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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0372390 | KEH35169.1 | 82.659 | 173 | 14 | 2 | 1 | 157 | 1 | 173 | 2.75e-94 | 280 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0372390 | A0A072UZD5 | 82.659 | 173 | 14 | 2 | 1 | 157 | 1 | 173 | 1.31e-94 | 280 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0372390 | TR | Others |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0372390 | MtrunA17_Chr3g0120121 | 89.344 | 122 | 12 | 1 | 37 | 157 | 1 | 122 | 1.62e-74 | 218 |
| 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 122 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAAAGCAAAATTTCCATTT+AGG | 0.111591 | 3_1:+70860135 | Msa0372390:CDS |
| GCAAAGCTAGATTTCAAAAT+TGG | 0.182403 | 3_1:+70860538 | Msa0372390:CDS |
| GAAGTGGAAATTACCCTAAA+TGG | 0.188466 | 3_1:-70860149 | None:intergenic |
| GAAAGCAAAATTTCCATTTA+GGG | 0.224342 | 3_1:+70860136 | Msa0372390:CDS |
| GATGAAACGAAATTGTTGTT+TGG | 0.350812 | 3_1:+70860567 | Msa0372390:CDS |
| TGCAGGCTAGAGCTATAATA+TGG | 0.402146 | 3_1:+70861116 | Msa0372390:intron |
| ATTTGACGAAAAGGAGCTTC+AGG | 0.413840 | 3_1:+70860767 | Msa0372390:CDS |
| ATGGTTGGCAAGTCAAGAAA+TGG | 0.426643 | 3_1:+70861135 | Msa0372390:CDS |
| TCCTATTCTTTCTCTTCTCA+AGG | 0.460409 | 3_1:-70861276 | None:intergenic |
| CAAGAAATGGATGGAAAGAA+TGG | 0.480394 | 3_1:+70861148 | Msa0372390:CDS |
| ATGCACTAGGTTGCATTGAA+AGG | 0.491779 | 3_1:-70861201 | None:intergenic |
| TGCACTAGGTTGCATTGAAA+GGG | 0.509370 | 3_1:-70861200 | None:intergenic |
| GGCTAGAGCTATAATATGGT+TGG | 0.541963 | 3_1:+70861120 | Msa0372390:intron |
| TCCTTGAGAAGAGAAAGAAT+AGG | 0.545631 | 3_1:+70861275 | Msa0372390:CDS |
| ACACCACAGATTTGACGAAA+AGG | 0.545745 | 3_1:+70860758 | Msa0372390:CDS |
| TGCATTGAAAGGGATAGTGT+TGG | 0.550068 | 3_1:-70861190 | None:intergenic |
| TTACAAATGCATGCCTCACA+TGG | 0.582863 | 3_1:+70861223 | Msa0372390:CDS |
| CTTGTTGCAAATCCTCGCAA+TGG | 0.611244 | 3_1:+70860735 | Msa0372390:CDS |
| TATCATGAGTTACAATAGAG+AGG | 0.622766 | 3_1:-70861312 | None:intergenic |
| AATCTGTGGTGTCCATTGCG+AGG | 0.627615 | 3_1:-70860747 | None:intergenic |
| TTGGCAAGTCAAGAAATGGA+TGG | 0.632410 | 3_1:+70861139 | Msa0372390:CDS |
| GCATGCATTTGTAATGCACT+AGG | 0.632578 | 3_1:-70861214 | None:intergenic |
| AAGACATAATGCATTGAGTG+TGG | 0.644515 | 3_1:+70860104 | Msa0372390:CDS |
| CTTGATGGAAAAGCCATGTG+AGG | 0.674355 | 3_1:-70861236 | None:intergenic |
