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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1140180 | RHN60269.1 | 96.364 | 55 | 2 | 0 | 1 | 55 | 1 | 55 | 1.19e-28 | 107 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1140180 | A0A396I3T5 | 96.364 | 55 | 2 | 0 | 1 | 55 | 1 | 55 | 5.68e-29 | 107 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000200 | Msa1140180 | 0.927888 | 6.263466e-92 | -8.615850e-47 |
| Msa0006610 | Msa1140180 | 0.915666 | 4.489918e-85 | -8.615850e-47 |
| Msa0033630 | Msa1140180 | 0.802449 | 5.580124e-49 | -8.615850e-47 |
| Msa1024130 | Msa1140180 | 0.819955 | 8.848112e-53 | -8.615850e-47 |
| Msa1107960 | Msa1140180 | 0.827375 | 1.619537e-54 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1140180 | MtrunA17_Chr4g0023901 | 96.364 | 55 | 2 | 0 | 1 | 55 | 1 | 55 | 1.09e-32 | 107 |
| Msa1140180 | MtrunA17_Chr2g0281741 | 64.835 | 91 | 16 | 3 | 1 | 84 | 1 | 82 | 3.98e-29 | 103 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 54 sgRNAs with CRISPR-Local
Find 60 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTAGTAGCCATAACTGTAAT+AGG | 0.226353 | 7_4:+11571662 | None:intergenic |
| TTGTTTGTTTGGTGGAAGTT+GGG | 0.310395 | 7_4:+11571870 | Msa1140190:CDS |
| CCTCACCCCGACCGTCCTCC+TGG | 0.346667 | 7_4:-11571708 | Msa1140180:CDS |
| ATTGTTTGTTTGGTGGAAGT+TGG | 0.347178 | 7_4:+11571869 | Msa1140190:CDS |
| TTCGGTCATGATTGTTTGTT+TGG | 0.366531 | 7_4:+11571859 | Msa1140190:CDS |
| CCAGGAGGACGGTCGGGGTG+AGG | 0.369145 | 7_4:+11571708 | None:intergenic |
| TAAGGGTTAGGGTGAAGAGG+TGG | 0.375340 | 7_4:+11571748 | Msa1140190:CDS |
| TCGGATCCAGGAGGACGGTC+GGG | 0.380838 | 7_4:+11571702 | None:intergenic |
| GGGGCGGAGGGGTCGGATCC+AGG | 0.386026 | 7_4:+11571690 | None:intergenic |
| ACCGATCTGGAGTGAATTCA+TGG | 0.400497 | 7_4:+11571920 | Msa1140190:CDS |
| GGATTTGAGTTTGCCGTGTT+CGG | 0.412366 | 7_4:+11571841 | Msa1140190:intron |
| GGTGAGGGAAACCGATGGCG+GGG | 0.413789 | 7_4:+11571724 | None:intergenic |
| GATTGCGGCGACGGCGGAGG+AGG | 0.416666 | 7_4:+11571806 | Msa1140190:CDS |
| AGGGTGAAGAGGTGGGAAAT+TGG | 0.418104 | 7_4:+11571756 | Msa1140190:CDS |
| GGGTGAGGGAAACCGATGGC+GGG | 0.424253 | 7_4:+11571723 | None:intergenic |
| TGTTTGTTTGGTGGAAGTTG+GGG | 0.425035 | 7_4:+11571871 | Msa1140190:CDS |
| CGGATCCAGGAGGACGGTCG+GGG | 0.433438 | 7_4:+11571703 | None:intergenic |
| GTAATAGGGAGGAGGGGCGG+AGG | 0.435218 | 7_4:+11571677 | None:intergenic |
| CCTCCTCCCTATTACAGTTA+TGG | 0.441098 | 7_4:-11571669 | Msa1140180:CDS |
| AACGAAGCCACTCACCGATC+TGG | 0.446314 | 7_4:+11571907 | Msa1140190:CDS |
| GGGGTGAGGGAAACCGATGG+CGG | 0.446566 | 7_4:+11571722 | None:intergenic |
| GGGTAAGGGTTAGGGTGAAG+AGG | 0.448412 | 7_4:+11571745 | Msa1140190:CDS |
