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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0492630 | MCH97857.1 | 76.271 | 59 | 14 | 0 | 1 | 59 | 1 | 59 | 8.37e-24 | 97.1 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0492630 | sp|O80396|M2K3_ARATH | 83.019 | 53 | 9 | 0 | 41 | 93 | 190 | 242 | 5.83e-24 | 98.2 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0492630 | A0A392NDB5 | 76.271 | 59 | 14 | 0 | 1 | 59 | 1 | 59 | 4.00e-24 | 97.1 |
| Gene ID | Type | Classification |
|---|
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0492630 | MtrunA17_Chr6g0449691 | 86.792 | 53 | 7 | 0 | 41 | 93 | 191 | 243 | 1.46e-25 | 99.4 |
| Msa0492630 | MtrunA17_Chr3g0113101 | 77.966 | 59 | 13 | 0 | 1 | 59 | 93 | 151 | 2.44e-25 | 97.8 |
| Msa0492630 | MtrunA17_Chr1g0158721 | 76.271 | 59 | 10 | 1 | 35 | 89 | 1 | 59 | 5.64e-24 | 90.1 |
| Msa0492630 | MtrunA17_Chr4g0054501 | 72.881 | 59 | 12 | 1 | 35 | 89 | 1 | 59 | 8.91e-24 | 87.4 |
| Msa0492630 | MtrunA17_Chr6g0487231 | 51.515 | 66 | 29 | 1 | 23 | 88 | 159 | 221 | 4.21e-14 | 66.6 |
| Msa0492630 | MtrunA17_Chr4g0070851 | 50.943 | 53 | 26 | 0 | 41 | 93 | 175 | 227 | 8.31e-13 | 63.2 |
| Msa0492630 | MtrunA17_Chr2g0299991 | 47.170 | 53 | 28 | 0 | 41 | 93 | 175 | 227 | 1.29e-12 | 62.8 |
| Msa0492630 | MtrunA17_Chr5g0410861 | 60.000 | 50 | 18 | 2 | 35 | 84 | 23 | 70 | 3.16e-11 | 55.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0492630 | AT5G40440.5 | 83.019 | 53 | 9 | 0 | 41 | 93 | 108 | 160 | 4.91e-25 | 97.8 |
| Msa0492630 | AT5G40440.4 | 83.019 | 53 | 9 | 0 | 41 | 93 | 190 | 242 | 5.92e-25 | 98.2 |
| Msa0492630 | AT5G40440.1 | 83.019 | 53 | 9 | 0 | 41 | 93 | 190 | 242 | 5.92e-25 | 98.2 |
| Msa0492630 | AT5G40440.6 | 83.019 | 53 | 9 | 0 | 41 | 93 | 172 | 224 | 6.44e-25 | 98.2 |
| Msa0492630 | AT5G40440.3 | 83.019 | 53 | 9 | 0 | 41 | 93 | 172 | 224 | 6.44e-25 | 98.2 |
| Msa0492630 | AT5G40440.2 | 83.019 | 53 | 9 | 0 | 41 | 93 | 172 | 224 | 6.44e-25 | 98.2 |
| Msa0492630 | AT3G55800.1 | 69.492 | 59 | 18 | 0 | 1 | 59 | 100 | 158 | 1.10e-22 | 91.3 |
| Msa0492630 | AT5G56580.1 | 65.909 | 44 | 15 | 0 | 44 | 87 | 179 | 222 | 1.10e-13 | 65.9 |
| Msa0492630 | AT4G29810.3 | 49.057 | 53 | 27 | 0 | 41 | 93 | 184 | 236 | 4.82e-13 | 64.3 |
| Msa0492630 | AT4G29810.1 | 49.057 | 53 | 27 | 0 | 41 | 93 | 175 | 227 | 5.79e-13 | 63.9 |
| Msa0492630 | AT4G29810.2 | 49.057 | 53 | 27 | 0 | 41 | 93 | 184 | 236 | 6.19e-13 | 63.9 |
| Msa0492630 | AT4G26070.5 | 47.170 | 53 | 28 | 0 | 41 | 93 | 160 | 212 | 2.20e-11 | 59.7 |
