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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0852410 | XP_003615484.1 | 97.279 | 147 | 4 | 0 | 1 | 147 | 1 | 147 | 1.08e-104 | 305 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0852410 | G7K658 | 97.279 | 147 | 4 | 0 | 1 | 147 | 1 | 147 | 5.15e-105 | 305 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0852410 | Msa0852420 | 0.914887 | 1.130721e-84 | -8.615850e-47 |
| Msa0852410 | Msa0994030 | 0.824236 | 9.002842e-54 | -8.615850e-47 |
| Msa0852410 | Msa1015950 | 0.802574 | 5.258928e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0852410 | MtrunA17_Chr3g0128311 | 92.593 | 54 | 4 | 0 | 42 | 95 | 12 | 65 | 9.44e-32 | 109 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0852410 | AT5G24610.1 | 73.288 | 146 | 36 | 2 | 1 | 145 | 1 | 144 | 1.75e-73 | 216 |
| Msa0852410 | AT3G49550.1 | 69.799 | 149 | 41 | 3 | 1 | 147 | 1 | 147 | 1.23e-71 | 212 |
Find 38 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TATTTATCTGTCAAGTATTT+TGG | 0.086537 | 5_4:+43477258 | Msa0852410:CDS |
| TTCCAGTCGCATTTGTGAAC+AGG | 0.332197 | 5_4:-43477298 | None:intergenic |
| AATGCCAAAACGAAAATGTT+TGG | 0.343932 | 5_4:+43477320 | Msa0852410:CDS |
| CCTGTTCTTCAGTTGGAGTA+AGG | 0.348208 | 5_4:-43477462 | None:intergenic |
| GAAGTTTCAATGGAGGTATA+TGG | 0.356919 | 5_4:+43477205 | None:intergenic |
| ATGCCAAAACGAAAATGTTT+GGG | 0.358560 | 5_4:+43477321 | Msa0852410:CDS |
| CTCACTGCCTGTTCTTCAGT+TGG | 0.398254 | 5_4:-43477469 | None:intergenic |
| TCGCATTTGTGAACAGGGCT+TGG | 0.405190 | 5_4:-43477292 | None:intergenic |
| GGAGGTATATGGAAAATCTA+TGG | 0.409354 | 5_4:+43477216 | Msa0852410:CDS |
| GACAGATAAATAACATTTGA+AGG | 0.421919 | 5_4:-43477247 | None:intergenic |
| CCTTACTCCAACTGAAGAAC+AGG | 0.443337 | 5_4:+43477462 | Msa0852410:CDS |
| ATGTTTCGCTGCAAGCTGAC+AGG | 0.449969 | 5_4:+43477349 | Msa0852410:CDS |
| CTGTTCTTCAGTTGGAGTAA+GGG | 0.465524 | 5_4:-43477461 | None:intergenic |
| TATCCATGCCATCTCCAACT+TGG | 0.481067 | 5_4:-43477627 | None:intergenic |
| TCTCCAACTTGGCTGCAGAT+AGG | 0.485639 | 5_4:-43477616 | None:intergenic |
| GGAAAATTTGACGACTTGCT+AGG | 0.493282 | 5_4:-43477438 | None:intergenic |
| TTGACGACTTGCTAGGCAAA+GGG | 0.507539 | 5_4:-43477431 | None:intergenic |
| GGTTATCATAGAGAATTCTC+TGG | 0.526901 | 5_4:-43477402 | None:intergenic |
| AAAGATCTCTCGAAAGGAGA+AGG | 0.530252 | 5_4:-43477580 | None:intergenic |
| AGTCCTATCTGCAGCCAAGT+TGG | 0.539791 | 5_4:+43477613 | Msa0852410:CDS |
| TTGCTAGGCAAAGGGAGCTA+TGG | 0.541413 | 5_4:-43477423 | None:intergenic |
| TCCAGTCGCATTTGTGAACA+GGG | 0.541491 | 5_4:-43477297 | None:intergenic |
