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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0801230 | RHN78214.1 | 56.000 | 100 | 43 | 1 | 22 | 120 | 1 | 100 | 4.56e-28 | 112 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0801230 | A0A396JLZ7 | 56.000 | 100 | 43 | 1 | 22 | 120 | 1 | 100 | 2.18e-28 | 112 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0801230 | TF | B3 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0801230 | MtrunA17_Chr1g0163091 | 56.000 | 100 | 43 | 1 | 22 | 120 | 1 | 100 | 4.19e-32 | 112 |
| Msa0801230 | MtrunA17_Chr1g0162151 | 59.000 | 100 | 40 | 1 | 22 | 120 | 1 | 100 | 8.14e-28 | 103 |
| Msa0801230 | MtrunA17_Chr1g0163251 | 35.294 | 136 | 70 | 2 | 16 | 133 | 156 | 291 | 1.57e-17 | 78.6 |
| Msa0801230 | MtrunA17_Chr1g0163181 | 35.484 | 124 | 73 | 3 | 14 | 135 | 172 | 290 | 2.25e-17 | 78.6 |
| Msa0801230 | MtrunA17_Chr1g0163201 | 35.780 | 109 | 67 | 2 | 15 | 120 | 158 | 266 | 1.79e-16 | 75.9 |
| Msa0801230 | MtrunA17_Chr1g0163231 | 40.517 | 116 | 60 | 5 | 10 | 120 | 149 | 260 | 1.65e-15 | 72.4 |
| Msa0801230 | MtrunA17_Chr1g0163261 | 35.246 | 122 | 70 | 4 | 6 | 120 | 145 | 264 | 1.89e-14 | 69.3 |
| Msa0801230 | MtrunA17_Chr1g0163151 | 41.975 | 81 | 46 | 1 | 41 | 120 | 15 | 95 | 2.46e-14 | 68.2 |
| Msa0801230 | MtrunA17_Chr1g0163111 | 40.741 | 81 | 47 | 1 | 41 | 120 | 12 | 92 | 3.61e-14 | 67.8 |
| Msa0801230 | MtrunA17_Chr1g0171611 | 39.640 | 111 | 59 | 4 | 14 | 119 | 140 | 247 | 2.20e-11 | 60.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 25 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTTGTGAATGAAAATAATT+TGG | 0.165152 | 5_3:+14914629 | Msa0801230:CDS |
| AAAATGTGGATTCTCATTAT+TGG | 0.208624 | 5_3:-14914421 | None:intergenic |
| GACATATTTGTAAGTTTAAG+AGG | 0.329147 | 5_3:+14914660 | Msa0801230:CDS |
| TTTGTGAATGAAAATAATTT+GGG | 0.371770 | 5_3:+14914630 | Msa0801230:CDS |
| AAATGAAAGCGGTTTGGATT+CGG | 0.375400 | 5_3:-14914684 | None:intergenic |
| TTGATGAGACCGCAATGTTA+AGG | 0.388649 | 5_3:+14914523 | Msa0801230:CDS |
| GACAATATTGATTATGTCTC+AGG | 0.404078 | 5_3:+14914330 | Msa0801230:CDS |
| GACGTCAAATGAAAGCGGTT+TGG | 0.425075 | 5_3:-14914690 | None:intergenic |
| TGATGAGACCGCAATGTTAA+GGG | 0.437536 | 5_3:+14914524 | Msa0801230:CDS |
| ACAACAGAAGTGCCAACAAC+AGG | 0.485674 | 5_3:-14914767 | None:intergenic |
| GGGTTACCGCGGATAGAACT+TGG | 0.487538 | 5_3:+14914544 | Msa0801230:CDS |
| CAAGGAAGACCTCCTGTTGT+TGG | 0.509382 | 5_3:+14914755 | Msa0801230:CDS |
| GGTCTTCCTTGCGACTTGCT+AGG | 0.516614 | 5_3:-14914743 | None:intergenic |
| GTCAATATAAATTCAAAATG+TGG | 0.530322 | 5_3:-14914435 | None:intergenic |
| CCTTGCGACTTGCTAGGACG+TGG | 0.537594 | 5_3:-14914737 | None:intergenic |
| GTCTCAGGTACTAACAAAAG+AGG | 0.544808 | 5_3:+14914345 | Msa0801230:CDS |
| AGACGTTCTGTTGTGTACAC+TGG | 0.626699 | 5_3:+14914597 | Msa0801230:CDS |
| CGCGGTAACCCTTAACATTG+CGG | 0.643043 | 5_3:-14914532 | None:intergenic |
| ATAGAGACGTCAAATGAAAG+CGG | 0.647337 | 5_3:-14914695 | None:intergenic |
| ACAGAAGTGCCAACAACAGG+AGG | 0.647911 | 5_3:-14914764 | None:intergenic |
| CGCAATGTTAAGGGTTACCG+CGG | 0.649941 | 5_3:+14914533 | Msa0801230:CDS |
| TGGGATGCAAAAGAAACGAT+CGG | 0.653728 | 5_3:-14914469 | None:intergenic |
