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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0170970 | XP_013468843.1 | 82.609 | 69 | 11 | 1 | 13 | 81 | 15 | 82 | 1.41e-28 | 109 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0170970 | A0A072VXV9 | 82.609 | 69 | 11 | 1 | 13 | 81 | 15 | 82 | 6.71e-29 | 109 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0170970 | Msa1458550 | 0.810037 | 1.406595e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0170970 | MtrunA17_Chr1g0188791 | 82.609 | 69 | 11 | 1 | 13 | 81 | 15 | 82 | 1.29e-32 | 109 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 23 sgRNAs with CRISPR-Local
Find 26 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACCTATGCTTCTGGTTC+TGG | 0.247087 | 1_4:-55452602 | None:intergenic |
| CCAAATCAATCCGATTCTTA+TGG | 0.252356 | 1_4:-55452336 | None:intergenic |
| ATAATTAAAACCTATGCTTC+TGG | 0.329492 | 1_4:-55452608 | None:intergenic |
| CAAATCAATCCGATTCTTAT+GGG | 0.373950 | 1_4:-55452335 | None:intergenic |
| CCATAAGAATCGGATTGATT+TGG | 0.397964 | 1_4:+55452336 | Msa0170970:five_prime_UTR |
| ATTCCCTTCGAGTGGGTAAT+CGG | 0.403183 | 1_4:+55452629 | Msa0170970:CDS |
| TGAAATTGAAGCAGAAATGT+AGG | 0.423767 | 1_4:+55452542 | Msa0170970:intron |
| TTGACGAGAGGGTCTTGAGC+AGG | 0.477747 | 1_4:-55452679 | None:intergenic |
| TATCACCATCATCAATTTCG+CGG | 0.480081 | 1_4:+55452569 | Msa0170970:CDS |
| AAAACAGCGCCCATAAGAAT+CGG | 0.507763 | 1_4:+55452326 | None:intergenic |
| TCTTCAATTGTCATGCACTC+AGG | 0.530095 | 1_4:+55452444 | Msa0170970:CDS |
| CGACTCCGCGAAATTGATGA+TGG | 0.562731 | 1_4:-55452574 | None:intergenic |
| TGACAGCTTCTTTGACGAGA+GGG | 0.564005 | 1_4:-55452690 | None:intergenic |
| CTAGTGTGGTTGTTGCGAGT+TGG | 0.564745 | 1_4:+55452371 | Msa0170970:five_prime_UTR |
| TTTAATTATTCCCTTCGAGT+GGG | 0.566584 | 1_4:+55452622 | Msa0170970:CDS |
| GGTAGCTGCTACTGCTAGTG+TGG | 0.587283 | 1_4:+55452357 | Msa0170970:five_prime_UTR |
| TGAGTGCATGACAATTGAAG+AGG | 0.605166 | 1_4:-55452442 | None:intergenic |
| TCTCGTCAAAGAAGCTGTCA+AGG | 0.609141 | 1_4:+55452693 | Msa0170970:CDS |
| GACTCCGATTACCCACTCGA+AGG | 0.630206 | 1_4:-55452633 | None:intergenic |
| TTGACAGCTTCTTTGACGAG+AGG | 0.633404 | 1_4:-55452691 | None:intergenic |
| ACTCCGATTACCCACTCGAA+GGG | 0.634328 | 1_4:-55452632 | None:intergenic |
| ATCACCAGAACCAGAAGCAT+AGG | 0.634601 | 1_4:+55452598 | Msa0170970:CDS |
| GTTGTTGCGAGTTGGAACAG+AGG | 0.730829 | 1_4:+55452379 | Msa0170970:five_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AGGAATAATAGTAATAATAA+CGG | - | chr1_4:55452471-55452490 | None:intergenic | 15.0% |
| ! | ATAATTAAAACCTATGCTTC+TGG | - | chr1_4:55452611-55452630 | None:intergenic | 25.0% |
| CAAATCAATCCGATTCTTAT+GGG | - | chr1_4:55452338-55452357 | None:intergenic | 30.0% | |
| TTCCTCTTTCTTACTCTTTA+TGG | + | chr1_4:55452486-55452505 | Msa0170970:intron | 30.0% | |
