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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0616410 | XP_013467927.1 | 96.528 | 144 | 5 | 0 | 1 | 144 | 1 | 144 | 2.57e-96 | 284 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0616410 | sp|P49215|RS17_SOLLC | 87.023 | 131 | 15 | 1 | 1 | 129 | 1 | 131 | 1.99e-77 | 229 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0616410 | I3SPL5 | 96.528 | 144 | 5 | 0 | 1 | 144 | 1 | 144 | 1.23e-96 | 284 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0616410 | Msa0699740 | 0.934360 | 4.559025e-96 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0616410 | MtrunA17_Chr1g0178041 | 96.528 | 144 | 5 | 0 | 1 | 144 | 1 | 144 | 2.36e-100 | 284 |
| Msa0616410 | MtrunA17_Chr8g0375961 | 97.222 | 144 | 4 | 0 | 1 | 144 | 1 | 144 | 3.83e-100 | 283 |
| Msa0616410 | MtrunA17_Chr8g0375841 | 97.222 | 144 | 4 | 0 | 1 | 144 | 1 | 144 | 3.83e-100 | 283 |
| Msa0616410 | MtrunA17_Chr8g0375941 | 89.583 | 144 | 11 | 1 | 1 | 144 | 1 | 140 | 2.69e-87 | 251 |
| Msa0616410 | MtrunA17_Chr8g0375831 | 91.270 | 126 | 11 | 0 | 1 | 126 | 1 | 126 | 6.14e-79 | 229 |
| Msa0616410 | MtrunA17_Chr8g0375931 | 90.000 | 120 | 8 | 1 | 24 | 143 | 1 | 116 | 3.56e-72 | 212 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0616410 | AT5G04800.2 | 79.167 | 144 | 27 | 1 | 1 | 144 | 1 | 141 | 6.68e-77 | 225 |
| Msa0616410 | AT5G04800.4 | 79.167 | 144 | 27 | 1 | 1 | 144 | 1 | 141 | 6.68e-77 | 225 |
| Msa0616410 | AT5G04800.3 | 79.167 | 144 | 27 | 1 | 1 | 144 | 1 | 141 | 6.68e-77 | 225 |
| Msa0616410 | AT5G04800.1 | 79.167 | 144 | 27 | 1 | 1 | 144 | 1 | 141 | 6.68e-77 | 225 |
| Msa0616410 | AT2G04390.1 | 79.167 | 144 | 27 | 1 | 1 | 144 | 1 | 141 | 2.31e-75 | 221 |
| Msa0616410 | AT2G05220.2 | 77.778 | 144 | 28 | 1 | 1 | 144 | 1 | 140 | 3.00e-75 | 221 |
| Msa0616410 | AT2G05220.1 | 77.778 | 144 | 28 | 1 | 1 | 144 | 1 | 140 | 3.00e-75 | 221 |
| Msa0616410 | AT3G10610.1 | 86.777 | 121 | 16 | 0 | 1 | 121 | 1 | 121 | 4.97e-74 | 218 |
Find 42 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGATGATTTCTTCACGGTTT+TGG | 0.256241 | 4_2:+66208439 | None:intergenic |
| CGAGATTCCCGGTGTTGTTC+AGG | 0.275016 | 4_2:-66208120 | Msa0616410:CDS |
| GCTGGTGCTGCTGGTGGTGC+TGG | 0.288542 | 4_2:-66208056 | Msa0616410:CDS |
| CGTCTTCGCAACAAGATTGC+TGG | 0.339095 | 4_2:-66208323 | Msa0616410:CDS |
| TTCCTGATGTTTCTGCTATT+AGG | 0.341443 | 4_2:-66208202 | Msa0616410:CDS |
| TTCTTCAAGGATCTTCTTGT+TGG | 0.343538 | 4_2:+66208367 | None:intergenic |
| TTGTTGCGAAGACGCTTTGA+TGG | 0.348895 | 4_2:+66208332 | None:intergenic |
| CTGAATGGGATCTGCTGAAC+AGG | 0.355440 | 4_2:+66208086 | None:intergenic |
| GGGATCTGCTGAACAGGAAC+AGG | 0.372363 | 4_2:+66208092 | None:intergenic |
| CTTGGTATGTCCGAGATTCC+CGG | 0.385581 | 4_2:-66208131 | Msa0616410:CDS |
| AGTCGTGGTGCTGGTGCTGC+TGG | 0.400330 | 4_2:-66208065 | Msa0616410:CDS |
| GTGCTGCTGGTGGTGCTGGA+AGG | 0.406535 | 4_2:-66208052 | Msa0616410:CDS |
| CCTTCTGAATACGTTTCATA+AGG | 0.423532 | 4_2:+66208288 | None:intergenic |
| CTAGACATGCTTGCTGCTCT+TGG | 0.432500 | 4_2:-66208149 | Msa0616410:CDS |
| TTCAATGAAATTCCACGAAC+AGG | 0.443778 | 4_2:+66208263 | None:intergenic |