| Msa0492630 | AT4G26070.4 | 47.170 | 53 | 28 | 0 | 41 | 93 | 172 | 224 | 2.25e-11 | 59.7 |
| Msa0492630 | AT4G26070.2 | 47.170 | 53 | 28 | 0 | 41 | 93 | 173 | 225 | 2.34e-11 | 59.3 |
| Msa0492630 | AT4G26070.3 | 47.170 | 53 | 28 | 0 | 41 | 93 | 173 | 225 | 2.34e-11 | 59.3 |
| Msa0492630 | AT4G26070.1 | 47.170 | 53 | 28 | 0 | 41 | 93 | 173 | 225 | 2.55e-11 | 59.3 |
Find 15 sgRNAs with CRISPR-Local
Find 82 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACACAATGTGTTAACTCTTT+TGG | 0.201562 | 3_4:-16482808 | Msa0492630:CDS |
| GAGCCGAAAATTACTGATTT+TGG | 0.210770 | 3_4:-16482208 | Msa0492630:CDS |
| ATTTACTTGTAAATCTCAAA+GGG | 0.447984 | 3_4:-16482231 | Msa0492630:CDS |
| AGATTTACAAGTAAATTAGC+AGG | 0.487423 | 3_4:+16482238 | None:intergenic |
| AATTTACTTGTAAATCTCAA+AGG | 0.502420 | 3_4:-16482232 | Msa0492630:CDS |
| CTTAGAGAATTCACTTGCAA+TGG | 0.524208 | 3_4:-16482173 | Msa0492630:CDS |
| AGTTTATACTCTATCAGTCA+TGG | 0.531630 | 3_4:-16482148 | Msa0492630:intron |
| GCAGCTTGCAGTGGATATGC+TGG | 0.567438 | 3_4:-16482779 | Msa0492630:CDS |
| GCTCAACAAGATCCTCAATA+CGG | 0.592189 | 3_4:+16481890 | None:intergenic |
| TGGGGATGAGCAGCTTGCAG+TGG | 0.595661 | 3_4:-16482788 | Msa0492630:CDS |
| AGATGAGCAAGTCCGTATTG+AGG | 0.604364 | 3_4:-16481902 | Msa0492630:CDS |
| GTGAAGACAACTTCTTGTGG+TGG | 0.628890 | 3_4:-16482832 | Msa0492630:CDS |
| AAAGTGAAGACAACTTCTTG+TGG | 0.638471 | 3_4:-16482835 | Msa0492630:CDS |
| AAGGGTCTAAGTTATCTGCA+CGG | 0.655190 | 3_4:-16482292 | Msa0492630:CDS |
| TTTACTTGTAAATCTCAAAG+GGG | 0.681294 | 3_4:-16482230 | Msa0492630:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAATTAAACTGATTATGTAG+TGG | - | chr3_4:16482083-16482102 | Msa0492630:intron | 20.0% |
| !!! | TCATAATTTGTTGTTTCATT+AGG | + | chr3_4:16482128-16482147 | None:intergenic | 20.0% |
| !! | ACAAAATTATCAGAATCTTA+CGG | + | chr3_4:16482188-16482207 | None:intergenic | 20.0% |
| !! | AAATTAAACAATACAACATG+TGG | - | chr3_4:16482264-16482283 | Msa0492630:CDS | 20.0% |
| !!! | TTTCAATTTTAAACTTAGCA+TGG | - | chr3_4:16482291-16482310 | Msa0492630:CDS | 20.0% |
| !!! | TGGTTTTTTAATCTTTTTGA+AGG | - | chr3_4:16482439-16482458 | Msa0492630:intron | 20.0% |
| !!! | GGTTTTTTAATCTTTTTGAA+GGG | - | chr3_4:16482440-16482459 | Msa0492630:intron | 20.0% |
| !! | AATTTACTTGTAAATCTCAA+AGG | - | chr3_4:16482518-16482537 | Msa0492630:intron | 20.0% |
| !! | ATTTACTTGTAAATCTCAAA+GGG | - | chr3_4:16482519-16482538 | Msa0492630:intron | 20.0% |
| !!! | ATACCAAAATCAGTAATTTT+CGG | + | chr3_4:16482548-16482567 | None:intergenic | 20.0% |
