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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1269410 | YP_009141600.1 | 100.000 | 201 | 0 | 0 | 1 | 201 | 1 | 201 | 3.55e-143 | 407 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1269410 | sp|Q9BBT5|RR4_LOTJA | 95.522 | 201 | 9 | 0 | 1 | 201 | 1 | 201 | 8.95e-140 | 391 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1269410 | A0A0F6NLD0 | 100.000 | 201 | 0 | 0 | 1 | 201 | 1 | 201 | 1.70e-143 | 407 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1269410 | Msa1269420 | 0.834302 | 3.242762e-56 | -8.615850e-47 |
| Msa1269410 | Msa1354350 | 0.821157 | 4.687177e-53 | -8.615850e-47 |
| Msa1269410 | Msa1354380 | 0.809313 | 2.012796e-50 | -8.615850e-47 |
| Msa1269410 | Msa1354390 | 0.839754 | 1.311487e-57 | -8.615850e-47 |
| Msa1269410 | Msa1354950 | 0.817331 | 3.484979e-52 | -8.615850e-47 |
| Msa1269410 | Msa1366010 | 0.801037 | 1.087539e-48 | -8.615850e-47 |
| Msa1269410 | Msa1366050 | 0.837662 | 4.553757e-57 | -8.615850e-47 |
| Msa1269410 | Msa1368270 | 0.819513 | 1.116706e-52 | -8.615850e-47 |
| Msa1269410 | Msa1368290 | 0.811378 | 7.212400e-51 | -8.615850e-47 |
| Msa1269410 | Msa1368300 | 0.808770 | 2.630349e-50 | -8.615850e-47 |
| Msa1269410 | Msa1380640 | 0.831604 | 1.519510e-55 | -8.615850e-47 |
| Msa1269410 | Msa1380650 | 0.853517 | 2.267466e-61 | -8.615850e-47 |
| Msa1269410 | Msa1380710 | 0.816320 | 5.878011e-52 | -8.615850e-47 |
| Msa1269410 | Msa1385380 | 0.822872 | 1.876967e-53 | -8.615850e-47 |
| Msa1269410 | Msa1394230 | 0.811004 | 8.695148e-51 | -8.615850e-47 |
| Msa1269410 | Msa1398700 | 0.802318 | 5.938799e-49 | -8.615850e-47 |
| Msa1269410 | Msa1398720 | 0.810235 | 1.274765e-50 | -8.615850e-47 |
| Msa0983720 | Msa1269410 | 0.802026 | 6.821218e-49 | -8.615850e-47 |
| Msa1086070 | Msa1269410 | 0.803429 | 3.500497e-49 | -8.615850e-47 |
| Msa1086450 | Msa1269410 | 0.804371 | 2.230326e-49 | -8.615850e-47 |
| Msa0268640 | Msa1269410 | 0.800012 | 1.759394e-48 | -8.615850e-47 |
| Msa0268840 | Msa1269410 | 0.802796 | 4.732762e-49 | -8.615850e-47 |
| Msa0344180 | Msa1269410 | 0.804047 | 2.605974e-49 | -8.615850e-47 |
| Msa0344300 | Msa1269410 | 0.807944 | 3.945783e-50 | -8.615850e-47 |
| Msa0867650 | Msa1269410 | 0.809244 | 2.082129e-50 | -8.615850e-47 |
| Msa0931210 | Msa1269410 | 0.802024 | 6.825845e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1269410 | MtrunA17_Chr7g0229301 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1269410 | MtrunA17_Chr6g0454441 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1269410 | MtrunA17_Chr4g0016451 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1269410 | MtrunA17_Chr6g0466281 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1269410 | MtrunA17_CPg0493311 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1269410 | MtrunA17_Chr7g0229661 | 84.080 | 201 | 13 | 1 | 1 | 201 | 1 | 182 | 1.89e-115 | 327 |
| Msa1269410 | MtrunA17_Chr4g0015291 | 97.436 | 156 | 4 | 0 | 1 | 156 | 1 | 156 | 3.32e-108 | 307 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1269410 | ATCG00380.1 | 88.060 | 201 | 24 | 0 | 1 | 201 | 1 | 201 | 2.12e-126 | 355 |
Find 33 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCAAATAATAGATAGTAAA+TGG | 0.189787 | 8_3:+2619512 | Msa1269410:CDS |
