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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0145990 | sp|Q6Z1Y6|SNAT2_ORYSJ | 53.846 | 52 | 24 | 0 | 43 | 94 | 43 | 94 | 7.99e-12 | 64.7 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000610 | Msa0145990 | 0.832768 | 7.828483e-56 | -8.615850e-47 |
| Msa0000800 | Msa0145990 | -0.842436 | 2.589313e-58 | -8.615850e-47 |
| Msa0001040 | Msa0145990 | 0.815160 | 1.065605e-51 | -8.615850e-47 |
| Msa0001510 | Msa0145990 | 0.881581 | 2.131432e-70 | -8.615850e-47 |
| Msa0002110 | Msa0145990 | 0.882691 | 8.421854e-71 | -8.615850e-47 |
| Msa0002690 | Msa0145990 | 0.915109 | 8.692605e-85 | -8.615850e-47 |
| Msa0002700 | Msa0145990 | 0.914015 | 3.144262e-84 | -8.615850e-47 |
| Msa0003340 | Msa0145990 | 0.856276 | 3.589486e-62 | -8.615850e-47 |
| Msa0004180 | Msa0145990 | 0.938141 | 1.097518e-98 | -8.615850e-47 |
| Msa0004940 | Msa0145990 | -0.831448 | 1.660289e-55 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0145990 | MtrunA17_Chr1g0152491 | 92.632 | 95 | 5 | 2 | 2 | 96 | 1 | 93 | 3.06e-57 | 179 |
| Msa0145990 | MtrunA17_Chr7g0242971 | 56.923 | 65 | 27 | 1 | 120 | 183 | 2 | 66 | 2.25e-19 | 83.2 |
| Msa0145990 | MtrunA17_Chr8g0384791 | 33.333 | 96 | 58 | 3 | 98 | 188 | 118 | 212 | 6.15e-11 | 60.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0145990 | AT1G26220.1 | 51.456 | 103 | 38 | 4 | 2 | 96 | 1 | 99 | 2.61e-22 | 89.7 |
Find 38 sgRNAs with CRISPR-Local
Find 379 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATAGAAATAATAAGGTG+TGG | 0.583629 | 1_4:-5703388 | Msa0145990:CDS |
| AAATGGTGAGGTTTCGTAGT+GGG | 0.566008 | 1_4:+5711006 | None:intergenic |
| AACAAAGTATTCGTAGCAGT+AGG | 0.566118 | 1_4:-5710876 | Msa0145990:CDS |
| AAGTTAAGTCGTAGGGAGGA+TGG | 0.419412 | 1_4:+5711047 | None:intergenic |
| ACAAAGTATTCGTAGCAGTA+GGG | 0.561588 | 1_4:-5710875 | Msa0145990:CDS |
| ACTCGAGCACACTGACTCAA+TGG | 0.522170 | 1_4:-5710817 | Msa0145990:intron |
| AGTCGTAGGGAGGATGGAAG+AGG | 0.540218 | 1_4:+5711053 | None:intergenic |
| ATAAGGTGTGGAATGATATT+AGG | 0.315507 | 1_4:-5703376 | Msa0145990:CDS |
| ATACTTTGTTAAGTGCTTCT+AGG | 0.216082 | 1_4:+5710889 | None:intergenic |
| ATATTGAGAGTGGGTAGTCT+AGG | 0.541441 | 1_4:+5710970 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTTGAAGAAGTTAAGTCGTA+GGG | + | chr1_4:5703380-5703399 | None:intergenic | 30.0% | |