| !! | TAATTAAACTGATTATGTAG+TGG | - | chr3_4:16482083-16482102 | Msa0492630:intron | 20.0% |
| !!! | TCATAATTTGTTGTTTCATT+AGG | + | chr3_4:16482128-16482147 | None:intergenic | 20.0% |
| !! | ACAAAATTATCAGAATCTTA+CGG | + | chr3_4:16482188-16482207 | None:intergenic | 20.0% |
| !! | AAATTAAACAATACAACATG+TGG | - | chr3_4:16482264-16482283 | Msa0492630:CDS | 20.0% |
| !!! | TTTCAATTTTAAACTTAGCA+TGG | - | chr3_4:16482291-16482310 | Msa0492630:CDS | 20.0% |
| !!! | TGGTTTTTTAATCTTTTTGA+AGG | - | chr3_4:16482439-16482458 | Msa0492630:intron | 20.0% |
| !!! | GGTTTTTTAATCTTTTTGAA+GGG | - | chr3_4:16482440-16482459 | Msa0492630:intron | 20.0% |
| !! | AATTTACTTGTAAATCTCAA+AGG | - | chr3_4:16482518-16482537 | Msa0492630:intron | 20.0% |
| !! | ATTTACTTGTAAATCTCAAA+GGG | - | chr3_4:16482519-16482538 | Msa0492630:intron | 20.0% |
| !!! | ATACCAAAATCAGTAATTTT+CGG | + | chr3_4:16482548-16482567 | None:intergenic | 20.0% |
| !! | GTTTATGCGTTATTAATTTG+TGG | - | chr3_4:16482367-16482386 | Msa0492630:intron | 25.0% |
| ! | AGATTTACAAGTAAATTAGC+AGG | + | chr3_4:16482515-16482534 | None:intergenic | 25.0% |
| ! | TTTACTTGTAAATCTCAAAG+GGG | - | chr3_4:16482520-16482539 | Msa0492630:intron | 25.0% |
| !! | GTTTATGCGTTATTAATTTG+TGG | - | chr3_4:16482367-16482386 | Msa0492630:intron | 25.0% |
| ! | AGATTTACAAGTAAATTAGC+AGG | + | chr3_4:16482515-16482534 | None:intergenic | 25.0% |
| ! | TTTACTTGTAAATCTCAAAG+GGG | - | chr3_4:16482520-16482539 | Msa0492630:intron | 25.0% |
| ! | ACACAATGTGTTAACTCTTT+TGG | - | chr3_4:16481942-16481961 | Msa0492630:intron | 30.0% |
| ! | CACAATGTGTTAACTCTTTT+GGG | - | chr3_4:16481943-16481962 | Msa0492630:intron | 30.0% |
| ! | ACAATGTGTTAACTCTTTTG+GGG | - | chr3_4:16481944-16481963 | Msa0492630:intron | 30.0% |
| ! | GGCTAATAATCTTCTTTTTG+AGG | - | chr3_4:16481992-16482011 | Msa0492630:intron | 30.0% |
| ATCAATAACTCATCTGCTTT+GGG | - | chr3_4:16482157-16482176 | Msa0492630:CDS | 30.0% | |
| ! | GTGATTTTATGCTACTAACT+TGG | - | chr3_4:16482415-16482434 | Msa0492630:intron | 30.0% |
| ! | TTTTATGCTACTAACTTGGT+TGG | - | chr3_4:16482419-16482438 | Msa0492630:intron | 30.0% |
| AGTTTATACTCTATCAGTCA+TGG | - | chr3_4:16482602-16482621 | Msa0492630:intron | 30.0% | |
| GAAGTGCAATTTCTATCTAT+AGG | + | chr3_4:16482825-16482844 | None:intergenic | 30.0% | |
| ! | ACACAATGTGTTAACTCTTT+TGG | - | chr3_4:16481942-16481961 | Msa0492630:intron | 30.0% |
| ! | CACAATGTGTTAACTCTTTT+GGG | - | chr3_4:16481943-16481962 | Msa0492630:intron | 30.0% |
