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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0276080 | XP_013462831.1 | 94.268 | 157 | 8 | 1 | 1 | 157 | 1 | 156 | 3.92e-80 | 244 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0080990 | Msa0276080 | 0.819077 | 1.403366e-52 | -8.615850e-47 |
| Msa0156250 | Msa0276080 | 0.804433 | 2.165248e-49 | -8.615850e-47 |
| Msa0252770 | Msa0276080 | 0.801250 | 9.840558e-49 | -8.615850e-47 |
| Msa0276080 | Msa0329620 | 0.830620 | 2.651051e-55 | -8.615850e-47 |
| Msa0276080 | Msa0748000 | 0.818880 | 1.556049e-52 | -8.615850e-47 |
| Msa0276080 | Msa0999300 | 0.807704 | 4.437799e-50 | -8.615850e-47 |
| Msa0276080 | Msa1379970 | 0.832430 | 9.496888e-56 | -8.615850e-47 |
| Msa0276080 | Msa1406780 | 0.800213 | 1.601393e-48 | -8.615850e-47 |
| Msa0276080 | Msa1431850 | 0.804413 | 2.185843e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0276080 | MtrunA17_Chr2g0288501 | 94.268 | 157 | 8 | 1 | 1 | 157 | 1 | 156 | 3.61e-84 | 244 |
| Msa0276080 | MtrunA17_Chr3g0099101 | 40.000 | 180 | 67 | 6 | 18 | 157 | 20 | 198 | 1.53e-30 | 109 |
| Msa0276080 | MtrunA17_Chr2g0326661 | 53.488 | 86 | 32 | 2 | 74 | 155 | 73 | 154 | 1.06e-21 | 85.5 |
| Msa0276080 | MtrunA17_Chr4g0074781 | 36.646 | 161 | 79 | 6 | 10 | 155 | 22 | 174 | 5.19e-21 | 84.3 |
| Msa0276080 | MtrunA17_Chr4g0029031 | 50.549 | 91 | 38 | 2 | 68 | 155 | 71 | 157 | 2.02e-20 | 82.4 |
| Msa0276080 | MtrunA17_Chr7g0264131 | 38.255 | 149 | 71 | 4 | 13 | 155 | 25 | 158 | 1.16e-17 | 75.1 |
| Msa0276080 | MtrunA17_Chr2g0288341 | 45.263 | 95 | 45 | 2 | 65 | 155 | 125 | 216 | 9.25e-17 | 73.9 |
| Msa0276080 | MtrunA17_Chr2g0285141 | 49.398 | 83 | 34 | 3 | 75 | 157 | 52 | 126 | 2.64e-16 | 70.9 |
| Msa0276080 | MtrunA17_Chr2g0321611 | 39.535 | 86 | 49 | 1 | 75 | 157 | 170 | 255 | 1.96e-15 | 71.2 |
| Msa0276080 | MtrunA17_Chr7g0266691 | 60.417 | 48 | 19 | 0 | 110 | 157 | 170 | 217 | 7.56e-14 | 66.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0276080 | AT4G04630.1 | 55.195 | 154 | 50 | 4 | 16 | 157 | 22 | 168 | 1.44e-40 | 134 |
| Msa0276080 | AT4G21970.1 | 67.816 | 87 | 25 | 1 | 74 | 157 | 59 | 145 | 1.61e-37 | 126 |
| Msa0276080 | AT3G45210.1 | 50.617 | 81 | 33 | 3 | 77 | 157 | 75 | 148 | 1.71e-21 | 85.1 |
| Msa0276080 | AT3G15040.1 | 46.364 | 110 | 48 | 3 | 56 | 157 | 137 | 243 | 2.44e-19 | 81.6 |