| CCACGTCCTAGCAAGTCGCA+AGG | 0.653799 | 5_3:+14914737 | Msa0801230:CDS |
| CATATTCCAAGTTCTATCCG+CGG | 0.674605 | 5_3:-14914550 | None:intergenic |
| GTTCTGTTGTGTACACTGGT+TGG | 0.678655 | 5_3:+14914601 | Msa0801230:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTTGTGAATGAAAATAATT+TGG | + | chr5_3:14914629-14914648 | Msa0801230:CDS | 15.0% |
| !! | TTTGTGAATGAAAATAATTT+GGG | + | chr5_3:14914630-14914649 | Msa0801230:CDS | 15.0% |
| !! | GTCAATATAAATTCAAAATG+TGG | - | chr5_3:14914438-14914457 | None:intergenic | 20.0% |
| !!! | TTTTGACAATGTTAAAAAGA+AGG | + | chr5_3:14914796-14914815 | Msa0801230:CDS | 20.0% |
| ! | AAAATGTGGATTCTCATTAT+TGG | - | chr5_3:14914424-14914443 | None:intergenic | 25.0% |
| ! | ATTCTCTTGAAAAATGAGTT+GGG | - | chr5_3:14914491-14914510 | None:intergenic | 25.0% |
| ! | TATTCTCTTGAAAAATGAGT+TGG | - | chr5_3:14914492-14914511 | None:intergenic | 25.0% |
| ! | GACATATTTGTAAGTTTAAG+AGG | + | chr5_3:14914660-14914679 | Msa0801230:CDS | 25.0% |
| ! | GACAATATTGATTATGTCTC+AGG | + | chr5_3:14914330-14914349 | Msa0801230:CDS | 30.0% |
| ! | AAATGAAAGCGGTTTGGATT+CGG | - | chr5_3:14914687-14914706 | None:intergenic | 35.0% |
| ATAGAGACGTCAAATGAAAG+CGG | - | chr5_3:14914698-14914717 | None:intergenic | 35.0% | |
| GTCTCAGGTACTAACAAAAG+AGG | + | chr5_3:14914345-14914364 | Msa0801230:CDS | 40.0% | |
| TGGGATGCAAAAGAAACGAT+CGG | - | chr5_3:14914472-14914491 | None:intergenic | 40.0% | |
| TTGATGAGACCGCAATGTTA+AGG | + | chr5_3:14914523-14914542 | Msa0801230:CDS | 40.0% | |
| TGATGAGACCGCAATGTTAA+GGG | + | chr5_3:14914524-14914543 | Msa0801230:CDS | 40.0% | |
| CATATTCCAAGTTCTATCCG+CGG | - | chr5_3:14914553-14914572 | None:intergenic | 40.0% | |
| AGACGTTCTGTTGTGTACAC+TGG | + | chr5_3:14914597-14914616 | Msa0801230:CDS | 45.0% | |
| GTTCTGTTGTGTACACTGGT+TGG | + | chr5_3:14914601-14914620 | Msa0801230:CDS | 45.0% | |
| GACGTCAAATGAAAGCGGTT+TGG | - | chr5_3:14914693-14914712 | None:intergenic | 45.0% | |
| !! | ACAACAGAAGTGCCAACAAC+AGG | - | chr5_3:14914770-14914789 | None:intergenic | 45.0% |
| CGCGGTAACCCTTAACATTG+CGG | - | chr5_3:14914535-14914554 | None:intergenic | 50.0% | |
| CGCAATGTTAAGGGTTACCG+CGG | + | chr5_3:14914533-14914552 | Msa0801230:CDS | 50.0% | |
| CAAGGAAGACCTCCTGTTGT+TGG | + | chr5_3:14914755-14914774 | Msa0801230:CDS | 50.0% | |
| !! | ACAGAAGTGCCAACAACAGG+AGG | - | chr5_3:14914767-14914786 | None:intergenic | 50.0% |
| GGGTTACCGCGGATAGAACT+TGG | + | chr5_3:14914544-14914563 | Msa0801230:CDS | 55.0% | |
| ! | GGTCTTCCTTGCGACTTGCT+AGG | - | chr5_3:14914746-14914765 | None:intergenic | 55.0% |
| !! | CCTTGCGACTTGCTAGGACG+TGG | - | chr5_3:14914740-14914759 | None:intergenic | 60.0% |
| CCACGTCCTAGCAAGTCGCA+AGG | + | chr5_3:14914737-14914756 | Msa0801230:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 14914306 | 14914821 | 14914306 | ID=Msa0801230;Name=Msa0801230 |
| chr5_3 | mRNA | 14914306 | 14914821 | 14914306 | ID=Msa0801230-mRNA-1;Parent=Msa0801230;Name=Msa0801230-mRNA-1;_AED=0.20;_eAED=0.45;_QI=0|-1|0|1|-1|1|1|0|171 |
| chr5_3 | exon | 14914306 | 14914821 | 14914306 | ID=Msa0801230-mRNA-1:exon:6289;Parent=Msa0801230-mRNA-1 |
| chr5_3 | CDS | 14914306 | 14914821 | 14914306 | ID=Msa0801230-mRNA-1:cds;Parent=Msa0801230-mRNA-1 |
| Gene Sequence |
| Protein sequence |