| ! | ACAATGTGTTAACTCTTTTG+GGG | - | chr3_4:16481944-16481963 | Msa0492630:intron | 30.0% |
| ! | GGCTAATAATCTTCTTTTTG+AGG | - | chr3_4:16481992-16482011 | Msa0492630:intron | 30.0% |
| ATCAATAACTCATCTGCTTT+GGG | - | chr3_4:16482157-16482176 | Msa0492630:CDS | 30.0% | |
| ! | GTGATTTTATGCTACTAACT+TGG | - | chr3_4:16482415-16482434 | Msa0492630:intron | 30.0% |
| ! | TTTTATGCTACTAACTTGGT+TGG | - | chr3_4:16482419-16482438 | Msa0492630:intron | 30.0% |
| AGTTTATACTCTATCAGTCA+TGG | - | chr3_4:16482602-16482621 | Msa0492630:intron | 30.0% | |
| GAAGTGCAATTTCTATCTAT+AGG | + | chr3_4:16482825-16482844 | None:intergenic | 30.0% | |
| AAAGTGAAGACAACTTCTTG+TGG | - | chr3_4:16481915-16481934 | Msa0492630:CDS | 35.0% | |
| CATCAATAACTCATCTGCTT+TGG | - | chr3_4:16482156-16482175 | Msa0492630:CDS | 35.0% | |
| TTAAACTTAGCATGGCTACT+AGG | - | chr3_4:16482299-16482318 | Msa0492630:intron | 35.0% | |
| ! | ATGGCTACTAGGATTTTTGA+TGG | - | chr3_4:16482310-16482329 | Msa0492630:intron | 35.0% |
| ! | TGGTATTTGCTGCTACTATT+TGG | - | chr3_4:16482330-16482349 | Msa0492630:intron | 35.0% |
| ! | CACTAGTGAATCAAGTTGTT+TGG | + | chr3_4:16482398-16482417 | None:intergenic | 35.0% |
| !!! | GAGCCGAAAATTACTGATTT+TGG | - | chr3_4:16482542-16482561 | Msa0492630:intron | 35.0% |
| !! | ACTGATTTTGGTATTAGTGC+TGG | - | chr3_4:16482554-16482573 | Msa0492630:intron | 35.0% |
| CTTAGAGAATTCACTTGCAA+TGG | - | chr3_4:16482577-16482596 | Msa0492630:intron | 35.0% | |
| AACAAAGTGTGGAAGCAAAT+CGG | + | chr3_4:16482658-16482677 | None:intergenic | 35.0% | |
| AAAGTGAAGACAACTTCTTG+TGG | - | chr3_4:16481915-16481934 | Msa0492630:CDS | 35.0% | |
| CATCAATAACTCATCTGCTT+TGG | - | chr3_4:16482156-16482175 | Msa0492630:CDS | 35.0% | |
| TTAAACTTAGCATGGCTACT+AGG | - | chr3_4:16482299-16482318 | Msa0492630:intron | 35.0% | |
| ! | ATGGCTACTAGGATTTTTGA+TGG | - | chr3_4:16482310-16482329 | Msa0492630:intron | 35.0% |
| ! | TGGTATTTGCTGCTACTATT+TGG | - | chr3_4:16482330-16482349 | Msa0492630:intron | 35.0% |
| ! | CACTAGTGAATCAAGTTGTT+TGG | + | chr3_4:16482398-16482417 | None:intergenic | 35.0% |
| !!! | GAGCCGAAAATTACTGATTT+TGG | - | chr3_4:16482542-16482561 | Msa0492630:intron | 35.0% |
| !! | ACTGATTTTGGTATTAGTGC+TGG | - | chr3_4:16482554-16482573 | Msa0492630:intron | 35.0% |
| CTTAGAGAATTCACTTGCAA+TGG | - | chr3_4:16482577-16482596 | Msa0492630:intron | 35.0% | |
| AACAAAGTGTGGAAGCAAAT+CGG | + | chr3_4:16482658-16482677 | None:intergenic | 35.0% | |
