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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0053880 | XP_003588901.1 | 95.105 | 143 | 6 | 1 | 1 | 143 | 1 | 142 | 3.14e-94 | 278 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0053880 | sp|Q93VM8|COPT5_ARATH | 55.102 | 147 | 61 | 3 | 1 | 143 | 1 | 146 | 1.21e-49 | 158 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0053880 | G7I8Y2 | 95.105 | 143 | 6 | 1 | 1 | 143 | 1 | 142 | 1.50e-94 | 278 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0005360 | Msa0053880 | 0.974266 | 7.450314e-138 | -8.615850e-47 |
| Msa0053880 | Msa0099720 | 0.984459 | 1.269640e-160 | -8.615850e-47 |
| Msa0053880 | Msa0421800 | 0.802679 | 5.003572e-49 | -8.615850e-47 |
| Msa0053880 | Msa0467800 | 0.807203 | 5.668548e-50 | -8.615850e-47 |
| Msa0053880 | Msa0467880 | 0.801281 | 9.695595e-49 | -8.615850e-47 |
| Msa0053880 | Msa0560180 | 0.806937 | 6.452775e-50 | -8.615850e-47 |
| Msa0053880 | Msa0638690 | 0.800917 | 1.150800e-48 | -8.615850e-47 |
| Msa0053880 | Msa0662850 | 0.801393 | 9.197773e-49 | -8.615850e-47 |
| Msa0053880 | Msa0739570 | 0.801470 | 8.870455e-49 | -8.615850e-47 |
| Msa0053880 | Msa0958020 | 0.824967 | 6.058487e-54 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0053880 | MtrunA17_Chr1g0150721 | 95.105 | 143 | 6 | 1 | 1 | 143 | 1 | 142 | 2.89e-98 | 278 |
| Msa0053880 | MtrunA17_Chr3g0136431 | 59.060 | 149 | 49 | 4 | 1 | 143 | 1 | 143 | 3.55e-55 | 169 |
| Msa0053880 | MtrunA17_Chr4g0008841 | 31.034 | 145 | 71 | 4 | 2 | 138 | 13 | 136 | 2.76e-18 | 75.9 |
| Msa0053880 | MtrunA17_Chr7g0240831 | 32.283 | 127 | 65 | 2 | 2 | 128 | 22 | 127 | 8.79e-16 | 69.3 |
| Msa0053880 | MtrunA17_Chr7g0240841 | 32.283 | 127 | 65 | 2 | 2 | 128 | 22 | 127 | 8.79e-16 | 69.3 |
| Msa0053880 | MtrunA17_Chr7g0240861 | 30.000 | 140 | 76 | 4 | 2 | 139 | 27 | 146 | 4.79e-15 | 67.8 |
| Msa0053880 | MtrunA17_Chr4g0032581 | 30.645 | 124 | 64 | 3 | 5 | 128 | 35 | 136 | 3.07e-14 | 65.5 |
| Msa0053880 | MtrunA17_Chr4g0032571 | 28.148 | 135 | 75 | 2 | 1 | 135 | 27 | 139 | 8.46e-14 | 64.3 |
| Msa0053880 | MtrunA17_Chr4g0032291 | 31.579 | 133 | 66 | 4 | 5 | 133 | 46 | 157 | 1.17e-13 | 64.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0053880 | AT5G20650.1 | 55.102 | 147 | 61 | 3 | 1 | 143 | 1 | 146 | 1.23e-50 | 158 |
| Msa0053880 | AT2G26975.1 | 33.577 | 137 | 64 | 3 | 1 | 131 | 24 | 139 | 4.12e-20 | 80.9 |
| Msa0053880 | AT5G59040.1 | 34.375 | 128 | 63 | 2 | 1 | 128 | 29 | 135 | 3.03e-17 | 73.6 |
| Msa0053880 | AT5G59030.1 | 27.778 | 144 | 80 | 3 | 5 | 142 | 45 | 170 | 1.46e-13 | 64.7 |
| Msa0053880 | AT2G37925.1 | 30.469 | 128 | 71 | 2 | 1 | 128 | 29 | 138 | 1.49e-13 | 63.9 |
| Msa0053880 | AT3G46900.1 | 26.761 | 142 | 78 | 4 | 7 | 142 | 35 | 156 | 4.41e-13 | 63.2 |
Find 31 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGCAACATTCTACCAATATT+TGG | 0.138215 | 1_2:-8375341 | Msa0053880:CDS |
| GAGATTCGGACTCCTCTTCT+TGG | 0.249119 | 1_2:-8375256 | Msa0053880:CDS |
| ACCAATATTTGGAAAATATT+CGG | 0.254322 | 1_2:-8375330 | Msa0053880:CDS |
