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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0048200 | XP_013442539.1 | 93.168 | 161 | 11 | 0 | 1 | 161 | 45 | 205 | 1.50e-107 | 315 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0048200 | A0A072TG65 | 93.168 | 161 | 11 | 0 | 1 | 161 | 45 | 205 | 7.18e-108 | 315 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0005050 | Msa0048200 | 0.817943 | 2.537000e-52 | -8.615850e-47 |
| Msa0048200 | Msa0053110 | 0.820394 | 7.021581e-53 | -8.615850e-47 |
| Msa0048200 | Msa0098440 | 0.812321 | 4.495626e-51 | -8.615850e-47 |
| Msa0048200 | Msa0134130 | 0.809989 | 1.440559e-50 | -8.615850e-47 |
| Msa0048200 | Msa0203160 | 0.800426 | 1.449534e-48 | -8.615850e-47 |
| Msa0048200 | Msa0219190 | 0.831542 | 1.573696e-55 | -8.615850e-47 |
| Msa0048200 | Msa0289890 | 0.801932 | 7.131309e-49 | -8.615850e-47 |
| Msa0048200 | Msa0298240 | 0.807638 | 4.584182e-50 | -8.615850e-47 |
| Msa0048200 | Msa0378340 | 0.817085 | 3.959816e-52 | -8.615850e-47 |
| Msa0048200 | Msa0418200 | 0.804146 | 2.485029e-49 | -8.615850e-47 |
| Msa0048200 | Msa0427690 | 0.816250 | 6.092100e-52 | -8.615850e-47 |
| Msa0048200 | Msa0436500 | 0.816035 | 6.806142e-52 | -8.615850e-47 |
| Msa0048200 | Msa0518520 | 0.817953 | 2.523488e-52 | -8.615850e-47 |
| Msa0048200 | Msa0531630 | 0.842465 | 2.542915e-58 | -8.615850e-47 |
| Msa0048200 | Msa0537920 | 0.812286 | 4.575423e-51 | -8.615850e-47 |
| Msa0048200 | Msa0538060 | 0.803139 | 4.019850e-49 | -8.615850e-47 |
| Msa0048200 | Msa0585730 | 0.811387 | 7.182780e-51 | -8.615850e-47 |
| Msa0048200 | Msa0625890 | 0.801733 | 7.834836e-49 | -8.615850e-47 |
| Msa0048200 | Msa0663590 | 0.801764 | 7.718460e-49 | -8.615850e-47 |
| Msa0048200 | Msa0666210 | 0.968414 | 1.210902e-128 | -8.615850e-47 |
| Msa0048200 | Msa0678890 | 0.803679 | 3.106557e-49 | -8.615850e-47 |
| Msa0048200 | Msa0680150 | 0.808498 | 3.006517e-50 | -8.615850e-47 |
| Msa0048200 | Msa0707220 | 0.800650 | 1.304625e-48 | -8.615850e-47 |
| Msa0048200 | Msa0747780 | 0.822234 | 2.641832e-53 | -8.615850e-47 |
| Msa0048200 | Msa0754030 | 0.811694 | 6.159498e-51 | -8.615850e-47 |
| Msa0048200 | Msa0807110 | 0.818276 | 2.133174e-52 | -8.615850e-47 |
| Msa0048200 | Msa0833040 | 0.821529 | 3.847399e-53 | -8.615850e-47 |
| Msa0048200 | Msa0862100 | 0.806756 | 7.049130e-50 | -8.615850e-47 |
| Msa0048200 | Msa0867350 | 0.802441 | 5.602479e-49 | -8.615850e-47 |
