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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1288110 | KEH26852.1 | 48.193 | 83 | 43 | 0 | 49 | 131 | 64 | 146 | 3.71e-17 | 86.7 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1288110 | A0A072UB72 | 48.193 | 83 | 43 | 0 | 49 | 131 | 64 | 146 | 1.77e-17 | 86.7 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1288110 | TF | B3 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1288110 | MtrunA17_Chr6g0459981 | 37.363 | 91 | 53 | 2 | 30 | 120 | 63 | 149 | 7.49e-16 | 70.1 |
| Msa1288110 | MtrunA17_Chr2g0281511 | 25.424 | 118 | 86 | 1 | 12 | 129 | 4 | 119 | 2.14e-12 | 59.7 |
| Msa1288110 | MtrunA17_Chr5g0430431 | 33.654 | 104 | 60 | 1 | 28 | 131 | 165 | 259 | 3.72e-12 | 61.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 23 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCAAGCTTATTACTTCAAAC+AGG | 0.315404 | 8_3:-40510826 | Msa1288110:CDS |
| CCTAGTTTCTAATATTGTTT+CGG | 0.351997 | 8_3:+40510678 | None:intergenic |
| ACGTTGATGGAGATCATATT+GGG | 0.370369 | 8_3:+40510911 | None:intergenic |
| ACACCATTACATTAGTGAAT+TGG | 0.388195 | 8_3:-40510871 | Msa1288110:CDS |
| GATCTCCATCAACGTACTTC+CGG | 0.393292 | 8_3:-40510903 | Msa1288110:CDS |
| TACGTTGATGGAGATCATAT+TGG | 0.416147 | 8_3:+40510910 | None:intergenic |
| TTTGCAAAGTGATACAGATC+TGG | 0.439377 | 8_3:+40511071 | None:intergenic |
| CCGAAACAATATTAGAAACT+AGG | 0.463329 | 8_3:-40510678 | None:intergenic |
| TGTATCCGGAAGTACGTTGA+TGG | 0.473916 | 8_3:+40510898 | None:intergenic |
| ACAAATTACGTCAAGGGGAT+AGG | 0.493470 | 8_3:-40510751 | Msa1288110:CDS |
| CAAACTGACATCTCAAATGA+TGG | 0.506635 | 8_3:-40511024 | Msa1288110:intron |
| ATTCCAATTCACTAATGTAA+TGG | 0.506865 | 8_3:+40510868 | None:intergenic |
| GTAATGGTGTGCTGTGTATC+CGG | 0.513065 | 8_3:+40510884 | None:intergenic |
| ATCTCAACAAATAATGACTT+CGG | 0.550533 | 8_3:+40510704 | None:intergenic |
| CAAGCTTATTACTTCAAACA+GGG | 0.561972 | 8_3:-40510825 | Msa1288110:CDS |
| AGACATAACTATTAAGCAAG+AGG | 0.571337 | 8_3:-40511141 | Msa1288110:CDS |
| AAGACAACAAATTACGTCAA+GGG | 0.575704 | 8_3:-40510757 | Msa1288110:CDS |
| AGACAACAAATTACGTCAAG+GGG | 0.598685 | 8_3:-40510756 | Msa1288110:CDS |
| CAACAAATAATGACTTCGGA+GGG | 0.599576 | 8_3:+40510708 | None:intergenic |
| AAAGACAACAAATTACGTCA+AGG | 0.601734 | 8_3:-40510758 | Msa1288110:CDS |
| TCAACAAATAATGACTTCGG+AGG | 0.612423 | 8_3:+40510707 | None:intergenic |
| CGTTGATGGAGATCATATTG+GGG | 0.666163 | 8_3:+40510912 | None:intergenic |
| AAGCTTATTACTTCAAACAG+GGG | 0.703067 | 8_3:-40510824 | Msa1288110:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | ATTCCAATTCACTAATGTAA+TGG | + | chr8_3:40510963-40510982 | None:intergenic | 25.0% |
| !! | TCTCCTAGATATTTTTCATT+TGG | + | chr8_3:40511031-40511050 | None:intergenic | 25.0% |
| ! | AAATGAAAAATATCTAGGAG+AGG | - | chr8_3:40511030-40511049 | Msa1288110:CDS | 25.0% |
| ! | ATCTCAACAAATAATGACTT+CGG | + | chr8_3:40511127-40511146 | None:intergenic | 25.0% |
| AGACATAACTATTAAGCAAG+AGG | - | chr8_3:40510687-40510706 | Msa1288110:CDS | 30.0% | |
| TCTGTATCACTTTGCAAAAA+AGG | - | chr8_3:40510762-40510781 | Msa1288110:CDS | 30.0% | |