| GATTGACTAATCCTTTATAT+TGG | 0.284280 | 8_3:-2619492 | None:intergenic |
| CTTGATCCATTCCAATATAA+AGG | 0.291752 | 8_3:+2619481 | Msa1269410:CDS |
| CTTAAATACGTTCGTATCGC+TGG | 0.342652 | 8_3:+2619181 | Msa1269410:CDS |
| ACAATTACTTGAAATGCGTT+TGG | 0.359489 | 8_3:+2619237 | Msa1269410:CDS |
| TTTGAAAATTAATGAATTGC+TGG | 0.365999 | 8_3:+2619540 | Msa1269410:CDS |
| ATGGATTGGCAATTCTTCGC+GGG | 0.450528 | 8_3:-2619452 | None:intergenic |
| TACCAGGACTAACTAGTAAA+CGG | 0.463029 | 8_3:+2619038 | Msa1269410:CDS |
| TGAGGTTTGCAACGATAACT+TGG | 0.468099 | 8_3:-2619361 | None:intergenic |
| ACTAATCCTTTATATTGGAA+TGG | 0.475526 | 8_3:-2619487 | None:intergenic |
| GTCTGTGGTTAACTAATTGA+CGG | 0.477609 | 8_3:-2619306 | None:intergenic |
| TCAAATAATAGATAGTAAAT+GGG | 0.487910 | 8_3:+2619513 | Msa1269410:CDS |
| ATAATAGATAGTAAATGGGT+TGG | 0.504615 | 8_3:+2619517 | Msa1269410:CDS |
| CTAAGTTCGCTTCCAACTGT+AGG | 0.508663 | 8_3:-2619061 | None:intergenic |
| GGATCAAGAGTCAAATGGAT+TGG | 0.511159 | 8_3:-2619466 | None:intergenic |
| GGAAAAGCGAAAGGTTCAAC+CGG | 0.516182 | 8_3:+2619202 | Msa1269410:CDS |
| TCTGTGGTTAACTAATTGAC+GGG | 0.521261 | 8_3:-2619305 | None:intergenic |
| GGCCGTTTACTAGTTAGTCC+TGG | 0.527000 | 8_3:-2619040 | None:intergenic |
| AATGGATTGGCAATTCTTCG+CGG | 0.545268 | 8_3:-2619453 | None:intergenic |
| TCAAGATATTATTACAGCGA+AGG | 0.559737 | 8_3:+2619381 | Msa1269410:CDS |
| TTCGCTGTAATAATATCTTG+AGG | 0.560954 | 8_3:-2619379 | None:intergenic |
| TAATTGTAGTAAAACTTGAC+CGG | 0.568250 | 8_3:-2619221 | None:intergenic |
| ACTAGTAAACGGCCTACAGT+TGG | 0.568372 | 8_3:+2619049 | Msa1269410:CDS |
| CAAGATATTATTACAGCGAA+GGG | 0.569002 | 8_3:+2619382 | Msa1269410:CDS |
| TTAACTAATTGACGGGCTTG+AGG | 0.581554 | 8_3:-2619298 | None:intergenic |
| GGAATGGATCAAGAGTCAAA+TGG | 0.582974 | 8_3:-2619471 | None:intergenic |
| GATTGGCAATTCTTCGCGGG+GGG | 0.584547 | 8_3:-2619449 | None:intergenic |
| TGGATTGGCAATTCTTCGCG+GGG | 0.610754 | 8_3:-2619451 | None:intergenic |
| TGTTTATGTCACGTTACAGA+GGG | 0.632465 | 8_3:+2618981 | None:intergenic |
| GTGTTTATGTCACGTTACAG+AGG | 0.633128 | 8_3:+2618980 | None:intergenic |
| CGTATCGCTGGAAAAGCGAA+AGG | 0.633501 | 8_3:+2619193 | Msa1269410:CDS |
| CATTAACTAAAACATGTCTG+TGG | 0.663264 | 8_3:-2619321 | None:intergenic |
| GGATTGGCAATTCTTCGCGG+GGG | 0.681198 | 8_3:-2619450 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATCAAATAATAGATAGTAAA+TGG | + | chr8_3:2619512-2619531 | Msa1269410:CDS | 15.0% |
| !! | TCAAATAATAGATAGTAAAT+GGG | + | chr8_3:2619513-2619532 | Msa1269410:CDS | 15.0% |
| !! | TTTGAAAATTAATGAATTGC+TGG | + | chr8_3:2619540-2619559 | Msa1269410:CDS | 20.0% |
| !! | CAAAAATTGCGTTTTCATTA+TGG | + | chr8_3:2619139-2619158 | Msa1269410:CDS | 25.0% |
| ! | TAATTGTAGTAAAACTTGAC+CGG | - | chr8_3:2619224-2619243 | None:intergenic | 25.0% |
| !!! | GATAACATACTTTTTCGATT+GGG | + | chr8_3:2619259-2619278 | Msa1269410:CDS | 25.0% |
| ! | ACTAATCCTTTATATTGGAA+TGG | - | chr8_3:2619490-2619509 | None:intergenic | 25.0% |
| ! | GATTGACTAATCCTTTATAT+TGG | - | chr8_3:2619495-2619514 | None:intergenic | 25.0% |
| ! | ATAATAGATAGTAAATGGGT+TGG | + | chr8_3:2619517-2619536 | Msa1269410:CDS | 25.0% |
| TTTCAAAAAAATACGTCGTC+TGG | + | chr8_3:2619009-2619028 | Msa1269410:CDS | 30.0% | |
| TTCAAAAAAATACGTCGTCT+GGG | + | chr8_3:2619010-2619029 | Msa1269410:CDS | 30.0% | |