| Msa0048200 | Msa0872310 | 0.818539 | 1.859243e-52 | -8.615850e-47 |
| Msa0048200 | Msa0873190 | 0.817875 | 2.627652e-52 | -8.615850e-47 |
| Msa0048200 | Msa0898730 | 0.807538 | 4.813399e-50 | -8.615850e-47 |
| Msa0048200 | Msa0905550 | 0.833182 | 6.175408e-56 | -8.615850e-47 |
| Msa0048200 | Msa0937550 | 0.835833 | 1.332702e-56 | -8.615850e-47 |
| Msa0048200 | Msa1014270 | 0.800144 | 1.654323e-48 | -8.615850e-47 |
| Msa0048200 | Msa1037900 | 0.801884 | 7.292022e-49 | -8.615850e-47 |
| Msa0048200 | Msa1041530 | 0.831708 | 1.432557e-55 | -8.615850e-47 |
| Msa0048200 | Msa1055260 | 0.812879 | 3.395728e-51 | -8.615850e-47 |
| Msa0048200 | Msa1055280 | 0.810373 | 1.190716e-50 | -8.615850e-47 |
| Msa0048200 | Msa1081570 | 0.827910 | 1.204954e-54 | -8.615850e-47 |
| Msa0048200 | Msa1107440 | 0.812013 | 5.249377e-51 | -8.615850e-47 |
| Msa0048200 | Msa1123880 | 0.804423 | 2.175794e-49 | -8.615850e-47 |
| Msa0048200 | Msa1127140 | 0.837066 | 6.473037e-57 | -8.615850e-47 |
| Msa0048200 | Msa1129960 | 0.819373 | 1.201698e-52 | -8.615850e-47 |
| Msa0048200 | Msa1130010 | 0.808696 | 2.728483e-50 | -8.615850e-47 |
| Msa0048200 | Msa1166400 | 0.832335 | 1.002675e-55 | -8.615850e-47 |
| Msa0048200 | Msa1176160 | 0.807090 | 5.991342e-50 | -8.615850e-47 |
| Msa0048200 | Msa1307190 | 0.815265 | 1.010253e-51 | -8.615850e-47 |
| Msa0048200 | Msa1382720 | 0.801910 | 7.206039e-49 | -8.615850e-47 |
| Msa0048200 | Msa1408870 | 0.819100 | 1.386703e-52 | -8.615850e-47 |
| Msa0048200 | Msa1420060 | 0.855265 | 7.086721e-62 | -8.615850e-47 |
| Msa0048200 | Msa1421550 | 0.803739 | 3.019382e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0048200 | MtrunA17_Chr4g0004611 | 93.168 | 161 | 11 | 0 | 1 | 161 | 45 | 205 | 1.38e-111 | 315 |
| Msa0048200 | MtrunA17_Chr2g0331751 | 48.193 | 166 | 68 | 5 | 2 | 158 | 47 | 203 | 4.68e-40 | 134 |
| Msa0048200 | MtrunA17_Chr8g0390541 | 38.202 | 89 | 47 | 2 | 65 | 145 | 103 | 191 | 2.55e-15 | 70.1 |
| Msa0048200 | MtrunA17_Chr6g0485651 | 31.193 | 109 | 59 | 3 | 44 | 136 | 60 | 168 | 2.45e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0048200 | AT1G15260.1 | 39.423 | 104 | 60 | 1 | 58 | 158 | 75 | 178 | 5.45e-18 | 77.0 |
| Msa0048200 | AT3G16070.1 | 46.377 | 69 | 36 | 1 | 67 | 135 | 83 | 150 | 2.24e-15 | 69.3 |
Find 25 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAATTCACAAAACATGAATA+AGG | 0.296971 | 1_2:+427280 | Msa0048200:CDS |
