Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene05877.t1 | XP_024627814.1 | 77.9 | 195 | 37 | 1 | 10 | 198 | 37 | 231 | 1.30E-73 | 286.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene05877.t1 | A0A396GR48 | 77.9 | 195 | 37 | 1 | 10 | 198 | 37 | 231 | 9.1e-74 | 286.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene05877 | MS.gene59086 | 0.802378 | 5.77E-49 | -1.69E-46 |
| MS.gene05877 | MS.gene61462 | 0.818104 | 2.33E-52 | -1.69E-46 |
| MS.gene05877 | MS.gene62461 | 0.808074 | 3.70E-50 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene05877.t1 | MTR_8g102755 | 58.706 | 201 | 46 | 4 | 10 | 204 | 37 | 206 | 2.69e-66 | 203 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 28 sgRNAs with CRISPR-Local
Find 53 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCAAGAAATGTTTATACTTC+AGG | 0.257939 | 4.4:-3404482 | MS.gene05877:CDS |
| TAATGATGTTGAAATGAATT+TGG | 0.258979 | 4.4:-3404585 | MS.gene05877:CDS |
| ACTACTCATGTTTATACTTC+AGG | 0.281761 | 4.4:-3404512 | MS.gene05877:CDS |
| AAGAGTGATGACAAAGAAAA+AGG | 0.308555 | 4.4:-3404939 | MS.gene05877:CDS |
| CAAAGCTTTCATGATGAAAA+TGG | 0.312117 | 4.4:-3404735 | MS.gene05877:CDS |
| GTTTCCCTTCTCTTTAATTC+CGG | 0.323029 | 4.4:+3404821 | None:intergenic |
| ATACTCCATTTCTCTGCATA+TGG | 0.341303 | 4.4:+3405223 | None:intergenic |
| TCTTGTATTAATTTCTTCAT+CGG | 0.409976 | 4.4:+3404538 | None:intergenic |
| TTGAACCATATGCAGAGAAA+TGG | 0.442521 | 4.4:-3405228 | MS.gene05877:CDS |
| ACCAAGCTTGTTGTAGGAAG+TGG | 0.446868 | 4.4:-3405065 | MS.gene05877:CDS |
| CTTCCTACAACAAGCTTGGT+TGG | 0.453707 | 4.4:+3405068 | None:intergenic |
| GACAAGGATGTTGAAGAAAC+CGG | 0.472516 | 4.4:-3404840 | MS.gene05877:CDS |
| AATGTTTATAAAGTCACATA+TGG | 0.478201 | 4.4:-3404614 | MS.gene05877:CDS |
| AGTCCAACCAAGCTTGTTGT+AGG | 0.489137 | 4.4:-3405071 | MS.gene05877:CDS |
| GAAATCAAAATTCTCATTGA+AGG | 0.492366 | 4.4:-3404868 | MS.gene05877:CDS |
| TCCACTTCCTACAACAAGCT+TGG | 0.517256 | 4.4:+3405064 | None:intergenic |
| GATGTTGAAATGAATTTGGA+GGG | 0.522379 | 4.4:-3404581 | MS.gene05877:CDS |
| AAAATTCTCATTGAAGGAGA+AGG | 0.537516 | 4.4:-3404862 | MS.gene05877:CDS |
| TCAGGAAAGGTAGATTCTGT+TGG | 0.537763 | 4.4:-3404981 | MS.gene05877:CDS |
| CTGCAAAATGATATGCATGT+TGG | 0.552120 | 4.4:-3404900 | MS.gene05877:CDS |
| GTTTGCAATCAAGAAATAAG+TGG | 0.553693 | 4.4:-3404460 | MS.gene05877:CDS |
| GAAACCGGAATTAAAGAGAA+GGG | 0.561260 | 4.4:-3404825 | MS.gene05877:CDS |
| TGATGTTGAAATGAATTTGG+AGG | 0.570754 | 4.4:-3404582 | MS.gene05877:CDS |
| AGAAACCGGAATTAAAGAGA+AGG | 0.597087 | 4.4:-3404826 | MS.gene05877:CDS |
| CTCATTGAAGGAGAAGGACA+AGG | 0.599240 | 4.4:-3404856 | MS.gene05877:CDS |
| GAAAGGGATAATGTCGCGAT+CGG | 0.615835 | 4.4:-3405024 | MS.gene05877:CDS |
| GAGTGGCGCAAATGATGACG+AGG | 0.674631 | 4.4:-3404772 | MS.gene05877:CDS |
