847212 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATGGAAACATTATGATAAAT+TGG | - | chr1_3:10847653-10847672 | None:intergenic | 20.0% |
| !! | ATGGAAACATTATGATAAAT+TGG | - | chr1_3:10847653-10847672 | None:intergenic | 20.0% |
| ! | AATAGAACATTGCCATAATT+TGG | - | chr1_3:10846885-10846904 | None:intergenic | 25.0% |
| ! | ATTGTACTTTCTGATGATAT+TGG | - | chr1_3:10846933-10846952 | None:intergenic | 25.0% |
| ! | ATGATTCAAAATTGTGACAT+TGG | - | chr1_3:10846973-10846992 | None:intergenic | 25.0% |
| ! | GAACATTTGAACATTATAGA+AGG | - | chr1_3:10847501-10847520 | None:intergenic | 25.0% |
| ! | TTTGGATCATTCTTTACAAT+TGG | - | chr1_3:10847620-10847639 | None:intergenic | 25.0% |
| ! | AAGAATGATCCAAATCTTTA+TGG | + | chr1_3:10847626-10847645 | Msa0103620:CDS | 25.0% |
| ! | TAAATTGGACCATAAAGATT+TGG | - | chr1_3:10847638-10847657 | None:intergenic | 25.0% |
| !!! | CTTCTATAAGTTGTTTTTGA+AGG | - | chr1_3:10847713-10847732 | None:intergenic | 25.0% |
| ! | AATAGAACATTGCCATAATT+TGG | - | chr1_3:10846885-10846904 | None:intergenic | 25.0% |
| ! | ATTGTACTTTCTGATGATAT+TGG | - | chr1_3:10846933-10846952 | None:intergenic | 25.0% |
| ! | ATGATTCAAAATTGTGACAT+TGG | - | chr1_3:10846973-10846992 | None:intergenic | 25.0% |
| ! | GAACATTTGAACATTATAGA+AGG | - | chr1_3:10847501-10847520 | None:intergenic | 25.0% |
| ! | TTTGGATCATTCTTTACAAT+TGG | - | chr1_3:10847620-10847639 | None:intergenic | 25.0% |
| ! | AAGAATGATCCAAATCTTTA+TGG | + | chr1_3:10847626-10847645 | Msa0103620:CDS | 25.0% |
| ! | TAAATTGGACCATAAAGATT+TGG | - | chr1_3:10847638-10847657 | None:intergenic | 25.0% |
| !!! | CTTCTATAAGTTGTTTTTGA+AGG | - | chr1_3:10847713-10847732 | None:intergenic | 25.0% |
| AGTTGCATTAACTTTCTCTA+TGG | - | chr1_3:10847018-10847037 | None:intergenic | 30.0% | |
| AGAGAAAGTTAATGCAACTA+TGG | + | chr1_3:10847019-10847038 | Msa0103620:CDS | 30.0% | |
| !!! | GATTTGTTTTGTGACAATTC+TGG | - | chr1_3:10847077-10847096 | None:intergenic | 30.0% |
| TTGTCACAAAACAAATCTCA+AGG | + | chr1_3:10847080-10847099 | Msa0103620:CDS | 30.0% | |
| ! | AAAGGTGGACTTAAATTTCT+TGG | - | chr1_3:10847200-10847219 | None:intergenic | 30.0% |
| ! | AGAAATTTAAGTCCACCTTT+TGG | + | chr1_3:10847200-10847219 | Msa0103620:CDS | 30.0% |
| AACACTGCAGTTGTAATATT+CGG | - | chr1_3:10847242-10847261 | None:intergenic | 30.0% | |
| !! | TCAATGTATTTTAGAAGCCT+AGG | + | chr1_3:10847537-10847556 | Msa0103620:intron | 30.0% |
| ATAATGTTTCCATGTTCAAG+AGG | + | chr1_3:10847660-10847679 | Msa0103620:CDS | 30.0% | |
| AGTTGCATTAACTTTCTCTA+TGG | - | chr1_3:10847018-10847037 | None:intergenic | 30.0% | |
| AGAGAAAGTTAATGCAACTA+TGG | + | chr1_3:10847019-10847038 | Msa0103620:CDS | 30.0% | |
