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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0369610 | AES71259.1 | 98.592 | 71 | 1 | 0 | 1 | 71 | 1 | 71 | 1.05e-41 | 140 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0369610 | G7J2F4 | 98.592 | 71 | 1 | 0 | 1 | 71 | 1 | 71 | 5.01e-42 | 140 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0072420 | Msa0369610 | 0.814014 | 1.911775e-51 | -8.615850e-47 |
| Msa0120880 | Msa0369610 | 0.805510 | 1.289262e-49 | -8.615850e-47 |
| Msa0173800 | Msa0369610 | 0.817944 | 2.534940e-52 | -8.615850e-47 |
| Msa0204960 | Msa0369610 | 0.854819 | 9.547111e-62 | -8.615850e-47 |
| Msa0217670 | Msa0369610 | 0.835674 | 1.462736e-56 | -8.615850e-47 |
| Msa0223330 | Msa0369610 | 0.805240 | 1.468464e-49 | -8.615850e-47 |
| Msa0369610 | Msa0385500 | 0.835578 | 1.546495e-56 | -8.615850e-47 |
| Msa0369610 | Msa0417030 | 0.984528 | 8.030678e-161 | -8.615850e-47 |
| Msa0369610 | Msa0463850 | 0.922454 | 9.630880e-89 | -8.615850e-47 |
| Msa0369610 | Msa0547160 | 0.803857 | 2.853863e-49 | -8.615850e-47 |
| Msa0369610 | Msa0682680 | 0.813394 | 2.616675e-51 | -8.615850e-47 |
| Msa0369610 | Msa0958000 | 0.810220 | 1.284723e-50 | -8.615850e-47 |
| Msa0369610 | Msa1037520 | 0.808163 | 3.545009e-50 | -8.615850e-47 |
| Msa0249580 | Msa0369610 | 0.800632 | 1.315613e-48 | -8.615850e-47 |
| Msa0257490 | Msa0369610 | 0.819345 | 1.219402e-52 | -8.615850e-47 |
| Msa0281530 | Msa0369610 | 0.827581 | 1.445795e-54 | -8.615850e-47 |
| Msa0296790 | Msa0369610 | 0.837641 | 4.611587e-57 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0369610 | MtrunA17_Chr3g0114271 | 98.592 | 71 | 1 | 0 | 1 | 71 | 1 | 71 | 9.64e-46 | 140 |
| Msa0369610 | MtrunA17_Chr5g0437891 | 85.507 | 69 | 10 | 0 | 1 | 69 | 1 | 69 | 6.75e-28 | 95.5 |
| Msa0369610 | MtrunA17_Chr1g0198341 | 32.857 | 70 | 47 | 0 | 2 | 71 | 3 | 72 | 2.34e-11 | 53.9 |
| Msa0369610 | MtrunA17_Chr4g0067291 | 44.828 | 58 | 32 | 0 | 7 | 64 | 78 | 135 | 2.96e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0369610 | AT5G05365.1 | 73.529 | 68 | 18 | 0 | 1 | 68 | 1 | 68 | 1.94e-30 | 102 |
Find 12 sgRNAs with CRISPR-Local
Find 25 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTAAACTAAAATTTCAATTA+TGG | 0.153724 | 3_1:+66939202 | None:intergenic |
| ATTAGAGTCCTTCACAAAAT+TGG | 0.192675 | 3_1:-66939261 | Msa0369610:CDS |
| TAAACTAAAATTTCAATTAT+GGG | 0.274782 | 3_1:+66939203 | None:intergenic |
| TTATATAATATATATGTTCA+TGG | 0.362890 | 3_1:-66939122 | Msa0369610:three_prime_UTR |
| CTGAACAAGGTTATTGTTAC+GGG | 0.372260 | 3_1:-66939306 | Msa0369610:CDS |
| GCTGAACAAGGTTATTGTTA+CGG | 0.424660 | 3_1:-66939307 | Msa0369610:CDS |
| GGTTTAAGCAGCATCTTCAA+AGG | 0.529778 | 3_1:+66939224 | None:intergenic |
| GTTTAAGCAGCATCTTCAAA+GGG | 0.559014 | 3_1:+66939225 | None:intergenic |
| CGTGGACACAAAGCTGAACA+AGG | 0.593500 | 3_1:-66939319 | Msa0369610:CDS |
| CAGGTGGTGGAAGTCAAAGT+CGG | 0.656628 | 3_1:-66939546 | Msa0369610:CDS |
| TTGTATCAAGAAAATCCTCA+AGG | 0.661316 | 3_1:-66939508 | Msa0369610:CDS |
| AGATATTGAAACGTATAACG+TGG | 0.667545 | 3_1:-66939337 | Msa0369610:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAAACTAAAATTTCAATTAT+GGG | + | chr3_1:66939568-66939587 | None:intergenic | 10.0% |
| !! | TTATATAATATATATGTTCA+TGG | - | chr3_1:66939646-66939665 | Msa0369610:intron | 10.0% |
