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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0531380 | RHN58623.1 | 96.899 | 129 | 4 | 0 | 1 | 129 | 1 | 129 | 8.73e-87 | 258 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0531380 | A0A396I1M0 | 96.899 | 129 | 4 | 0 | 1 | 129 | 1 | 129 | 4.17e-87 | 258 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0531380 | Msa0588140 | 0.803728 | 3.034665e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0531380 | MtrunA17_Chr4g0004361 | 96.899 | 129 | 4 | 0 | 1 | 129 | 1 | 129 | 8.03e-91 | 258 |
| Msa0531380 | MtrunA17_Chr4g0004411 | 67.692 | 130 | 39 | 3 | 1 | 129 | 4 | 131 | 8.17e-58 | 175 |
| Msa0531380 | MtrunA17_Chr4g0004431 | 75.573 | 131 | 30 | 2 | 1 | 129 | 1 | 131 | 3.00e-56 | 171 |
| Msa0531380 | MtrunA17_Chr4g0004371 | 75.385 | 130 | 31 | 1 | 1 | 129 | 16 | 145 | 1.03e-55 | 170 |
| Msa0531380 | MtrunA17_Chr4g0004381 | 73.729 | 118 | 29 | 2 | 1 | 117 | 4 | 120 | 2.35e-55 | 169 |
| Msa0531380 | MtrunA17_Chr4g0004441 | 73.171 | 123 | 31 | 2 | 3 | 123 | 6 | 128 | 9.60e-51 | 157 |
| Msa0531380 | MtrunA17_Chr4g0004401 | 71.765 | 85 | 24 | 0 | 3 | 87 | 18 | 102 | 8.38e-35 | 116 |
| Msa0531380 | MtrunA17_Chr4g0004421 | 52.128 | 94 | 37 | 3 | 42 | 129 | 1 | 92 | 1.27e-11 | 57.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 14 sgRNAs with CRISPR-Local
Find 17 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATGATCTTGAAACATTATC+AGG | 0.352452 | 4_1:+5600320 | None:intergenic |
| AATTCATTGACACATACAAT+AGG | 0.384648 | 4_1:+5600494 | None:intergenic |
| GAAGAAATATTTGAGCTAAA+TGG | 0.409187 | 4_1:-5600236 | Msa0531380:CDS |
| AAATTCTGTAAGTAAGAGTT+AGG | 0.427288 | 4_1:+5600365 | None:intergenic |
| TAGCAAGCTTGAAAACTTTG+TGG | 0.445252 | 4_1:-5600454 | Msa0531380:CDS |
| TACTTACAGAATTTCGATGA+TGG | 0.477555 | 4_1:-5600356 | Msa0531380:CDS |
| ATTCATTGACACATACAATA+GGG | 0.488536 | 4_1:+5600495 | None:intergenic |
| TGAGAAGAATATTGAAGTGA+TGG | 0.543983 | 4_1:-5600264 | Msa0531380:CDS |
| TTGTCAAGTTATGAGAGACT+TGG | 0.579166 | 4_1:-5600524 | Msa0531380:CDS |
| TGAAACATTATCAGGATCAG+TGG | 0.593398 | 4_1:+5600328 | None:intergenic |
| GTGTATGGAGTTGAGAACAT+AGG | 0.601043 | 4_1:+5600596 | None:intergenic |
| CAAGCTTGAAAACTTTGTGG+AGG | 0.613507 | 4_1:-5600451 | Msa0531380:CDS |
| CATAACTTGACAAAATGCTG+TGG | 0.627732 | 4_1:+5600534 | None:intergenic |
| TTAGGATCATATATAAACAC+AGG | 0.655201 | 4_1:+5600383 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATATTCTTCTCAAAAATCT+TGG | + | chr4_1:5600548-5600567 | None:intergenic | 20.0% |
| ! | ATTCATTGACACATACAATA+GGG | + | chr4_1:5600327-5600346 | None:intergenic | 25.0% |
| ! | AATTCATTGACACATACAAT+AGG | + | chr4_1:5600328-5600347 | None:intergenic | 25.0% |
| ! | TTAGGATCATATATAAACAC+AGG | + | chr4_1:5600439-5600458 | None:intergenic | 25.0% |
| ! | AAATTCTGTAAGTAAGAGTT+AGG | + | chr4_1:5600457-5600476 | None:intergenic | 25.0% |
| ! | AATGATCTTGAAACATTATC+AGG | + | chr4_1:5600502-5600521 | None:intergenic | 25.0% |
| ! | GAAGAAATATTTGAGCTAAA+TGG | - | chr4_1:5600583-5600602 | Msa0531380:CDS | 25.0% |
| !! | TTTTCAAGACTCATAGTGTA+TGG | + | chr4_1:5600241-5600260 | None:intergenic | 30.0% |
| AGATCAAGAGAGAAAAAAAG+AGG | - | chr4_1:5600392-5600411 | Msa0531380:CDS | 30.0% | |
| TACTTACAGAATTTCGATGA+TGG | - | chr4_1:5600463-5600482 | Msa0531380:CDS | 30.0% | |
| TTCTTCTCAAAAATCTTGGA+CGG | + | chr4_1:5600544-5600563 | None:intergenic | 30.0% | |
| TGAGAAGAATATTGAAGTGA+TGG | - | chr4_1:5600555-5600574 | Msa0531380:CDS | 30.0% | |
| CATAACTTGACAAAATGCTG+TGG | + | chr4_1:5600288-5600307 | None:intergenic | 35.0% | |
| TTGTCAAGTTATGAGAGACT+TGG | - | chr4_1:5600295-5600314 | Msa0531380:CDS | 35.0% | |
| TAGCAAGCTTGAAAACTTTG+TGG | - | chr4_1:5600365-5600384 | Msa0531380:CDS | 35.0% | |
| TGAAACATTATCAGGATCAG+TGG | + | chr4_1:5600494-5600513 | None:intergenic | 35.0% | |
| CAAGCTTGAAAACTTTGTGG+AGG | - | chr4_1:5600368-5600387 | Msa0531380:CDS | 40.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 5600226 | 5600615 | 5600226 | ID=Msa0531380;Name=Msa0531380 |
| chr4_1 | mRNA | 5600226 | 5600615 | 5600226 | ID=Msa0531380-mRNA-1;Parent=Msa0531380;Name=Msa0531380-mRNA-1;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|129 |
| chr4_1 | exon | 5600226 | 5600615 | 5600226 | ID=Msa0531380-mRNA-1:exon:1840;Parent=Msa0531380-mRNA-1 |
| chr4_1 | CDS | 5600226 | 5600615 | 5600226 | ID=Msa0531380-mRNA-1:cds;Parent=Msa0531380-mRNA-1 |
| Gene Sequence |
| Protein sequence |
