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 |
|---|
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0784610 | G7K4G3 | 92.105 | 76 | 6 | 0 | 2 | 77 | 1 | 76 | 2.57e-41 | 139 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0784610 | Msa0863790 | 0.802355 | 5.835573e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0784610 | MtrunA17_Chr5g0445581 | 92.105 | 76 | 6 | 0 | 2 | 77 | 1 | 76 | 4.95e-45 | 139 |
| Msa0784610 | MtrunA17_Chr2g0290831 | 41.538 | 65 | 38 | 0 | 2 | 66 | 1 | 65 | 6.72e-11 | 52.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0784610 | AT4G05030.2 | 44.444 | 72 | 39 | 1 | 4 | 75 | 3 | 73 | 1.93e-11 | 54.3 |
| Msa0784610 | AT4G05030.1 | 44.000 | 75 | 41 | 1 | 1 | 75 | 33 | 106 | 3.34e-11 | 54.7 |
Find 17 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGATAGAGTGGTGATTAA+AGG | 0.272964 | 5_2:+69231301 | Msa0784610:CDS |
| TATACATAGTTATTCATCAT+TGG | 0.378479 | 5_2:-69231401 | None:intergenic |
| AGGTGTTACAATGGTTACTT+TGG | 0.427464 | 5_2:+69231267 | Msa0784610:intron |
| ACCATCAGCAATGGTACATA+TGG | 0.447473 | 5_2:-69230870 | None:intergenic |
| CAAGGGTGACTGAACGTTTG+AGG | 0.485328 | 5_2:+69231341 | Msa0784610:CDS |
| TACAATGGTTACTTTGGAAA+GGG | 0.497733 | 5_2:+69231273 | Msa0784610:CDS |
| TTACAATGGTTACTTTGGAA+AGG | 0.504948 | 5_2:+69231272 | Msa0784610:CDS |
| AAGGGTGACTGAACGTTTGA+GGG | 0.506906 | 5_2:+69231342 | Msa0784610:CDS |
| AAAATGCAAGAAGAAGATAT+TGG | 0.540381 | 5_2:+69230847 | Msa0784610:CDS |
| ATGGTTACTTTGGAAAGGGA+AGG | 0.567959 | 5_2:+69231277 | Msa0784610:CDS |
| GAGAAGATGTTGATGCAGCA+AGG | 0.572875 | 5_2:+69231323 | Msa0784610:CDS |
| AAGGGAAGGAAAAGATAGAG+TGG | 0.595147 | 5_2:+69231291 | Msa0784610:CDS |
| AGAAGATGTTGATGCAGCAA+GGG | 0.596117 | 5_2:+69231324 | Msa0784610:CDS |
| GAATGATATAGGTGTTACAA+TGG | 0.641061 | 5_2:+69231258 | Msa0784610:intron |
| GCCATATGTACCATTGCTGA+TGG | 0.651621 | 5_2:+69230869 | Msa0784610:CDS |
| TCAACACATACCATCAGCAA+TGG | 0.657350 | 5_2:-69230879 | None:intergenic |
| GTTTGAGGGAGAAAGTGACG+AGG | 0.751659 | 5_2:+69231356 | Msa0784610:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTTTAACTTTTCAATATT+AGG | + | chr5_2:69231201-69231220 | Msa0784610:intron | 10.0% |
| !! | GAAAAAAGAAATATGTATTA+TGG | - | chr5_2:69231159-69231178 | None:intergenic | 15.0% |
| !! | AATGAAAAAATATGGTTAAG+AGG | + | chr5_2:69231045-69231064 | Msa0784610:intron | 20.0% |
| !! | TAATCATTTGTGAATGATAT+AGG | + | chr5_2:69231247-69231266 | Msa0784610:intron | 20.0% |
| ! | AAAATGCAAGAAGAAGATAT+TGG | + | chr5_2:69230847-69230866 | Msa0784610:CDS | 25.0% |
| ! | ACCTTGTGAATGAAAAAATA+TGG | + | chr5_2:69231037-69231056 | Msa0784610:intron | 25.0% |
| !!! | ACCATATTTTTTCATTCACA+AGG | - | chr5_2:69231041-69231060 | None:intergenic | 25.0% |
| !! | AACTTTTCAATATTAGGAAC+TGG | + | chr5_2:69231207-69231226 | Msa0784610:intron | 25.0% |
| ! | AATATTAGGAACTGGTAATA+CGG | + | chr5_2:69231215-69231234 | Msa0784610:intron | 25.0% |
| TACATTAGTCCAAGTAGAAT+TGG | + | chr5_2:69230981-69231000 | Msa0784610:intron | 30.0% | |
