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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0139780 | AWW91873.1 | 100.000 | 220 | 0 | 0 | 1 | 220 | 1 | 220 | 1.59e-147 | 448 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0139780 | sp|Q9BBS9|RPOB_LOTJA | 95.814 | 215 | 9 | 0 | 6 | 220 | 1 | 215 | 2.10e-141 | 424 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0139780 | A0A2Z4KH34 | 100.000 | 220 | 0 | 0 | 1 | 220 | 1 | 220 | 7.61e-148 | 448 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0139780 | Msa0582670 | 0.804184 | 2.439842e-49 | -8.615850e-47 |
| Msa0139780 | Msa0582800 | 0.801059 | 1.076469e-48 | -8.615850e-47 |
| Msa0139780 | Msa0931250 | 0.809191 | 2.137991e-50 | -8.615850e-47 |
| Msa0139780 | Msa1305100 | 0.806850 | 6.734295e-50 | -8.615850e-47 |
| Msa0139780 | Msa1354940 | 0.804862 | 1.762076e-49 | -8.615850e-47 |
| Msa0139780 | Msa1355120 | 0.821615 | 3.673811e-53 | -8.615850e-47 |
| Msa0139780 | Msa1380700 | 0.800915 | 1.152073e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0139780 | MtrunA17_Chr4g0016641 | 99.091 | 220 | 2 | 0 | 1 | 220 | 1 | 220 | 7.08e-150 | 443 |
| Msa0139780 | MtrunA17_CPg0493041 | 99.091 | 220 | 2 | 0 | 1 | 220 | 1 | 220 | 7.08e-150 | 443 |
| Msa0139780 | MtrunA17_Chr4g0015521 | 98.165 | 109 | 2 | 0 | 112 | 220 | 1 | 109 | 4.57e-73 | 217 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0139780 | ATCG00190.1 | 86.977 | 215 | 28 | 0 | 6 | 220 | 1 | 215 | 2.10e-125 | 380 |
Find 44 sgRNAs with CRISPR-Local
Find 61 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATATATCCGCGGGATTAATT+TGG | 0.209384 | 1_3:-73598381 | Msa0139780:CDS |
| CTGGGAACTTCTATAGTAAA+TGG | 0.231551 | 1_3:-73598295 | Msa0139780:CDS |
| TTGATAGAAAAGCAAGGATA+TGG | 0.252693 | 1_3:-73598138 | Msa0139780:CDS |
| AAATTGTATTTGATTTAATC+CGG | 0.349804 | 1_3:+73598585 | None:intergenic |
| TGGGGAAATTGAAAATGCTT+GGG | 0.386996 | 1_3:-73598636 | Msa0139780:CDS |
| AATTGAAAATGCTTGGGGTT+GGG | 0.394420 | 1_3:-73598630 | Msa0139780:CDS |
| CATTCCTCTAATGAATTCCC+TGG | 0.423604 | 1_3:-73598314 | Msa0139780:CDS |
| ATGGGGAAATTGAAAATGCT+TGG | 0.425882 | 1_3:-73598637 | Msa0139780:CDS |
| TATGTCTTTCCTCAATGAAA+AGG | 0.429238 | 1_3:-73598011 | Msa0139780:CDS |
| ATGCTTGGGGTTGGGAATGA+AGG | 0.438598 | 1_3:-73598622 | Msa0139780:CDS |
| TGGCACAATAATATCCGATT+GGG | 0.439186 | 1_3:-73598182 | Msa0139780:CDS |
| AATTGAATTTCAGTTATTTG+TGG | 0.443334 | 1_3:-73598482 | Msa0139780:CDS |
| GTTCCCAGGGAATTCATTAG+AGG | 0.450312 | 1_3:+73598310 | None:intergenic |
| AACGGAATTTCAGTCTATAC+TGG | 0.455189 | 1_3:-73598202 | Msa0139780:CDS |
| AAATTGAAAATGCTTGGGGT+TGG | 0.457271 | 1_3:-73598631 | Msa0139780:CDS |
