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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0273670 | XP_024631567.1 | 96.774 | 186 | 4 | 1 | 1 | 184 | 13 | 198 | 3.53e-125 | 360 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0273670 | A0A396J251 | 96.774 | 186 | 4 | 1 | 1 | 184 | 13 | 198 | 1.69e-125 | 360 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0193620 | Msa0273670 | 0.971065 | 1.398428e-132 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0273670 | MtrunA17_Chr2g0283881 | 96.774 | 186 | 4 | 1 | 1 | 184 | 13 | 198 | 3.25e-129 | 360 |
| Msa0273670 | MtrunA17_Chr3g0106441 | 45.506 | 178 | 88 | 4 | 1 | 178 | 1 | 169 | 2.73e-45 | 147 |
| Msa0273670 | MtrunA17_Chr5g0432111 | 38.798 | 183 | 81 | 5 | 1 | 178 | 1 | 157 | 9.51e-33 | 115 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0273670 | AT1G29195.1 | 56.915 | 188 | 71 | 3 | 1 | 178 | 1 | 188 | 1.48e-67 | 204 |
| Msa0273670 | AT2G30230.1 | 40.642 | 187 | 89 | 6 | 1 | 178 | 1 | 174 | 6.96e-36 | 124 |
| Msa0273670 | AT1G06980.1 | 40.761 | 184 | 85 | 4 | 1 | 178 | 1 | 166 | 2.70e-35 | 122 |
Find 33 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGTTTCTTGAGAACATGTTT+TGG | 0.350154 | 2_3:+5272970 | None:intergenic |
| CACCTTCAGCGCAAGATGGC+GGG | 0.354822 | 2_3:-5272942 | Msa0273670:CDS |
| TGCTGTGTGGAGACCTCATT+TGG | 0.366621 | 2_3:-5272611 | Msa0273670:CDS |
| GGAGGGACAACAACAATCTT+AGG | 0.387106 | 2_3:+5272913 | None:intergenic |
| AACCGTTATAGAAGATTTGT+TGG | 0.403215 | 2_3:+5272571 | None:intergenic |
| GACCGTTGCAGTGTACTATA+CGG | 0.423911 | 2_3:+5273046 | None:intergenic |
| TTATCCGGTGGTGGCGGCGT+AGG | 0.442560 | 2_3:+5272844 | None:intergenic |
| GGTGGTGGCGGCGTAGGGAG+AGG | 0.457673 | 2_3:+5272850 | None:intergenic |
| TATCCGGTGGTGGCGGCGTA+GGG | 0.470582 | 2_3:+5272845 | None:intergenic |
| ACCCCGCCATCTTGCGCTGA+AGG | 0.489813 | 2_3:+5272940 | None:intergenic |
| TCTTGCGCTGAAGGTGAAGA+AGG | 0.505753 | 2_3:+5272949 | None:intergenic |
| TCTCCCTACGCCGCCACCAC+CGG | 0.509119 | 2_3:-5272848 | Msa0273670:CDS |
| GACTGAGATTCTGTCTGAGA+AGG | 0.517425 | 2_3:-5272668 | Msa0273670:CDS |
| TCACCTTCAGCGCAAGATGG+CGG | 0.520403 | 2_3:-5272943 | Msa0273670:CDS |
| CACCAACAAATCTTCTATAA+CGG | 0.521213 | 2_3:-5272573 | None:intergenic |
| CATCGAGAACAGTGCTATGT+TGG | 0.527832 | 2_3:-5272713 | Msa0273670:CDS |
| ACCTTCAGCGCAAGATGGCG+GGG | 0.527946 | 2_3:-5272941 | Msa0273670:CDS |
| CCACGTTGAAGATCAGCATC+GGG | 0.542465 | 2_3:+5272892 | None:intergenic |