| Msa0276080 | AT1G11700.1 | 49.425 | 87 | 38 | 3 | 74 | 155 | 114 | 199 | 5.10e-18 | 77.4 |
| Msa0276080 | AT2G28400.1 | 45.556 | 90 | 37 | 2 | 74 | 155 | 75 | 160 | 8.14e-18 | 75.9 |
| Msa0276080 | AT1G29640.1 | 46.512 | 86 | 33 | 4 | 74 | 157 | 65 | 139 | 5.20e-17 | 73.2 |
| Msa0276080 | AT2G34340.1 | 45.349 | 86 | 42 | 3 | 74 | 157 | 53 | 135 | 4.85e-16 | 70.9 |
| Msa0276080 | AT5G60680.1 | 51.163 | 86 | 31 | 3 | 77 | 155 | 80 | 161 | 5.24e-16 | 71.2 |
| Msa0276080 | AT4G26950.1 | 38.356 | 146 | 70 | 5 | 18 | 157 | 13 | 144 | 5.58e-16 | 70.9 |
| Msa0276080 | AT4G26950.2 | 38.356 | 146 | 70 | 5 | 18 | 157 | 13 | 144 | 5.58e-16 | 70.9 |
| Msa0276080 | AT1G61930.1 | 46.067 | 89 | 40 | 3 | 74 | 155 | 114 | 201 | 1.97e-15 | 70.5 |
| Msa0276080 | AT4G21930.1 | 40.659 | 91 | 43 | 3 | 74 | 155 | 93 | 181 | 1.07e-14 | 68.2 |
| Msa0276080 | AT5G03230.1 | 45.055 | 91 | 36 | 2 | 75 | 155 | 78 | 164 | 3.85e-14 | 66.6 |
Find 30 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTGATTGGTCAAAAGTTTA+TGG | 0.133639 | 2_3:+8287541 | Msa0276080:CDS |
| GAAGATGTATGGGGTGATTT+TGG | 0.274037 | 2_3:+8287370 | Msa0276080:CDS |
| CTACTCAATGAAGCCAGTTT+TGG | 0.325619 | 2_3:-8287752 | None:intergenic |
| ATCAATAGCAATGGCAGATT+GGG | 0.395782 | 2_3:+8287291 | None:intergenic |
| AAAGGTAGTGTATTAGCCTT+TGG | 0.400912 | 2_3:-8287466 | None:intergenic |
| CATCAATAGCAATGGCAGAT+TGG | 0.420909 | 2_3:+8287290 | None:intergenic |
| GACCAATCAGGAATGTTGAT+AGG | 0.429178 | 2_3:-8287529 | None:intergenic |
| GCTGAAGAACCTTCAACAAA+AGG | 0.453707 | 2_3:-8287505 | None:intergenic |
| CATCTTTCTCTGTGTGTGAA+GGG | 0.455421 | 2_3:+8287674 | Msa0276080:CDS |
| TCATCTTTCTCTGTGTGTGA+AGG | 0.455817 | 2_3:+8287673 | Msa0276080:CDS |
| GGAGAGATCTTAGCAAAGTA+AGG | 0.467275 | 2_3:+8287716 | Msa0276080:CDS |
| AGAAGAGCTAGAGAAATCCT+TGG | 0.484917 | 2_3:-8287416 | None:intergenic |
| CTCCTATCAACATTCCTGAT+TGG | 0.492143 | 2_3:+8287527 | Msa0276080:CDS |
| AAAGATCAAAAGGGCTTCCA+AGG | 0.493591 | 2_3:+8287399 | Msa0276080:CDS |
| TTTCTCTGTGTGTGAAGGGA+TGG | 0.495055 | 2_3:+8287678 | Msa0276080:CDS |
| ACATGGTTCCTCCACATGAA+TGG | 0.496619 | 2_3:+8287620 | Msa0276080:CDS |
| GGATGGGAAGGACACTCAAA+GGG | 0.524297 | 2_3:+8287695 | Msa0276080:CDS |
| TTCTCTGTGTGTGAAGGGAT+GGG | 0.526082 | 2_3:+8287679 | Msa0276080:CDS |
| GGGATGGGAAGGACACTCAA+AGG | 0.527522 | 2_3:+8287694 | Msa0276080:CDS |
| CTGAAGAACCTTCAACAAAA+GGG | 0.533366 | 2_3:-8287504 | None:intergenic |
