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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0566390 | AET04474.1 | 88.816 | 152 | 14 | 1 | 4 | 152 | 5 | 156 | 2.23e-85 | 257 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0566390 | G7L9K0 | 88.816 | 152 | 14 | 1 | 4 | 152 | 5 | 156 | 1.07e-85 | 257 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0566390 | TF | C2C2-GATA |
| 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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 31 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATAAAACTGGCTTCTCTTC+TGG | 0.255261 | 4_1:-67456447 | None:intergenic |
| TCGAACAATAAGGCCTCTTC+TGG | 0.271838 | 4_1:-67456896 | None:intergenic |
| TTCATACCTTCAAATGAAAT+TGG | 0.274802 | 4_1:+67456932 | Msa0566390:CDS |
| CTTCAAGATTTCCCCAGTTT+TGG | 0.287698 | 4_1:-67456491 | None:intergenic |
| TGGCGCCATGCTGGAGTTGC+TGG | 0.300530 | 4_1:-67456420 | None:intergenic |
| GATGTTTCTGATTCAGATAA+TGG | 0.318368 | 4_1:+67456606 | Msa0566390:CDS |
| ATCCTCAAACTACGCCTCTT+TGG | 0.326587 | 4_1:-67456794 | None:intergenic |
| TCTGGTCCCTGGCGCCATGC+TGG | 0.378150 | 4_1:-67456429 | None:intergenic |
| CCAAGACCAATTTCATTTGA+AGG | 0.378872 | 4_1:-67456938 | None:intergenic |
| CCTTCAAATGAAATTGGTCT+TGG | 0.383519 | 4_1:+67456938 | Msa0566390:CDS |
| CTGTTAGTAAGAAGTTCTTT+TGG | 0.385144 | 4_1:-67456537 | None:intergenic |
| GTGGACTAAGATACCAAAAC+TGG | 0.405891 | 4_1:+67456478 | Msa0566390:CDS |
| CCACATGCATTGCATAAAAC+TGG | 0.410323 | 4_1:-67456459 | None:intergenic |
| AGCAACTCCAGCATGGCGCC+AGG | 0.413779 | 4_1:+67456422 | Msa0566390:CDS |
| CTCCAAAGAGGCGTAGTTTG+AGG | 0.425603 | 4_1:+67456792 | Msa0566390:CDS |
| CGAACAATAAGGCCTCTTCT+GGG | 0.435884 | 4_1:-67456895 | None:intergenic |
| CTGGCTTCTCTTCTGGTCCC+TGG | 0.474139 | 4_1:-67456440 | None:intergenic |
| TCTTCTGGGGATGACTCATC+TGG | 0.478086 | 4_1:-67456881 | None:intergenic |
| GAGGATTATCAATCAGAAGA+TGG | 0.496715 | 4_1:+67456811 | Msa0566390:CDS |
| TTCATATTCATGCAAGTCTA+CGG | 0.538240 | 4_1:+67456766 | Msa0566390:CDS |
| ATCTGAATCAGAAACATCAA+TGG | 0.539843 | 4_1:-67456601 | None:intergenic |
| TTCTACATAGAAGAACCGTC+TGG | 0.563851 | 4_1:-67456977 | None:intergenic |
| GCAACTCCAGCATGGCGCCA+GGG | 0.572723 | 4_1:+67456423 | Msa0566390:CDS |
| TTTGGAAAACAACGTTTGAG+AGG | 0.575726 | 4_1:-67456519 | None:intergenic |
| AGATGAGTCATCCCCAGAAG+AGG | 0.591895 | 4_1:+67456883 | Msa0566390:CDS |
| GCAGTTCTTCTTAAACCAGA+CGG | 0.605128 | 4_1:+67456962 | Msa0566390:CDS |
| TGGACTAAGATACCAAAACT+GGG | 0.618651 | 4_1:+67456479 | Msa0566390:CDS |
| GAACAATAAGGCCTCTTCTG+GGG | 0.622845 | 4_1:-67456894 | None:intergenic |
| AAAGAACTTCTTACTAACAG+TGG | 0.633725 | 4_1:+67456540 | Msa0566390:CDS |
| AGTCTACGGTCTCTCCAAAG+AGG | 0.659563 | 4_1:+67456780 | Msa0566390:CDS |
| GGACTAAGATACCAAAACTG+GGG | 0.731002 | 4_1:+67456480 | Msa0566390:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TGTAAAGAAAAGAGTGAAAA+TGG | - | chr4_1:67456654-67456673 | None:intergenic | 25.0% |
| ! | TTCATACCTTCAAATGAAAT+TGG | + | chr4_1:67456932-67456951 | Msa0566390:CDS | 25.0% |
| ! | CTGTTAGTAAGAAGTTCTTT+TGG | - | chr4_1:67456540-67456559 | None:intergenic | 30.0% |
| AAAGAACTTCTTACTAACAG+TGG | + | chr4_1:67456540-67456559 | Msa0566390:CDS | 30.0% | |
| ATCTGAATCAGAAACATCAA+TGG | - | chr4_1:67456604-67456623 | None:intergenic | 30.0% | |
| ! | GATGTTTCTGATTCAGATAA+TGG | + | chr4_1:67456606-67456625 | Msa0566390:CDS | 30.0% |
| TTCATATTCATGCAAGTCTA+CGG | + | chr4_1:67456766-67456785 | Msa0566390:CDS | 30.0% | |