| CATGAGTTACAATAGAGAGG+TGG | 0.687315 | 3_1:-70861309 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATATATCTATTTTTATCAT+TGG | + | chr3_1:70861081-70861100 | Msa0372390:intron | 10.0% |
| !!! | AATATATCTATTTTTATCAT+TGG | + | chr3_1:70861081-70861100 | Msa0372390:intron | 10.0% |
| !! | ATTTACATTATGAAAAAGAT+AGG | - | chr3_1:70861058-70861077 | None:intergenic | 15.0% |
| !!! | TTTTATCATTGGTTAAATTT+TGG | + | chr3_1:70861092-70861111 | Msa0372390:intron | 15.0% |
| !! | ATTTACATTATGAAAAAGAT+AGG | - | chr3_1:70861058-70861077 | None:intergenic | 15.0% |
| !!! | TTTTATCATTGGTTAAATTT+TGG | + | chr3_1:70861092-70861111 | Msa0372390:intron | 15.0% |
| !!! | TCTTGGAATTTTTTTTTTGT+AGG | + | chr3_1:70860685-70860704 | Msa0372390:intron | 20.0% |
| !!! | TCTTGGAATTTTTTTTTTGT+AGG | + | chr3_1:70860685-70860704 | Msa0372390:intron | 20.0% |
| ! | AGAAAGCAAAATTTCCATTT+AGG | + | chr3_1:70860135-70860154 | Msa0372390:CDS | 25.0% |
| ! | GAAAGCAAAATTTCCATTTA+GGG | + | chr3_1:70860136-70860155 | Msa0372390:CDS | 25.0% |
| ! | ATTTCAAGGGTGATATATAT+AGG | - | chr3_1:70860367-70860386 | None:intergenic | 25.0% |
| !! | TATGGTTTTTGTTAAACTCT+TGG | + | chr3_1:70860668-70860687 | Msa0372390:intron | 25.0% |
| !! | AAATTTTCTTCCACAAAACA+AGG | - | chr3_1:70860837-70860856 | None:intergenic | 25.0% |
| !!! | TTGTTTTGTGGAAGAAAATT+TGG | + | chr3_1:70860836-70860855 | Msa0372390:intron | 25.0% |
| ! | GTTATACATTGATCATTACA+CGG | - | chr3_1:70860980-70860999 | None:intergenic | 25.0% |
| ! | AAAAAGATAGGTATATTCAC+TGG | - | chr3_1:70861046-70861065 | None:intergenic | 25.0% |
| ! | AGAAAGCAAAATTTCCATTT+AGG | + | chr3_1:70860135-70860154 | Msa0372390:CDS | 25.0% |
| ! | GAAAGCAAAATTTCCATTTA+GGG | + | chr3_1:70860136-70860155 | Msa0372390:CDS | 25.0% |
| ! | ATTTCAAGGGTGATATATAT+AGG | - | chr3_1:70860367-70860386 | None:intergenic | 25.0% |
| !! | TATGGTTTTTGTTAAACTCT+TGG | + | chr3_1:70860668-70860687 | Msa0372390:intron | 25.0% |
| !! | AAATTTTCTTCCACAAAACA+AGG | - | chr3_1:70860837-70860856 | None:intergenic | 25.0% |
| !!! | TTGTTTTGTGGAAGAAAATT+TGG | + | chr3_1:70860836-70860855 | Msa0372390:intron | 25.0% |
| ! | GTTATACATTGATCATTACA+CGG | - | chr3_1:70860980-70860999 | None:intergenic | 25.0% |
| ! | AAAAAGATAGGTATATTCAC+TGG | - | chr3_1:70861046-70861065 | None:intergenic | 25.0% |
| ! | CTCAATGCATTATGTCTTTT+TGG | - | chr3_1:70860102-70860121 | None:intergenic | 30.0% |