| CTGCTGGTGGTGCTGGAAGG+AGG | 0.448720 | 4_2:-66208049 | Msa0616410:CDS |
| ATCCCATTCAGTCGTGGTGC+TGG | 0.453459 | 4_2:-66208074 | Msa0616410:CDS |
| CTGAACAACACCGGGAATCT+CGG | 0.461504 | 4_2:+66208121 | None:intergenic |
| GAATCAAAGCAACTTCTTCA+AGG | 0.471503 | 4_2:+66208354 | None:intergenic |
| CAAGAGCAGCAAGCATGTCT+AGG | 0.477650 | 4_2:+66208150 | None:intergenic |
| TGATCATATTGAGGTTGATA+AGG | 0.481558 | 4_2:-66208177 | Msa0616410:CDS |
| CAAGGATCTTCTTGTTGGTG+TGG | 0.483634 | 4_2:+66208372 | None:intergenic |
| TTGACGAGATGATTTCTTCA+CGG | 0.484691 | 4_2:+66208433 | None:intergenic |
| GTCCTAATAGCAGAAACATC+AGG | 0.505221 | 4_2:+66208200 | None:intergenic |
| GCACCAGCACCACGACTGAA+TGG | 0.508875 | 4_2:+66208071 | None:intergenic |
| CACCAGCACCACGACTGAAT+GGG | 0.512432 | 4_2:+66208072 | None:intergenic |
| GGAGGAGCGTGAGCGTCGTA+TGG | 0.521163 | 4_2:-66208231 | Msa0616410:CDS |
| TTTGGTTCGGACTCGACCCA+TGG | 0.522820 | 4_2:+66208457 | None:intergenic |
| ATTCAGAAGGGACCTGTTCG+TGG | 0.526647 | 4_2:-66208275 | Msa0616410:CDS |
| CGTGGTGCTGGTGCTGCTGG+TGG | 0.530801 | 4_2:-66208062 | Msa0616410:CDS |
| GTGGAAATCGAGTGTCATCT+TGG | 0.542107 | 4_2:+66208391 | None:intergenic |
| TATTAGGACTGATCATATTG+AGG | 0.542204 | 4_2:-66208186 | Msa0616410:CDS |
| AAGAGCAGCAAGCATGTCTA+GGG | 0.560169 | 4_2:+66208151 | None:intergenic |
| TTCATTGAAGCTGCAAGAGG+AGG | 0.567846 | 4_2:-66208249 | Msa0616410:CDS |
| CCTTATGAAACGTATTCAGA+AGG | 0.588661 | 4_2:-66208288 | Msa0616410:CDS |
| AGGGTCAACCTGAACAACAC+CGG | 0.593915 | 4_2:+66208112 | None:intergenic |
| GGGTCAACCTGAACAACACC+GGG | 0.608103 | 4_2:+66208113 | None:intergenic |
| AATACGTTTCATAAGGTGAG+TGG | 0.609703 | 4_2:+66208295 | None:intergenic |
| AATTTCATTGAAGCTGCAAG+AGG | 0.634258 | 4_2:-66208252 | Msa0616410:CDS |
| CTTATGAAACGTATTCAGAA+GGG | 0.635445 | 4_2:-66208287 | Msa0616410:CDS |
| CAGCAGATCCCATTCAGTCG+TGG | 0.637150 | 4_2:-66208080 | Msa0616410:CDS |
| GGATCTGCTGAACAGGAACA+GGG | 0.673645 | 4_2:+66208093 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CTTATGAAACGTATTCAGAA+GGG | - | chr4_2:66208211-66208230 | Msa0616410:CDS | 30.0% | |
| TATTAGGACTGATCATATTG+AGG | - | chr4_2:66208312-66208331 | Msa0616410:CDS | 30.0% | |
| !! | TGATCATATTGAGGTTGATA+AGG | - | chr4_2:66208321-66208340 | Msa0616410:CDS | 30.0% |
| !!! | ATTTCTTCACGGTTTTGGTT+CGG | + | chr4_2:66208057-66208076 | None:intergenic | 35.0% |
| ! | AGATGATTTCTTCACGGTTT+TGG | + | chr4_2:66208062-66208081 | None:intergenic | 35.0% |
| TTGACGAGATGATTTCTTCA+CGG | + | chr4_2:66208068-66208087 | None:intergenic | 35.0% | |
| TTCTTCAAGGATCTTCTTGT+TGG | + | chr4_2:66208134-66208153 | None:intergenic | 35.0% | |
| GAATCAAAGCAACTTCTTCA+AGG | + | chr4_2:66208147-66208166 | None:intergenic | 35.0% | |
| AATACGTTTCATAAGGTGAG+TGG | + | chr4_2:66208206-66208225 | None:intergenic | 35.0% | |
| CCTTCTGAATACGTTTCATA+AGG | + | chr4_2:66208213-66208232 | None:intergenic | 35.0% | |
| CCTTATGAAACGTATTCAGA+AGG | - | chr4_2:66208210-66208229 | Msa0616410:CDS | 35.0% | |
| TTCAATGAAATTCCACGAAC+AGG | + | chr4_2:66208238-66208257 | None:intergenic | 35.0% | |