| TGATGACGAGGAAACAAGTG+AGG | 0.692705 | 4.4:-3404760 | MS.gene05877:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATGTTTATAAAGTCACATA+TGG | - | chr4.4:3405071-3405090 | MS.gene05877:CDS | 20.0% |
| !! | TAATGATGTTGAAATGAATT+TGG | - | chr4.4:3405100-3405119 | MS.gene05877:CDS | 20.0% |
| !! | TCTTGTATTAATTTCTTCAT+CGG | + | chr4.4:3405150-3405169 | None:intergenic | 20.0% |
| !!! | ATTGAAGTTGATAATAGTTT+TGG | - | chr4.4:3404535-3404554 | MS.gene05877:CDS | 20.0% |
| ! | AAAAGGATCTAACATAAAAC+AGG | - | chr4.4:3404511-3404530 | MS.gene05877:CDS | 25.0% |
| ! | GAAATCAAAATTCTCATTGA+AGG | - | chr4.4:3404817-3404836 | MS.gene05877:CDS | 25.0% |
| ! | TCAAGAAATGTTTATACTTC+AGG | - | chr4.4:3405203-3405222 | MS.gene05877:intron | 25.0% |
| !! | AATGTTTTCTTCAGTAAAGT+CGG | + | chr4.4:3404984-3405003 | None:intergenic | 25.0% |
| !! | CAACTTTTAGCAAAGTAAAT+TGG | - | chr4.4:3405005-3405024 | MS.gene05877:CDS | 25.0% |
| !! | TGTTTTATGTTAGATCCTTT+TGG | + | chr4.4:3404512-3404531 | None:intergenic | 25.0% |
| AAAATTCTCATTGAAGGAGA+AGG | - | chr4.4:3404823-3404842 | MS.gene05877:CDS | 30.0% | |
| AAGAGTGATGACAAAGAAAA+AGG | - | chr4.4:3404746-3404765 | MS.gene05877:CDS | 30.0% | |
| ACTACTCATGTTTATACTTC+AGG | - | chr4.4:3405173-3405192 | MS.gene05877:intron | 30.0% | |
| CAAAGCTTTCATGATGAAAA+TGG | - | chr4.4:3404950-3404969 | MS.gene05877:CDS | 30.0% | |
| CACACAGAAACAAAAAACTA+TGG | - | chr4.4:3404590-3404609 | MS.gene05877:CDS | 30.0% | |
| GATGTTGAAATGAATTTGGA+GGG | - | chr4.4:3405104-3405123 | MS.gene05877:CDS | 30.0% | |
| GTTTGCAATCAAGAAATAAG+TGG | - | chr4.4:3405225-3405244 | MS.gene05877:intron | 30.0% | |
| TGATGTTGAAATGAATTTGG+AGG | - | chr4.4:3405103-3405122 | MS.gene05877:CDS | 30.0% | |
| ! | ATGTTTTCTTCAGTAAAGTC+GGG | + | chr4.4:3404983-3405002 | None:intergenic | 30.0% |
| ! | GAAATGGAGTATGAATCTTT+TGG | - | chr4.4:3404473-3404492 | MS.gene05877:CDS | 30.0% |
| !!! | CTAATTTTTTTGGACGGAAA+GGG | - | chr4.4:3404645-3404664 | MS.gene05877:intron | 30.0% |
| AGAAACCGGAATTAAAGAGA+AGG | - | chr4.4:3404859-3404878 | MS.gene05877:CDS | 35.0% | |
| ATACTCCATTTCTCTGCATA+TGG | + | chr4.4:3404465-3404484 | None:intergenic | 35.0% | |
| CAACAAGATGCAGAAAAATG+TGG | - | chr4.4:3404886-3404905 | MS.gene05877:CDS | 35.0% | |
| CTGCAAAATGATATGCATGT+TGG | - | chr4.4:3404785-3404804 | MS.gene05877:CDS | 35.0% | |
| GAAACCGGAATTAAAGAGAA+GGG | - | chr4.4:3404860-3404879 | MS.gene05877:CDS | 35.0% | |
| GTTTCCCTTCTCTTTAATTC+CGG | + | chr4.4:3404867-3404886 | None:intergenic | 35.0% | |
| TTGAACCATATGCAGAGAAA+TGG | - | chr4.4:3404457-3404476 | MS.gene05877:CDS | 35.0% | |
| ! | AAGAAAAAGGAGTACAACTC+AGG | - | chr4.4:3404759-3404778 | MS.gene05877:CDS | 35.0% |
| ! | AGAAAAAGGAGTACAACTCA+GGG | - | chr4.4:3404760-3404779 | MS.gene05877:CDS | 35.0% |
| ! | ATCGGATGAAAGAGCTTTTT+CGG | - | chr4.4:3404679-3404698 | MS.gene05877:intron | 35.0% |