| TCTTCACCTTCAGCGCAAGA+TGG | 0.556088 | 2_3:-5272946 | Msa0273670:CDS |
| ACCACGTTGAAGATCAGCAT+CGG | 0.572486 | 2_3:+5272891 | None:intergenic |
| GCGGCGTAGGGAGAGGCATG+AGG | 0.581998 | 2_3:+5272857 | None:intergenic |
| AGTCAGAGAGACAGAAGAAG+AGG | 0.589679 | 2_3:-5272640 | Msa0273670:CDS |
| TCAGAAATACTCTCCAAATG+AGG | 0.591665 | 2_3:+5272598 | None:intergenic |
| ACAAACAACGGTAGAAGTAA+CGG | 0.598405 | 2_3:-5272751 | Msa0273670:CDS |
| CGTTGAAGATCAGCATCGGG+AGG | 0.643072 | 2_3:+5272895 | None:intergenic |
| GTTGAAGATCAGCATCGGGA+GGG | 0.647155 | 2_3:+5272896 | None:intergenic |
| GAGAGAATATTAACAAACAA+CGG | 0.660955 | 2_3:-5272763 | Msa0273670:CDS |
| GGTCGAGTAGAAGAGATCAG+TGG | 0.670260 | 2_3:-5273027 | Msa0273670:CDS |
| ATCACATCAAGTGCTCCACA+TGG | 0.674792 | 2_3:+5273069 | None:intergenic |
| ATATCTTGCATTCTACCATG+TGG | 0.683335 | 2_3:-5273084 | Msa0273670:CDS |
| GAAGAGGACGTGTTGCTGTG+TGG | 0.686286 | 2_3:-5272624 | Msa0273670:CDS |
| ATCCGTATAGTACACTGCAA+CGG | 0.690119 | 2_3:-5273048 | Msa0273670:CDS |
| CCCGATGCTGATCTTCAACG+TGG | 0.691291 | 2_3:-5272892 | Msa0273670:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | GAGAGAATATTAACAAACAA+CGG | - | chr2_3:5272921-5272940 | Msa0273670:CDS | 25.0% |
| ! | GTTTCTTGAGAACATGTTTT+GGG | + | chr2_3:5272716-5272735 | None:intergenic | 30.0% |
| !!! | TGACGGTGATTATTTTTATC+CGG | + | chr2_3:5272858-5272877 | None:intergenic | 30.0% |
| ATATCTTGCATTCTACCATG+TGG | - | chr2_3:5272600-5272619 | Msa0273670:CDS | 35.0% | |
| ! | GGTTTCTTGAGAACATGTTT+TGG | + | chr2_3:5272717-5272736 | None:intergenic | 35.0% |
| !!! | TGATTATTTTTATCCGGTGG+TGG | + | chr2_3:5272852-5272871 | None:intergenic | 35.0% |
| ACAAACAACGGTAGAAGTAA+CGG | - | chr2_3:5272933-5272952 | Msa0273670:CDS | 35.0% | |
| TCAGAAATACTCTCCAAATG+AGG | + | chr2_3:5273089-5273108 | None:intergenic | 35.0% | |
| ATCCGTATAGTACACTGCAA+CGG | - | chr2_3:5272636-5272655 | Msa0273670:CDS | 40.0% | |
| !!! | TTATTTTTATCCGGTGGTGG+CGG | + | chr2_3:5272849-5272868 | None:intergenic | 40.0% |
| !!! | CGGTGATTATTTTTATCCGG+TGG | + | chr2_3:5272855-5272874 | None:intergenic | 40.0% |
| ATCACATCAAGTGCTCCACA+TGG | + | chr2_3:5272618-5272637 | None:intergenic | 45.0% | |
| GACCGTTGCAGTGTACTATA+CGG | + | chr2_3:5272641-5272660 | None:intergenic | 45.0% | |
| GGAGGGACAACAACAATCTT+AGG | + | chr2_3:5272774-5272793 | None:intergenic | 45.0% | |
| ACCACGTTGAAGATCAGCAT+CGG | + | chr2_3:5272796-5272815 | None:intergenic | 45.0% | |
