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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0146140 | KEH40053.1 | 88.462 | 104 | 12 | 0 | 1 | 104 | 1 | 104 | 8.55e-63 | 196 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0146140 | A0A072VF29 | 88.462 | 104 | 12 | 0 | 1 | 104 | 1 | 104 | 4.08e-63 | 196 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0051560 | Msa0146140 | 0.924261 | 8.919272e-90 | -8.615850e-47 |
| Msa0051680 | Msa0146140 | 0.937556 | 2.857243e-98 | -8.615850e-47 |
| Msa0101910 | Msa0146140 | 0.945386 | 3.362087e-104 | -8.615850e-47 |
| Msa0146140 | Msa1376970 | 0.966669 | 3.134089e-126 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0146140 | MtrunA17_Chr1g0153841 | 88.462 | 104 | 12 | 0 | 1 | 104 | 1 | 104 | 7.87e-67 | 196 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 26 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGTCGCCAACATGTGGATTC+TGG | 0.218060 | 1_4:-5891632 | None:intergenic |
| TGGTGTCCATGGGGATTGTT+GGG | 0.291649 | 1_4:-5891725 | None:intergenic |
| TTGGTGTCCATGGGGATTGT+TGG | 0.338734 | 1_4:-5891726 | None:intergenic |
| TGGAGGCACGTTGGTGTCCA+TGG | 0.365721 | 1_4:-5891736 | None:intergenic |
| TGGGGATTGTTGGGGTTGAA+TGG | 0.408417 | 1_4:-5891716 | None:intergenic |
| GTCGCCAACATGTGGATTCT+GGG | 0.412404 | 1_4:-5891631 | None:intergenic |
| CACCTAATTAATTAACGCCT+TGG | 0.435077 | 1_4:-5891756 | None:intergenic |
| CATATGAAAACATAGTCATT+TGG | 0.452470 | 1_4:+5891565 | Msa0146140:CDS |
| TATGTTTCTCAACCCTTGCT+AGG | 0.462334 | 1_4:+5891502 | Msa0146140:CDS |
| TGGGGTTGAATGGCCAGCAC+CGG | 0.464105 | 1_4:-5891706 | None:intergenic |
| GGAGGCACGTTGGTGTCCAT+GGG | 0.465448 | 1_4:-5891735 | None:intergenic |
| CTAATTAATTAACGCCTTGG+AGG | 0.484883 | 1_4:-5891753 | None:intergenic |
| CCAGGTCATAGTCCCGGTGC+TGG | 0.508743 | 1_4:+5891693 | Msa0146140:CDS |
| GGGGTTGAATGGCCAGCACC+GGG | 0.545577 | 1_4:-5891705 | None:intergenic |
| TGGACACCAACGTGCCTCCA+AGG | 0.558768 | 1_4:+5891739 | Msa0146140:CDS |
| GGACTATGACCTGGATCCGT+TGG | 0.561199 | 1_4:-5891684 | None:intergenic |
| TCAGCTTCGTCGCCAACATG+TGG | 0.570493 | 1_4:-5891639 | None:intergenic |
| ATGAAAACATAGTCATTTGG+CGG | 0.581045 | 1_4:+5891568 | Msa0146140:CDS |
| CCAGCACCGGGACTATGACC+TGG | 0.585779 | 1_4:-5891693 | None:intergenic |
| GGTGTCCATGGGGATTGTTG+GGG | 0.593694 | 1_4:-5891724 | None:intergenic |
| ACGGATCCAGGTCATAGTCC+CGG | 0.595399 | 1_4:+5891687 | Msa0146140:CDS |
| GATTCCCAGAATCCACATGT+TGG | 0.624961 | 1_4:+5891627 | Msa0146140:CDS |
| TTCAACCCCAACAATCCCCA+TGG | 0.630589 | 1_4:+5891719 | Msa0146140:CDS |
| GAGGCACGTTGGTGTCCATG+GGG | 0.682384 | 1_4:-5891734 | None:intergenic |
| TTAACGCCTTGGAGGCACGT+TGG | 0.691422 | 1_4:-5891745 | None:intergenic |
| GAAAAGTAGAATTGAACACA+AGG | 0.697977 | 1_4:-5891458 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTGTTCTCTCTTTTTACTA+GGG | - | chr1_4:5891529-5891548 | None:intergenic | 25.0% |
| !! | ATTTGTTCTCTCTTTTTACT+AGG | - | chr1_4:5891530-5891549 | None:intergenic | 25.0% |