| GGGTCATCAGAAACAACAAA+AGG | 0.552733 | 2_3:-8287484 | None:intergenic |
| CTCCACATGAATGGATTGCT+AGG | 0.570946 | 2_3:+8287629 | Msa0276080:CDS |
| GATGAAGATTGTGATGAGGA+TGG | 0.603858 | 2_3:+8287595 | Msa0276080:CDS |
| CTAGCAATCCATTCATGTGG+AGG | 0.623571 | 2_3:-8287628 | None:intergenic |
| GGATTGCTAGGAAGCTTGCA+AGG | 0.624490 | 2_3:+8287641 | Msa0276080:CDS |
| CTGTGTGTGAAGGGATGGGA+AGG | 0.653389 | 2_3:+8287683 | Msa0276080:CDS |
| TTCCTAGCAATCCATTCATG+TGG | 0.655740 | 2_3:-8287631 | None:intergenic |
| TGATGATGAAGATTGTGATG+AGG | 0.666590 | 2_3:+8287591 | Msa0276080:CDS |
| TTGTGATGAGGATGGTGACA+TGG | 0.673612 | 2_3:+8287603 | Msa0276080:CDS |
| TTTGATGAAGAAGATGTATG+GGG | 0.717521 | 2_3:+8287361 | Msa0276080:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATGTAGAAAAAATATTCCAA+AGG | + | chr2_3:8287450-8287469 | Msa0276080:CDS | 20.0% |
| !!! | ATTTTGATGAAGAAGATGTA+TGG | + | chr2_3:8287359-8287378 | Msa0276080:CDS | 25.0% |
| !! | TTTTGATGAAGAAGATGTAT+GGG | + | chr2_3:8287360-8287379 | Msa0276080:CDS | 25.0% |
| !!! | AATATTTTTTCTACATGCAG+AGG | - | chr2_3:8287446-8287465 | None:intergenic | 25.0% |
| ! | TATGGTAAGAATAGCAAAAA+TGG | + | chr2_3:8287559-8287578 | Msa0276080:CDS | 25.0% |
| GAACAAAAACACTTCATCAA+AGG | + | chr2_3:8287324-8287343 | Msa0276080:CDS | 30.0% | |
| TTTGATGAAGAAGATGTATG+GGG | + | chr2_3:8287361-8287380 | Msa0276080:CDS | 30.0% | |
| TTGGCTCAAAAAAGATCAAA+AGG | + | chr2_3:8287389-8287408 | Msa0276080:CDS | 30.0% | |
| TGGCTCAAAAAAGATCAAAA+GGG | + | chr2_3:8287390-8287409 | Msa0276080:CDS | 30.0% | |
| !!! | AATGCTATTTTGACCAAAAC+TGG | + | chr2_3:8287739-8287758 | Msa0276080:CDS | 30.0% |
| !! | AAAGGTAGTGTATTAGCCTT+TGG | - | chr2_3:8287469-8287488 | None:intergenic | 35.0% |
| CTGAAGAACCTTCAACAAAA+GGG | - | chr2_3:8287507-8287526 | None:intergenic | 35.0% | |
| ! | CCATAAACTTTTGACCAATC+AGG | - | chr2_3:8287544-8287563 | None:intergenic | 35.0% |
| ! | CCTGATTGGTCAAAAGTTTA+TGG | + | chr2_3:8287541-8287560 | Msa0276080:CDS | 35.0% |
| GGTAAGAATAGCAAAAATGG+TGG | + | chr2_3:8287562-8287581 | Msa0276080:CDS | 35.0% | |
| ! | TGATGATGAAGATTGTGATG+AGG | + | chr2_3:8287591-8287610 | Msa0276080:CDS | 35.0% |
| ! | GAAGATGTATGGGGTGATTT+TGG | + | chr2_3:8287370-8287389 | Msa0276080:CDS | 40.0% |
| AAAGATCAAAAGGGCTTCCA+AGG | + | chr2_3:8287399-8287418 | Msa0276080:CDS | 40.0% | |
