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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0102000 | XP_013466170.1 | 98.485 | 198 | 3 | 0 | 1 | 198 | 229 | 426 | 2.76e-137 | 400 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0102000 | sp|Q8RWB7|PMT12_ARATH | 43.455 | 191 | 101 | 3 | 9 | 196 | 190 | 376 | 4.50e-46 | 159 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0102000 | A0A072VF27 | 98.485 | 198 | 3 | 0 | 1 | 198 | 229 | 426 | 1.32e-137 | 400 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0102000 | Msa0146740 | 0.924561 | 5.978580e-90 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0102000 | MtrunA17_Chr1g0156281 | 98.485 | 198 | 3 | 0 | 1 | 198 | 229 | 426 | 2.54e-141 | 400 |
| Msa0102000 | MtrunA17_Chr8g0367771 | 92.424 | 198 | 6 | 1 | 1 | 198 | 63 | 251 | 6.19e-131 | 367 |
| Msa0102000 | MtrunA17_Chr3g0142401 | 78.392 | 199 | 37 | 3 | 1 | 197 | 226 | 420 | 3.82e-108 | 316 |
| Msa0102000 | MtrunA17_Chr3g0113501 | 77.099 | 131 | 27 | 2 | 5 | 133 | 43 | 172 | 2.49e-67 | 204 |
| Msa0102000 | MtrunA17_Chr5g0434311 | 48.469 | 196 | 96 | 4 | 4 | 197 | 193 | 385 | 2.28e-61 | 195 |
| Msa0102000 | MtrunA17_Chr2g0291511 | 48.469 | 196 | 97 | 3 | 2 | 196 | 271 | 463 | 6.37e-59 | 191 |
| Msa0102000 | MtrunA17_Chr2g0291531 | 46.939 | 196 | 100 | 3 | 2 | 196 | 266 | 458 | 5.47e-57 | 186 |
| Msa0102000 | MtrunA17_Chr8g0348141 | 44.279 | 201 | 98 | 4 | 5 | 197 | 293 | 487 | 2.81e-50 | 169 |
| Msa0102000 | MtrunA17_Chr0c01g0489331 | 44.103 | 195 | 98 | 4 | 5 | 198 | 275 | 459 | 2.77e-49 | 166 |
| Msa0102000 | MtrunA17_Chr3g0113761 | 69.027 | 113 | 21 | 2 | 1 | 113 | 198 | 296 | 2.04e-46 | 155 |
| Msa0102000 | MtrunA17_Chr4g0051831 | 44.262 | 183 | 99 | 1 | 17 | 196 | 193 | 375 | 4.79e-41 | 142 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0102000 | AT3G27230.1 | 74.747 | 198 | 41 | 2 | 1 | 198 | 222 | 410 | 6.71e-102 | 300 |
| Msa0102000 | AT5G40830.1 | 70.352 | 199 | 50 | 3 | 1 | 197 | 222 | 413 | 5.65e-97 | 288 |
| Msa0102000 | AT5G40830.2 | 70.352 | 199 | 50 | 3 | 1 | 197 | 222 | 413 | 5.65e-97 | 288 |
| Msa0102000 | AT5G40830.3 | 72.050 | 161 | 37 | 2 | 39 | 197 | 219 | 373 | 3.45e-80 | 243 |
| Msa0102000 | AT3G05390.1 | 44.103 | 195 | 98 | 4 | 5 | 198 | 278 | 462 | 2.51e-50 | 169 |
| Msa0102000 | AT1G29790.2 | 43.455 | 191 | 101 | 3 | 9 | 196 | 190 | 376 | 4.58e-47 | 159 |