| AAAAAAGGTAACTAAGCCTT+GGG | - | chr8_3:40510777-40510796 | Msa1288110:CDS | 30.0% | |
| ACACCATTACATTAGTGAAT+TGG | - | chr8_3:40510957-40510976 | Msa1288110:intron | 30.0% | |
| ! | CTTGCATTCATATTGTTTTC+GGG | + | chr8_3:40510987-40511006 | None:intergenic | 30.0% |
| ! | GCTTGCATTCATATTGTTTT+CGG | + | chr8_3:40510988-40511007 | None:intergenic | 30.0% |
| CAAGCTTATTACTTCAAACA+GGG | - | chr8_3:40511003-40511022 | Msa1288110:intron | 30.0% | |
| AAGCTTATTACTTCAAACAG+GGG | - | chr8_3:40511004-40511023 | Msa1288110:intron | 30.0% | |
| GGTCCAAATGAAAAATATCT+AGG | - | chr8_3:40511025-40511044 | Msa1288110:CDS | 30.0% | |
| AAAAATATCTAGGAGAGGAT+TGG | - | chr8_3:40511035-40511054 | Msa1288110:CDS | 30.0% | |
| AAAGACAACAAATTACGTCA+AGG | - | chr8_3:40511070-40511089 | Msa1288110:CDS | 30.0% | |
| AAGACAACAAATTACGTCAA+GGG | - | chr8_3:40511071-40511090 | Msa1288110:CDS | 30.0% | |
| TTTGCAAAGTGATACAGATC+TGG | + | chr8_3:40510760-40510779 | None:intergenic | 35.0% | |
| CAAAAAAGGTAACTAAGCCT+TGG | - | chr8_3:40510776-40510795 | Msa1288110:CDS | 35.0% | |
| CAAACTGACATCTCAAATGA+TGG | - | chr8_3:40510804-40510823 | Msa1288110:CDS | 35.0% | |
| ! | ACGTTGATGGAGATCATATT+GGG | + | chr8_3:40510920-40510939 | None:intergenic | 35.0% |
| ! | TACGTTGATGGAGATCATAT+TGG | + | chr8_3:40510921-40510940 | None:intergenic | 35.0% |
| GCAAGCTTATTACTTCAAAC+AGG | - | chr8_3:40511002-40511021 | Msa1288110:intron | 35.0% | |
| AGACAACAAATTACGTCAAG+GGG | - | chr8_3:40511072-40511091 | Msa1288110:CDS | 35.0% | |
| CAACAAATAATGACTTCGGA+GGG | + | chr8_3:40511123-40511142 | None:intergenic | 35.0% | |
| TCAACAAATAATGACTTCGG+AGG | + | chr8_3:40511124-40511143 | None:intergenic | 35.0% | |
| !! | GATGTCAGTTTGTTTTCCCA+AGG | + | chr8_3:40510796-40510815 | None:intergenic | 40.0% |
| !! | TATTGGGGAAGTGCTAGAAA+GGG | + | chr8_3:40510904-40510923 | None:intergenic | 40.0% |
| !! | ATATTGGGGAAGTGCTAGAA+AGG | + | chr8_3:40510905-40510924 | None:intergenic | 40.0% |
| ! | CGTTGATGGAGATCATATTG+GGG | + | chr8_3:40510919-40510938 | None:intergenic | 40.0% |
| ACAAATTACGTCAAGGGGAT+AGG | - | chr8_3:40511077-40511096 | Msa1288110:CDS | 40.0% | |
| GATCTCCATCAACGTACTTC+CGG | - | chr8_3:40510925-40510944 | Msa1288110:intron | 45.0% | |
| ! | TGTATCCGGAAGTACGTTGA+TGG | + | chr8_3:40510933-40510952 | None:intergenic | 45.0% |
| GTAATGGTGTGCTGTGTATC+CGG | + | chr8_3:40510947-40510966 | None:intergenic | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 40510679 | 40511171 | 40510679 | ID=Msa1288110;Name=Msa1288110 |
| chr8_3 | mRNA | 40510679 | 40511171 | 40510679 | ID=Msa1288110-mRNA-1;Parent=Msa1288110;Name=Msa1288110-mRNA-1;_AED=0.66;_eAED=0.66;_QI=0|0|0|0.5|1|1|2|0|135 |
| chr8_3 | exon | 40511025 | 40511171 | 40511025 | ID=Msa1288110-mRNA-1:exon:11183;Parent=Msa1288110-mRNA-1 |
| chr8_3 | exon | 40510679 | 40510939 | 40510679 | ID=Msa1288110-mRNA-1:exon:11182;Parent=Msa1288110-mRNA-1 |
| chr8_3 | CDS | 40511025 | 40511171 | 40511025 | ID=Msa1288110-mRNA-1:cds;Parent=Msa1288110-mRNA-1 |
| chr8_3 | CDS | 40510679 | 40510939 | 40510679 | ID=Msa1288110-mRNA-1:cds;Parent=Msa1288110-mRNA-1 |
| Gene Sequence |
| Protein sequence |
