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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0230200 | XP_013450912.1 | 76.923 | 156 | 17 | 3 | 2 | 156 | 65 | 202 | 1.90e-73 | 229 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0230200 | A0A072U5L7 | 76.923 | 156 | 17 | 3 | 2 | 156 | 65 | 202 | 9.08e-74 | 229 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0230200 | TF | LOB |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0230200 | MtrunA17_Chr6g0452671 | 76.923 | 156 | 17 | 3 | 2 | 156 | 65 | 202 | 1.75e-77 | 229 |
| Msa0230200 | MtrunA17_Chr6g0452661 | 38.342 | 193 | 80 | 6 | 2 | 169 | 64 | 242 | 6.79e-26 | 99.4 |
| Msa0230200 | MtrunA17_Chr5g0439111 | 36.957 | 184 | 75 | 7 | 4 | 161 | 66 | 234 | 1.57e-21 | 87.8 |
| Msa0230200 | MtrunA17_Chr4g0055441 | 42.400 | 125 | 45 | 4 | 2 | 126 | 57 | 154 | 1.69e-19 | 80.5 |
| Msa0230200 | MtrunA17_Chr6g0452691 | 45.918 | 98 | 43 | 2 | 3 | 97 | 65 | 155 | 6.37e-18 | 77.0 |
| Msa0230200 | MtrunA17_Chr6g0449311 | 51.685 | 89 | 38 | 2 | 2 | 88 | 28 | 113 | 4.67e-14 | 65.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 27 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTCCATTGTGAAGAATTAT+TGG | 0.152750 | 2_2:-2110406 | Msa0230200:CDS |
| AAACTTTGAAACTAATTCTA+TGG | 0.254760 | 2_2:-2110508 | Msa0230200:CDS |
| CAAAATTTGTACTACCATTA+AGG | 0.279065 | 2_2:+2110382 | None:intergenic |
| GAAGAATTATTGGACCTTAA+TGG | 0.283903 | 2_2:-2110396 | Msa0230200:CDS |
| GATGTTATTATGATGTATTA+TGG | 0.406805 | 2_2:-2110735 | Msa0230200:CDS |
| ACATCAAGACATCCACCAAC+AGG | 0.415425 | 2_2:+2110753 | None:intergenic |
| ATTCTTACTAGATCATTGTA+AGG | 0.440710 | 2_2:-2110673 | Msa0230200:CDS |
| GGGATGTCATAATAAGAATT+CGG | 0.449186 | 2_2:+2110567 | None:intergenic |
| ACAATGATCAATTGATAAGT+AGG | 0.452504 | 2_2:+2110617 | None:intergenic |
| GGAACTCGAGTGCTACTAGA+AGG | 0.478886 | 2_2:+2110588 | None:intergenic |
| TCCTTGTGTTACCATCAAGT+TGG | 0.488291 | 2_2:+2110431 | None:intergenic |
| CGTGCTCAATTCCCTGTTGG+TGG | 0.544713 | 2_2:-2110765 | Msa0230200:CDS |
| GTTATACAATTGATCGGTGG+TGG | 0.566006 | 2_2:-2110474 | Msa0230200:CDS |
| CTAATTCTATGGATGCAACA+AGG | 0.571579 | 2_2:-2110497 | Msa0230200:CDS |
| GGTCCAATAATTCTTCACAA+TGG | 0.586783 | 2_2:+2110403 | None:intergenic |
| CAATGATCAATTGATAAGTA+GGG | 0.590328 | 2_2:+2110618 | None:intergenic |
| ACAAGGGTTATACAATTGAT+CGG | 0.617732 | 2_2:-2110480 | Msa0230200:CDS |
| TAATTCTATGGATGCAACAA+GGG | 0.625530 | 2_2:-2110496 | Msa0230200:CDS |