| Msa0102000 | AT1G29790.1 | 43.455 | 191 | 101 | 3 | 9 | 196 | 190 | 376 | 4.58e-47 | 159 |
| Msa0102000 | AT4G01240.1 | 42.000 | 200 | 103 | 4 | 5 | 197 | 463 | 656 | 1.09e-45 | 160 |
Find 33 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCAAACACATTGTCATAAAA+TGG | 0.248817 | 1_3:+8686837 | None:intergenic |
| GGAGAGAAAGTTGATAGTTT+TGG | 0.265881 | 1_3:-8686615 | Msa0102000:CDS |
| TTTGATATTGGTGGTGGTTC+AGG | 0.273729 | 1_3:-8686993 | Msa0102000:CDS |
| TGCGGGCCGGTGGTTTGTTT+TGG | 0.291218 | 1_3:-8686731 | Msa0102000:CDS |
| TTTACTTGAGCTTAGATCAT+AGG | 0.343285 | 1_3:-8686863 | Msa0102000:CDS |
| GCAGCAATGAATTCACTAAA+TGG | 0.344054 | 1_3:+8686903 | None:intergenic |
| GGAAATGGTGGAATTAGAAT+AGG | 0.346150 | 1_3:-8687017 | Msa0102000:CDS |
| CCATTCTTCAGAAACCAGTT+AGG | 0.362161 | 1_3:-8686563 | Msa0102000:CDS |
| ATTAGAATAGGGTTTGATAT+TGG | 0.369699 | 1_3:-8687005 | Msa0102000:CDS |
| TCTAACCTTCAACCCCTAAC+TGG | 0.373706 | 1_3:+8686549 | None:intergenic |
| GAAATGGTGGAATTAGAATA+GGG | 0.380459 | 1_3:-8687016 | Msa0102000:CDS |
| TTGGATATAAGAAATTGAAA+TGG | 0.387064 | 1_3:-8686644 | Msa0102000:CDS |
| ACAAGGTTGATTGAAAGGTT+TGG | 0.388153 | 1_3:-8686663 | Msa0102000:CDS |
| TGGATATAAGAAATTGAAAT+GGG | 0.396901 | 1_3:-8686643 | Msa0102000:CDS |
| CTCTAACAAGGTTGATTGAA+AGG | 0.444624 | 1_3:-8686668 | Msa0102000:CDS |
| TAAGAAATTGAAATGGGTTG+TGG | 0.451047 | 1_3:-8686637 | Msa0102000:CDS |
| CATTCTTCAGAAACCAGTTA+GGG | 0.456557 | 1_3:-8686562 | Msa0102000:CDS |
| AGAAACCAGTTAGGGGTTGA+AGG | 0.456670 | 1_3:-8686554 | None:intergenic |
| AAGAAATTGAAATGGGTTGT+GGG | 0.464176 | 1_3:-8686636 | Msa0102000:CDS |
| TGCATCAACATTAAGAGTAT+TGG | 0.482891 | 1_3:+8686926 | None:intergenic |
| TGGAGGAAAAGCTGAAAAGT+TGG | 0.486068 | 1_3:-8686784 | Msa0102000:CDS |
| AGAATAGGGTTTGATATTGG+TGG | 0.487533 | 1_3:-8687002 | Msa0102000:CDS |
| TGATCTAAGCTCAAGTAAAG+TGG | 0.497485 | 1_3:+8686867 | None:intergenic |
| CCTAACTGGTTTCTGAAGAA+TGG | 0.500091 | 1_3:+8686563 | None:intergenic |
| ATAGGGTTTGATATTGGTGG+TGG | 0.514507 | 1_3:-8686999 | Msa0102000:CDS |
| GATTCATGCATCAAGTGCAT+TGG | 0.520145 | 1_3:-8686811 | Msa0102000:CDS |
| AGTGAATTCATTGCTGCTAG+AGG | 0.555907 | 1_3:-8686897 | Msa0102000:CDS |
| GCATCAAGTGCATTGGATGT+TGG | 0.560273 | 1_3:-8686804 | Msa0102000:CDS |