| ! | CATATGAAAACATAGTCATT+TGG | + | chr1_4:5891565-5891584 | Msa0146140:CDS | 25.0% |
| GAAAAGTAGAATTGAACACA+AGG | - | chr1_4:5891461-5891480 | None:intergenic | 30.0% | |
| ! | TTGTTCTCTCTTTTTACTAG+GGG | - | chr1_4:5891528-5891547 | None:intergenic | 30.0% |
| ATGAAAACATAGTCATTTGG+CGG | + | chr1_4:5891568-5891587 | Msa0146140:CDS | 30.0% | |
| TATGTTTCTCAACCCTTGCT+AGG | + | chr1_4:5891502-5891521 | Msa0146140:CDS | 40.0% | |
| ! | TTTTACTAGGGGCCTAGCAA+GGG | - | chr1_4:5891517-5891536 | None:intergenic | 45.0% |
| ! | TTTTTACTAGGGGCCTAGCA+AGG | - | chr1_4:5891518-5891537 | None:intergenic | 45.0% |
| GATTCCCAGAATCCACATGT+TGG | + | chr1_4:5891627-5891646 | Msa0146140:CDS | 45.0% | |
| ! | GATCGACGATTTTCGACCAA+CGG | + | chr1_4:5891668-5891687 | Msa0146140:CDS | 45.0% |
| GTCGCCAACATGTGGATTCT+GGG | - | chr1_4:5891634-5891653 | None:intergenic | 50.0% | |
| ! | GATTTTCGACCAACGGATCC+AGG | + | chr1_4:5891675-5891694 | Msa0146140:CDS | 50.0% |
| TGGGGATTGTTGGGGTTGAA+TGG | - | chr1_4:5891719-5891738 | None:intergenic | 50.0% | |
| TTCAACCCCAACAATCCCCA+TGG | + | chr1_4:5891719-5891738 | Msa0146140:CDS | 50.0% | |
| TGGTGTCCATGGGGATTGTT+GGG | - | chr1_4:5891728-5891747 | None:intergenic | 50.0% | |
| ! | TTGGTGTCCATGGGGATTGT+TGG | - | chr1_4:5891729-5891748 | None:intergenic | 50.0% |
| CGTCGCCAACATGTGGATTC+TGG | - | chr1_4:5891635-5891654 | None:intergenic | 55.0% | |
| TCAGCTTCGTCGCCAACATG+TGG | - | chr1_4:5891642-5891661 | None:intergenic | 55.0% | |
| GGACTATGACCTGGATCCGT+TGG | - | chr1_4:5891687-5891706 | None:intergenic | 55.0% | |
| ACGGATCCAGGTCATAGTCC+CGG | + | chr1_4:5891687-5891706 | Msa0146140:CDS | 55.0% | |
| GGTGTCCATGGGGATTGTTG+GGG | - | chr1_4:5891727-5891746 | None:intergenic | 55.0% | |
| ! | TTAACGCCTTGGAGGCACGT+TGG | - | chr1_4:5891748-5891767 | None:intergenic | 55.0% |
| TGGGGTTGAATGGCCAGCAC+CGG | - | chr1_4:5891709-5891728 | None:intergenic | 60.0% | |
| ! | GAGGCACGTTGGTGTCCATG+GGG | - | chr1_4:5891737-5891756 | None:intergenic | 60.0% |
| ! | GGAGGCACGTTGGTGTCCAT+GGG | - | chr1_4:5891738-5891757 | None:intergenic | 60.0% |
| ! | TGGAGGCACGTTGGTGTCCA+TGG | - | chr1_4:5891739-5891758 | None:intergenic | 60.0% |
| TGGACACCAACGTGCCTCCA+AGG | + | chr1_4:5891739-5891758 | Msa0146140:CDS | 60.0% | |
| ! | CCAGCACCGGGACTATGACC+TGG | - | chr1_4:5891696-5891715 | None:intergenic | 65.0% |
| CCAGGTCATAGTCCCGGTGC+TGG | + | chr1_4:5891693-5891712 | Msa0146140:CDS | 65.0% | |
| GGGGTTGAATGGCCAGCACC+GGG | - | chr1_4:5891708-5891727 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 5891444 | 5891767 | 5891444 | ID=Msa0146140;Name=Msa0146140 |
| chr1_4 | mRNA | 5891444 | 5891767 | 5891444 | ID=Msa0146140-mRNA-1;Parent=Msa0146140;Name=Msa0146140-mRNA-1;_AED=0.02;_eAED=0.02;_QI=0|-1|0|1|-1|1|1|0|107 |
| chr1_4 | exon | 5891444 | 5891767 | 5891444 | ID=Msa0146140-mRNA-1:exon:2513;Parent=Msa0146140-mRNA-1 |
| chr1_4 | CDS | 5891444 | 5891767 | 5891444 | ID=Msa0146140-mRNA-1:cds;Parent=Msa0146140-mRNA-1 |
| Gene Sequence |
| Protein sequence |
