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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0904460 | XP_013450910.2 | 89.423 | 208 | 22 | 0 | 1 | 208 | 1 | 208 | 1.16e-133 | 385 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0904460 | sp|Q9STS6|LBD27_ARATH | 51.471 | 68 | 32 | 1 | 1 | 68 | 64 | 130 | 1.13e-12 | 69.3 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|---|---|
| Msa0904460 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0904460 | MtrunA17_Chr6g0452661 | 89.423 | 208 | 22 | 0 | 1 | 208 | 37 | 244 | 3.97e-137 | 385 |
| Msa0904460 | MtrunA17_Chr5g0439111 | 48.792 | 207 | 88 | 5 | 1 | 198 | 37 | 234 | 3.02e-38 | 133 |
| Msa0904460 | MtrunA17_Chr6g0452691 | 58.261 | 115 | 48 | 0 | 2 | 116 | 38 | 152 | 1.39e-37 | 129 |
| Msa0904460 | MtrunA17_Chr4g0055441 | 44.654 | 159 | 46 | 3 | 1 | 158 | 30 | 147 | 4.41e-31 | 112 |
| Msa0904460 | MtrunA17_Chr6g0452671 | 52.727 | 110 | 51 | 1 | 1 | 110 | 39 | 147 | 1.93e-30 | 112 |
| Msa0904460 | MtrunA17_Chr6g0449311 | 49.600 | 125 | 51 | 2 | 1 | 116 | 1 | 122 | 8.93e-28 | 103 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0904460 | AT3G47870.1 | 51.471 | 68 | 32 | 1 | 1 | 68 | 64 | 130 | 1.15e-13 | 69.3 |
| Msa0904460 | AT3G26660.1 | 33.784 | 74 | 48 | 1 | 2 | 75 | 34 | 106 | 9.66e-13 | 63.5 |
| Msa0904460 | AT3G26620.1 | 33.784 | 74 | 48 | 1 | 2 | 75 | 34 | 106 | 1.57e-12 | 62.8 |
Find 36 sgRNAs with CRISPR-Local
Find 39 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTATATTAAAATCCGAATT+AGG | 0.233663 | 6_2:+2101538 | None:intergenic |
| GAAGATACTAAACGAAATTA+AGG | 0.321068 | 6_2:-2102094 | Msa0904460:CDS |
| AAACTTGAATATAAATTCTA+TGG | 0.323327 | 6_2:-2101719 | Msa0904460:CDS |
| TACTAATGAATTACCTAATT+CGG | 0.323845 | 6_2:-2101551 | Msa0904460:CDS |
| GAGAGTTAAAGCAATTAAAA+TGG | 0.339508 | 6_2:-2101945 | Msa0904460:CDS |
| ATTGGACGATAATGAAGATT+TGG | 0.353325 | 6_2:-2101635 | Msa0904460:CDS |
| ACACCAAGACATCCATGAAT+TGG | 0.373425 | 6_2:+2102006 | None:intergenic |
| CACAAGTTCATCTATAGTAT+TGG | 0.373526 | 6_2:+2101507 | None:intergenic |
| AAATTAGAACAACGTTTGAT+TGG | 0.398339 | 6_2:-2101597 | Msa0904460:CDS |
| GGACAATGTCAAATTAGAAT+TGG | 0.421588 | 6_2:-2101653 | Msa0904460:CDS |
| GGTGATGCTCATCGTTTGTT+TGG | 0.422880 | 6_2:-2102132 | Msa0904460:CDS |
| TTTCCAATTCATGGATGTCT+TGG | 0.430724 | 6_2:-2102009 | Msa0904460:CDS |
| AATTAGAACAACGTTTGATT+GGG | 0.456356 | 6_2:-2101596 | Msa0904460:CDS |
| GGTGTTATTCATATGTATGC+AGG | 0.474469 | 6_2:-2101988 | Msa0904460:CDS |
| AACACTTGAAAACTAGTAGA+AGG | 0.479558 | 6_2:+2101862 | None:intergenic |
| TTGAAAACTAGTAGAAGGTA+TGG | 0.492432 | 6_2:+2101867 | None:intergenic |
| TTTAACAATTATAGTGATGT+TGG | 0.493308 | 6_2:-2101841 | Msa0904460:CDS |