| AATTTCATTGAAGCTGCAAG+AGG | - | chr4_2:66208246-66208265 | Msa0616410:CDS | 35.0% | |
| ! | TTCCTGATGTTTCTGCTATT+AGG | - | chr4_2:66208296-66208315 | Msa0616410:CDS | 35.0% |
| GTCCTAATAGCAGAAACATC+AGG | + | chr4_2:66208301-66208320 | None:intergenic | 40.0% | |
| GTGGAAATCGAGTGTCATCT+TGG | + | chr4_2:66208110-66208129 | None:intergenic | 45.0% | |
| CAAGGATCTTCTTGTTGGTG+TGG | + | chr4_2:66208129-66208148 | None:intergenic | 45.0% | |
| TTGTTGCGAAGACGCTTTGA+TGG | + | chr4_2:66208169-66208188 | None:intergenic | 45.0% | |
| TTCATTGAAGCTGCAAGAGG+AGG | - | chr4_2:66208249-66208268 | Msa0616410:CDS | 45.0% | |
| AAGAGCAGCAAGCATGTCTA+GGG | + | chr4_2:66208350-66208369 | None:intergenic | 45.0% | |
| CGTCTTCGCAACAAGATTGC+TGG | - | chr4_2:66208175-66208194 | Msa0616410:CDS | 50.0% | |
| ATTCAGAAGGGACCTGTTCG+TGG | - | chr4_2:66208223-66208242 | Msa0616410:CDS | 50.0% | |
| CAAGAGCAGCAAGCATGTCT+AGG | + | chr4_2:66208351-66208370 | None:intergenic | 50.0% | |
| ! | CTAGACATGCTTGCTGCTCT+TGG | - | chr4_2:66208349-66208368 | Msa0616410:CDS | 50.0% |
| CTTGGTATGTCCGAGATTCC+CGG | - | chr4_2:66208367-66208386 | Msa0616410:CDS | 50.0% | |
| CTGAACAACACCGGGAATCT+CGG | + | chr4_2:66208380-66208399 | None:intergenic | 50.0% | |
| AGGGTCAACCTGAACAACAC+CGG | + | chr4_2:66208389-66208408 | None:intergenic | 50.0% | |
| GGATCTGCTGAACAGGAACA+GGG | + | chr4_2:66208408-66208427 | None:intergenic | 50.0% | |
| CTGAATGGGATCTGCTGAAC+AGG | + | chr4_2:66208415-66208434 | None:intergenic | 50.0% | |
| !! | CGAGATTCCCGGTGTTGTTC+AGG | - | chr4_2:66208378-66208397 | Msa0616410:CDS | 55.0% |
| GGGTCAACCTGAACAACACC+GGG | + | chr4_2:66208388-66208407 | None:intergenic | 55.0% | |
| GGGATCTGCTGAACAGGAAC+AGG | + | chr4_2:66208409-66208428 | None:intergenic | 55.0% | |
| CAGCAGATCCCATTCAGTCG+TGG | - | chr4_2:66208418-66208437 | Msa0616410:CDS | 55.0% | |
| ATCCCATTCAGTCGTGGTGC+TGG | - | chr4_2:66208424-66208443 | Msa0616410:CDS | 55.0% | |
| CACCAGCACCACGACTGAAT+GGG | + | chr4_2:66208429-66208448 | None:intergenic | 55.0% | |
| GCACCAGCACCACGACTGAA+TGG | + | chr4_2:66208430-66208449 | None:intergenic | 60.0% | |
| ! | GGAGGAGCGTGAGCGTCGTA+TGG | - | chr4_2:66208267-66208286 | Msa0616410:CDS | 65.0% |
| !! | AGTCGTGGTGCTGGTGCTGC+TGG | - | chr4_2:66208433-66208452 | Msa0616410:CDS | 65.0% |
| ! | GTGCTGCTGGTGGTGCTGGA+AGG | - | chr4_2:66208446-66208465 | Msa0616410:CDS | 65.0% |
| ! | CTGCTGGTGGTGCTGGAAGG+AGG | - | chr4_2:66208449-66208468 | Msa0616410:CDS | 65.0% |
| !! | CGTGGTGCTGGTGCTGCTGG+TGG | - | chr4_2:66208436-66208455 | Msa0616410:CDS | 70.0% |
| !! | GCTGGTGCTGCTGGTGGTGC+TGG | - | chr4_2:66208442-66208461 | Msa0616410:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 66208043 | 66208477 | 66208043 | ID=Msa0616410;Name=Msa0616410 |
| chr4_2 | mRNA | 66208043 | 66208477 | 66208043 | ID=Msa0616410-mRNA-1;Parent=Msa0616410;Name=Msa0616410-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|144 |
| chr4_2 | exon | 66208043 | 66208477 | 66208043 | ID=Msa0616410-mRNA-1:exon:18856;Parent=Msa0616410-mRNA-1 |
| chr4_2 | CDS | 66208043 | 66208477 | 66208043 | ID=Msa0616410-mRNA-1:cds;Parent=Msa0616410-mRNA-1 |
| Gene Sequence |
| Protein sequence |