| GCCCTGTTCACAAATGCGAC+TGG | 0.542715 | 5_4:+43477296 | Msa0852410:CDS |
| TGTTCTTCAGTTGGAGTAAG+GGG | 0.550641 | 5_4:-43477460 | None:intergenic |
| CAGTGGCTGTAAGCGAAGGC+GGG | 0.550873 | 5_4:+43477543 | Msa0852410:CDS |
| ATCTGCAGCCAAGTTGGAGA+TGG | 0.552457 | 5_4:+43477619 | Msa0852410:CDS |
| CAGCCAAGTTGGAGATGGCA+TGG | 0.553002 | 5_4:+43477624 | Msa0852410:CDS |
| TGTTTCGCTGCAAGCTGACA+GGG | 0.556183 | 5_4:+43477350 | Msa0852410:CDS |
| AGGCAGTGAGAGGCGTTCGA+AGG | 0.561321 | 5_4:+43477482 | Msa0852410:CDS |
| GAACAGGGCTTGGACCATCA+TGG | 0.588831 | 5_4:-43477282 | None:intergenic |
| TTTGACGACTTGCTAGGCAA+AGG | 0.589756 | 5_4:-43477432 | None:intergenic |
| ACAGTGGCTGTAAGCGAAGG+CGG | 0.591169 | 5_4:+43477542 | Msa0852410:CDS |
| GCAGAGAAAGATCTCTCGAA+AGG | 0.606380 | 5_4:-43477586 | None:intergenic |
| ATAACAGTGGCTGTAAGCGA+AGG | 0.621993 | 5_4:+43477539 | Msa0852410:CDS |
| ACTGAAGAACAGGCAGTGAG+AGG | 0.628808 | 5_4:+43477472 | Msa0852410:CDS |
| GTTCTTCAGTTGGAGTAAGG+GGG | 0.636393 | 5_4:-43477459 | None:intergenic |
| TGCCAAAACGAAAATGTTTG+GGG | 0.647485 | 5_4:+43477322 | Msa0852410:CDS |
| TCACACGTTGATAATAACAG+TGG | 0.725506 | 5_4:+43477526 | Msa0852410:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TATTTATCTGTCAAGTATTT+TGG | + | chr5_4:43477258-43477277 | Msa0852410:CDS | 20.0% |
| !!! | ATTTATCTGTCAAGTATTTT+GGG | + | chr5_4:43477259-43477278 | Msa0852410:CDS | 20.0% |
| ! | GACAGATAAATAACATTTGA+AGG | - | chr5_4:43477250-43477269 | None:intergenic | 25.0% |
| AATGCCAAAACGAAAATGTT+TGG | + | chr5_4:43477320-43477339 | Msa0852410:CDS | 30.0% | |
| ATGCCAAAACGAAAATGTTT+GGG | + | chr5_4:43477321-43477340 | Msa0852410:CDS | 30.0% | |
| ! | GGAGGTATATGGAAAATCTA+TGG | + | chr5_4:43477216-43477235 | Msa0852410:CDS | 35.0% |
| TGCCAAAACGAAAATGTTTG+GGG | + | chr5_4:43477322-43477341 | Msa0852410:CDS | 35.0% | |
| ! | TTCCCCAAACATTTTCGTTT+TGG | - | chr5_4:43477327-43477346 | None:intergenic | 35.0% |
| GGTTATCATAGAGAATTCTC+TGG | - | chr5_4:43477405-43477424 | None:intergenic | 35.0% | |
| !! | TCACACGTTGATAATAACAG+TGG | + | chr5_4:43477526-43477545 | Msa0852410:CDS | 35.0% |
| !! | TCAAGTATTTTGGGCCATGA+TGG | + | chr5_4:43477268-43477287 | Msa0852410:CDS | 40.0% |
| ! | GGAAAATTTGACGACTTGCT+AGG | - | chr5_4:43477441-43477460 | None:intergenic | 40.0% |
| TGTTCTTCAGTTGGAGTAAG+GGG | - | chr5_4:43477463-43477482 | None:intergenic | 40.0% | |
| CTGTTCTTCAGTTGGAGTAA+GGG | - | chr5_4:43477464-43477483 | None:intergenic | 40.0% | |
| AAAGATCTCTCGAAAGGAGA+AGG | - | chr5_4:43477583-43477602 | None:intergenic | 40.0% | |
| TCCAGTCGCATTTGTGAACA+GGG | - | chr5_4:43477300-43477319 | None:intergenic | 45.0% | |