| GCATGAGACATATATTTCAA+GGG | - | chr3_1:70860380-70860399 | None:intergenic | 30.0% | |
| TGCATGAGACATATATTTCA+AGG | - | chr3_1:70860381-70860400 | None:intergenic | 30.0% | |
| GTATGAGAAATGCTACATAT+TGG | - | chr3_1:70860473-70860492 | None:intergenic | 30.0% | |
| GCAAAGCTAGATTTCAAAAT+TGG | + | chr3_1:70860538-70860557 | Msa0372390:CDS | 30.0% | |
| ! | GATGAAACGAAATTGTTGTT+TGG | + | chr3_1:70860567-70860586 | Msa0372390:CDS | 30.0% |
| GATAGAATTTGAGTCGTTTA+TGG | + | chr3_1:70860650-70860669 | Msa0372390:intron | 30.0% | |
| !!! | ATTTCTTCATCCTTGTTTTG+TGG | + | chr3_1:70860824-70860843 | Msa0372390:intron | 30.0% |
| ATTATCGCATGCAAAAAGTT+AGG | - | chr3_1:70860880-70860899 | None:intergenic | 30.0% | |
| GTGTATGGCAAAAAAAAACA+TGG | + | chr3_1:70860903-70860922 | Msa0372390:intron | 30.0% | |
| !!! | ATTGGTTAAATTTTGGTTGC+AGG | + | chr3_1:70861099-70861118 | Msa0372390:intron | 30.0% |
| TATCATGAGTTACAATAGAG+AGG | - | chr3_1:70861315-70861334 | None:intergenic | 30.0% | |
| ! | CTCAATGCATTATGTCTTTT+TGG | - | chr3_1:70860102-70860121 | None:intergenic | 30.0% |
| GCATGAGACATATATTTCAA+GGG | - | chr3_1:70860380-70860399 | None:intergenic | 30.0% | |
| TGCATGAGACATATATTTCA+AGG | - | chr3_1:70860381-70860400 | None:intergenic | 30.0% | |
| GTATGAGAAATGCTACATAT+TGG | - | chr3_1:70860473-70860492 | None:intergenic | 30.0% | |
| GCAAAGCTAGATTTCAAAAT+TGG | + | chr3_1:70860538-70860557 | Msa0372390:CDS | 30.0% | |
| ! | GATGAAACGAAATTGTTGTT+TGG | + | chr3_1:70860567-70860586 | Msa0372390:CDS | 30.0% |
| GATAGAATTTGAGTCGTTTA+TGG | + | chr3_1:70860650-70860669 | Msa0372390:intron | 30.0% | |
| !!! | ATTTCTTCATCCTTGTTTTG+TGG | + | chr3_1:70860824-70860843 | Msa0372390:intron | 30.0% |
| ATTATCGCATGCAAAAAGTT+AGG | - | chr3_1:70860880-70860899 | None:intergenic | 30.0% | |
| GTGTATGGCAAAAAAAAACA+TGG | + | chr3_1:70860903-70860922 | Msa0372390:intron | 30.0% | |
| !!! | ATTGGTTAAATTTTGGTTGC+AGG | + | chr3_1:70861099-70861118 | Msa0372390:intron | 30.0% |
| TATCATGAGTTACAATAGAG+AGG | - | chr3_1:70861315-70861334 | None:intergenic | 30.0% | |
| AAGACATAATGCATTGAGTG+TGG | + | chr3_1:70860104-70860123 | Msa0372390:CDS | 35.0% | |
| GAAGTGGAAATTACCCTAAA+TGG | - | chr3_1:70860152-70860171 | None:intergenic | 35.0% | |
| AGGGTAATTTCCACTTCTAA+AGG | + | chr3_1:70860155-70860174 | Msa0372390:intron | 35.0% | |
| GGGTAATTTCCACTTCTAAA+GGG | + | chr3_1:70860156-70860175 | Msa0372390:intron | 35.0% | |
| TGTAGCTGCAAAGAAATAGA+AGG | + | chr3_1:70860187-70860206 | Msa0372390:intron | 35.0% | |