| TTAAATCAAATACAATTTGA+AGG | 0.460401 | 1_3:-73598580 | Msa0139780:CDS |
| ATTTGTGGAAACATATCAAT+TGG | 0.470517 | 1_3:-73598467 | Msa0139780:CDS |
| CATTTACTATAGAAGTTCCC+AGG | 0.473812 | 1_3:+73598296 | None:intergenic |
| TCTAGTTCTATCATCAGCTA+TGG | 0.479428 | 1_3:-73598083 | Msa0139780:CDS |
| TATAGACTGAAATTCCGTTA+TGG | 0.489213 | 1_3:+73598206 | None:intergenic |
| CGTTCAGAGTTGGACCATAA+CGG | 0.495197 | 1_3:-73598220 | Msa0139780:CDS |
| TATCTATTATCGTTCAGAGT+TGG | 0.510246 | 1_3:-73598230 | Msa0139780:CDS |
| CTGGCACAATAATATCCGAT+TGG | 0.523488 | 1_3:-73598183 | Msa0139780:CDS |
| TGATAGAAAAGCAAGGATAT+GGG | 0.526528 | 1_3:-73598137 | Msa0139780:CDS |
| CTAGTTCTATCATCAGCTAT+GGG | 0.528023 | 1_3:-73598082 | Msa0139780:CDS |
| TAAATCAAATACAATTTGAA+GGG | 0.532005 | 1_3:-73598579 | Msa0139780:CDS |
| GGATATGGGCTCGTGTAAGT+AGG | 0.539731 | 1_3:-73598123 | Msa0139780:CDS |
| TAGAAATTGATAGAAAAGCA+AGG | 0.548786 | 1_3:-73598144 | Msa0139780:CDS |
| AATTGTATTTGATTTAATCC+GGG | 0.549785 | 1_3:+73598586 | None:intergenic |
| TCTGAATTATATATATCCGC+GGG | 0.562320 | 1_3:-73598391 | Msa0139780:CDS |
| AATCAAATATTGCAAAGCCC+TGG | 0.569397 | 1_3:-73598253 | Msa0139780:CDS |
| CACAATAATATCCGATTGGG+GGG | 0.571960 | 1_3:-73598179 | Msa0139780:CDS |
| CTCTGAATTATATATATCCG+CGG | 0.577667 | 1_3:-73598392 | Msa0139780:CDS |
| GTCTTTCCTCAATGAAAAGG+AGG | 0.586724 | 1_3:-73598008 | Msa0139780:CDS |
| CGCGGATATATATAATTCAG+AGG | 0.586801 | 1_3:+73598393 | None:intergenic |
| ATTTACTATAGAAGTTCCCA+GGG | 0.587463 | 1_3:+73598297 | None:intergenic |
| TCTGAACGATAATAGATACC+AGG | 0.589979 | 1_3:+73598235 | None:intergenic |
| ATTCCTCTAATGAATTCCCT+GGG | 0.606971 | 1_3:-73598313 | Msa0139780:CDS |
| GGCACAATAATATCCGATTG+GGG | 0.627268 | 1_3:-73598181 | Msa0139780:CDS |
| GAAGGAATGTCTACACTACC+CGG | 0.627870 | 1_3:-73598604 | Msa0139780:CDS |
| ACAATAATATCCGATTGGGG+GGG | 0.637953 | 1_3:-73598178 | Msa0139780:CDS |
| CTGAACGATAATAGATACCA+GGG | 0.641198 | 1_3:+73598236 | None:intergenic |
| GGGGAAATTGAAAATGCTTG+GGG | 0.643696 | 1_3:-73598635 | Msa0139780:CDS |
| GCACAATAATATCCGATTGG+GGG | 0.683666 | 1_3:-73598180 | Msa0139780:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAATTGTATTTGATTTAATC+CGG | + | chr1_3:73598052-73598071 | None:intergenic | 15.0% |
| !! | TTAAATCAAATACAATTTGA+AGG | - | chr1_3:73598054-73598073 | Msa0139780:CDS | 15.0% |
| !! | TAAATCAAATACAATTTGAA+GGG | - | chr1_3:73598055-73598074 | Msa0139780:CDS | 15.0% |
| !!! | CAATAAAAATAATTTGTTCT+TGG | + | chr1_3:73598296-73598315 | None:intergenic | 15.0% |
| !!! | CAAGAACAAATTATTTTTAT+TGG | - | chr1_3:73598294-73598313 | Msa0139780:CDS | 15.0% |
| !!! | AATTGTATTTGATTTAATCC+GGG | + | chr1_3:73598051-73598070 | None:intergenic | 20.0% |