| GGGAGGAGGGGCGGAGGGGT+CGG | 0.470296 | 7_4:+11571683 | None:intergenic |
| TAGTAGCCATAACTGTAATA+GGG | 0.470585 | 7_4:+11571663 | None:intergenic |
| GTGAGGGAAACCGATGGCGG+GGG | 0.471021 | 7_4:+11571725 | None:intergenic |
| CAGGAGGACGGTCGGGGTGA+GGG | 0.471785 | 7_4:+11571709 | None:intergenic |
| CGGAGGAGGGTGGCCGAAGT+AGG | 0.477759 | 7_4:+11571820 | Msa1140190:intron |
| AATAGGGAGGAGGGGCGGAG+GGG | 0.479253 | 7_4:+11571679 | None:intergenic |
| GGTTGAAAGGATTGCGGCGA+CGG | 0.493819 | 7_4:+11571797 | Msa1140190:CDS |
| GTCGGATCCAGGAGGACGGT+CGG | 0.498258 | 7_4:+11571701 | None:intergenic |
| TAATAGGGAGGAGGGGCGGA+GGG | 0.504583 | 7_4:+11571678 | None:intergenic |
| AAGGATTGCGGCGACGGCGG+AGG | 0.507727 | 7_4:+11571803 | Msa1140190:CDS |
| AAGGGTTAGGGTGAAGAGGT+GGG | 0.523980 | 7_4:+11571749 | Msa1140190:CDS |
| GCGGCGACGGCGGAGGAGGG+TGG | 0.525558 | 7_4:+11571810 | Msa1140190:CDS |
| GTTTGTTTGGTGGAAGTTGG+GGG | 0.531733 | 7_4:+11571872 | Msa1140190:CDS |
| GGTCATGATTGTTTGTTTGG+TGG | 0.539968 | 7_4:+11571862 | Msa1140190:CDS |
| CATAACTGTAATAGGGAGGA+GGG | 0.545322 | 7_4:+11571670 | None:intergenic |
| CTCGTACTGAGGAGGTTGAA+AGG | 0.548056 | 7_4:+11571784 | Msa1140190:CDS |
| ATTGCGGCGACGGCGGAGGA+GGG | 0.550016 | 7_4:+11571807 | Msa1140190:CDS |
| CCATAACTGTAATAGGGAGG+AGG | 0.554457 | 7_4:+11571669 | None:intergenic |
| CAAACAATCATGACCGAACA+CGG | 0.568465 | 7_4:-11571854 | Msa1140180:CDS |
| GGCAAACTCAAATCCTACTT+CGG | 0.572114 | 7_4:-11571833 | Msa1140180:CDS |
| GCGGAGGGGTCGGATCCAGG+AGG | 0.575604 | 7_4:+11571693 | None:intergenic |
| TGAAAGGATTGCGGCGACGG+CGG | 0.584093 | 7_4:+11571800 | Msa1140190:CDS |
| AGGGGTCGGATCCAGGAGGA+CGG | 0.585435 | 7_4:+11571697 | None:intergenic |
| AATTGGAAAGACTCGTACTG+AGG | 0.630700 | 7_4:+11571773 | Msa1140190:CDS |
| TCCATGAATTCACTCCAGAT+CGG | 0.641820 | 7_4:-11571921 | Msa1140180:CDS |
| GTCGGGGTGAGGGAAACCGA+TGG | 0.644761 | 7_4:+11571719 | None:intergenic |
| ACTGTAATAGGGAGGAGGGG+CGG | 0.647217 | 7_4:+11571674 | None:intergenic |
| TGGAAAGACTCGTACTGAGG+AGG | 0.658466 | 7_4:+11571776 | Msa1140190:CDS |
| TGAGGAGGTTGAAAGGATTG+CGG | 0.659256 | 7_4:+11571791 | Msa1140190:CDS |
| TAGCCATAACTGTAATAGGG+AGG | 0.673963 | 7_4:+11571666 | None:intergenic |
| ATTCACTCCAGATCGGTGAG+TGG | 0.692086 | 7_4:-11571914 | Msa1140180:CDS |
| ATAACTGTAATAGGGAGGAG+GGG | 0.695524 | 7_4:+11571671 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TAGTAGCCATAACTGTAATA+GGG | + | chr7_4:11571920-11571939 | Msa1140190:CDS | 30.0% | |
| TTAGTAGCCATAACTGTAAT+AGG | + | chr7_4:11571921-11571940 | Msa1140190:CDS | 30.0% | |
| ! | TTGTTTGTTTGGTGGAAGTT+GGG | + | chr7_4:11571713-11571732 | None:intergenic | 35.0% |
| ! | ATTGTTTGTTTGGTGGAAGT+TGG | + | chr7_4:11571714-11571733 | None:intergenic | 35.0% |