| AACCATAAAGAGTAAGAAAG+AGG | - | chr1_4:55452491-55452510 | None:intergenic | 30.0% | |
| TGAAATTGAAGCAGAAATGT+AGG | + | chr1_4:55452542-55452561 | Msa0170970:intron | 30.0% | |
| !! | TTTTAATTATTCCCTTCGAG+TGG | + | chr1_4:55452621-55452640 | Msa0170970:CDS | 30.0% |
| TTTAATTATTCCCTTCGAGT+GGG | + | chr1_4:55452622-55452641 | Msa0170970:CDS | 30.0% | |
| CCAAATCAATCCGATTCTTA+TGG | - | chr1_4:55452339-55452358 | None:intergenic | 35.0% | |
| CCATAAGAATCGGATTGATT+TGG | + | chr1_4:55452336-55452355 | Msa0170970:five_prime_UTR | 35.0% | |
| TATCACCATCATCAATTTCG+CGG | + | chr1_4:55452569-55452588 | Msa0170970:CDS | 35.0% | |
| TGAGTGCATGACAATTGAAG+AGG | - | chr1_4:55452445-55452464 | None:intergenic | 40.0% | |
| TCTTCAATTGTCATGCACTC+AGG | + | chr1_4:55452444-55452463 | Msa0170970:CDS | 40.0% | |
| !! | AAAACCTATGCTTCTGGTTC+TGG | - | chr1_4:55452605-55452624 | None:intergenic | 40.0% |
| ! | ATCACCAGAACCAGAAGCAT+AGG | + | chr1_4:55452598-55452617 | Msa0170970:CDS | 45.0% |
| ATTCCCTTCGAGTGGGTAAT+CGG | + | chr1_4:55452629-55452648 | Msa0170970:CDS | 45.0% | |
| TGACAGCTTCTTTGACGAGA+GGG | - | chr1_4:55452693-55452712 | None:intergenic | 45.0% | |
| TTGACAGCTTCTTTGACGAG+AGG | - | chr1_4:55452694-55452713 | None:intergenic | 45.0% | |
| TCTCGTCAAAGAAGCTGTCA+AGG | + | chr1_4:55452693-55452712 | Msa0170970:CDS | 45.0% | |
| CTAGTGTGGTTGTTGCGAGT+TGG | + | chr1_4:55452371-55452390 | Msa0170970:five_prime_UTR | 50.0% | |
| ! | GTTGTTGCGAGTTGGAACAG+AGG | + | chr1_4:55452379-55452398 | Msa0170970:five_prime_UTR | 50.0% |
| CGACTCCGCGAAATTGATGA+TGG | - | chr1_4:55452577-55452596 | None:intergenic | 50.0% | |
| ACTCCGATTACCCACTCGAA+GGG | - | chr1_4:55452635-55452654 | None:intergenic | 50.0% | |
| GGTAGCTGCTACTGCTAGTG+TGG | + | chr1_4:55452357-55452376 | Msa0170970:five_prime_UTR | 55.0% | |
| GACTCCGATTACCCACTCGA+AGG | - | chr1_4:55452636-55452655 | None:intergenic | 55.0% | |
| TTGACGAGAGGGTCTTGAGC+AGG | - | chr1_4:55452682-55452701 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 55452333 | 55452753 | 55452333 | ID=Msa0170970;Name=Msa0170970 |
| chr1_4 | mRNA | 55452333 | 55452753 | 55452333 | ID=Msa0170970-mRNA-1;Parent=Msa0170970;Name=Msa0170970-mRNA-1;_AED=0.04;_eAED=0.04;_QI=79|1|0.5|1|1|1|2|0|84 |
| chr1_4 | exon | 55452333 | 55452465 | 55452333 | ID=Msa0170970-mRNA-1:exon:16556;Parent=Msa0170970-mRNA-1 |
| chr1_4 | exon | 55452556 | 55452753 | 55452556 | ID=Msa0170970-mRNA-1:exon:16557;Parent=Msa0170970-mRNA-1 |
| chr1_4 | five_prime_UTR | 55452333 | 55452411 | 55452333 | ID=Msa0170970-mRNA-1:five_prime_utr;Parent=Msa0170970-mRNA-1 |
| chr1_4 | CDS | 55452412 | 55452465 | 55452412 | ID=Msa0170970-mRNA-1:cds;Parent=Msa0170970-mRNA-1 |
| chr1_4 | CDS | 55452556 | 55452753 | 55452556 | ID=Msa0170970-mRNA-1:cds;Parent=Msa0170970-mRNA-1 |
| Gene Sequence |
| Protein sequence |