| ACAATTACTTGAAATGCGTT+TGG | + | chr8_3:2619237-2619256 | Msa1269410:CDS | 30.0% | |
| !!! | GGATAACATACTTTTTCGAT+TGG | + | chr8_3:2619258-2619277 | Msa1269410:CDS | 30.0% |
| CATTAACTAAAACATGTCTG+TGG | - | chr8_3:2619324-2619343 | None:intergenic | 30.0% | |
| !!! | CACAGACATGTTTTAGTTAA+TGG | + | chr8_3:2619322-2619341 | Msa1269410:CDS | 30.0% |
| TTCGCTGTAATAATATCTTG+AGG | - | chr8_3:2619382-2619401 | None:intergenic | 30.0% | |
| TCAAGATATTATTACAGCGA+AGG | + | chr8_3:2619381-2619400 | Msa1269410:CDS | 30.0% | |
| CAAGATATTATTACAGCGAA+GGG | + | chr8_3:2619382-2619401 | Msa1269410:CDS | 30.0% | |
| CTTGATCCATTCCAATATAA+AGG | + | chr8_3:2619481-2619500 | Msa1269410:CDS | 30.0% | |
| !!! | CGACGTATTTTTTTGAAACG+AGG | - | chr8_3:2619007-2619026 | None:intergenic | 35.0% |
| TCAAAAAAATACGTCGTCTG+GGG | + | chr8_3:2619011-2619030 | Msa1269410:CDS | 35.0% | |
| TACCAGGACTAACTAGTAAA+CGG | + | chr8_3:2619038-2619057 | Msa1269410:CDS | 35.0% | |
| !!! | CATACTTTTTCGATTGGGTA+TGG | + | chr8_3:2619264-2619283 | Msa1269410:CDS | 35.0% |
| TCTGTGGTTAACTAATTGAC+GGG | - | chr8_3:2619308-2619327 | None:intergenic | 35.0% | |
| GTCTGTGGTTAACTAATTGA+CGG | - | chr8_3:2619309-2619328 | None:intergenic | 35.0% | |
| CAAAAAAATACGTCGTCTGG+GGG | + | chr8_3:2619012-2619031 | Msa1269410:CDS | 40.0% | |
| !!! | ATTTTTTACTCGAGCGCGAT+TGG | - | chr8_3:2619090-2619109 | None:intergenic | 40.0% |
| CTTAAATACGTTCGTATCGC+TGG | + | chr8_3:2619181-2619200 | Msa1269410:CDS | 40.0% | |
| !! | TTAACTAATTGACGGGCTTG+AGG | - | chr8_3:2619301-2619320 | None:intergenic | 40.0% |
| TGAGGTTTGCAACGATAACT+TGG | - | chr8_3:2619364-2619383 | None:intergenic | 40.0% | |
| !! | AATGGATTGGCAATTCTTCG+CGG | - | chr8_3:2619456-2619475 | None:intergenic | 40.0% |
| GGATCAAGAGTCAAATGGAT+TGG | - | chr8_3:2619469-2619488 | None:intergenic | 40.0% | |
| GGAATGGATCAAGAGTCAAA+TGG | - | chr8_3:2619474-2619493 | None:intergenic | 40.0% | |
| ACTAGTAAACGGCCTACAGT+TGG | + | chr8_3:2619049-2619068 | Msa1269410:CDS | 45.0% | |
| CTAAGTTCGCTTCCAACTGT+AGG | - | chr8_3:2619064-2619083 | None:intergenic | 45.0% | |
| GGAAAAGCGAAAGGTTCAAC+CGG | + | chr8_3:2619202-2619221 | Msa1269410:CDS | 45.0% | |
| !! | ATGGATTGGCAATTCTTCGC+GGG | - | chr8_3:2619455-2619474 | None:intergenic | 45.0% |
| GGCCGTTTACTAGTTAGTCC+TGG | - | chr8_3:2619043-2619062 | None:intergenic | 50.0% | |
| CGTATCGCTGGAAAAGCGAA+AGG | + | chr8_3:2619193-2619212 | Msa1269410:CDS | 50.0% | |
| !! | TGGATTGGCAATTCTTCGCG+GGG | - | chr8_3:2619454-2619473 | None:intergenic | 50.0% |
| GATTGGCAATTCTTCGCGGG+GGG | - | chr8_3:2619452-2619471 | None:intergenic | 55.0% | |
| ! | GGATTGGCAATTCTTCGCGG+GGG | - | chr8_3:2619453-2619472 | None:intergenic | 55.0% |
| CGTCGTCTGGGGGCTTTACC+AGG | + | chr8_3:2619022-2619041 | Msa1269410:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 2618986 | 2619591 | 2618986 | ID=Msa1269410;Name=Msa1269410 |
| chr8_3 | mRNA | 2618986 | 2619591 | 2618986 | ID=Msa1269410-mRNA-1;Parent=Msa1269410;Name=Msa1269410-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|201 |
| chr8_3 | exon | 2618986 | 2619591 | 2618986 | ID=Msa1269410-mRNA-1:exon:842;Parent=Msa1269410-mRNA-1 |
| chr8_3 | CDS | 2618986 | 2619591 | 2618986 | ID=Msa1269410-mRNA-1:cds;Parent=Msa1269410-mRNA-1 |
| Gene Sequence |
| Protein sequence |