| !!! | GATTTGTTTTGTGACAATTC+TGG | - | chr1_3:10847077-10847096 | None:intergenic | 30.0% |
| TTGTCACAAAACAAATCTCA+AGG | + | chr1_3:10847080-10847099 | Msa0103620:CDS | 30.0% | |
| ! | AAAGGTGGACTTAAATTTCT+TGG | - | chr1_3:10847200-10847219 | None:intergenic | 30.0% |
| ! | AGAAATTTAAGTCCACCTTT+TGG | + | chr1_3:10847200-10847219 | Msa0103620:CDS | 30.0% |
| AACACTGCAGTTGTAATATT+CGG | - | chr1_3:10847242-10847261 | None:intergenic | 30.0% | |
| !! | TCAATGTATTTTAGAAGCCT+AGG | + | chr1_3:10847537-10847556 | Msa0103620:intron | 30.0% |
| ATAATGTTTCCATGTTCAAG+AGG | + | chr1_3:10847660-10847679 | Msa0103620:CDS | 30.0% | |
| ATGGACACTGTTTCAATAAC+TGG | + | chr1_3:10847038-10847057 | Msa0103620:CDS | 35.0% | |
| ! | AAATTTCTTGGTGCATTCTC+AGG | - | chr1_3:10847188-10847207 | None:intergenic | 35.0% |
| TACAACTGCAGTGTTATCAA+AGG | + | chr1_3:10847247-10847266 | Msa0103620:intron | 35.0% | |
| CAAGACAAGAGTTCTTCTAT+CGG | + | chr1_3:10847338-10847357 | Msa0103620:CDS | 35.0% | |
| ACTGTCGTGACTTCTTTAAT+CGG | - | chr1_3:10847401-10847420 | None:intergenic | 35.0% | |
| !! | ATGTATTTTAGAAGCCTAGG+TGG | + | chr1_3:10847540-10847559 | Msa0103620:intron | 35.0% |
| TCAACATTTGAAAACCACCT+AGG | - | chr1_3:10847557-10847576 | None:intergenic | 35.0% | |
| TGTTGATCAAGAGTTACTAC+AGG | + | chr1_3:10847571-10847590 | Msa0103620:CDS | 35.0% | |
| TGAGTAATACCTCTTGAACA+TGG | - | chr1_3:10847672-10847691 | None:intergenic | 35.0% | |
| ATGGACACTGTTTCAATAAC+TGG | + | chr1_3:10847038-10847057 | Msa0103620:CDS | 35.0% | |
| ! | AAATTTCTTGGTGCATTCTC+AGG | - | chr1_3:10847188-10847207 | None:intergenic | 35.0% |
| TACAACTGCAGTGTTATCAA+AGG | + | chr1_3:10847247-10847266 | Msa0103620:intron | 35.0% | |
| CAAGACAAGAGTTCTTCTAT+CGG | + | chr1_3:10847338-10847357 | Msa0103620:CDS | 35.0% | |
| ACTGTCGTGACTTCTTTAAT+CGG | - | chr1_3:10847401-10847420 | None:intergenic | 35.0% | |
| !! | ATGTATTTTAGAAGCCTAGG+TGG | + | chr1_3:10847540-10847559 | Msa0103620:intron | 35.0% |
| TCAACATTTGAAAACCACCT+AGG | - | chr1_3:10847557-10847576 | None:intergenic | 35.0% | |
| TGTTGATCAAGAGTTACTAC+AGG | + | chr1_3:10847571-10847590 | Msa0103620:CDS | 35.0% | |
| TGAGTAATACCTCTTGAACA+TGG | - | chr1_3:10847672-10847691 | None:intergenic | 35.0% | |
| ACACTTGTAGAACCAAAAGG+TGG | - | chr1_3:10847215-10847234 | None:intergenic | 40.0% | |
| !!! | CCTTTTGGTTCTACAAGTGT+CGG | + | chr1_3:10847215-10847234 | Msa0103620:CDS | 40.0% |
| TTTAGTCCATCGTCACAGAA+TGG | + | chr1_3:10847305-10847324 | Msa0103620:CDS | 40.0% | |
| TGAATTTCTTGACGCTCCTT+AGG | - | chr1_3:10847374-10847393 | None:intergenic | 40.0% | |
| CCATTGATCGATAAGAAGCA+TGG | - | chr1_3:10847454-10847473 | None:intergenic | 40.0% | |
