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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0934680 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0934680 | A0A072U5L7 | 76.923 | 156 | 17 | 3 | 2 | 156 | 65 | 202 | 9.08e-74 | 229 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0934680 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0934680 | MtrunA17_Chr6g0452671 | 76.923 | 156 | 17 | 3 | 2 | 156 | 65 | 202 | 1.75e-77 | 229 |
| Msa0934680 | MtrunA17_Chr6g0452661 | 38.342 | 193 | 80 | 6 | 2 | 169 | 64 | 242 | 6.79e-26 | 99.4 |
| Msa0934680 | MtrunA17_Chr5g0439111 | 36.957 | 184 | 75 | 7 | 4 | 161 | 66 | 234 | 1.57e-21 | 87.8 |
| Msa0934680 | MtrunA17_Chr4g0055441 | 42.400 | 125 | 45 | 4 | 2 | 126 | 57 | 154 | 1.69e-19 | 80.5 |
| Msa0934680 | MtrunA17_Chr6g0452691 | 45.918 | 98 | 43 | 2 | 3 | 97 | 65 | 155 | 6.37e-18 | 77.0 |
| Msa0934680 | 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 | 6_3:+4643695 | Msa0934680:CDS |
| AAACTTTGAAACTAATTCTA+TGG | 0.254760 | 6_3:+4643593 | Msa0934680:CDS |
| CAAAATTTGTACTACCATTA+AGG | 0.279065 | 6_3:-4643719 | None:intergenic |
| GAAGAATTATTGGACCTTAA+TGG | 0.283903 | 6_3:+4643705 | Msa0934680:CDS |
| GATGTTATTATGATGTATTA+TGG | 0.406805 | 6_3:+4643366 | Msa0934680:CDS |
| ACATCAAGACATCCACCAAC+AGG | 0.415425 | 6_3:-4643348 | None:intergenic |
| ATTCTTACTAGATCATTGTA+AGG | 0.440710 | 6_3:+4643428 | Msa0934680:CDS |
| GGGATGTCATAATAAGAATT+CGG | 0.449186 | 6_3:-4643534 | None:intergenic |
| ACAATGATCAATTGATAAGT+AGG | 0.452504 | 6_3:-4643484 | None:intergenic |
| GGAACTCGAGTGCTACTAGA+AGG | 0.478886 | 6_3:-4643513 | None:intergenic |
| TCCTTGTGTTACCATCAAGT+TGG | 0.488291 | 6_3:-4643670 | None:intergenic |
| CGTGCTCAATTCCCTGTTGG+TGG | 0.544713 | 6_3:+4643336 | Msa0934680:CDS |
| GTTATACAATTGATCGGTGG+TGG | 0.566006 | 6_3:+4643627 | Msa0934680:CDS |
| CTAATTCTATGGATGCAACA+AGG | 0.571579 | 6_3:+4643604 | Msa0934680:CDS |
| GGTCCAATAATTCTTCACAA+TGG | 0.586783 | 6_3:-4643698 | None:intergenic |
| CAATGATCAATTGATAAGTA+GGG | 0.590328 | 6_3:-4643483 | None:intergenic |
| ACAAGGGTTATACAATTGAT+CGG | 0.617732 | 6_3:+4643621 | Msa0934680:CDS |
| TAATTCTATGGATGCAACAA+GGG | 0.625530 | 6_3:+4643605 | Msa0934680:CDS |
| ATGCGTGCTCAATTCCCTGT+TGG | 0.627603 | 6_3:+4643333 | Msa0934680:CDS |
| GATCGGTGGTGGCAATGCAA+TGG | 0.634656 | 6_3:+4643638 | Msa0934680:CDS |
| TCGAGTGCTACTAGAAGGAG+CGG | 0.637892 | 6_3:-4643508 | None:intergenic |
| GGGTTAATAGTAACATTACG+AGG | 0.645055 | 6_3:-4643555 | None:intergenic |
| CATCAAGACATCCACCAACA+GGG | 0.653135 | 6_3:-4643347 | None:intergenic |
| TGCTGATAAAGTAGTAACTG+AGG | 0.661688 | 6_3:+4643770 | Msa0934680:CDS |
| GGTTAATAGTAACATTACGA+GGG | 0.671173 | 6_3:-4643554 | None:intergenic |
| TCCAACTTGATGGTAACACA+AGG | 0.676070 | 6_3:+4643669 | Msa0934680:CDS |
| AGGGTTATACAATTGATCGG+TGG | 0.726517 | 6_3:+4643624 | Msa0934680:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTAATTATTATTATTTTT+TGG | + | chr6_3:4643812-4643831 | Msa0934680:intron | 0.0% |
| !!! | TTTAATTATTATTATTTTTT+GGG | + | chr6_3:4643813-4643832 | Msa0934680:intron | 0.0% |
| !!! | TAGTACAAATTTTGATTTAA+GGG | + | chr6_3:4643728-4643747 | Msa0934680:CDS | 15.0% |
| !! | TAAAGATATGTAATTAATGA+AGG | - | chr6_3:4643931-4643950 | None:intergenic | 15.0% |
| !! | TACATATCTTTAATCAATAT+AGG | + | chr6_3:4643939-4643958 | Msa0934680:intron | 15.0% |
| !! | GATGTTATTATGATGTATTA+TGG | + | chr6_3:4643366-4643385 | Msa0934680:CDS | 20.0% |
| !!! | ATTAGTTTCAAAGTTTTGTT+TGG | - | chr6_3:4643589-4643608 | None:intergenic | 20.0% |