| ATGCGTGCTCAATTCCCTGT+TGG | 0.627603 | 2_2:-2110768 | Msa0230200:CDS |
| GATCGGTGGTGGCAATGCAA+TGG | 0.634656 | 2_2:-2110463 | Msa0230200:CDS |
| TCGAGTGCTACTAGAAGGAG+CGG | 0.637892 | 2_2:+2110593 | None:intergenic |
| GGGTTAATAGTAACATTACG+AGG | 0.645055 | 2_2:+2110546 | None:intergenic |
| CATCAAGACATCCACCAACA+GGG | 0.653135 | 2_2:+2110754 | None:intergenic |
| TGCTGATAAAGTAGTAACTG+AGG | 0.661688 | 2_2:-2110331 | Msa0230200:intron |
| GGTTAATAGTAACATTACGA+GGG | 0.671173 | 2_2:+2110547 | None:intergenic |
| TCCAACTTGATGGTAACACA+AGG | 0.676070 | 2_2:-2110432 | Msa0230200:CDS |
| AGGGTTATACAATTGATCGG+TGG | 0.726517 | 2_2:-2110477 | Msa0230200:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTAATTATTATTATTTTT+TGG | - | chr2_2:2110642-2110661 | Msa0230200:CDS | 0.0% |
| !!! | TTTAATTATTATTATTTTTT+GGG | - | chr2_2:2110643-2110662 | Msa0230200:CDS | 0.0% |
| !!! | TAGTACAAATTTTGATTTAA+GGG | - | chr2_2:2110558-2110577 | Msa0230200:CDS | 15.0% |
| !! | TAAAGATATGTAATTAATGA+AGG | + | chr2_2:2110761-2110780 | None:intergenic | 15.0% |
| !! | TACATATCTTTAATCAATAT+AGG | - | chr2_2:2110769-2110788 | Msa0230200:CDS | 15.0% |
| !! | GATGTTATTATGATGTATTA+TGG | - | chr2_2:2110196-2110215 | Msa0230200:intron | 20.0% |
| !!! | ATTAGTTTCAAAGTTTTGTT+TGG | + | chr2_2:2110419-2110438 | None:intergenic | 20.0% |
| !!! | AAACTTTGAAACTAATTCTA+TGG | - | chr2_2:2110423-2110442 | Msa0230200:CDS | 20.0% |
| !!! | GTAGTACAAATTTTGATTTA+AGG | - | chr2_2:2110557-2110576 | Msa0230200:CDS | 20.0% |
| ! | ATTCTTACTAGATCATTGTA+AGG | - | chr2_2:2110258-2110277 | Msa0230200:intron | 25.0% |
| ! | CAATGATCAATTGATAAGTA+GGG | + | chr2_2:2110316-2110335 | None:intergenic | 25.0% |
| ! | ACAATGATCAATTGATAAGT+AGG | + | chr2_2:2110317-2110336 | None:intergenic | 25.0% |
| !!! | AGTTTTGTTTGGTATCAATT+GGG | + | chr2_2:2110408-2110427 | None:intergenic | 25.0% |
| !!! | AAGTTTTGTTTGGTATCAAT+TGG | + | chr2_2:2110409-2110428 | None:intergenic | 25.0% |
| ! | ATTCCATTGTGAAGAATTAT+TGG | - | chr2_2:2110525-2110544 | Msa0230200:CDS | 25.0% |
| ! | CAAAATTTGTACTACCATTA+AGG | + | chr2_2:2110552-2110571 | None:intergenic | 25.0% |
| !!! | AAATTTTGATTTAAGGGAAG+AGG | - | chr2_2:2110564-2110583 | Msa0230200:CDS | 25.0% |
| !!! | CAAGATTTTGTTGTTGCAAA+GGG | + | chr2_2:2110291-2110310 | None:intergenic | 30.0% |
| !!! | TCAAGATTTTGTTGTTGCAA+AGG | + | chr2_2:2110292-2110311 | None:intergenic | 30.0% |
| GGGATGTCATAATAAGAATT+CGG | + | chr2_2:2110367-2110386 | None:intergenic | 30.0% | |