| !! | AATTGAATTTCAGTTATTTG+TGG | - | chr1_3:73598152-73598171 | Msa0139780:CDS | 20.0% |
| !!! | ATTAATTTGGAAAAACAGTA+GGG | - | chr1_3:73598266-73598285 | Msa0139780:CDS | 20.0% |
| ! | GTTTCCAAAAATTGAAGATA+CGG | - | chr1_3:73598122-73598141 | Msa0139780:CDS | 25.0% |
| ! | ATTTGTGGAAACATATCAAT+TGG | - | chr1_3:73598167-73598186 | Msa0139780:CDS | 25.0% |
| !! | GATTAATTTGGAAAAACAGT+AGG | - | chr1_3:73598265-73598284 | Msa0139780:CDS | 25.0% |
| ! | TAGAAATTGATAGAAAAGCA+AGG | - | chr1_3:73598490-73598509 | Msa0139780:CDS | 25.0% |
| ! | AGGAAAGACATAAAAATTTC+GGG | + | chr1_3:73598615-73598634 | None:intergenic | 25.0% |
| ! | GAGGAAAGACATAAAAATTT+CGG | + | chr1_3:73598616-73598635 | None:intergenic | 25.0% |
| !! | GGTTTTGTAGATTCATTGAT+CGG | - | chr1_3:73598076-73598095 | Msa0139780:CDS | 30.0% |
| ! | GTTTTGTAGATTCATTGATC+GGG | - | chr1_3:73598077-73598096 | Msa0139780:CDS | 30.0% |
| ! | TTTTGTAGATTCATTGATCG+GGG | - | chr1_3:73598078-73598097 | Msa0139780:CDS | 30.0% |
| ! | TGATCCGTATCTTCAATTTT+TGG | + | chr1_3:73598129-73598148 | None:intergenic | 30.0% |
| ! | GCATCTTTTTCTTTTATCGA+GGG | + | chr1_3:73598198-73598217 | None:intergenic | 30.0% |
| ! | AGCATCTTTTTCTTTTATCG+AGG | + | chr1_3:73598199-73598218 | None:intergenic | 30.0% |
| CTCTGAATTATATATATCCG+CGG | - | chr1_3:73598242-73598261 | Msa0139780:CDS | 30.0% | |
| TCTGAATTATATATATCCGC+GGG | - | chr1_3:73598243-73598262 | Msa0139780:CDS | 30.0% | |
| ATTTACTATAGAAGTTCCCA+GGG | + | chr1_3:73598340-73598359 | None:intergenic | 30.0% | |
| TATCTATTATCGTTCAGAGT+TGG | - | chr1_3:73598404-73598423 | Msa0139780:CDS | 30.0% | |
| TATAGACTGAAATTCCGTTA+TGG | + | chr1_3:73598431-73598450 | None:intergenic | 30.0% | |
| TTGATAGAAAAGCAAGGATA+TGG | - | chr1_3:73598496-73598515 | Msa0139780:CDS | 30.0% | |
| TGATAGAAAAGCAAGGATAT+GGG | - | chr1_3:73598497-73598516 | Msa0139780:CDS | 30.0% | |
| GGAAAGACATAAAAATTTCG+GGG | + | chr1_3:73598614-73598633 | None:intergenic | 30.0% | |
| TATGTCTTTCCTCAATGAAA+AGG | - | chr1_3:73598623-73598642 | Msa0139780:CDS | 30.0% | |
| !!! | TTTTTTCCTCCTTTTCATTG+AGG | + | chr1_3:73598635-73598654 | None:intergenic | 30.0% |
| ATGGGGAAATTGAAAATGCT+TGG | - | chr1_3:73597997-73598016 | Msa0139780:CDS | 35.0% | |
| TGGGGAAATTGAAAATGCTT+GGG | - | chr1_3:73597998-73598017 | Msa0139780:CDS | 35.0% | |
| AAATTGAAAATGCTTGGGGT+TGG | - | chr1_3:73598003-73598022 | Msa0139780:CDS | 35.0% | |
| AATTGAAAATGCTTGGGGTT+GGG | - | chr1_3:73598004-73598023 | Msa0139780:CDS | 35.0% | |
| CGCGGATATATATAATTCAG+AGG | + | chr1_3:73598244-73598263 | None:intergenic | 35.0% | |
| ATATATCCGCGGGATTAATT+TGG | - | chr1_3:73598253-73598272 | Msa0139780:CDS | 35.0% | |