| TCCTCTTCTTGGGTTGAATA+AGG | 0.262656 | 1_2:-8375245 | Msa0053880:CDS |
| TGACACTCTTATTTGATTCA+TGG | 0.286816 | 1_2:-8375417 | Msa0053880:CDS |
| TGATGCACATGACATTATAT+TGG | 0.315744 | 1_2:-8375450 | Msa0053880:CDS |
| GATGCACATGACATTATATT+GGG | 0.333053 | 1_2:-8375449 | Msa0053880:CDS |
| CGTTTGGTTACTTCTTGTTT+AGG | 0.336421 | 1_2:-8375099 | Msa0053880:CDS |
| ATTCATGGAAAACCAATTCA+TGG | 0.342364 | 1_2:-8375402 | Msa0053880:CDS |
| TTGGCTATAATGTCGTTTAA+TGG | 0.343696 | 1_2:-8375154 | Msa0053880:CDS |
| TTTGGTGTGAATTCTGCTAT+TGG | 0.364233 | 1_2:-8375190 | Msa0053880:CDS |
| ATTGTGGTTGGTTTAACGTT+TGG | 0.388729 | 1_2:-8375115 | Msa0053880:CDS |
| TAGATAACTCGTCCATGAAT+TGG | 0.393378 | 1_2:+8375390 | None:intergenic |
| AGATTCGGACTCCTCTTCTT+GGG | 0.397569 | 1_2:-8375255 | Msa0053880:CDS |
| TTGGTGTGAATTCTGCTATT+GGG | 0.404245 | 1_2:-8375189 | Msa0053880:CDS |
| ATTTGGAAAATATTCGGATT+CGG | 0.414816 | 1_2:-8375324 | Msa0053880:CDS |
| AGTCGCCGGTGCCGGAGATT+CGG | 0.431491 | 1_2:-8375270 | Msa0053880:CDS |
| TATTGGGTATTTGTTGATGT+TGG | 0.437573 | 1_2:-8375173 | Msa0053880:CDS |
| GAGGAACAAGGTTGTTGAAT+CGG | 0.457237 | 1_2:-8375218 | Msa0053880:CDS |
| TTGGGTTGAATAAGGTTTCG+AGG | 0.486516 | 1_2:-8375237 | Msa0053880:CDS |
| AGAAGAGGAGTCCGAATCTC+CGG | 0.488903 | 1_2:+8375259 | None:intergenic |
| GAGGACGCAGTCGCCGGTGC+CGG | 0.509370 | 1_2:-8375278 | Msa0053880:CDS |
| TGAGGGGAGGACGCAGTCGC+CGG | 0.519658 | 1_2:-8375284 | Msa0053880:CDS |
| ACCTTATTCAACCCAAGAAG+AGG | 0.545808 | 1_2:+8375244 | None:intergenic |
| GGAGTCCGAATCTCCGGCAC+CGG | 0.550760 | 1_2:+8375265 | None:intergenic |
| TCAGAGTGAAGAAGAGGCTG+CGG | 0.552122 | 1_2:-8375074 | Msa0053880:CDS |
| TAGGAGTCAGAGTGAAGAAG+AGG | 0.579273 | 1_2:-8375080 | Msa0053880:CDS |
| CACAAACTAAGCACATGCAC+AGG | 0.579857 | 1_2:+8375036 | None:intergenic |
| GAATAAGGTTTCGAGGAACA+AGG | 0.583225 | 1_2:-8375230 | Msa0053880:CDS |
| GCTATAATGTCGTTTAATGG+TGG | 0.610087 | 1_2:-8375151 | Msa0053880:CDS |
| ATGCACATGACATTATATTG+GGG | 0.668922 | 1_2:-8375448 | Msa0053880:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ACCAATATTTGGAAAATATT+CGG | - | chr1_2:8375163-8375182 | Msa0053880:CDS | 20.0% |
| !! | TCCGAATATTTTCCAAATAT+TGG | + | chr1_2:8375167-8375186 | None:intergenic | 25.0% |
| ! | ATTTGGAAAATATTCGGATT+CGG | - | chr1_2:8375169-8375188 | Msa0053880:CDS | 25.0% |
| TGATGCACATGACATTATAT+TGG | - | chr1_2:8375043-8375062 | Msa0053880:CDS | 30.0% | |
| GATGCACATGACATTATATT+GGG | - | chr1_2:8375044-8375063 | Msa0053880:CDS | 30.0% | |
| ATGCACATGACATTATATTG+GGG | - | chr1_2:8375045-8375064 | Msa0053880:CDS | 30.0% | |
| ! | TGACACTCTTATTTGATTCA+TGG | - | chr1_2:8375076-8375095 | Msa0053880:CDS | 30.0% |
| ATTCATGGAAAACCAATTCA+TGG | - | chr1_2:8375091-8375110 | Msa0053880:CDS | 30.0% | |
| TGCAACATTCTACCAATATT+TGG | - | chr1_2:8375152-8375171 | Msa0053880:CDS | 30.0% | |
| !!! | GTTGTTGAATCGGTTTTATT+TGG | - | chr1_2:8375285-8375304 | Msa0053880:CDS | 30.0% |
| ! | TATTGGGTATTTGTTGATGT+TGG | - | chr1_2:8375320-8375339 | Msa0053880:CDS | 30.0% |