| ATATAAATTCTATGGATACA+AGG | 0.500818 | 6_2:-2101711 | Msa0904460:CDS |
| GCCGATAAACCAAAGATGTT+CGG | 0.515100 | 6_2:-2102153 | None:intergenic |
| TAGAACAACGTTTGATTGGG+AGG | 0.515464 | 6_2:-2101593 | Msa0904460:CDS |
| AGAGAATTATTAACATCATG+AGG | 0.523658 | 6_2:+2101751 | None:intergenic |
| AATTTGACATTGTCCCCACC+AGG | 0.540239 | 6_2:+2101661 | None:intergenic |
| TCACTAACATAAGAAGAAGA+TGG | 0.561786 | 6_2:+2101781 | None:intergenic |
| AATACTATAGATGAACTTGT+GGG | 0.564247 | 6_2:-2101505 | Msa0904460:CDS |
| CAATACTATAGATGAACTTG+TGG | 0.567646 | 6_2:-2101506 | Msa0904460:CDS |
| GAGAATTATTAACATCATGA+GGG | 0.570604 | 6_2:+2101752 | None:intergenic |
| TATAAATTCTATGGATACAA+GGG | 0.572771 | 6_2:-2101710 | Msa0904460:CDS |
| ATTATTAACATCATGAGGGG+TGG | 0.592676 | 6_2:+2101756 | None:intergenic |
| TTGAGTGGTGATAACAATCC+TGG | 0.603575 | 6_2:-2101679 | Msa0904460:CDS |
| ATACTAAACGAAATTAAGGA+TGG | 0.622219 | 6_2:-2102090 | Msa0904460:CDS |
| ACAAGGGTTGCGAAATTGAG+TGG | 0.626304 | 6_2:-2101694 | Msa0904460:CDS |
| AGAATTATTAACATCATGAG+GGG | 0.631491 | 6_2:+2101753 | None:intergenic |
| GATGCATCTGAATTCAACAC+AGG | 0.655939 | 6_2:-2101478 | Msa0904460:CDS |
| GTGGTGATAACAATCCTGGT+GGG | 0.677314 | 6_2:-2101675 | Msa0904460:CDS |
| AGTGGTGATAACAATCCTGG+TGG | 0.728841 | 6_2:-2101676 | Msa0904460:CDS |
| TGGTGATAACAATCCTGGTG+GGG | 0.737923 | 6_2:-2101674 | Msa0904460:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAACTTGAATATAAATTCTA+TGG | - | chr6_2:2101878-2101897 | Msa0904460:CDS | 15.0% |
| !!! | AAAGATTTTGTTGTTGTAAA+TGG | + | chr6_2:2101704-2101723 | None:intergenic | 20.0% |
| !! | TTTAACAATTATAGTGATGT+TGG | - | chr6_2:2101756-2101775 | Msa0904460:CDS | 20.0% |
| !! | ATATAAATTCTATGGATACA+AGG | - | chr6_2:2101886-2101905 | Msa0904460:CDS | 20.0% |
| !! | TATAAATTCTATGGATACAA+GGG | - | chr6_2:2101887-2101906 | Msa0904460:CDS | 20.0% |
| !! | TACTAATGAATTACCTAATT+CGG | - | chr6_2:2102046-2102065 | Msa0904460:CDS | 20.0% |
| !! | TCTATATTAAAATCCGAATT+AGG | + | chr6_2:2102062-2102081 | None:intergenic | 20.0% |
| ! | GAAGATACTAAACGAAATTA+AGG | - | chr6_2:2101503-2101522 | Msa0904460:CDS | 25.0% |
| ! | ATACTAAACGAAATTAAGGA+TGG | - | chr6_2:2101507-2101526 | Msa0904460:CDS | 25.0% |
| ! | GAGAGTTAAAGCAATTAAAA+TGG | - | chr6_2:2101652-2101671 | Msa0904460:CDS | 25.0% |
| ! | AGAATTATTAACATCATGAG+GGG | + | chr6_2:2101847-2101866 | None:intergenic | 25.0% |
| ! | GAGAATTATTAACATCATGA+GGG | + | chr6_2:2101848-2101867 | None:intergenic | 25.0% |
| ! | AGAGAATTATTAACATCATG+AGG | + | chr6_2:2101849-2101868 | None:intergenic | 25.0% |
| ! | AAATTAGAACAACGTTTGAT+TGG | - | chr6_2:2102000-2102019 | Msa0904460:CDS | 25.0% |
