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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0697300 | RHN62674.1 | 100.000 | 75 | 0 | 0 | 1 | 75 | 76 | 150 | 3.25e-45 | 152 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0697300 | A0A396IEI3 | 100.000 | 75 | 0 | 0 | 1 | 75 | 76 | 150 | 1.55e-45 | 152 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0089630 | Msa0697300 | 0.812523 | 4.061025e-51 | -8.615850e-47 |
| Msa0697300 | Msa0979510 | 0.801148 | 1.032243e-48 | -8.615850e-47 |
| Msa0560070 | Msa0697300 | 0.860495 | 1.985442e-63 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0697300 | MtrunA17_Chr4g0049961 | 100.000 | 75 | 0 | 0 | 1 | 75 | 76 | 150 | 2.99e-49 | 152 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 25 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GACACAAACATTTCCTGATT+TGG | 0.225196 | 4_4:+67278694 | Msa0697300:CDS |
| GAAGTCAGGAATATTGAAAA+TGG | 0.251652 | 4_4:-67278789 | None:intergenic |
| CCTGATTTGGGCAAAATTCC+AGG | 0.274023 | 4_4:+67278707 | Msa0697300:CDS |
| ACACAAACATTTCCTGATTT+GGG | 0.316697 | 4_4:+67278695 | Msa0697300:CDS |
| TACTCTGGCCATTCAGTCAC+TGG | 0.448656 | 4_4:-67278752 | None:intergenic |
| CTTTCCCACCAGTGACTGAA+TGG | 0.466160 | 4_4:+67278744 | Msa0697300:CDS |
| ACCTTGGACATTGTCAATGC+TGG | 0.468209 | 4_4:-67278651 | None:intergenic |
| ATTGACAATGTCCAAGGTGG+TGG | 0.469460 | 4_4:+67278656 | Msa0697300:CDS |
| GATGGTGGAGAGAAGAAGTC+AGG | 0.493659 | 4_4:-67278803 | None:intergenic |
| AAGTCAGGAATATTGAAAAT+GGG | 0.495802 | 4_4:-67278788 | None:intergenic |
| TGACTGAATGGCCAGAGTAC+AGG | 0.500741 | 4_4:+67278756 | Msa0697300:CDS |
| CATTCAGTCACTGGTGGGAA+AGG | 0.519050 | 4_4:-67278743 | None:intergenic |
| AAAGGAGGAAACTCTAGCCC+TGG | 0.530197 | 4_4:-67278725 | None:intergenic |
| CTGATTTGGGCAAAATTCCA+GGG | 0.550481 | 4_4:+67278708 | Msa0697300:CDS |
| GGTGGAGGCAACCTGTACTC+TGG | 0.553702 | 4_4:-67278767 | None:intergenic |
| GTTGTGGTGGTGTCAGATGG+TGG | 0.556621 | 4_4:-67278818 | None:intergenic |
| GTTGTTGTGGTGGTGTCAGA+TGG | 0.562955 | 4_4:-67278821 | None:intergenic |
| TCAGTCACTGGTGGGAAAGG+AGG | 0.574402 | 4_4:-67278740 | None:intergenic |
| TCCAGCATTGACAATGTCCA+AGG | 0.592453 | 4_4:+67278650 | Msa0697300:CDS |
| TCTGGCCATTCAGTCACTGG+TGG | 0.608143 | 4_4:-67278749 | None:intergenic |
| TCAGGAATATTGAAAATGGG+TGG | 0.625430 | 4_4:-67278785 | None:intergenic |
| CTGGCCATTCAGTCACTGGT+GGG | 0.629336 | 4_4:-67278748 | None:intergenic |
| GGAATATTGAAAATGGGTGG+AGG | 0.630069 | 4_4:-67278782 | None:intergenic |
| TTGACAATGTCCAAGGTGGT+GGG | 0.635337 | 4_4:+67278657 | Msa0697300:CDS |
| AGCATTGACAATGTCCAAGG+TGG | 0.725622 | 4_4:+67278653 | Msa0697300:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATAGCTAACAAAAACAAA+CGG | - | chr4_4:67278613-67278632 | None:intergenic | 20.0% |
| ! | AAGTCAGGAATATTGAAAAT+GGG | - | chr4_4:67278791-67278810 | None:intergenic | 25.0% |
| ACACAAACATTTCCTGATTT+GGG | + | chr4_4:67278695-67278714 | Msa0697300:CDS | 30.0% | |