| AGAAGAGCTAGAGAAATCCT+TGG | - | chr2_3:8287419-8287438 | None:intergenic | 40.0% | |
| GGGTCATCAGAAACAACAAA+AGG | - | chr2_3:8287487-8287506 | None:intergenic | 40.0% | |
| ! | TCTGATGACCCTTTTGTTGA+AGG | + | chr2_3:8287496-8287515 | Msa0276080:CDS | 40.0% |
| GCTGAAGAACCTTCAACAAA+AGG | - | chr2_3:8287508-8287527 | None:intergenic | 40.0% | |
| CTCCTATCAACATTCCTGAT+TGG | + | chr2_3:8287527-8287546 | Msa0276080:CDS | 40.0% | |
| GACCAATCAGGAATGTTGAT+AGG | - | chr2_3:8287532-8287551 | None:intergenic | 40.0% | |
| GATGAAGATTGTGATGAGGA+TGG | + | chr2_3:8287595-8287614 | Msa0276080:CDS | 40.0% | |
| TTCCTAGCAATCCATTCATG+TGG | - | chr2_3:8287634-8287653 | None:intergenic | 40.0% | |
| TCATCTTTCTCTGTGTGTGA+AGG | + | chr2_3:8287673-8287692 | Msa0276080:CDS | 40.0% | |
| CATCTTTCTCTGTGTGTGAA+GGG | + | chr2_3:8287674-8287693 | Msa0276080:CDS | 40.0% | |
| GGAGAGATCTTAGCAAAGTA+AGG | + | chr2_3:8287716-8287735 | Msa0276080:CDS | 40.0% | |
| ! | CTACTCAATGAAGCCAGTTT+TGG | - | chr2_3:8287755-8287774 | None:intergenic | 40.0% |
| TTGTGATGAGGATGGTGACA+TGG | + | chr2_3:8287603-8287622 | Msa0276080:CDS | 45.0% | |
| ACATGGTTCCTCCACATGAA+TGG | + | chr2_3:8287620-8287639 | Msa0276080:CDS | 45.0% | |
| CTAGCAATCCATTCATGTGG+AGG | - | chr2_3:8287631-8287650 | None:intergenic | 45.0% | |
| !! | CTCCACATGAATGGATTGCT+AGG | + | chr2_3:8287629-8287648 | Msa0276080:CDS | 45.0% |
| TTTCTCTGTGTGTGAAGGGA+TGG | + | chr2_3:8287678-8287697 | Msa0276080:CDS | 45.0% | |
| TTCTCTGTGTGTGAAGGGAT+GGG | + | chr2_3:8287679-8287698 | Msa0276080:CDS | 45.0% | |
| GGATTGCTAGGAAGCTTGCA+AGG | + | chr2_3:8287641-8287660 | Msa0276080:CDS | 50.0% | |
| GGATGGGAAGGACACTCAAA+GGG | + | chr2_3:8287695-8287714 | Msa0276080:CDS | 50.0% | |
| CTGTGTGTGAAGGGATGGGA+AGG | + | chr2_3:8287683-8287702 | Msa0276080:CDS | 55.0% | |
| GGGATGGGAAGGACACTCAA+AGG | + | chr2_3:8287694-8287713 | Msa0276080:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 8287301 | 8287774 | 8287301 | ID=Msa0276080;Name=Msa0276080 |
| chr2_3 | mRNA | 8287301 | 8287774 | 8287301 | ID=Msa0276080-mRNA-1;Parent=Msa0276080;Name=Msa0276080-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|157 |
| chr2_3 | exon | 8287301 | 8287774 | 8287301 | ID=Msa0276080-mRNA-1:exon:3720;Parent=Msa0276080-mRNA-1 |
| chr2_3 | CDS | 8287301 | 8287774 | 8287301 | ID=Msa0276080-mRNA-1:cds;Parent=Msa0276080-mRNA-1 |
| Gene Sequence |
| Protein sequence |