| TTCCAGTCGCATTTGTGAAC+AGG | - | chr5_4:43477301-43477320 | None:intergenic | 45.0% | |
| !! | TTGACGACTTGCTAGGCAAA+GGG | - | chr5_4:43477434-43477453 | None:intergenic | 45.0% |
| !! | TTTGACGACTTGCTAGGCAA+AGG | - | chr5_4:43477435-43477454 | None:intergenic | 45.0% |
| GTTCTTCAGTTGGAGTAAGG+GGG | - | chr5_4:43477462-43477481 | None:intergenic | 45.0% | |
| CCTGTTCTTCAGTTGGAGTA+AGG | - | chr5_4:43477465-43477484 | None:intergenic | 45.0% | |
| CCTTACTCCAACTGAAGAAC+AGG | + | chr5_4:43477462-43477481 | Msa0852410:CDS | 45.0% | |
| ATAACAGTGGCTGTAAGCGA+AGG | + | chr5_4:43477539-43477558 | Msa0852410:CDS | 45.0% | |
| GCAGAGAAAGATCTCTCGAA+AGG | - | chr5_4:43477589-43477608 | None:intergenic | 45.0% | |
| TATCCATGCCATCTCCAACT+TGG | - | chr5_4:43477630-43477649 | None:intergenic | 45.0% | |
| TCGCATTTGTGAACAGGGCT+TGG | - | chr5_4:43477295-43477314 | None:intergenic | 50.0% | |
| ATGTTTCGCTGCAAGCTGAC+AGG | + | chr5_4:43477349-43477368 | Msa0852410:CDS | 50.0% | |
| TGTTTCGCTGCAAGCTGACA+GGG | + | chr5_4:43477350-43477369 | Msa0852410:CDS | 50.0% | |
| TTGCTAGGCAAAGGGAGCTA+TGG | - | chr5_4:43477426-43477445 | None:intergenic | 50.0% | |
| CTCACTGCCTGTTCTTCAGT+TGG | - | chr5_4:43477472-43477491 | None:intergenic | 50.0% | |
| ACTGAAGAACAGGCAGTGAG+AGG | + | chr5_4:43477472-43477491 | Msa0852410:CDS | 50.0% | |
| AGTCCTATCTGCAGCCAAGT+TGG | + | chr5_4:43477613-43477632 | Msa0852410:CDS | 50.0% | |
| TCTCCAACTTGGCTGCAGAT+AGG | - | chr5_4:43477619-43477638 | None:intergenic | 50.0% | |
| ! | ATCTGCAGCCAAGTTGGAGA+TGG | + | chr5_4:43477619-43477638 | Msa0852410:CDS | 50.0% |
| GAACAGGGCTTGGACCATCA+TGG | - | chr5_4:43477285-43477304 | None:intergenic | 55.0% | |
| GCCCTGTTCACAAATGCGAC+TGG | + | chr5_4:43477296-43477315 | Msa0852410:CDS | 55.0% | |
| ACAGTGGCTGTAAGCGAAGG+CGG | + | chr5_4:43477542-43477561 | Msa0852410:CDS | 55.0% | |
| ! | CAGCCAAGTTGGAGATGGCA+TGG | + | chr5_4:43477624-43477643 | Msa0852410:CDS | 55.0% |
| !! | AGGCAGTGAGAGGCGTTCGA+AGG | + | chr5_4:43477482-43477501 | Msa0852410:CDS | 60.0% |
| CAGTGGCTGTAAGCGAAGGC+GGG | + | chr5_4:43477543-43477562 | Msa0852410:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_4 | gene | 43477214 | 43477657 | 43477214 | ID=Msa0852410;Name=Msa0852410 |
| chr5_4 | mRNA | 43477214 | 43477657 | 43477214 | ID=Msa0852410-mRNA-1;Parent=Msa0852410;Name=Msa0852410-mRNA-1;_AED=0.43;_eAED=0.43;_QI=0|-1|0|1|-1|1|1|0|147 |
| chr5_4 | exon | 43477214 | 43477657 | 43477214 | ID=Msa0852410-mRNA-1:exon:13743;Parent=Msa0852410-mRNA-1 |
| chr5_4 | CDS | 43477214 | 43477657 | 43477214 | ID=Msa0852410-mRNA-1:cds;Parent=Msa0852410-mRNA-1 |
| Gene Sequence |
| Protein sequence |