| !! | GCTACTATTTGGTGCTCTAA+AGG | - | chr3_4:16482341-16482360 | Msa0492630:intron | 40.0% |
| AAGGGTCTAAGTTATCTGCA+CGG | - | chr3_4:16482458-16482477 | Msa0492630:intron | 40.0% | |
| ACAGTCAAGCAAACAAAGTG+TGG | + | chr3_4:16482669-16482688 | None:intergenic | 40.0% | |
| GCTCAACAAGATCCTCAATA+CGG | + | chr3_4:16482863-16482882 | None:intergenic | 40.0% | |
| !! | GCTACTATTTGGTGCTCTAA+AGG | - | chr3_4:16482341-16482360 | Msa0492630:intron | 40.0% |
| AAGGGTCTAAGTTATCTGCA+CGG | - | chr3_4:16482458-16482477 | Msa0492630:intron | 40.0% | |
| ACAGTCAAGCAAACAAAGTG+TGG | + | chr3_4:16482669-16482688 | None:intergenic | 40.0% | |
| GCTCAACAAGATCCTCAATA+CGG | + | chr3_4:16482863-16482882 | None:intergenic | 40.0% | |
| GTGAAGACAACTTCTTGTGG+TGG | - | chr3_4:16481918-16481937 | Msa0492630:CDS | 45.0% | |
| TGTGGAAGCAAATCGGTATG+TGG | + | chr3_4:16482651-16482670 | None:intergenic | 45.0% | |
| AGATGAGCAAGTCCGTATTG+AGG | - | chr3_4:16482848-16482867 | Msa0492630:CDS | 45.0% | |
| GTGAAGACAACTTCTTGTGG+TGG | - | chr3_4:16481918-16481937 | Msa0492630:CDS | 45.0% | |
| TGTGGAAGCAAATCGGTATG+TGG | + | chr3_4:16482651-16482670 | None:intergenic | 45.0% | |
| AGATGAGCAAGTCCGTATTG+AGG | - | chr3_4:16482848-16482867 | Msa0492630:CDS | 45.0% | |
| GCAGCTTGCAGTGGATATGC+TGG | - | chr3_4:16481971-16481990 | Msa0492630:intron | 55.0% | |
| GCAGCTTGCAGTGGATATGC+TGG | - | chr3_4:16481971-16481990 | Msa0492630:intron | 55.0% | |
| TGGGGATGAGCAGCTTGCAG+TGG | - | chr3_4:16481962-16481981 | Msa0492630:intron | 60.0% | |
| TGGGGATGAGCAGCTTGCAG+TGG | - | chr3_4:16481962-16481981 | Msa0492630:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 16481885 | 16482887 | 16481885 | ID=Msa0492630;Name=Msa0492630 |
| chr3_4 | mRNA | 16481885 | 16482887 | 16481885 | ID=Msa0492630-mRNA-1;Parent=Msa0492630;Name=Msa0492630-mRNA-1;_AED=0.29;_eAED=0.48;_QI=0|0|0|0.66|1|1|3|0|116 |
| chr3_4 | exon | 16482759 | 16482887 | 16482759 | ID=Msa0492630-mRNA-1:exon:4734;Parent=Msa0492630-mRNA-1 |
| chr3_4 | exon | 16482149 | 16482311 | 16482149 | ID=Msa0492630-mRNA-1:exon:4733;Parent=Msa0492630-mRNA-1 |
| chr3_4 | exon | 16481885 | 16481943 | 16481885 | ID=Msa0492630-mRNA-1:exon:4732;Parent=Msa0492630-mRNA-1 |
| chr3_4 | CDS | 16482759 | 16482887 | 16482759 | ID=Msa0492630-mRNA-1:cds;Parent=Msa0492630-mRNA-1 |
| chr3_4 | CDS | 16482149 | 16482311 | 16482149 | ID=Msa0492630-mRNA-1:cds;Parent=Msa0492630-mRNA-1 |
| chr3_4 | CDS | 16481885 | 16481943 | 16481885 | ID=Msa0492630-mRNA-1:cds;Parent=Msa0492630-mRNA-1 |
| Gene Sequence |
| Protein sequence |