| CTTGCAGTATCTTCCATTGC+AGG | 0.306986 | 1_2:-427164 | None:intergenic |
| CCTTCATAAGTGCTTCTTTG+TGG | 0.310981 | 1_2:-427221 | None:intergenic |
| GCTTCTTTGTGGACTTTGTT+TGG | 0.335982 | 1_2:-427210 | None:intergenic |
| CATAGAACTCATTGTAGAAT+TGG | 0.346345 | 1_2:-427088 | None:intergenic |
| AGCACAGAAGATGAAGAAAT+TGG | 0.353260 | 1_2:+427316 | Msa0048200:CDS |
| GATGAAGAAATTGGATATGA+TGG | 0.381301 | 1_2:+427325 | Msa0048200:CDS |
| ACGATCACAACTGAGGAAAA+AGG | 0.381662 | 1_2:+427250 | Msa0048200:CDS |
| CAGAGGGCTGTGGAAGAGTC+AGG | 0.415158 | 1_2:-427466 | None:intergenic |
| CTCAGCACAATGAAGATGTT+TGG | 0.428580 | 1_2:+427128 | Msa0048200:CDS |
| TCCGGTTTATTTAGATATTG+TGG | 0.429248 | 1_2:+427415 | Msa0048200:CDS |
| AACTGGACCAAGTCTTTCCT+TGG | 0.434890 | 1_2:-427504 | None:intergenic |
| CTATTCTCGCCTTAAAAGTC+CGG | 0.438812 | 1_2:+427397 | Msa0048200:CDS |
| TCCACAATATCTAAATAAAC+CGG | 0.450069 | 1_2:-427416 | None:intergenic |
| AAATTGGATATGATGGAATC+AGG | 0.453910 | 1_2:+427332 | Msa0048200:CDS |
| TTGAAGCTGGCAGAGGGCTG+TGG | 0.468785 | 1_2:-427476 | None:intergenic |
| AATTCACAAAACATGAATAA+GGG | 0.481457 | 1_2:+427281 | Msa0048200:CDS |
| TTTATTTAGATATTGTGGAC+AGG | 0.515044 | 1_2:+427420 | Msa0048200:CDS |
| ACAATGAAGATGTTTGGTAA+AGG | 0.547940 | 1_2:+427134 | Msa0048200:CDS |
| CCACAAAGAAGCACTTATGA+AGG | 0.551698 | 1_2:+427221 | Msa0048200:CDS |
| AAAAGATCCAAGGAAAGACT+TGG | 0.563595 | 1_2:+427497 | Msa0048200:CDS |
| ATGGAAGATACTGCAAGAAG+TGG | 0.578425 | 1_2:+427170 | Msa0048200:CDS |
| TGCCAGCTTCAAAAGATCCA+AGG | 0.579056 | 1_2:+427487 | Msa0048200:CDS |
| TAAAGGAAAAGAGCCTGCAA+TGG | 0.618557 | 1_2:+427151 | Msa0048200:CDS |
| GTAGCGTACGATCACAACTG+AGG | 0.731543 | 1_2:+427243 | Msa0048200:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATTCACAAAACATGAATAA+GGG | + | chr1_2:427281-427300 | Msa0048200:CDS | 20.0% |
| ! | GAATTCACAAAACATGAATA+AGG | + | chr1_2:427280-427299 | Msa0048200:CDS | 25.0% |
| ! | TCCACAATATCTAAATAAAC+CGG | - | chr1_2:427419-427438 | None:intergenic | 25.0% |
| ! | TTTATTTAGATATTGTGGAC+AGG | + | chr1_2:427420-427439 | Msa0048200:CDS | 25.0% |
| !! | TATCTTTTATGTAACTGAAC+TGG | - | chr1_2:427524-427543 | None:intergenic | 25.0% |
| CATAGAACTCATTGTAGAAT+TGG | - | chr1_2:427091-427110 | None:intergenic | 30.0% | |
| ACAATGAAGATGTTTGGTAA+AGG | + | chr1_2:427134-427153 | Msa0048200:CDS | 30.0% | |
| GATGAAGAAATTGGATATGA+TGG | + | chr1_2:427325-427344 | Msa0048200:CDS | 30.0% | |