| AATTGAATGACTAGACACGT+GGG | - | chr3_1:70860330-70860349 | None:intergenic | 35.0% | |
| AAATTGAATGACTAGACACG+TGG | - | chr3_1:70860331-70860350 | None:intergenic | 35.0% | |
| AGGGTGATATATATAGGTGT+CGG | - | chr3_1:70860361-70860380 | None:intergenic | 35.0% | |
| TGCTACATATTGGAGAACAA+AGG | - | chr3_1:70860463-70860482 | None:intergenic | 35.0% | |
| CAAGAAATGGATGGAAAGAA+TGG | + | chr3_1:70861148-70861167 | Msa0372390:CDS | 35.0% | |
| !!! | ATTTTGAAGTGATCGCTTGA+TGG | - | chr3_1:70861254-70861273 | None:intergenic | 35.0% |
| TCCTTGAGAAGAGAAAGAAT+AGG | + | chr3_1:70861275-70861294 | Msa0372390:CDS | 35.0% | |
| TCCTATTCTTTCTCTTCTCA+AGG | - | chr3_1:70861279-70861298 | None:intergenic | 35.0% | |
| AAGACATAATGCATTGAGTG+TGG | + | chr3_1:70860104-70860123 | Msa0372390:CDS | 35.0% | |
| GAAGTGGAAATTACCCTAAA+TGG | - | chr3_1:70860152-70860171 | None:intergenic | 35.0% | |
| AGGGTAATTTCCACTTCTAA+AGG | + | chr3_1:70860155-70860174 | Msa0372390:intron | 35.0% | |
| GGGTAATTTCCACTTCTAAA+GGG | + | chr3_1:70860156-70860175 | Msa0372390:intron | 35.0% | |
| TGTAGCTGCAAAGAAATAGA+AGG | + | chr3_1:70860187-70860206 | Msa0372390:intron | 35.0% | |
| AATTGAATGACTAGACACGT+GGG | - | chr3_1:70860330-70860349 | None:intergenic | 35.0% | |
| AAATTGAATGACTAGACACG+TGG | - | chr3_1:70860331-70860350 | None:intergenic | 35.0% | |
| AGGGTGATATATATAGGTGT+CGG | - | chr3_1:70860361-70860380 | None:intergenic | 35.0% | |
| TGCTACATATTGGAGAACAA+AGG | - | chr3_1:70860463-70860482 | None:intergenic | 35.0% | |
| CAAGAAATGGATGGAAAGAA+TGG | + | chr3_1:70861148-70861167 | Msa0372390:CDS | 35.0% | |
| !!! | ATTTTGAAGTGATCGCTTGA+TGG | - | chr3_1:70861254-70861273 | None:intergenic | 35.0% |
| TCCTTGAGAAGAGAAAGAAT+AGG | + | chr3_1:70861275-70861294 | Msa0372390:CDS | 35.0% | |
| TCCTATTCTTTCTCTTCTCA+AGG | - | chr3_1:70861279-70861298 | None:intergenic | 35.0% | |
| ! | ATTTGCTTGCCCTTTAGAAG+TGG | - | chr3_1:70860168-70860187 | None:intergenic | 40.0% |
| ATACACATCGAGTTACTGTG+TGG | + | chr3_1:70860219-70860238 | Msa0372390:intron | 40.0% | |
| ! | GGTGATATATATAGGTGTCG+GGG | - | chr3_1:70860359-70860378 | None:intergenic | 40.0% |
| GGGTGATATATATAGGTGTC+GGG | - | chr3_1:70860360-70860379 | None:intergenic | 40.0% | |
| ACACCACAGATTTGACGAAA+AGG | + | chr3_1:70860758-70860777 | Msa0372390:CDS | 40.0% | |
| ATTTGACGAAAAGGAGCTTC+AGG | + | chr3_1:70860767-70860786 | Msa0372390:CDS | 40.0% | |