| ! | GAATGATATAGGTGTTACAA+TGG | + | chr5_2:69231258-69231277 | Msa0784610:intron | 30.0% |
| ! | TTACAATGGTTACTTTGGAA+AGG | + | chr5_2:69231272-69231291 | Msa0784610:CDS | 30.0% |
| ! | TACAATGGTTACTTTGGAAA+GGG | + | chr5_2:69231273-69231292 | Msa0784610:CDS | 30.0% |
| AAAGATAGAGTGGTGATTAA+AGG | + | chr5_2:69231301-69231320 | Msa0784610:CDS | 30.0% | |
| GACTTCACTAAAGATCAATC+AGG | + | chr5_2:69231071-69231090 | Msa0784610:intron | 35.0% | |
| ATTAGTCATCCTCGAGAAAT+TGG | + | chr5_2:69231107-69231126 | Msa0784610:intron | 35.0% | |
| ! | AGGTGTTACAATGGTTACTT+TGG | + | chr5_2:69231267-69231286 | Msa0784610:intron | 35.0% |
| ! | TCTTCTTGCATTTTGCACAG+TGG | - | chr5_2:69230841-69230860 | None:intergenic | 40.0% |
| ACCATCAGCAATGGTACATA+TGG | - | chr5_2:69230873-69230892 | None:intergenic | 40.0% | |
| TCAACACATACCATCAGCAA+TGG | - | chr5_2:69230882-69230901 | None:intergenic | 40.0% | |
| GATTCGAGTCCAATTCTACT+TGG | - | chr5_2:69230993-69231012 | None:intergenic | 40.0% | |
| GAGGATGACTAATCTTCATC+GGG | - | chr5_2:69231100-69231119 | None:intergenic | 40.0% | |
| CGAGGATGACTAATCTTCAT+CGG | - | chr5_2:69231101-69231120 | None:intergenic | 40.0% | |
| ! | ATGGTTACTTTGGAAAGGGA+AGG | + | chr5_2:69231277-69231296 | Msa0784610:CDS | 40.0% |
| AAGGGAAGGAAAAGATAGAG+TGG | + | chr5_2:69231291-69231310 | Msa0784610:CDS | 40.0% | |
| AGAAGATGTTGATGCAGCAA+GGG | + | chr5_2:69231324-69231343 | Msa0784610:CDS | 40.0% | |
| ! | TTGCATTTTGCACAGTGGAG+GGG | - | chr5_2:69230836-69230855 | None:intergenic | 45.0% |
| ! | CTTGCATTTTGCACAGTGGA+GGG | - | chr5_2:69230837-69230856 | None:intergenic | 45.0% |
| ! | TCTTGCATTTTGCACAGTGG+AGG | - | chr5_2:69230838-69230857 | None:intergenic | 45.0% |
| GCCATATGTACCATTGCTGA+TGG | + | chr5_2:69230869-69230888 | Msa0784610:CDS | 45.0% | |
| GGACTCGAATCGCTTAAACA+AGG | + | chr5_2:69231002-69231021 | Msa0784610:intron | 45.0% | |
| TGAGCATCTCCAATTTCTCG+AGG | - | chr5_2:69231119-69231138 | None:intergenic | 45.0% | |
| GAGAAGATGTTGATGCAGCA+AGG | + | chr5_2:69231323-69231342 | Msa0784610:CDS | 45.0% | |
| AAGGGTGACTGAACGTTTGA+GGG | + | chr5_2:69231342-69231361 | Msa0784610:CDS | 45.0% | |
| CAAGGGTGACTGAACGTTTG+AGG | + | chr5_2:69231341-69231360 | Msa0784610:CDS | 50.0% | |
| GTTTGAGGGAGAAAGTGACG+AGG | + | chr5_2:69231356-69231375 | Msa0784610:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_2 | gene | 69230803 | 69231414 | 69230803 | ID=Msa0784610;Name=Msa0784610 |
| chr5_2 | mRNA | 69230803 | 69231414 | 69230803 | ID=Msa0784610-mRNA-1;Parent=Msa0784610;Name=Msa0784610-mRNA-1;_AED=0.03;_eAED=0.03;_QI=0|0|0|1|1|1|2|0|77 |
| chr5_2 | exon | 69230803 | 69230890 | 69230803 | ID=Msa0784610-mRNA-1:exon:20824;Parent=Msa0784610-mRNA-1 |
| chr5_2 | exon | 69231269 | 69231414 | 69231269 | ID=Msa0784610-mRNA-1:exon:20825;Parent=Msa0784610-mRNA-1 |
| chr5_2 | CDS | 69230803 | 69230890 | 69230803 | ID=Msa0784610-mRNA-1:cds;Parent=Msa0784610-mRNA-1 |
| chr5_2 | CDS | 69231269 | 69231414 | 69231269 | ID=Msa0784610-mRNA-1:cds;Parent=Msa0784610-mRNA-1 |
| Gene Sequence |
| Protein sequence |