| ! | AAATTGGATATGATGGAATC+AGG | + | chr1_2:427332-427351 | Msa0048200:CDS | 30.0% |
| ! | CTAAATAAACCGGACTTTTA+AGG | - | chr1_2:427409-427428 | None:intergenic | 30.0% |
| TCCGGTTTATTTAGATATTG+TGG | + | chr1_2:427415-427434 | Msa0048200:CDS | 30.0% | |
| AGCACAGAAGATGAAGAAAT+TGG | + | chr1_2:427316-427335 | Msa0048200:CDS | 35.0% | |
| AAAAGATCCAAGGAAAGACT+TGG | + | chr1_2:427497-427516 | Msa0048200:CDS | 35.0% | |
| CTCAGCACAATGAAGATGTT+TGG | + | chr1_2:427128-427147 | Msa0048200:CDS | 40.0% | |
| TAAAGGAAAAGAGCCTGCAA+TGG | + | chr1_2:427151-427170 | Msa0048200:CDS | 40.0% | |
| ATGGAAGATACTGCAAGAAG+TGG | + | chr1_2:427170-427189 | Msa0048200:CDS | 40.0% | |
| GCTTCTTTGTGGACTTTGTT+TGG | - | chr1_2:427213-427232 | None:intergenic | 40.0% | |
| CCTTCATAAGTGCTTCTTTG+TGG | - | chr1_2:427224-427243 | None:intergenic | 40.0% | |
| !! | CCACAAAGAAGCACTTATGA+AGG | + | chr1_2:427221-427240 | Msa0048200:CDS | 40.0% |
| ACGATCACAACTGAGGAAAA+AGG | + | chr1_2:427250-427269 | Msa0048200:CDS | 40.0% | |
| ATCACAACTGAGGAAAAAGG+AGG | + | chr1_2:427253-427272 | Msa0048200:CDS | 40.0% | |
| CTATTCTCGCCTTAAAAGTC+CGG | + | chr1_2:427397-427416 | Msa0048200:CDS | 40.0% | |
| !!! | TTCCTTGGATCTTTTGAAGC+TGG | - | chr1_2:427492-427511 | None:intergenic | 40.0% |
| CTTGCAGTATCTTCCATTGC+AGG | - | chr1_2:427167-427186 | None:intergenic | 45.0% | |
| !!! | GATCTTTTGAAGCTGGCAGA+GGG | - | chr1_2:427485-427504 | None:intergenic | 45.0% |
| TGCCAGCTTCAAAAGATCCA+AGG | + | chr1_2:427487-427506 | Msa0048200:CDS | 45.0% | |
| AACTGGACCAAGTCTTTCCT+TGG | - | chr1_2:427507-427526 | None:intergenic | 45.0% | |
| GTAGCGTACGATCACAACTG+AGG | + | chr1_2:427243-427262 | Msa0048200:CDS | 50.0% | |
| !!! | GGATCTTTTGAAGCTGGCAG+AGG | - | chr1_2:427486-427505 | None:intergenic | 50.0% |
| CAGAGGGCTGTGGAAGAGTC+AGG | - | chr1_2:427469-427488 | None:intergenic | 60.0% | |
| TTGAAGCTGGCAGAGGGCTG+TGG | - | chr1_2:427479-427498 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 427059 | 427544 | 427059 | ID=Msa0048200;Name=Msa0048200 |
| chr1_2 | mRNA | 427059 | 427544 | 427059 | ID=Msa0048200-mRNA-1;Parent=Msa0048200;Name=Msa0048200-mRNA-1;_AED=0.31;_eAED=0.31;_QI=0|-1|0|1|-1|1|1|0|161 |
| chr1_2 | exon | 427059 | 427544 | 427059 | ID=Msa0048200-mRNA-1:exon:54;Parent=Msa0048200-mRNA-1 |
| chr1_2 | CDS | 427059 | 427544 | 427059 | ID=Msa0048200-mRNA-1:cds;Parent=Msa0048200-mRNA-1 |
| Gene Sequence |
| Protein sequence |