| GGTTAATAGTAACATTACGA+GGG | + | chr2_2:2110387-2110406 | None:intergenic | 30.0% | |
| TAATTCTATGGATGCAACAA+GGG | - | chr2_2:2110435-2110454 | Msa0230200:CDS | 30.0% | |
| ACAAGGGTTATACAATTGAT+CGG | - | chr2_2:2110451-2110470 | Msa0230200:CDS | 30.0% | |
| GAAGAATTATTGGACCTTAA+TGG | - | chr2_2:2110535-2110554 | Msa0230200:CDS | 30.0% | |
| GGGTTAATAGTAACATTACG+AGG | + | chr2_2:2110388-2110407 | None:intergenic | 35.0% | |
| CTAATTCTATGGATGCAACA+AGG | - | chr2_2:2110434-2110453 | Msa0230200:CDS | 35.0% | |
| GGAAGAAAAATCCAACTTGA+TGG | - | chr2_2:2110489-2110508 | Msa0230200:CDS | 35.0% | |
| GGTCCAATAATTCTTCACAA+TGG | + | chr2_2:2110531-2110550 | None:intergenic | 35.0% | |
| TGCTGATAAAGTAGTAACTG+AGG | - | chr2_2:2110600-2110619 | Msa0230200:CDS | 35.0% | |
| AGGGTTATACAATTGATCGG+TGG | - | chr2_2:2110454-2110473 | Msa0230200:CDS | 40.0% | |
| GTTATACAATTGATCGGTGG+TGG | - | chr2_2:2110457-2110476 | Msa0230200:CDS | 40.0% | |
| ! | TCCAACTTGATGGTAACACA+AGG | - | chr2_2:2110499-2110518 | Msa0230200:CDS | 40.0% |
| TCCTTGTGTTACCATCAAGT+TGG | + | chr2_2:2110503-2110522 | None:intergenic | 40.0% | |
| CATCAAGACATCCACCAACA+GGG | + | chr2_2:2110180-2110199 | None:intergenic | 45.0% | |
| ACATCAAGACATCCACCAAC+AGG | + | chr2_2:2110181-2110200 | None:intergenic | 45.0% | |
| ATGCGTGCTCAATTCCCTGT+TGG | - | chr2_2:2110163-2110182 | Msa0230200:intron | 50.0% | |
| ! | TCGAGTGCTACTAGAAGGAG+CGG | + | chr2_2:2110341-2110360 | None:intergenic | 50.0% |
| ! | GGAACTCGAGTGCTACTAGA+AGG | + | chr2_2:2110346-2110365 | None:intergenic | 50.0% |
| CGTGCTCAATTCCCTGTTGG+TGG | - | chr2_2:2110166-2110185 | Msa0230200:intron | 55.0% | |
| ! | GATCGGTGGTGGCAATGCAA+TGG | - | chr2_2:2110468-2110487 | Msa0230200:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 2110124 | 2110829 | 2110124 | ID=Msa0230200;Name=Msa0230200 |
| chr2_2 | mRNA | 2110124 | 2110829 | 2110124 | ID=Msa0230200-mRNA-1;Parent=Msa0230200;Name=Msa0230200-mRNA-1;_AED=0.19;_eAED=0.19;_QI=0|0|0|0.5|1|1|2|0|178 |
| chr2_2 | exon | 2110332 | 2110829 | 2110332 | ID=Msa0230200-mRNA-1:exon:801;Parent=Msa0230200-mRNA-1 |
| chr2_2 | exon | 2110124 | 2110162 | 2110124 | ID=Msa0230200-mRNA-1:exon:800;Parent=Msa0230200-mRNA-1 |
| chr2_2 | CDS | 2110332 | 2110829 | 2110332 | ID=Msa0230200-mRNA-1:cds;Parent=Msa0230200-mRNA-1 |
| chr2_2 | CDS | 2110124 | 2110162 | 2110124 | ID=Msa0230200-mRNA-1:cds;Parent=Msa0230200-mRNA-1 |
| Gene Sequence |
| Protein sequence |