| GAAGTCAGGAATATTGAAAA+TGG | - | chr4_4:67278792-67278811 | None:intergenic | 30.0% | |
| TAACAAAAACAAACGGACAG+AGG | - | chr4_4:67278606-67278625 | None:intergenic | 35.0% | |
| GACACAAACATTTCCTGATT+TGG | + | chr4_4:67278694-67278713 | Msa0697300:CDS | 35.0% | |
| TCAGGAATATTGAAAATGGG+TGG | - | chr4_4:67278788-67278807 | None:intergenic | 35.0% | |
| !! | CTGATTTGGGCAAAATTCCA+GGG | + | chr4_4:67278708-67278727 | Msa0697300:CDS | 40.0% |
| GGAATATTGAAAATGGGTGG+AGG | - | chr4_4:67278785-67278804 | None:intergenic | 40.0% | |
| ! | TTTTGTAGCAGTTGTTGTGG+TGG | - | chr4_4:67278834-67278853 | None:intergenic | 40.0% |
| !!! | TGGTTTTGTAGCAGTTGTTG+TGG | - | chr4_4:67278837-67278856 | None:intergenic | 40.0% |
| !! | TCCAGCATTGACAATGTCCA+AGG | + | chr4_4:67278650-67278669 | Msa0697300:CDS | 45.0% |
| ACCTTGGACATTGTCAATGC+TGG | - | chr4_4:67278654-67278673 | None:intergenic | 45.0% | |
| !! | AGCATTGACAATGTCCAAGG+TGG | + | chr4_4:67278653-67278672 | Msa0697300:CDS | 45.0% |
| ATTGACAATGTCCAAGGTGG+TGG | + | chr4_4:67278656-67278675 | Msa0697300:CDS | 45.0% | |
| TTGACAATGTCCAAGGTGGT+GGG | + | chr4_4:67278657-67278676 | Msa0697300:CDS | 45.0% | |
| ! | CCTGGAATTTTGCCCAAATC+AGG | - | chr4_4:67278710-67278729 | None:intergenic | 45.0% |
| !! | CCTGATTTGGGCAAAATTCC+AGG | + | chr4_4:67278707-67278726 | Msa0697300:CDS | 45.0% |
| !! | GTTTTCTAGTCCCACCACCT+TGG | - | chr4_4:67278670-67278689 | None:intergenic | 50.0% |
| AAAGGAGGAAACTCTAGCCC+TGG | - | chr4_4:67278728-67278747 | None:intergenic | 50.0% | |
| CATTCAGTCACTGGTGGGAA+AGG | - | chr4_4:67278746-67278765 | None:intergenic | 50.0% | |
| CTTTCCCACCAGTGACTGAA+TGG | + | chr4_4:67278744-67278763 | Msa0697300:CDS | 50.0% | |
| TACTCTGGCCATTCAGTCAC+TGG | - | chr4_4:67278755-67278774 | None:intergenic | 50.0% | |
| TGACTGAATGGCCAGAGTAC+AGG | + | chr4_4:67278756-67278775 | Msa0697300:CDS | 50.0% | |
| !! | GATGGTGGAGAGAAGAAGTC+AGG | - | chr4_4:67278806-67278825 | None:intergenic | 50.0% |
| ! | GTTGTTGTGGTGGTGTCAGA+TGG | - | chr4_4:67278824-67278843 | None:intergenic | 50.0% |
| TCAGTCACTGGTGGGAAAGG+AGG | - | chr4_4:67278743-67278762 | None:intergenic | 55.0% | |
| CTGGCCATTCAGTCACTGGT+GGG | - | chr4_4:67278751-67278770 | None:intergenic | 55.0% | |
| TCTGGCCATTCAGTCACTGG+TGG | - | chr4_4:67278752-67278771 | None:intergenic | 55.0% | |
| ! | GTTGTGGTGGTGTCAGATGG+TGG | - | chr4_4:67278821-67278840 | None:intergenic | 55.0% |
| GGTGGAGGCAACCTGTACTC+TGG | - | chr4_4:67278770-67278789 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 67278599 | 67278859 | 67278599 | ID=Msa0697300;Name=Msa0697300 |
| chr4_4 | mRNA | 67278599 | 67278859 | 67278599 | ID=Msa0697300-mRNA-1;Parent=Msa0697300;Name=Msa0697300-mRNA-1;_AED=0.22;_eAED=0.22;_QI=0|-1|0|1|-1|1|1|0|86 |
| chr4_4 | exon | 67278599 | 67278859 | 67278599 | ID=Msa0697300-mRNA-1:exon:19749;Parent=Msa0697300-mRNA-1 |
| chr4_4 | CDS | 67278599 | 67278859 | 67278599 | ID=Msa0697300-mRNA-1:cds;Parent=Msa0697300-mRNA-1 |
| Gene Sequence |
| Protein sequence |