| CCATGCTTCTTATCGATCAA+TGG | + | chr1_3:10847451-10847470 | Msa0103620:CDS | 40.0% | |
| ACACTTGTAGAACCAAAAGG+TGG | - | chr1_3:10847215-10847234 | None:intergenic | 40.0% | |
| !!! | CCTTTTGGTTCTACAAGTGT+CGG | + | chr1_3:10847215-10847234 | Msa0103620:CDS | 40.0% |
| TTTAGTCCATCGTCACAGAA+TGG | + | chr1_3:10847305-10847324 | Msa0103620:CDS | 40.0% | |
| TGAATTTCTTGACGCTCCTT+AGG | - | chr1_3:10847374-10847393 | None:intergenic | 40.0% | |
| CCATTGATCGATAAGAAGCA+TGG | - | chr1_3:10847454-10847473 | None:intergenic | 40.0% | |
| CCATGCTTCTTATCGATCAA+TGG | + | chr1_3:10847451-10847470 | Msa0103620:CDS | 40.0% | |
| CCGACACTTGTAGAACCAAA+AGG | - | chr1_3:10847218-10847237 | None:intergenic | 45.0% | |
| CCGACACTTGTAGAACCAAA+AGG | - | chr1_3:10847218-10847237 | None:intergenic | 45.0% | |
| ! | CTTGGTGCATTCTCAGGAGA+AGG | - | chr1_3:10847182-10847201 | None:intergenic | 50.0% |
| AGTCCATCGTCACAGAATGG+TGG | + | chr1_3:10847308-10847327 | Msa0103620:CDS | 50.0% | |
| TTGCCACCATTCTGTGACGA+TGG | - | chr1_3:10847314-10847333 | None:intergenic | 50.0% | |
| ! | CTTGGTGCATTCTCAGGAGA+AGG | - | chr1_3:10847182-10847201 | None:intergenic | 50.0% |
| AGTCCATCGTCACAGAATGG+TGG | + | chr1_3:10847308-10847327 | Msa0103620:CDS | 50.0% | |
| TTGCCACCATTCTGTGACGA+TGG | - | chr1_3:10847314-10847333 | None:intergenic | 50.0% | |
| TATCGGCAGCACTGTGCCTA+AGG | + | chr1_3:10847355-10847374 | Msa0103620:CDS | 55.0% | |
| TATCGGCAGCACTGTGCCTA+AGG | + | chr1_3:10847355-10847374 | Msa0103620:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 10846873 | 10847742 | 10846873 | ID=Msa0103620;Name=Msa0103620 |
| chr1_3 | mRNA | 10846873 | 10847742 | 10846873 | ID=Msa0103620-mRNA-1;Parent=Msa0103620;Name=Msa0103620-mRNA-1;_AED=0.31;_eAED=0.44;_QI=0|0.33|0|1|0.33|0.25|4|0|255 |
| chr1_3 | exon | 10846873 | 10847059 | 10846873 | ID=Msa0103620-mRNA-1:exon:4494;Parent=Msa0103620-mRNA-1 |
| chr1_3 | exon | 10847072 | 10847256 | 10847072 | ID=Msa0103620-mRNA-1:exon:4495;Parent=Msa0103620-mRNA-1 |
| chr1_3 | exon | 10847269 | 10847472 | 10847269 | ID=Msa0103620-mRNA-1:exon:4496;Parent=Msa0103620-mRNA-1 |
| chr1_3 | exon | 10847551 | 10847742 | 10847551 | ID=Msa0103620-mRNA-1:exon:4497;Parent=Msa0103620-mRNA-1 |
| chr1_3 | CDS | 10846873 | 10847059 | 10846873 | ID=Msa0103620-mRNA-1:cds;Parent=Msa0103620-mRNA-1 |
| chr1_3 | CDS | 10847072 | 10847256 | 10847072 | ID=Msa0103620-mRNA-1:cds;Parent=Msa0103620-mRNA-1 |
| chr1_3 | CDS | 10847269 | 10847472 | 10847269 | ID=Msa0103620-mRNA-1:cds;Parent=Msa0103620-mRNA-1 |
| chr1_3 | CDS | 10847551 | 10847742 | 10847551 | ID=Msa0103620-mRNA-1:cds;Parent=Msa0103620-mRNA-1 |
| Gene Sequence |
| Protein sequence |