| GCATGCGATAATTACGTGTA+TGG | + | chr3_1:70860888-70860907 | Msa0372390:intron | 40.0% | |
| ACATTGATCATTACACGGTG+TGG | - | chr3_1:70860975-70860994 | None:intergenic | 40.0% | |
| TGCAGGCTAGAGCTATAATA+TGG | + | chr3_1:70861116-70861135 | Msa0372390:intron | 40.0% | |
| GGCTAGAGCTATAATATGGT+TGG | + | chr3_1:70861120-70861139 | Msa0372390:intron | 40.0% | |
| ATGGTTGGCAAGTCAAGAAA+TGG | + | chr3_1:70861135-70861154 | Msa0372390:CDS | 40.0% | |
| TTGGCAAGTCAAGAAATGGA+TGG | + | chr3_1:70861139-70861158 | Msa0372390:CDS | 40.0% | |
| TGCATTGAAAGGGATAGTGT+TGG | - | chr3_1:70861193-70861212 | None:intergenic | 40.0% | |
| TGCACTAGGTTGCATTGAAA+GGG | - | chr3_1:70861203-70861222 | None:intergenic | 40.0% | |
| ATGCACTAGGTTGCATTGAA+AGG | - | chr3_1:70861204-70861223 | None:intergenic | 40.0% | |
| GCATGCATTTGTAATGCACT+AGG | - | chr3_1:70861217-70861236 | None:intergenic | 40.0% | |
| TTACAAATGCATGCCTCACA+TGG | + | chr3_1:70861223-70861242 | Msa0372390:CDS | 40.0% | |
| CATGAGTTACAATAGAGAGG+TGG | - | chr3_1:70861312-70861331 | None:intergenic | 40.0% | |
| ! | ATTTGCTTGCCCTTTAGAAG+TGG | - | chr3_1:70860168-70860187 | None:intergenic | 40.0% |
| ATACACATCGAGTTACTGTG+TGG | + | chr3_1:70860219-70860238 | Msa0372390:intron | 40.0% | |
| ! | GGTGATATATATAGGTGTCG+GGG | - | chr3_1:70860359-70860378 | None:intergenic | 40.0% |
| GGGTGATATATATAGGTGTC+GGG | - | chr3_1:70860360-70860379 | None:intergenic | 40.0% | |
| ACACCACAGATTTGACGAAA+AGG | + | chr3_1:70860758-70860777 | Msa0372390:CDS | 40.0% | |
| ATTTGACGAAAAGGAGCTTC+AGG | + | chr3_1:70860767-70860786 | Msa0372390:CDS | 40.0% | |
| GCATGCGATAATTACGTGTA+TGG | + | chr3_1:70860888-70860907 | Msa0372390:intron | 40.0% | |
| ACATTGATCATTACACGGTG+TGG | - | chr3_1:70860975-70860994 | None:intergenic | 40.0% | |
| TGCAGGCTAGAGCTATAATA+TGG | + | chr3_1:70861116-70861135 | Msa0372390:intron | 40.0% | |
| GGCTAGAGCTATAATATGGT+TGG | + | chr3_1:70861120-70861139 | Msa0372390:intron | 40.0% | |
| ATGGTTGGCAAGTCAAGAAA+TGG | + | chr3_1:70861135-70861154 | Msa0372390:CDS | 40.0% | |
| TTGGCAAGTCAAGAAATGGA+TGG | + | chr3_1:70861139-70861158 | Msa0372390:CDS | 40.0% | |
| TGCATTGAAAGGGATAGTGT+TGG | - | chr3_1:70861193-70861212 | None:intergenic | 40.0% | |
| TGCACTAGGTTGCATTGAAA+GGG | - | chr3_1:70861203-70861222 | None:intergenic | 40.0% | |
| ATGCACTAGGTTGCATTGAA+AGG | - | chr3_1:70861204-70861223 | None:intergenic | 40.0% | |