| !! | ATATTATATAAGAACAACTA+AGG | + | chr3_1:66939398-66939417 | None:intergenic | 15.0% |
| !! | CTAAACTAAAATTTCAATTA+TGG | + | chr3_1:66939569-66939588 | None:intergenic | 15.0% |
| !! | TAGAAATTTTACAATCAGCA+TGG | - | chr3_1:66939105-66939124 | Msa0369610:three_prime_UTR | 25.0% |
| ! | AACAAAAGAAAGATGTTCAA+TGG | + | chr3_1:66939147-66939166 | None:intergenic | 25.0% |
| !!! | AGAACCTTGAATTTTTTTGA+TGG | + | chr3_1:66939286-66939305 | None:intergenic | 25.0% |
| !!! | GTAGCTATGTTAGATTTTTT+GGG | + | chr3_1:66939323-66939342 | None:intergenic | 25.0% |
| !!! | AGTAGCTATGTTAGATTTTT+TGG | + | chr3_1:66939324-66939343 | None:intergenic | 25.0% |
| !!! | TGTTTTTGAGAAAATTAAGC+AGG | + | chr3_1:66939617-66939636 | None:intergenic | 25.0% |
| ! | TTTTCTTATGTGTCATCATC+AGG | - | chr3_1:66939203-66939222 | Msa0369610:three_prime_UTR | 30.0% |
| TTGTATCAAGAAAATCCTCA+AGG | - | chr3_1:66939260-66939279 | Msa0369610:CDS | 30.0% | |
| AAGGCCATCAAAAAAATTCA+AGG | - | chr3_1:66939279-66939298 | Msa0369610:CDS | 30.0% | |
| AGATATTGAAACGTATAACG+TGG | - | chr3_1:66939431-66939450 | Msa0369610:intron | 30.0% | |
| ATTAGAGTCCTTCACAAAAT+TGG | - | chr3_1:66939507-66939526 | Msa0369610:CDS | 30.0% | |
| ! | CATTCTTTCCAATTTTGTGA+AGG | + | chr3_1:66939518-66939537 | None:intergenic | 30.0% |
| !!! | GAATTTTTTTGATGGCCTTG+AGG | + | chr3_1:66939278-66939297 | None:intergenic | 35.0% |
| GCTGAACAAGGTTATTGTTA+CGG | - | chr3_1:66939461-66939480 | Msa0369610:intron | 35.0% | |
| CTGAACAAGGTTATTGTTAC+GGG | - | chr3_1:66939462-66939481 | Msa0369610:intron | 35.0% | |
| GTTTAAGCAGCATCTTCAAA+GGG | + | chr3_1:66939546-66939565 | None:intergenic | 35.0% | |
| TCTTATGTGTCATCATCAGG+TGG | - | chr3_1:66939206-66939225 | Msa0369610:three_prime_UTR | 40.0% | |
| GGTTTAAGCAGCATCTTCAA+AGG | + | chr3_1:66939547-66939566 | None:intergenic | 40.0% | |
| TATGTGTCATCATCAGGTGG+TGG | - | chr3_1:66939209-66939228 | Msa0369610:exon | 45.0% | |
| !! | CAGGTGGTGGAAGTCAAAGT+CGG | - | chr3_1:66939222-66939241 | Msa0369610:exon | 50.0% |
| CGTGGACACAAAGCTGAACA+AGG | - | chr3_1:66939449-66939468 | Msa0369610:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 66939084 | 66939706 | 66939084 | ID=Msa0369610;Name=Msa0369610 |
| chr3_1 | mRNA | 66939084 | 66939706 | 66939084 | ID=Msa0369610-mRNA-1;Parent=Msa0369610;Name=Msa0369610-mRNA-1;_AED=0.13;_eAED=0.13;_QI=40|1|1|1|1|1|3|143|71 |
| chr3_1 | exon | 66939084 | 66939357 | 66939084 | ID=Msa0369610-mRNA-1:exon:13680;Parent=Msa0369610-mRNA-1 |
| chr3_1 | exon | 66939490 | 66939565 | 66939490 | ID=Msa0369610-mRNA-1:exon:13679;Parent=Msa0369610-mRNA-1 |
| chr3_1 | exon | 66939658 | 66939706 | 66939658 | ID=Msa0369610-mRNA-1:exon:13678;Parent=Msa0369610-mRNA-1 |
| chr3_1 | five_prime_UTR | 66939667 | 66939706 | 66939667 | ID=Msa0369610-mRNA-1:five_prime_utr;Parent=Msa0369610-mRNA-1 |
| chr3_1 | CDS | 66939658 | 66939666 | 66939658 | ID=Msa0369610-mRNA-1:cds;Parent=Msa0369610-mRNA-1 |
| chr3_1 | CDS | 66939490 | 66939565 | 66939490 | ID=Msa0369610-mRNA-1:cds;Parent=Msa0369610-mRNA-1 |
| chr3_1 | CDS | 66939227 | 66939357 | 66939227 | ID=Msa0369610-mRNA-1:cds;Parent=Msa0369610-mRNA-1 |
| chr3_1 | three_prime_UTR | 66939084 | 66939226 | 66939084 | ID=Msa0369610-mRNA-1:three_prime_utr;Parent=Msa0369610-mRNA-1 |
| Gene Sequence |
| Protein sequence |