| ! | AATTAGAACAACGTTTGATT+GGG | - | chr6_2:2102001-2102020 | Msa0904460:CDS | 25.0% |
| !!! | CGGATTTTAATATAGATGAA+TGG | - | chr6_2:2102066-2102085 | Msa0904460:CDS | 25.0% |
| ! | AATACTATAGATGAACTTGT+GGG | - | chr6_2:2102092-2102111 | Msa0904460:CDS | 25.0% |
| TTGAAAACTAGTAGAAGGTA+TGG | + | chr6_2:2101733-2101752 | None:intergenic | 30.0% | |
| AACACTTGAAAACTAGTAGA+AGG | + | chr6_2:2101738-2101757 | None:intergenic | 30.0% | |
| TCACTAACATAAGAAGAAGA+TGG | + | chr6_2:2101819-2101838 | None:intergenic | 30.0% | |
| GGACAATGTCAAATTAGAAT+TGG | - | chr6_2:2101944-2101963 | Msa0904460:CDS | 30.0% | |
| ATTGGACGATAATGAAGATT+TGG | - | chr6_2:2101962-2101981 | Msa0904460:CDS | 30.0% | |
| CACAAGTTCATCTATAGTAT+TGG | + | chr6_2:2102093-2102112 | None:intergenic | 30.0% | |
| CAATACTATAGATGAACTTG+TGG | - | chr6_2:2102091-2102110 | Msa0904460:CDS | 30.0% | |
| ! | CGTGCAAATTTTCCAATTCA+TGG | - | chr6_2:2101579-2101598 | Msa0904460:CDS | 35.0% |
| TTTCCAATTCATGGATGTCT+TGG | - | chr6_2:2101588-2101607 | Msa0904460:CDS | 35.0% | |
| !! | GGTGTTATTCATATGTATGC+AGG | - | chr6_2:2101609-2101628 | Msa0904460:CDS | 35.0% |
| ATTATTAACATCATGAGGGG+TGG | + | chr6_2:2101844-2101863 | None:intergenic | 35.0% | |
| TTTGATTGGGAGGAAAAAGA+AGG | - | chr6_2:2102014-2102033 | Msa0904460:CDS | 35.0% | |
| ACACCAAGACATCCATGAAT+TGG | + | chr6_2:2101594-2101613 | None:intergenic | 40.0% | |
| TTGAGTGGTGATAACAATCC+TGG | - | chr6_2:2101918-2101937 | Msa0904460:CDS | 40.0% | |
| TAGAACAACGTTTGATTGGG+AGG | - | chr6_2:2102004-2102023 | Msa0904460:CDS | 40.0% | |
| GATGCATCTGAATTCAACAC+AGG | - | chr6_2:2102119-2102138 | Msa0904460:CDS | 40.0% | |
| GGTGATGCTCATCGTTTGTT+TGG | - | chr6_2:2101465-2101484 | Msa0904460:CDS | 45.0% | |
| ACAAGGGTTGCGAAATTGAG+TGG | - | chr6_2:2101903-2101922 | Msa0904460:CDS | 45.0% | |
| AGTGGTGATAACAATCCTGG+TGG | - | chr6_2:2101921-2101940 | Msa0904460:CDS | 45.0% | |
| GTGGTGATAACAATCCTGGT+GGG | - | chr6_2:2101922-2101941 | Msa0904460:CDS | 45.0% | |
| TGGTGATAACAATCCTGGTG+GGG | - | chr6_2:2101923-2101942 | Msa0904460:CDS | 45.0% | |
| AATTTGACATTGTCCCCACC+AGG | + | chr6_2:2101939-2101958 | None:intergenic | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_2 | gene | 2101459 | 2102160 | 2101459 | ID=Msa0904460;Name=Msa0904460 |
| chr6_2 | mRNA | 2101459 | 2102160 | 2101459 | ID=Msa0904460-mRNA-1;Parent=Msa0904460;Name=Msa0904460-mRNA-1;_AED=0.31;_eAED=0.31;_QI=0|-1|0|1|-1|1|1|0|233 |
| chr6_2 | exon | 2101459 | 2102160 | 2101459 | ID=Msa0904460-mRNA-1:exon:697;Parent=Msa0904460-mRNA-1 |
| chr6_2 | CDS | 2101459 | 2102160 | 2101459 | ID=Msa0904460-mRNA-1:cds;Parent=Msa0904460-mRNA-1 |
| Gene Sequence |
| Protein sequence |