| TGAGAATCAGAGATTTGTGA+AGG | 0.606302 | 1_3:-8687084 | Msa0102000:CDS |
| ATCAAGCCAAAACAAACCAC+CGG | 0.614460 | 1_3:+8686725 | None:intergenic |
| TCAAGTGCATTGGATGTTGG+AGG | 0.648963 | 1_3:-8686801 | Msa0102000:CDS |
| AGAAGAAACAAACTCTAACA+AGG | 0.679763 | 1_3:-8686680 | Msa0102000:CDS |
| ATTCTTCAGAAACCAGTTAG+GGG | 0.694148 | 1_3:-8686561 | Msa0102000:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAAAAGTAAAAATGATTTTT+TGG | - | chr1_3:8686628-8686647 | Msa0102000:CDS | 10.0% |
| !!! | TTGTGTTAATTGTTTTGATT+TGG | - | chr1_3:8686568-8686587 | Msa0102000:CDS | 20.0% |
| !! | TTGGATATAAGAAATTGAAA+TGG | - | chr1_3:8687044-8687063 | Msa0102000:CDS | 20.0% |
| !! | TGGATATAAGAAATTGAAAT+GGG | - | chr1_3:8687045-8687064 | Msa0102000:CDS | 20.0% |
| !!! | AATTGTTTTGATTTGGTTAG+TGG | - | chr1_3:8686575-8686594 | Msa0102000:CDS | 25.0% |
| ! | ATTAGAATAGGGTTTGATAT+TGG | - | chr1_3:8686683-8686702 | Msa0102000:CDS | 25.0% |
| ! | TCAAACACATTGTCATAAAA+TGG | + | chr1_3:8686854-8686873 | None:intergenic | 25.0% |
| !!! | GTTGATGATGTTTTAGCATT+AGG | - | chr1_3:8686650-8686669 | Msa0102000:CDS | 30.0% |
| !!! | GATGTTTTAGCATTAGGAAA+TGG | - | chr1_3:8686656-8686675 | Msa0102000:CDS | 30.0% |
| ! | GAAATGGTGGAATTAGAATA+GGG | - | chr1_3:8686672-8686691 | Msa0102000:CDS | 30.0% |
| ! | TGCATCAACATTAAGAGTAT+TGG | + | chr1_3:8686765-8686784 | None:intergenic | 30.0% |
| TTTACTTGAGCTTAGATCAT+AGG | - | chr1_3:8686825-8686844 | Msa0102000:CDS | 30.0% | |
| AGAAGAAACAAACTCTAACA+AGG | - | chr1_3:8687008-8687027 | Msa0102000:CDS | 30.0% | |
| !! | TAAGAAATTGAAATGGGTTG+TGG | - | chr1_3:8687051-8687070 | Msa0102000:CDS | 30.0% |
| !! | AAGAAATTGAAATGGGTTGT+GGG | - | chr1_3:8687052-8687071 | Msa0102000:CDS | 30.0% |
| !!! | AAAGTTGATAGTTTTGGATC+AGG | - | chr1_3:8687079-8687098 | Msa0102000:CDS | 30.0% |
| !!! | TGTTTTGATTTGGTTAGTGG+TGG | - | chr1_3:8686578-8686597 | Msa0102000:CDS | 35.0% |
| TGAGAATCAGAGATTTGTGA+AGG | - | chr1_3:8686604-8686623 | Msa0102000:CDS | 35.0% | |
| !! | GTTTTAGCATTAGGAAATGG+TGG | - | chr1_3:8686659-8686678 | Msa0102000:CDS | 35.0% |
| ! | GGAAATGGTGGAATTAGAAT+AGG | - | chr1_3:8686671-8686690 | Msa0102000:CDS | 35.0% |
| AGAATAGGGTTTGATATTGG+TGG | - | chr1_3:8686686-8686705 | Msa0102000:CDS | 35.0% | |
| GCAGCAATGAATTCACTAAA+TGG | + | chr1_3:8686788-8686807 | None:intergenic | 35.0% | |