| !! | CCGACGAGTTTTTGCTATGA+CGG | + | chr2_3:5272875-5272894 | None:intergenic | 45.0% |
| CCGTCATAGCAAAAACTCGT+CGG | - | chr2_3:5272872-5272891 | Msa0273670:CDS | 45.0% | |
| CATCGAGAACAGTGCTATGT+TGG | - | chr2_3:5272971-5272990 | Msa0273670:CDS | 45.0% | |
| GACTGAGATTCTGTCTGAGA+AGG | - | chr2_3:5273016-5273035 | Msa0273670:CDS | 45.0% | |
| AGTCAGAGAGACAGAAGAAG+AGG | - | chr2_3:5273044-5273063 | Msa0273670:CDS | 45.0% | |
| GGTCGAGTAGAAGAGATCAG+TGG | - | chr2_3:5272657-5272676 | Msa0273670:CDS | 50.0% | |
| TCTTGCGCTGAAGGTGAAGA+AGG | + | chr2_3:5272738-5272757 | None:intergenic | 50.0% | |
| TCTTCACCTTCAGCGCAAGA+TGG | - | chr2_3:5272738-5272757 | Msa0273670:CDS | 50.0% | |
| ! | GTTGAAGATCAGCATCGGGA+GGG | + | chr2_3:5272791-5272810 | None:intergenic | 50.0% |
| CCACGTTGAAGATCAGCATC+GGG | + | chr2_3:5272795-5272814 | None:intergenic | 50.0% | |
| TGCTGTGTGGAGACCTCATT+TGG | - | chr2_3:5273073-5273092 | Msa0273670:CDS | 50.0% | |
| TCACCTTCAGCGCAAGATGG+CGG | - | chr2_3:5272741-5272760 | Msa0273670:CDS | 55.0% | |
| ! | CGTTGAAGATCAGCATCGGG+AGG | + | chr2_3:5272792-5272811 | None:intergenic | 55.0% |
| CCCGATGCTGATCTTCAACG+TGG | - | chr2_3:5272792-5272811 | Msa0273670:CDS | 55.0% | |
| ! | GAAGAGGACGTGTTGCTGTG+TGG | - | chr2_3:5273060-5273079 | Msa0273670:CDS | 55.0% |
| CACCTTCAGCGCAAGATGGC+GGG | - | chr2_3:5272742-5272761 | Msa0273670:CDS | 60.0% | |
| ACCTTCAGCGCAAGATGGCG+GGG | - | chr2_3:5272743-5272762 | Msa0273670:CDS | 60.0% | |
| ACCCCGCCATCTTGCGCTGA+AGG | + | chr2_3:5272747-5272766 | None:intergenic | 65.0% | |
| !! | TATCCGGTGGTGGCGGCGTA+GGG | + | chr2_3:5272842-5272861 | None:intergenic | 65.0% |
| !! | TTATCCGGTGGTGGCGGCGT+AGG | + | chr2_3:5272843-5272862 | None:intergenic | 65.0% |
| ! | GCGGCGTAGGGAGAGGCATG+AGG | + | chr2_3:5272830-5272849 | None:intergenic | 70.0% |
| TCTCCCTACGCCGCCACCAC+CGG | - | chr2_3:5272836-5272855 | Msa0273670:CDS | 70.0% | |
| !! | GGTGGTGGCGGCGTAGGGAG+AGG | + | chr2_3:5272837-5272856 | None:intergenic | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 5272576 | 5273130 | 5272576 | ID=Msa0273670;Name=Msa0273670 |
| chr2_3 | mRNA | 5272576 | 5273130 | 5272576 | ID=Msa0273670-mRNA-1;Parent=Msa0273670;Name=Msa0273670-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|184 |
| chr2_3 | exon | 5272576 | 5273130 | 5272576 | ID=Msa0273670-mRNA-1:exon:2544;Parent=Msa0273670-mRNA-1 |
| chr2_3 | CDS | 5272576 | 5273130 | 5272576 | ID=Msa0273670-mRNA-1:cds;Parent=Msa0273670-mRNA-1 |
| Gene Sequence |
| Protein sequence |
