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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0343610 | XP_024641548.1 | 85.981 | 107 | 15 | 0 | 1 | 107 | 429 | 535 | 2.86e-53 | 191 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0343610 | A0A396HCX7 | 85.981 | 107 | 15 | 0 | 1 | 107 | 429 | 535 | 1.37e-53 | 191 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0153200 | Msa0343610 | 0.804053 | 2.598568e-49 | -8.615850e-47 |
| Msa0211680 | Msa0343610 | 0.806011 | 1.011890e-49 | -8.615850e-47 |
| Msa0343610 | Msa0884920 | 0.823544 | 1.307942e-53 | -8.615850e-47 |
| Msa0343610 | Msa0885280 | 0.810998 | 8.719631e-51 | -8.615850e-47 |
| Msa0343610 | Msa0885290 | 0.828744 | 7.582377e-55 | -8.615850e-47 |
| Msa0343610 | Msa0912500 | 0.812255 | 4.649267e-51 | -8.615850e-47 |
| Msa0343610 | Msa0965750 | 0.811412 | 7.093808e-51 | -8.615850e-47 |
| Msa0343610 | Msa1006250 | 0.821251 | 4.458948e-53 | -8.615850e-47 |
| Msa0343610 | Msa1187060 | 0.818571 | 1.829017e-52 | -8.615850e-47 |
| Msa0343610 | Msa1195920 | 0.800966 | 1.124857e-48 | -8.615850e-47 |
| Msa0343610 | Msa1288000 | 0.811921 | 5.497638e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0343610 | MtrunA17_Chr6g0465151 | 85.981 | 107 | 15 | 0 | 1 | 107 | 429 | 535 | 2.63e-57 | 191 |
| Msa0343610 | MtrunA17_Chr6g0465291 | 86.538 | 104 | 14 | 0 | 4 | 107 | 728 | 831 | 2.88e-55 | 186 |
| Msa0343610 | MtrunA17_Chr6g0464631 | 79.630 | 108 | 22 | 0 | 1 | 108 | 729 | 836 | 3.57e-52 | 177 |
| Msa0343610 | MtrunA17_Chr6g0465131 | 82.243 | 107 | 19 | 0 | 1 | 107 | 643 | 749 | 3.31e-51 | 174 |
| Msa0343610 | MtrunA17_Chr6g0465181 | 87.850 | 107 | 13 | 0 | 1 | 107 | 672 | 778 | 1.37e-50 | 172 |
| Msa0343610 | MtrunA17_Chr6g0465231 | 85.047 | 107 | 16 | 0 | 1 | 107 | 638 | 744 | 1.15e-49 | 170 |
| Msa0343610 | MtrunA17_Chr6g0465251 | 59.259 | 135 | 52 | 1 | 1 | 132 | 52 | 186 | 2.55e-42 | 146 |
| Msa0343610 | MtrunA17_Chr6g0465211 | 67.290 | 107 | 12 | 1 | 1 | 107 | 638 | 721 | 3.51e-38 | 137 |
| Msa0343610 | MtrunA17_Chr5g0439461 | 50.459 | 109 | 49 | 3 | 1 | 107 | 620 | 725 | 1.94e-23 | 95.1 |
| Msa0343610 | MtrunA17_Chr5g0439451 | 48.148 | 108 | 53 | 2 | 1 | 107 | 651 | 756 | 3.90e-23 | 94.4 |
| Msa0343610 | MtrunA17_Chr4g0004161 | 47.706 | 109 | 52 | 3 | 1 | 107 | 599 | 704 | 3.19e-22 | 91.7 |
| Msa0343610 | MtrunA17_Chr5g0420301 | 46.789 | 109 | 54 | 3 | 1 | 107 | 314 | 420 | 3.84e-20 | 85.5 |
