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.gene069581.t1 | XP_013447184.1 | 94.7 | 95 | 5 | 0 | 1 | 95 | 1 | 95 | 2.80E-41 | 177.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene069581.t1 | O64481 | 46.6 | 58 | 30 | 1 | 37 | 93 | 65 | 122 | 3.9e-07 | 55.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene069581.t1 | A0A072TVK3 | 94.7 | 95 | 5 | 0 | 1 | 95 | 1 | 95 | 2.0e-41 | 177.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene06065 | MS.gene069581 | 0.818317 | 2.09E-52 | -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.gene069581.t1 | MTR_8g099385 | 94.737 | 95 | 5 | 0 | 1 | 95 | 1 | 95 | 9.78e-62 | 182 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene069581.t1 | AT2G19170 | 46.552 | 58 | 30 | 1 | 37 | 93 | 65 | 122 | 8.48e-11 | 57.0 |
| MS.gene069581.t1 | AT2G19170 | 46.552 | 58 | 30 | 1 | 37 | 93 | 65 | 122 | 8.48e-11 | 57.0 |
Find 9 sgRNAs with CRISPR-Local
Find 22 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GACAAAGAAAAGTTCACTTT+TGG | 0.321241 | 4.4:-4949551 | None:intergenic |
| GATATCTTCTTGTAGCTTCC+TGG | 0.375321 | 4.4:-4949842 | None:intergenic |
| ACGAGAGACTTCGAACTAAT+CGG | 0.470675 | 4.4:+4949596 | MS.gene069581:CDS |
| GCTCATCATGCTTTCTACTA+AGG | 0.476413 | 4.4:-4949799 | None:intergenic |
| TTAGCAAGCACTCTAGAGCC+AGG | 0.504266 | 4.4:+4949824 | MS.gene069581:CDS |
| ATTACACATTACTTGATCCT+CGG | 0.550610 | 4.4:-4949903 | None:intergenic |
| AATGTACTCAGATCTGCAAA+AGG | 0.568112 | 4.4:+4950046 | MS.gene069581:CDS |
| TGCAAAAGGAGTGAGAATTG+TGG | 0.605047 | 4.4:+4950060 | MS.gene069581:CDS |
| TTTAATTAGAACTAAGAGTG+GGG | 0.607456 | 4.4:+4949757 | MS.gene069581:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATAACAAGATAATTAAGAAA+AGG | - | chr4.4:4950011-4950030 | None:intergenic | 15.0% |
| !! | TGTTACAAATAATAAAACAA+AGG | - | chr4.4:4949640-4949659 | None:intergenic | 15.0% |
| !!! | AGATAATGTTTTTTTTTTGA+AGG | - | chr4.4:4949696-4949715 | None:intergenic | 15.0% |
| !! | ATAAAATTGTACTTTATACG+AGG | - | chr4.4:4949933-4949952 | None:intergenic | 20.0% |
| !! | TGATATTTACACATATTATG+TGG | + | chr4.4:4949972-4949991 | MS.gene069581:intron | 20.0% |
| !!! | TTTTAATTAGAACTAAGAGT+GGG | + | chr4.4:4949756-4949775 | MS.gene069581:intron | 20.0% |
| ! | TAAGAAAAGGAAAACATCAT+AGG | - | chr4.4:4949998-4950017 | None:intergenic | 25.0% |
| ! | TTTAATTAGAACTAAGAGTG+GGG | + | chr4.4:4949757-4949776 | MS.gene069581:intron | 25.0% |
| !!! | CTTTTAATTAGAACTAAGAG+TGG | + | chr4.4:4949755-4949774 | MS.gene069581:intron | 25.0% |
| ATTACACATTACTTGATCCT+CGG | - | chr4.4:4949906-4949925 | None:intergenic | 30.0% | |
| ! | ATCTTGTTATGCATTCAAAC+AGG | + | chr4.4:4950021-4950040 | MS.gene069581:intron | 30.0% |
| ! | GACAAAGAAAAGTTCACTTT+TGG | - | chr4.4:4949554-4949573 | None:intergenic | 30.0% |
| !!! | TATTGTTGATGGTTTTACAG+TGG | + | chr4.4:4949874-4949893 | MS.gene069581:CDS | 30.0% |
| !!! | TCTTCTTTTGCTATTGTTGA+TGG | + | chr4.4:4949863-4949882 | MS.gene069581:CDS | 30.0% |
| AATGTACTCAGATCTGCAAA+AGG | + | chr4.4:4950046-4950065 | MS.gene069581:CDS | 35.0% | |
| ! | TTTTGCAGATCTGAGTACAT+TGG | - | chr4.4:4950047-4950066 | None:intergenic | 35.0% |
| ACGAGAGACTTCGAACTAAT+CGG | + | chr4.4:4949596-4949615 | MS.gene069581:CDS | 40.0% | |
| GATATCTTCTTGTAGCTTCC+TGG | - | chr4.4:4949845-4949864 | None:intergenic | 40.0% | |
| GCTCATCATGCTTTCTACTA+AGG | - | chr4.4:4949802-4949821 | None:intergenic | 40.0% | |
| TGCAAAAGGAGTGAGAATTG+TGG | + | chr4.4:4950060-4950079 | MS.gene069581:CDS | 40.0% | |
| ! | TTTTACAGTGGAAATCACCG+AGG | + | chr4.4:4949886-4949905 | MS.gene069581:CDS | 40.0% |
| !! | TTAGCAAGCACTCTAGAGCC+AGG | + | chr4.4:4949824-4949843 | MS.gene069581:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 4949541 | 4950105 | 4949541 | ID=MS.gene069581 |
| chr4.4 | mRNA | 4949541 | 4950105 | 4949541 | ID=MS.gene069581.t1;Parent=MS.gene069581 |
| chr4.4 | exon | 4949541 | 4949617 | 4949541 | ID=MS.gene069581.t1.exon1;Parent=MS.gene069581.t1 |
| chr4.4 | CDS | 4949541 | 4949617 | 4949541 | ID=cds.MS.gene069581.t1;Parent=MS.gene069581.t1 |
| chr4.4 | exon | 4949766 | 4949913 | 4949766 | ID=MS.gene069581.t1.exon2;Parent=MS.gene069581.t1 |
| chr4.4 | CDS | 4949766 | 4949913 | 4949766 | ID=cds.MS.gene069581.t1;Parent=MS.gene069581.t1 |
| chr4.4 | exon | 4950043 | 4950105 | 4950043 | ID=MS.gene069581.t1.exon3;Parent=MS.gene069581.t1 |
| chr4.4 | CDS | 4950043 | 4950105 | 4950043 | ID=cds.MS.gene069581.t1;Parent=MS.gene069581.t1 |
| Gene Sequence |
| Protein sequence |