| GCATGCATTTGTAATGCACT+AGG | - | chr3_1:70861217-70861236 | None:intergenic | 40.0% | |
| TTACAAATGCATGCCTCACA+TGG | + | chr3_1:70861223-70861242 | Msa0372390:CDS | 40.0% | |
| CATGAGTTACAATAGAGAGG+TGG | - | chr3_1:70861312-70861331 | None:intergenic | 40.0% | |
| CTTGTTGCAAATCCTCGCAA+TGG | + | chr3_1:70860735-70860754 | Msa0372390:CDS | 45.0% | |
| ! | GCTCCTTTTCGTCAAATCTG+TGG | - | chr3_1:70860764-70860783 | None:intergenic | 45.0% |
| TCATTACACGGTGTGGTCAA+GGG | - | chr3_1:70860968-70860987 | None:intergenic | 45.0% | |
| ATCATTACACGGTGTGGTCA+AGG | - | chr3_1:70860969-70860988 | None:intergenic | 45.0% | |
| CTTGATGGAAAAGCCATGTG+AGG | - | chr3_1:70861239-70861258 | None:intergenic | 45.0% | |
| CTTGTTGCAAATCCTCGCAA+TGG | + | chr3_1:70860735-70860754 | Msa0372390:CDS | 45.0% | |
| ! | GCTCCTTTTCGTCAAATCTG+TGG | - | chr3_1:70860764-70860783 | None:intergenic | 45.0% |
| TCATTACACGGTGTGGTCAA+GGG | - | chr3_1:70860968-70860987 | None:intergenic | 45.0% | |
| ATCATTACACGGTGTGGTCA+AGG | - | chr3_1:70860969-70860988 | None:intergenic | 45.0% | |
| CTTGATGGAAAAGCCATGTG+AGG | - | chr3_1:70861239-70861258 | None:intergenic | 45.0% | |
| AATCTGTGGTGTCCATTGCG+AGG | - | chr3_1:70860750-70860769 | None:intergenic | 50.0% | |
| AATCTGTGGTGTCCATTGCG+AGG | - | chr3_1:70860750-70860769 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 70860090 | 70861360 | 70860090 | ID=Msa0372390;Name=Msa0372390 |
| chr3_1 | mRNA | 70860090 | 70861360 | 70860090 | ID=Msa0372390-mRNA-1;Parent=Msa0372390;Name=Msa0372390-mRNA-1;_AED=0.14;_eAED=0.15;_QI=0|0|0|1|0.66|0.5|4|0|157 |
| chr3_1 | exon | 70860090 | 70860157 | 70860090 | ID=Msa0372390-mRNA-1:exon:15487;Parent=Msa0372390-mRNA-1 |
| chr3_1 | exon | 70860528 | 70860611 | 70860528 | ID=Msa0372390-mRNA-1:exon:15488;Parent=Msa0372390-mRNA-1 |
| chr3_1 | exon | 70860707 | 70860788 | 70860707 | ID=Msa0372390-mRNA-1:exon:15489;Parent=Msa0372390-mRNA-1 |
| chr3_1 | exon | 70861121 | 70861360 | 70861121 | ID=Msa0372390-mRNA-1:exon:15490;Parent=Msa0372390-mRNA-1 |
| chr3_1 | CDS | 70860090 | 70860157 | 70860090 | ID=Msa0372390-mRNA-1:cds;Parent=Msa0372390-mRNA-1 |
| chr3_1 | CDS | 70860528 | 70860611 | 70860528 | ID=Msa0372390-mRNA-1:cds;Parent=Msa0372390-mRNA-1 |
| chr3_1 | CDS | 70860707 | 70860788 | 70860707 | ID=Msa0372390-mRNA-1:cds;Parent=Msa0372390-mRNA-1 |
| chr3_1 | CDS | 70861121 | 70861360 | 70861121 | ID=Msa0372390-mRNA-1:cds;Parent=Msa0372390-mRNA-1 |
| Gene Sequence |
| Protein sequence |