| Msa0343610 | MtrunA17_Chr3g0106171 | 44.444 | 108 | 57 | 2 | 1 | 107 | 515 | 620 | 1.90e-19 | 84.0 |
| Msa0343610 | MtrunA17_Chr6g0463251 | 44.340 | 106 | 55 | 3 | 4 | 107 | 607 | 710 | 4.44e-16 | 74.3 |
| Msa0343610 | MtrunA17_Chr6g0463281 | 45.283 | 106 | 54 | 3 | 4 | 107 | 647 | 750 | 5.89e-16 | 73.9 |
| Msa0343610 | MtrunA17_Chr6g0463301 | 44.340 | 106 | 55 | 3 | 4 | 107 | 626 | 729 | 3.52e-15 | 71.6 |
| Msa0343610 | MtrunA17_Chr5g0439501 | 49.367 | 79 | 37 | 2 | 31 | 107 | 1 | 78 | 3.56e-14 | 65.1 |
| Msa0343610 | MtrunA17_Chr6g0463291 | 44.545 | 110 | 55 | 4 | 1 | 107 | 281 | 387 | 8.94e-14 | 67.4 |
| Msa0343610 | MtrunA17_Chr4g0019841 | 40.187 | 107 | 60 | 3 | 4 | 109 | 550 | 653 | 2.67e-13 | 66.2 |
| Msa0343610 | MtrunA17_Chr4g0019801 | 38.393 | 112 | 62 | 4 | 1 | 109 | 539 | 646 | 1.53e-12 | 63.9 |
| Msa0343610 | MtrunA17_Chr5g0411301 | 38.525 | 122 | 58 | 4 | 1 | 107 | 223 | 342 | 5.67e-12 | 62.4 |
| Msa0343610 | MtrunA17_Chr6g0455881 | 40.000 | 110 | 57 | 5 | 1 | 106 | 525 | 629 | 1.74e-11 | 60.8 |
| Msa0343610 | MtrunA17_Chr1g0161331 | 36.111 | 108 | 65 | 2 | 1 | 107 | 217 | 321 | 5.20e-11 | 59.3 |
| Msa0343610 | MtrunA17_Chr4g0022071 | 46.154 | 78 | 41 | 1 | 31 | 107 | 1 | 78 | 5.57e-11 | 59.3 |
| Msa0343610 | MtrunA17_Chr5g0429421 | 45.455 | 77 | 41 | 1 | 32 | 107 | 451 | 527 | 7.09e-11 | 59.3 |
| Msa0343610 | MtrunA17_Chr5g0441501 | 51.923 | 52 | 25 | 0 | 56 | 107 | 13 | 64 | 8.78e-11 | 56.6 |
| Msa0343610 | MtrunA17_Chr4g0019861 | 44.444 | 90 | 44 | 3 | 1 | 87 | 531 | 617 | 9.14e-11 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 30 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTTGTGCAGTTCATTAAAT+AGG | 0.261009 | 3_1:+1902097 | None:intergenic |
| ATAATGTTCCAGAGTGGTTT+TGG | 0.289701 | 3_1:-1902473 | Msa0343610:CDS |
| TTCGAGTAATCAATATTATC+TGG | 0.302904 | 3_1:-1902202 | Msa0343610:CDS |
| CCTTGTAGAAATGGTGGAAT+AGG | 0.386889 | 3_1:+1902321 | None:intergenic |
| TACAAGTTGCTCCAACAATC+TGG | 0.387226 | 3_1:+1902172 | None:intergenic |
| CTTTCATCAAATGAATTTGA+AGG | 0.403628 | 3_1:-1902345 | Msa0343610:CDS |
| CTGGACGAATTCCAGATTGT+TGG | 0.410763 | 3_1:-1902183 | Msa0343610:CDS |
| AGTGCAGAACCTTGTAGAAA+TGG | 0.429178 | 3_1:+1902312 | None:intergenic |
| CGCCCATTCCTATGTGCAAA+TGG | 0.445236 | 3_1:-1902255 | Msa0343610:CDS |
| GATCTTGATATTTCGAATGC+TGG | 0.464539 | 3_1:-1902504 | Msa0343610:CDS |