| TGATCTAAGCTCAAGTAAAG+TGG | + | chr1_3:8686824-8686843 | None:intergenic | 35.0% | |
| ! | TTGATATCGATCGAGTTTTG+CGG | - | chr1_3:8686939-8686958 | Msa0102000:CDS | 35.0% |
| ! | CTCTAACAAGGTTGATTGAA+AGG | - | chr1_3:8687020-8687039 | Msa0102000:CDS | 35.0% |
| ! | ACAAGGTTGATTGAAAGGTT+TGG | - | chr1_3:8687025-8687044 | Msa0102000:CDS | 35.0% |
| !!! | GGAGAGAAAGTTGATAGTTT+TGG | - | chr1_3:8687073-8687092 | Msa0102000:CDS | 35.0% |
| CATTCTTCAGAAACCAGTTA+GGG | - | chr1_3:8687126-8687145 | Msa0102000:CDS | 35.0% | |
| ATTCTTCAGAAACCAGTTAG+GGG | - | chr1_3:8687127-8687146 | Msa0102000:CDS | 35.0% | |
| ATAGGGTTTGATATTGGTGG+TGG | - | chr1_3:8686689-8686708 | Msa0102000:CDS | 40.0% | |
| !! | TTTGATATTGGTGGTGGTTC+AGG | - | chr1_3:8686695-8686714 | Msa0102000:CDS | 40.0% |
| AGTGAATTCATTGCTGCTAG+AGG | - | chr1_3:8686791-8686810 | Msa0102000:CDS | 40.0% | |
| GATTCATGCATCAAGTGCAT+TGG | - | chr1_3:8686877-8686896 | Msa0102000:CDS | 40.0% | |
| TGGAGGAAAAGCTGAAAAGT+TGG | - | chr1_3:8686904-8686923 | Msa0102000:CDS | 40.0% | |
| ! | TGATATCGATCGAGTTTTGC+GGG | - | chr1_3:8686940-8686959 | Msa0102000:CDS | 40.0% |
| ATCAAGCCAAAACAAACCAC+CGG | + | chr1_3:8686966-8686985 | None:intergenic | 40.0% | |
| ! | CCTAACTGGTTTCTGAAGAA+TGG | + | chr1_3:8687128-8687147 | None:intergenic | 40.0% |
| CCATTCTTCAGAAACCAGTT+AGG | - | chr1_3:8687125-8687144 | Msa0102000:CDS | 40.0% | |
| GCATCAAGTGCATTGGATGT+TGG | - | chr1_3:8686884-8686903 | Msa0102000:CDS | 45.0% | |
| TCAAGTGCATTGGATGTTGG+AGG | - | chr1_3:8686887-8686906 | Msa0102000:CDS | 45.0% | |
| ! | ATCGATCGAGTTTTGCGGGC+CGG | - | chr1_3:8686944-8686963 | Msa0102000:CDS | 55.0% |
| !!! | TGCGGGCCGGTGGTTTGTTT+TGG | - | chr1_3:8686957-8686976 | Msa0102000:CDS | 60.0% |
| ! | GATCGAGTTTTGCGGGCCGG+TGG | - | chr1_3:8686947-8686966 | Msa0102000:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 8686557 | 8687153 | 8686557 | ID=Msa0102000;Name=Msa0102000 |
| chr1_3 | mRNA | 8686557 | 8687153 | 8686557 | ID=Msa0102000-mRNA-1;Parent=Msa0102000;Name=Msa0102000-mRNA-1;_AED=0.04;_eAED=0.04;_QI=0|-1|0|1|-1|1|1|0|198 |
| chr1_3 | exon | 8686557 | 8687153 | 8686557 | ID=Msa0102000-mRNA-1:exon:3472;Parent=Msa0102000-mRNA-1 |
| chr1_3 | CDS | 8686557 | 8687153 | 8686557 | ID=Msa0102000-mRNA-1:cds;Parent=Msa0102000-mRNA-1 |
| Gene Sequence |
| Protein sequence |