| ATTTGAAGAAGTTAAGTCGT+AGG | + | chr1_4:5703381-5703400 | None:intergenic | 30.0% | |
| ATACTTTGTTAAGTGCTTCT+AGG | + | chr1_4:5703531-5703550 | None:intergenic | 30.0% | |
| AACGACTATTATTTAGAGAC+GGG | + | chr1_4:5703911-5703930 | None:intergenic | 30.0% | |
| ATTAGTGTAAGTAGAATTGG+AGG | - | chr1_4:5704170-5704189 | Msa0145990:intron | 30.0% | |
| TATTGGGCCTAAATAGATTT+AGG | - | chr1_4:5704216-5704235 | Msa0145990:intron | 30.0% | |
| CACTCTTCCTAAATCTATTT+AGG | + | chr1_4:5704226-5704245 | None:intergenic | 30.0% | |
| CTTCTTTCTCCAAAAAAAAG+CGG | + | chr1_4:5704298-5704317 | None:intergenic | 30.0% | |
| ACAATAGTTTCCAAGATTAG+TGG | + | chr1_4:5705035-5705054 | None:intergenic | 30.0% | |
| GAGATATAAAAGGAATAGTC+TGG | - | chr1_4:5705321-5705340 | Msa0145990:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 5703334 | 5711105 | 5703334 | ID=Msa0145990;Name=Msa0145990 |
| chr1_4 | mRNA | 5703334 | 5711105 | 5703334 | ID=Msa0145990-mRNA-1;Parent=Msa0145990;Name=Msa0145990-mRNA-1;_AED=0.34;_eAED=0.34;_QI=0|0|0|0.5|1|1|2|0|197 |
| chr1_4 | exon | 5710818 | 5711105 | 5710818 | ID=Msa0145990-mRNA-1:exon:2450;Parent=Msa0145990-mRNA-1 |
| chr1_4 | exon | 5703334 | 5703639 | 5703334 | ID=Msa0145990-mRNA-1:exon:2449;Parent=Msa0145990-mRNA-1 |
| chr1_4 | CDS | 5710818 | 5711105 | 5710818 | ID=Msa0145990-mRNA-1:cds;Parent=Msa0145990-mRNA-1 |
| chr1_4 | CDS | 5703334 | 5703639 | 5703334 | ID=Msa0145990-mRNA-1:cds;Parent=Msa0145990-mRNA-1 |
| Gene Sequence |
>Msa0145990 ATGCTGCTCTTACGTGGCAACATCTATGCTCCTCTTCCATCCTCCCTACGACTTAACTTCTTCAAATCACAAACTCACCCACTACGAAACCTCACCATTTCTTGTCAAGCAAGCCTAGACTACCCACTCTCAATATCCGACGAAACCCTAGAAAAGCGAGGTTTCATTCTCCGCCGAACCGCAGAGGGGTTAAACCTAGAAGCACTTAACAAAGTATTCGTAGCAGTAGGGTTTCCGCGGCGCGACCCTGAGAAAATACGCATTGCACTCGAGCACACTGACTCAATGAGTAAGGGCATGCAATGTCTGGCTGACTGTGATGAACAAGATGAGGATTCTATGCATTTATTCTTTGCTTGTGCTAAAAGTGTTGTTCGTTGGCAGCATACTGGATTGTGGCAGTCTATCCTGACTAGTTTGGATAATTCCATCTTTACTTTGAATGTTTTTGCTGTTTTGCAACATCTTGATGGCCAAGAAAAACATGTTTTTGGGGTCACCTTATGGAACATTTGGAAAAATAGAAATAATAAGGTGTGGAATGATATTAGGAATCTGCAGAGACCACCTGTGAGTGTGCATGAATGTTGTTAA |
| Protein sequence |
>Msa0145990 MLLLRGNIYAPLPSSLRLNFFKSQTHPLRNLTISCQASLDYPLSISDETLEKRGFILRRTAEGLNLEALNKVFVAVGFPRRDPEKIRIALEHTDSMSKGMQCLADCDEQDEDSMHLFFACAKSVVRWQHTGLWQSILTSLDNSIFTLNVFAVLQHLDGQEKHVFGVTLWNIWKNRNNKVWNDIRNLQRPPVSVHECC* |