| ! | TTGGCTATAATGTCGTTTAA+TGG | - | chr1_2:8375339-8375358 | Msa0053880:CDS | 30.0% |
| TAGATAACTCGTCCATGAAT+TGG | + | chr1_2:8375106-8375125 | None:intergenic | 35.0% | |
| ! | ATTCGGTTGAAGTTTTTCTC+TGG | - | chr1_2:8375186-8375205 | Msa0053880:CDS | 35.0% |
| ! | TTGAAGTTTTTCTCTGGTGA+GGG | - | chr1_2:8375192-8375211 | Msa0053880:CDS | 35.0% |
| ! | TTTGGTGTGAATTCTGCTAT+TGG | - | chr1_2:8375303-8375322 | Msa0053880:CDS | 35.0% |
| TTGGTGTGAATTCTGCTATT+GGG | - | chr1_2:8375304-8375323 | Msa0053880:CDS | 35.0% | |
| ! | GCTATAATGTCGTTTAATGG+TGG | - | chr1_2:8375342-8375361 | Msa0053880:CDS | 35.0% |
| !! | GTTTAATGGTGGTGTTTTTG+TGG | - | chr1_2:8375353-8375372 | Msa0053880:CDS | 35.0% |
| !! | ATTGTGGTTGGTTTAACGTT+TGG | - | chr1_2:8375378-8375397 | Msa0053880:CDS | 35.0% |
| ! | CGTTTGGTTACTTCTTGTTT+AGG | - | chr1_2:8375394-8375413 | Msa0053880:CDS | 35.0% |
| ! | GTTGAAGTTTTTCTCTGGTG+AGG | - | chr1_2:8375191-8375210 | Msa0053880:CDS | 40.0% |
| ! | TGAAGTTTTTCTCTGGTGAG+GGG | - | chr1_2:8375193-8375212 | Msa0053880:CDS | 40.0% |
| !! | TCCTCTTCTTGGGTTGAATA+AGG | - | chr1_2:8375248-8375267 | Msa0053880:CDS | 40.0% |
| ACCTTATTCAACCCAAGAAG+AGG | + | chr1_2:8375252-8375271 | None:intergenic | 40.0% | |
| !! | TTGGGTTGAATAAGGTTTCG+AGG | - | chr1_2:8375256-8375275 | Msa0053880:CDS | 40.0% |
| GAATAAGGTTTCGAGGAACA+AGG | - | chr1_2:8375263-8375282 | Msa0053880:CDS | 40.0% | |
| GAGGAACAAGGTTGTTGAAT+CGG | - | chr1_2:8375275-8375294 | Msa0053880:CDS | 40.0% | |
| !! | TGGTGTTTTTGTGGCTATTG+TGG | - | chr1_2:8375362-8375381 | Msa0053880:CDS | 40.0% |
| ! | GTTTTTGTGGCTATTGTGGT+TGG | - | chr1_2:8375366-8375385 | Msa0053880:CDS | 40.0% |
| AGATTCGGACTCCTCTTCTT+GGG | - | chr1_2:8375238-8375257 | Msa0053880:CDS | 45.0% | |
| TAGGAGTCAGAGTGAAGAAG+AGG | - | chr1_2:8375413-8375432 | Msa0053880:CDS | 45.0% | |
| ! | AGTTTTTCTCTGGTGAGGGG+AGG | - | chr1_2:8375196-8375215 | Msa0053880:CDS | 50.0% |
| AGAAGAGGAGTCCGAATCTC+CGG | + | chr1_2:8375237-8375256 | None:intergenic | 50.0% | |
| GAGATTCGGACTCCTCTTCT+TGG | - | chr1_2:8375237-8375256 | Msa0053880:CDS | 50.0% | |
| TCAGAGTGAAGAAGAGGCTG+CGG | - | chr1_2:8375419-8375438 | Msa0053880:CDS | 50.0% | |
| ! | AGTCGCCGGTGCCGGAGATT+CGG | - | chr1_2:8375223-8375242 | Msa0053880:CDS | 65.0% |
| GGAGTCCGAATCTCCGGCAC+CGG | + | chr1_2:8375231-8375250 | None:intergenic | 65.0% | |
| TGAGGGGAGGACGCAGTCGC+CGG | - | chr1_2:8375209-8375228 | Msa0053880:CDS | 70.0% | |
| GAGGACGCAGTCGCCGGTGC+CGG | - | chr1_2:8375215-8375234 | Msa0053880:CDS | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 8375042 | 8375473 | 8375042 | ID=Msa0053880;Name=Msa0053880 |
| chr1_2 | mRNA | 8375042 | 8375473 | 8375042 | ID=Msa0053880-mRNA-1;Parent=Msa0053880;Name=Msa0053880-mRNA-1;_AED=0.02;_eAED=0.02;_QI=0|-1|0|1|-1|1|1|0|143 |
| chr1_2 | exon | 8375042 | 8375473 | 8375042 | ID=Msa0053880-mRNA-1:exon:2980;Parent=Msa0053880-mRNA-1 |
| chr1_2 | CDS | 8375042 | 8375473 | 8375042 | ID=Msa0053880-mRNA-1:cds;Parent=Msa0053880-mRNA-1 |
| Gene Sequence |
| Protein sequence |