| AATGGTATAGATGCAATGTT+AGG | 0.474510 | 3_1:-1902237 | Msa0343610:CDS |
| TTGAGGAACAACAACTTGAC+AGG | 0.474824 | 3_1:-1902131 | Msa0343610:CDS |
| GATTACTCGAAAGGTCAAAC+TGG | 0.475115 | 3_1:+1902214 | None:intergenic |
| TACCATTTGCACATAGGAAT+GGG | 0.476006 | 3_1:+1902253 | None:intergenic |
| TTTAATGAACTGCACAAAGT+TGG | 0.478588 | 3_1:-1902093 | Msa0343610:CDS |
| AACTGCAAGCATTATTATTG+AGG | 0.484181 | 3_1:-1902148 | Msa0343610:CDS |
| CATCTATACCATTTGCACAT+AGG | 0.484975 | 3_1:+1902247 | None:intergenic |
| CCTATTCCACCATTTCTACA+AGG | 0.485948 | 3_1:-1902321 | Msa0343610:CDS |
| TGCAGTTCATTAAATAGGAC+GGG | 0.491528 | 3_1:+1902102 | None:intergenic |
| TTTCATCAAATGAATTTGAA+GGG | 0.506009 | 3_1:-1902344 | Msa0343610:CDS |
| GATAATATTGATTACTCGAA+AGG | 0.522744 | 3_1:+1902205 | None:intergenic |
| TCGAAATATCAAGATCCTGC+AGG | 0.539760 | 3_1:+1902511 | None:intergenic |
| GTGCAGTTCATTAAATAGGA+CGG | 0.545308 | 3_1:+1902101 | None:intergenic |
| ATACCATTTGCACATAGGAA+TGG | 0.545519 | 3_1:+1902252 | None:intergenic |
| AGTATAACCCAAAACCACTC+TGG | 0.550999 | 3_1:+1902465 | None:intergenic |
| ATTTCAAACAACAATCTCAA+AGG | 0.574432 | 3_1:-1902414 | Msa0343610:CDS |
| GCAGAACCTTGTAGAAATGG+TGG | 0.598637 | 3_1:+1902315 | None:intergenic |
| TGAGGAACAACAACTTGACA+GGG | 0.634072 | 3_1:-1902130 | Msa0343610:CDS |
| TTTCAGATAATGTTCCAGAG+TGG | 0.683961 | 3_1:-1902479 | Msa0343610:CDS |
| GAGGAACAACAACTTGACAG+GGG | 0.750381 | 3_1:-1902129 | Msa0343610:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TGATTTTTTACTTGAAGATT+TGG | + | chr3_1:1902212-1902231 | None:intergenic | 20.0% |
| !! | TTTCATCAAATGAATTTGAA+GGG | - | chr3_1:1902249-1902268 | Msa0343610:CDS | 20.0% |
| ! | ATTTCAAACAACAATCTCAA+AGG | - | chr3_1:1902179-1902198 | Msa0343610:CDS | 25.0% |
| ! | CTTTCATCAAATGAATTTGA+AGG | - | chr3_1:1902248-1902267 | Msa0343610:CDS | 25.0% |
| !!! | AGAATCTGAGAATTTGTTTT+TGG | + | chr3_1:1902318-1902337 | None:intergenic | 25.0% |
| !! | GATAATATTGATTACTCGAA+AGG | + | chr3_1:1902391-1902410 | None:intergenic | 25.0% |
| ! | TTCGAGTAATCAATATTATC+TGG | - | chr3_1:1902391-1902410 | Msa0343610:CDS | 25.0% |
| AATGGTATAGATGCAATGTT+AGG | - | chr3_1:1902356-1902375 | Msa0343610:CDS | 30.0% | |
| AACTGCAAGCATTATTATTG+AGG | - | chr3_1:1902445-1902464 | Msa0343610:CDS | 30.0% | |
| CTTTGTGCAGTTCATTAAAT+AGG | + | chr3_1:1902499-1902518 | None:intergenic | 30.0% | |