| TTCGGTCATGATTGTTTGTT+TGG | + | chr7_4:11571724-11571743 | None:intergenic | 35.0% | |
| ! | TGTTTGTTTGGTGGAAGTTG+GGG | + | chr7_4:11571712-11571731 | None:intergenic | 40.0% |
| GGTCATGATTGTTTGTTTGG+TGG | + | chr7_4:11571721-11571740 | None:intergenic | 40.0% | |
| CAAACAATCATGACCGAACA+CGG | - | chr7_4:11571726-11571745 | Msa1140180:CDS | 40.0% | |
| GGCAAACTCAAATCCTACTT+CGG | - | chr7_4:11571747-11571766 | Msa1140180:CDS | 40.0% | |
| AATTGGAAAGACTCGTACTG+AGG | + | chr7_4:11571810-11571829 | Msa1140190:CDS | 40.0% | |
| ATAACTGTAATAGGGAGGAG+GGG | + | chr7_4:11571912-11571931 | Msa1140190:CDS | 40.0% | |
| CATAACTGTAATAGGGAGGA+GGG | + | chr7_4:11571913-11571932 | Msa1140190:CDS | 40.0% | |
| TAGCCATAACTGTAATAGGG+AGG | + | chr7_4:11571917-11571936 | Msa1140190:CDS | 40.0% | |
| ! | GTTTGTTTGGTGGAAGTTGG+GGG | + | chr7_4:11571711-11571730 | None:intergenic | 45.0% |
| ! | GGATTTGAGTTTGCCGTGTT+CGG | + | chr7_4:11571742-11571761 | Msa1140190:CDS | 45.0% |
| TGAGGAGGTTGAAAGGATTG+CGG | + | chr7_4:11571792-11571811 | Msa1140190:CDS | 45.0% | |
| CCATAACTGTAATAGGGAGG+AGG | + | chr7_4:11571914-11571933 | Msa1140190:CDS | 45.0% | |
| CCTCCTCCCTATTACAGTTA+TGG | - | chr7_4:11571911-11571930 | Msa1140180:CDS | 45.0% | |
| ATTCACTCCAGATCGGTGAG+TGG | - | chr7_4:11571666-11571685 | Msa1140180:CDS | 50.0% | |
| TTTGGTGGAAGTTGGGGGTT+AGG | + | chr7_4:11571706-11571725 | None:intergenic | 50.0% | |
| CTCGTACTGAGGAGGTTGAA+AGG | + | chr7_4:11571799-11571818 | Msa1140190:CDS | 50.0% | |
| TGGAAAGACTCGTACTGAGG+AGG | + | chr7_4:11571807-11571826 | Msa1140190:CDS | 50.0% | |
| AGGGTGAAGAGGTGGGAAAT+TGG | + | chr7_4:11571827-11571846 | Msa1140190:intron | 50.0% | |
| AAGGGTTAGGGTGAAGAGGT+GGG | + | chr7_4:11571834-11571853 | Msa1140190:intron | 50.0% | |
| TAAGGGTTAGGGTGAAGAGG+TGG | + | chr7_4:11571835-11571854 | Msa1140190:intron | 50.0% | |
| AACGAAGCCACTCACCGATC+TGG | + | chr7_4:11571676-11571695 | None:intergenic | 55.0% | |
| GTGGAAGTTGGGGGTTAGGA+GGG | + | chr7_4:11571702-11571721 | None:intergenic | 55.0% | |
| GGTTGAAAGGATTGCGGCGA+CGG | + | chr7_4:11571786-11571805 | Msa1140190:CDS | 55.0% | |
| GGGTAAGGGTTAGGGTGAAG+AGG | + | chr7_4:11571838-11571857 | Msa1140190:intron | 55.0% | |
| ACTGTAATAGGGAGGAGGGG+CGG | + | chr7_4:11571909-11571928 | Msa1140190:CDS | 55.0% | |
| GGTGGAAGTTGGGGGTTAGG+AGG | + | chr7_4:11571703-11571722 | None:intergenic | 60.0% | |
| TGAAAGGATTGCGGCGACGG+CGG | + | chr7_4:11571783-11571802 | Msa1140190:CDS | 60.0% | |
| !! | GATGGCGGGGGTAAGGGTTA+GGG | + | chr7_4:11571846-11571865 | Msa1140190:CDS | 60.0% |
| CTAACCCTTACCCCCGCCAT+CGG | - | chr7_4:11571845-11571864 | Msa1140180:CDS | 60.0% | |
| !! | GAAACCGATGGCGGGGGTAA+GGG | + | chr7_4:11571852-11571871 | Msa1140190:CDS | 60.0% |