| ! | TGGAGTATGAATCTTTTGGA+AGG | - | chr4.4:3404477-3404496 | MS.gene05877:CDS | 35.0% |
| !!! | GCTAATTTTTTTGGACGGAA+AGG | - | chr4.4:3404644-3404663 | MS.gene05877:intron | 35.0% |
| !!! | GGAAGTGGAGCTAATTTTTT+TGG | - | chr4.4:3404635-3404654 | MS.gene05877:intron | 35.0% |
| !!! | GTGGAGCTAATTTTTTTGGA+CGG | - | chr4.4:3404639-3404658 | MS.gene05877:intron | 35.0% |
| !!! | TAGTTTTGGCTATTTGTGTC+TGG | - | chr4.4:3404549-3404568 | MS.gene05877:CDS | 35.0% |
| !!! | TGTTAGATCCTTTTGGCTTT+TGG | + | chr4.4:3404505-3404524 | None:intergenic | 35.0% |
| CAAGATGCAGAAAAATGTGG+TGG | - | chr4.4:3404889-3404908 | MS.gene05877:CDS | 40.0% | |
| GACAAGGATGTTGAAGAAAC+CGG | - | chr4.4:3404845-3404864 | MS.gene05877:CDS | 40.0% | |
| TCAGGAAAGGTAGATTCTGT+TGG | - | chr4.4:3404704-3404723 | MS.gene05877:CDS | 40.0% | |
| ! | TTTTCTTCAGTAAAGTCGGG+CGG | + | chr4.4:3404980-3404999 | None:intergenic | 40.0% |
| CTCATTGAAGGAGAAGGACA+AGG | - | chr4.4:3404829-3404848 | MS.gene05877:CDS | 45.0% | |
| CTTCCTACAACAAGCTTGGT+TGG | + | chr4.4:3404620-3404639 | None:intergenic | 45.0% | |
| GAAAGGGATAATGTCGCGAT+CGG | - | chr4.4:3404661-3404680 | MS.gene05877:intron | 45.0% | |
| TCCACTTCCTACAACAAGCT+TGG | + | chr4.4:3404624-3404643 | None:intergenic | 45.0% | |
| ! | CAGAAAAATGTGGTGGAGAG+TGG | - | chr4.4:3404896-3404915 | MS.gene05877:CDS | 45.0% |
| ! | TGATGACGAGGAAACAAGTG+AGG | - | chr4.4:3404925-3404944 | MS.gene05877:CDS | 45.0% |
| !! | ACCAAGCTTGTTGTAGGAAG+TGG | - | chr4.4:3404620-3404639 | MS.gene05877:CDS | 45.0% |
| !! | AGTCCAACCAAGCTTGTTGT+AGG | - | chr4.4:3404614-3404633 | MS.gene05877:CDS | 45.0% |
| !! | GGAAGGTACCAAAAGCCAAA+AGG | - | chr4.4:3404494-3404513 | MS.gene05877:CDS | 45.0% |
| !!! | AGCTTTTTCGGACTCAGGAA+AGG | - | chr4.4:3404691-3404710 | MS.gene05877:CDS | 45.0% |
| !!! | GAAAGAGCTTTTTCGGACTC+AGG | - | chr4.4:3404686-3404705 | MS.gene05877:intron | 45.0% |
| ! | GAGTGGCGCAAATGATGACG+AGG | - | chr4.4:3404913-3404932 | MS.gene05877:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 3404454 | 3405253 | 3404454 | ID=MS.gene05877 |
| chr4.4 | mRNA | 3404454 | 3405253 | 3404454 | ID=MS.gene05877.t1;Parent=MS.gene05877 |
| chr4.4 | exon | 3405227 | 3405253 | 3405227 | ID=MS.gene05877.t1.exon1;Parent=MS.gene05877.t1 |
| chr4.4 | CDS | 3405227 | 3405253 | 3405227 | ID=cds.MS.gene05877.t1;Parent=MS.gene05877.t1 |
| chr4.4 | exon | 3404689 | 3405123 | 3404689 | ID=MS.gene05877.t1.exon2;Parent=MS.gene05877.t1 |
| chr4.4 | CDS | 3404689 | 3405123 | 3404689 | ID=cds.MS.gene05877.t1;Parent=MS.gene05877.t1 |
| chr4.4 | exon | 3404454 | 3404639 | 3404454 | ID=MS.gene05877.t1.exon3;Parent=MS.gene05877.t1 |
| chr4.4 | CDS | 3404454 | 3404639 | 3404454 | ID=cds.MS.gene05877.t1;Parent=MS.gene05877.t1 |
| Gene Sequence |
| Protein sequence |