| ! | GTTTTTCCAAATTAATCCCG+CGG | + | chr1_3:73598262-73598281 | None:intergenic | 35.0% |
| ATTCCTCTAATGAATTCCCT+GGG | - | chr1_3:73598321-73598340 | Msa0139780:CDS | 35.0% | |
| CATTTACTATAGAAGTTCCC+AGG | + | chr1_3:73598341-73598360 | None:intergenic | 35.0% | |
| CTGGGAACTTCTATAGTAAA+TGG | - | chr1_3:73598339-73598358 | Msa0139780:CDS | 35.0% | |
| AATCAAATATTGCAAAGCCC+TGG | - | chr1_3:73598381-73598400 | Msa0139780:CDS | 35.0% | |
| CTGAACGATAATAGATACCA+GGG | + | chr1_3:73598401-73598420 | None:intergenic | 35.0% | |
| TCTGAACGATAATAGATACC+AGG | + | chr1_3:73598402-73598421 | None:intergenic | 35.0% | |
| AACGGAATTTCAGTCTATAC+TGG | - | chr1_3:73598432-73598451 | Msa0139780:CDS | 35.0% | |
| TGGCACAATAATATCCGATT+GGG | - | chr1_3:73598452-73598471 | Msa0139780:CDS | 35.0% | |
| !! | TCTAGTTCTATCATCAGCTA+TGG | - | chr1_3:73598551-73598570 | Msa0139780:CDS | 35.0% |
| !! | CTAGTTCTATCATCAGCTAT+GGG | - | chr1_3:73598552-73598571 | Msa0139780:CDS | 35.0% |
| GGGGAAATTGAAAATGCTTG+GGG | - | chr1_3:73597999-73598018 | Msa0139780:CDS | 40.0% | |
| CATTCCTCTAATGAATTCCC+TGG | - | chr1_3:73598320-73598339 | Msa0139780:CDS | 40.0% | |
| CTGGCACAATAATATCCGAT+TGG | - | chr1_3:73598451-73598470 | Msa0139780:CDS | 40.0% | |
| GGCACAATAATATCCGATTG+GGG | - | chr1_3:73598453-73598472 | Msa0139780:CDS | 40.0% | |
| GCACAATAATATCCGATTGG+GGG | - | chr1_3:73598454-73598473 | Msa0139780:CDS | 40.0% | |
| CACAATAATATCCGATTGGG+GGG | - | chr1_3:73598455-73598474 | Msa0139780:CDS | 40.0% | |
| ACAATAATATCCGATTGGGG+GGG | - | chr1_3:73598456-73598475 | Msa0139780:CDS | 40.0% | |
| GTCTTTCCTCAATGAAAAGG+AGG | - | chr1_3:73598626-73598645 | Msa0139780:CDS | 40.0% | |
| GAAGGAATGTCTACACTACC+CGG | - | chr1_3:73598030-73598049 | Msa0139780:CDS | 45.0% | |
| GTTCCCAGGGAATTCATTAG+AGG | + | chr1_3:73598327-73598346 | None:intergenic | 45.0% | |
| CGTTCAGAGTTGGACCATAA+CGG | - | chr1_3:73598414-73598433 | Msa0139780:CDS | 45.0% | |
| ATGCTTGGGGTTGGGAATGA+AGG | - | chr1_3:73598012-73598031 | Msa0139780:CDS | 50.0% | |
| CTCTAATCTTCCCCCCCAAT+CGG | + | chr1_3:73598469-73598488 | None:intergenic | 50.0% | |
| GGATATGGGCTCGTGTAAGT+AGG | - | chr1_3:73598511-73598530 | Msa0139780:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 73597997 | 73598659 | 73597997 | ID=Msa0139780;Name=Msa0139780 |
| chr1_3 | mRNA | 73597997 | 73598659 | 73597997 | ID=Msa0139780-mRNA-1;Parent=Msa0139780;Name=Msa0139780-mRNA-1;_AED=0.46;_eAED=0.46;_QI=0|-1|0|1|-1|1|1|0|220 |
| chr1_3 | exon | 73597997 | 73598659 | 73597997 | ID=Msa0139780-mRNA-1:exon:25650;Parent=Msa0139780-mRNA-1 |
| chr1_3 | CDS | 73597997 | 73598659 | 73597997 | ID=Msa0139780-mRNA-1:cds;Parent=Msa0139780-mRNA-1 |
| Gene Sequence |
| Protein sequence |