| TAATAGGGAGGAGGGGCGGA+GGG | + | chr7_4:11571905-11571924 | Msa1140190:CDS | 60.0% | |
| !! | CGATGGCGGGGGTAAGGGTT+AGG | + | chr7_4:11571847-11571866 | Msa1140190:CDS | 65.0% |
| !! | GGAAACCGATGGCGGGGGTA+AGG | + | chr7_4:11571853-11571872 | Msa1140190:CDS | 65.0% |
| ! | GTGAGGGAAACCGATGGCGG+GGG | + | chr7_4:11571858-11571877 | Msa1140190:CDS | 65.0% |
| GGTGAGGGAAACCGATGGCG+GGG | + | chr7_4:11571859-11571878 | Msa1140190:CDS | 65.0% | |
| GGGTGAGGGAAACCGATGGC+GGG | + | chr7_4:11571860-11571879 | Msa1140190:CDS | 65.0% | |
| GGGGTGAGGGAAACCGATGG+CGG | + | chr7_4:11571861-11571880 | Msa1140190:CDS | 65.0% | |
| GTCGGGGTGAGGGAAACCGA+TGG | + | chr7_4:11571864-11571883 | Msa1140190:CDS | 65.0% | |
| TCGGATCCAGGAGGACGGTC+GGG | + | chr7_4:11571881-11571900 | Msa1140190:CDS | 65.0% | |
| GTCGGATCCAGGAGGACGGT+CGG | + | chr7_4:11571882-11571901 | Msa1140190:CDS | 65.0% | |
| AGGGGTCGGATCCAGGAGGA+CGG | + | chr7_4:11571886-11571905 | Msa1140190:CDS | 65.0% | |
| AATAGGGAGGAGGGGCGGAG+GGG | + | chr7_4:11571904-11571923 | Msa1140190:CDS | 65.0% | |
| GTAATAGGGAGGAGGGGCGG+AGG | + | chr7_4:11571906-11571925 | Msa1140190:CDS | 65.0% | |
| CGGAGGAGGGTGGCCGAAGT+AGG | + | chr7_4:11571763-11571782 | Msa1140190:CDS | 70.0% | |
| ATTGCGGCGACGGCGGAGGA+GGG | + | chr7_4:11571776-11571795 | Msa1140190:CDS | 70.0% | |
| AAGGATTGCGGCGACGGCGG+AGG | + | chr7_4:11571780-11571799 | Msa1140190:CDS | 70.0% | |
| CAGGAGGACGGTCGGGGTGA+GGG | + | chr7_4:11571874-11571893 | Msa1140190:CDS | 70.0% | |
| CGGATCCAGGAGGACGGTCG+GGG | + | chr7_4:11571880-11571899 | Msa1140190:CDS | 70.0% | |
| GATTGCGGCGACGGCGGAGG+AGG | + | chr7_4:11571777-11571796 | Msa1140190:CDS | 75.0% | |
| CCAGGAGGACGGTCGGGGTG+AGG | + | chr7_4:11571875-11571894 | Msa1140190:CDS | 75.0% | |
| CCTCACCCCGACCGTCCTCC+TGG | - | chr7_4:11571872-11571891 | Msa1140180:CDS | 75.0% | |
| GCGGAGGGGTCGGATCCAGG+AGG | + | chr7_4:11571890-11571909 | Msa1140190:CDS | 75.0% | |
| ! | GGGGCGGAGGGGTCGGATCC+AGG | + | chr7_4:11571893-11571912 | Msa1140190:CDS | 80.0% |
| ! | GGGAGGAGGGGCGGAGGGGT+CGG | + | chr7_4:11571900-11571919 | Msa1140190:CDS | 80.0% |
| ! | GCGGCGACGGCGGAGGAGGG+TGG | + | chr7_4:11571773-11571792 | Msa1140190:CDS | 85.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 11571662 | 11571940 | 11571662 | ID=Msa1140180;Name=Msa1140180 |
| chr7_4 | mRNA | 11571662 | 11571940 | 11571662 | ID=Msa1140180-mRNA-1;Parent=Msa1140180;Name=Msa1140180-mRNA-1;_AED=0.43;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|92 |
| chr7_4 | exon | 11571662 | 11571940 | 11571662 | ID=Msa1140180-mRNA-1:exon:2752;Parent=Msa1140180-mRNA-1 |
| chr7_4 | CDS | 11571662 | 11571940 | 11571662 | ID=Msa1140180-mRNA-1:cds;Parent=Msa1140180-mRNA-1 |
| Gene Sequence |
| Protein sequence |