| TTTAATGAACTGCACAAAGT+TGG | - | chr3_1:1902500-1902519 | Msa0343610:CDS | 30.0% | |
| GATCTTGATATTTCGAATGC+TGG | - | chr3_1:1902089-1902108 | Msa0343610:CDS | 35.0% | |
| TTTCAGATAATGTTCCAGAG+TGG | - | chr3_1:1902114-1902133 | Msa0343610:CDS | 35.0% | |
| ! | ATAATGTTCCAGAGTGGTTT+TGG | - | chr3_1:1902120-1902139 | Msa0343610:CDS | 35.0% |
| ! | TAATGTTCCAGAGTGGTTTT+GGG | - | chr3_1:1902121-1902140 | Msa0343610:CDS | 35.0% |
| TACCATTTGCACATAGGAAT+GGG | + | chr3_1:1902343-1902362 | None:intergenic | 35.0% | |
| ATACCATTTGCACATAGGAA+TGG | + | chr3_1:1902344-1902363 | None:intergenic | 35.0% | |
| CATCTATACCATTTGCACAT+AGG | + | chr3_1:1902349-1902368 | None:intergenic | 35.0% | |
| TGCAGTTCATTAAATAGGAC+GGG | + | chr3_1:1902494-1902513 | None:intergenic | 35.0% | |
| GTGCAGTTCATTAAATAGGA+CGG | + | chr3_1:1902495-1902514 | None:intergenic | 35.0% | |
| AGTATAACCCAAAACCACTC+TGG | + | chr3_1:1902131-1902150 | None:intergenic | 40.0% | |
| ! | CCTTGTAGAAATGGTGGAAT+AGG | + | chr3_1:1902275-1902294 | None:intergenic | 40.0% |
| CCTATTCCACCATTTCTACA+AGG | - | chr3_1:1902272-1902291 | Msa0343610:CDS | 40.0% | |
| AGTGCAGAACCTTGTAGAAA+TGG | + | chr3_1:1902284-1902303 | None:intergenic | 40.0% | |
| GATTACTCGAAAGGTCAAAC+TGG | + | chr3_1:1902382-1902401 | None:intergenic | 40.0% | |
| TACAAGTTGCTCCAACAATC+TGG | + | chr3_1:1902424-1902443 | None:intergenic | 40.0% | |
| TTGAGGAACAACAACTTGAC+AGG | - | chr3_1:1902462-1902481 | Msa0343610:CDS | 40.0% | |
| TGAGGAACAACAACTTGACA+GGG | - | chr3_1:1902463-1902482 | Msa0343610:CDS | 40.0% | |
| GCAGAACCTTGTAGAAATGG+TGG | + | chr3_1:1902281-1902300 | None:intergenic | 45.0% | |
| CTGGACGAATTCCAGATTGT+TGG | - | chr3_1:1902410-1902429 | Msa0343610:CDS | 45.0% | |
| GAGGAACAACAACTTGACAG+GGG | - | chr3_1:1902464-1902483 | Msa0343610:CDS | 45.0% | |
| CGCCCATTCCTATGTGCAAA+TGG | - | chr3_1:1902338-1902357 | Msa0343610:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 1902083 | 1902532 | 1902083 | ID=Msa0343610;Name=Msa0343610 |
| chr3_1 | mRNA | 1902083 | 1902532 | 1902083 | ID=Msa0343610-mRNA-1;Parent=Msa0343610;Name=Msa0343610-mRNA-1;_AED=0.34;_eAED=0.34;_QI=0|-1|0|1|-1|1|1|0|149 |
| chr3_1 | exon | 1902083 | 1902532 | 1902083 | ID=Msa0343610-mRNA-1:exon:642;Parent=Msa0343610-mRNA-1 |
| chr3_1 | CDS | 1902083 | 1902532 | 1902083 | ID=Msa0343610-mRNA-1:cds;Parent=Msa0343610-mRNA-1 |
| Gene Sequence |
| Protein sequence |