| !!! | AAACTTTGAAACTAATTCTA+TGG | + | chr6_3:4643593-4643612 | Msa0934680:CDS | 20.0% |
| !!! | GTAGTACAAATTTTGATTTA+AGG | + | chr6_3:4643727-4643746 | Msa0934680:CDS | 20.0% |
| ! | ATTCTTACTAGATCATTGTA+AGG | + | chr6_3:4643428-4643447 | Msa0934680:CDS | 25.0% |
| ! | CAATGATCAATTGATAAGTA+GGG | - | chr6_3:4643486-4643505 | None:intergenic | 25.0% |
| ! | ACAATGATCAATTGATAAGT+AGG | - | chr6_3:4643487-4643506 | None:intergenic | 25.0% |
| !!! | AGTTTTGTTTGGTATCAATT+GGG | - | chr6_3:4643578-4643597 | None:intergenic | 25.0% |
| !!! | AAGTTTTGTTTGGTATCAAT+TGG | - | chr6_3:4643579-4643598 | None:intergenic | 25.0% |
| ! | ATTCCATTGTGAAGAATTAT+TGG | + | chr6_3:4643695-4643714 | Msa0934680:CDS | 25.0% |
| ! | CAAAATTTGTACTACCATTA+AGG | - | chr6_3:4643722-4643741 | None:intergenic | 25.0% |
| !!! | AAATTTTGATTTAAGGGAAG+AGG | + | chr6_3:4643734-4643753 | Msa0934680:CDS | 25.0% |
| !!! | CAAGATTTTGTTGTTGCAAA+GGG | - | chr6_3:4643461-4643480 | None:intergenic | 30.0% |
| !!! | TCAAGATTTTGTTGTTGCAA+AGG | - | chr6_3:4643462-4643481 | None:intergenic | 30.0% |
| GGGATGTCATAATAAGAATT+CGG | - | chr6_3:4643537-4643556 | None:intergenic | 30.0% | |
| GGTTAATAGTAACATTACGA+GGG | - | chr6_3:4643557-4643576 | None:intergenic | 30.0% | |
| TAATTCTATGGATGCAACAA+GGG | + | chr6_3:4643605-4643624 | Msa0934680:CDS | 30.0% | |
| ACAAGGGTTATACAATTGAT+CGG | + | chr6_3:4643621-4643640 | Msa0934680:CDS | 30.0% | |
| GAAGAATTATTGGACCTTAA+TGG | + | chr6_3:4643705-4643724 | Msa0934680:CDS | 30.0% | |
| GGGTTAATAGTAACATTACG+AGG | - | chr6_3:4643558-4643577 | None:intergenic | 35.0% | |
| CTAATTCTATGGATGCAACA+AGG | + | chr6_3:4643604-4643623 | Msa0934680:CDS | 35.0% | |
| GGAAGAAAAATCCAACTTGA+TGG | + | chr6_3:4643659-4643678 | Msa0934680:CDS | 35.0% | |
| GGTCCAATAATTCTTCACAA+TGG | - | chr6_3:4643701-4643720 | None:intergenic | 35.0% | |
| TGCTGATAAAGTAGTAACTG+AGG | + | chr6_3:4643770-4643789 | Msa0934680:CDS | 35.0% | |
| AGGGTTATACAATTGATCGG+TGG | + | chr6_3:4643624-4643643 | Msa0934680:CDS | 40.0% | |
| GTTATACAATTGATCGGTGG+TGG | + | chr6_3:4643627-4643646 | Msa0934680:CDS | 40.0% | |
| ! | TCCAACTTGATGGTAACACA+AGG | + | chr6_3:4643669-4643688 | Msa0934680:CDS | 40.0% |
| TCCTTGTGTTACCATCAAGT+TGG | - | chr6_3:4643673-4643692 | None:intergenic | 40.0% | |
| CATCAAGACATCCACCAACA+GGG | - | chr6_3:4643350-4643369 | None:intergenic | 45.0% | |
| ACATCAAGACATCCACCAAC+AGG | - | chr6_3:4643351-4643370 | None:intergenic | 45.0% | |
| ATGCGTGCTCAATTCCCTGT+TGG | + | chr6_3:4643333-4643352 | Msa0934680:CDS | 50.0% | |
| ! | TCGAGTGCTACTAGAAGGAG+CGG | - | chr6_3:4643511-4643530 | None:intergenic | 50.0% |
| ! | GGAACTCGAGTGCTACTAGA+AGG | - | chr6_3:4643516-4643535 | None:intergenic | 50.0% |
| CGTGCTCAATTCCCTGTTGG+TGG | + | chr6_3:4643336-4643355 | Msa0934680:CDS | 55.0% | |
| ! | GATCGGTGGTGGCAATGCAA+TGG | + | chr6_3:4643638-4643657 | Msa0934680:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 4643294 | 4643999 | 4643294 | ID=Msa0934680;Name=Msa0934680 |
| chr6_3 | mRNA | 4643294 | 4643999 | 4643294 | ID=Msa0934680-mRNA-1;Parent=Msa0934680;Name=Msa0934680-mRNA-1;_AED=0.19;_eAED=0.19;_QI=0|0|0|0.5|1|1|2|0|178 |
| chr6_3 | exon | 4643294 | 4643791 | 4643294 | ID=Msa0934680-mRNA-1:exon:1450;Parent=Msa0934680-mRNA-1 |
| chr6_3 | exon | 4643961 | 4643999 | 4643961 | ID=Msa0934680-mRNA-1:exon:1451;Parent=Msa0934680-mRNA-1 |
| chr6_3 | CDS | 4643294 | 4643791 | 4643294 | ID=Msa0934680-mRNA-1:cds;Parent=Msa0934680-mRNA-1 |
| chr6_3 | CDS | 4643961 | 4643999 | 4643961 | ID=Msa0934680-mRNA-1:cds;Parent=Msa0934680-mRNA-1 |
| Gene Sequence |
| Protein sequence |