| ! | GTTCACATTTTCGAACAATA+AGG | - | chr4_1:67456909-67456928 | None:intergenic | 30.0% |
| TGGACTAAGATACCAAAACT+GGG | + | chr4_1:67456479-67456498 | Msa0566390:CDS | 35.0% | |
| TTTGGAAAACAACGTTTGAG+AGG | - | chr4_1:67456522-67456541 | None:intergenic | 35.0% | |
| !! | TGCTATATACTACTTTTGCG+AGG | + | chr4_1:67456675-67456694 | Msa0566390:intron | 35.0% |
| !! | GCTATATACTACTTTTGCGA+GGG | + | chr4_1:67456676-67456695 | Msa0566390:intron | 35.0% |
| GAGGATTATCAATCAGAAGA+TGG | + | chr4_1:67456811-67456830 | Msa0566390:CDS | 35.0% | |
| CCAAGACCAATTTCATTTGA+AGG | - | chr4_1:67456941-67456960 | None:intergenic | 35.0% | |
| ! | CCTTCAAATGAAATTGGTCT+TGG | + | chr4_1:67456938-67456957 | Msa0566390:CDS | 35.0% |
| ! | CATAAAACTGGCTTCTCTTC+TGG | - | chr4_1:67456450-67456469 | None:intergenic | 40.0% |
| CCACATGCATTGCATAAAAC+TGG | - | chr4_1:67456462-67456481 | None:intergenic | 40.0% | |
| !! | CCAGTTTTATGCAATGCATG+TGG | + | chr4_1:67456459-67456478 | Msa0566390:CDS | 40.0% |
| ! | GTGGACTAAGATACCAAAAC+TGG | + | chr4_1:67456478-67456497 | Msa0566390:CDS | 40.0% |
| GGACTAAGATACCAAAACTG+GGG | + | chr4_1:67456480-67456499 | Msa0566390:CDS | 40.0% | |
| ! | CTTCAAGATTTCCCCAGTTT+TGG | - | chr4_1:67456494-67456513 | None:intergenic | 40.0% |
| !! | ATATACTACTTTTGCGAGGG+TGG | + | chr4_1:67456679-67456698 | Msa0566390:intron | 40.0% |
| !! | TATACTACTTTTGCGAGGGT+GGG | + | chr4_1:67456680-67456699 | Msa0566390:intron | 40.0% |
| GCAGTTCTTCTTAAACCAGA+CGG | + | chr4_1:67456962-67456981 | Msa0566390:CDS | 40.0% | |
| ! | TTTTTCCAGCAACTCCAGCA+TGG | + | chr4_1:67456415-67456434 | Msa0566390:CDS | 45.0% |
| ATCCTCAAACTACGCCTCTT+TGG | - | chr4_1:67456797-67456816 | None:intergenic | 45.0% | |
| GAACAATAAGGCCTCTTCTG+GGG | - | chr4_1:67456897-67456916 | None:intergenic | 45.0% | |
| CGAACAATAAGGCCTCTTCT+GGG | - | chr4_1:67456898-67456917 | None:intergenic | 45.0% | |
| TCGAACAATAAGGCCTCTTC+TGG | - | chr4_1:67456899-67456918 | None:intergenic | 45.0% | |
| AGTCTACGGTCTCTCCAAAG+AGG | + | chr4_1:67456780-67456799 | Msa0566390:CDS | 50.0% | |
| ! | CTCCAAAGAGGCGTAGTTTG+AGG | + | chr4_1:67456792-67456811 | Msa0566390:CDS | 50.0% |
| ! | TCTTCTGGGGATGACTCATC+TGG | - | chr4_1:67456884-67456903 | None:intergenic | 50.0% |
| AGATGAGTCATCCCCAGAAG+AGG | + | chr4_1:67456883-67456902 | Msa0566390:CDS | 50.0% | |
| CTGGCTTCTCTTCTGGTCCC+TGG | - | chr4_1:67456443-67456462 | None:intergenic | 60.0% | |
| TGGCGCCATGCTGGAGTTGC+TGG | - | chr4_1:67456423-67456442 | None:intergenic | 65.0% | |
| AGCAACTCCAGCATGGCGCC+AGG | + | chr4_1:67456422-67456441 | Msa0566390:CDS | 65.0% | |
| GCAACTCCAGCATGGCGCCA+GGG | + | chr4_1:67456423-67456442 | Msa0566390:CDS | 65.0% | |
| TCTGGTCCCTGGCGCCATGC+TGG | - | chr4_1:67456432-67456451 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 67456411 | 67456997 | 67456411 | ID=Msa0566390;Name=Msa0566390 |
| chr4_1 | mRNA | 67456411 | 67456997 | 67456411 | ID=Msa0566390-mRNA-1;Parent=Msa0566390;Name=Msa0566390-mRNA-1;_AED=0.02;_eAED=0.02;_QI=0|0|0|1|1|1|2|0|152 |
| chr4_1 | exon | 67456411 | 67456627 | 67456411 | ID=Msa0566390-mRNA-1:exon:22113;Parent=Msa0566390-mRNA-1 |
| chr4_1 | exon | 67456756 | 67456997 | 67456756 | ID=Msa0566390-mRNA-1:exon:22114;Parent=Msa0566390-mRNA-1 |
| chr4_1 | CDS | 67456411 | 67456627 | 67456411 | ID=Msa0566390-mRNA-1:cds;Parent=Msa0566390-mRNA-1 |
| chr4_1 | CDS | 67456756 | 67456997 | 67456756 | ID=Msa0566390-mRNA-1:cds;Parent=Msa0566390-mRNA-1 |
| Gene Sequence |
| Protein sequence |
