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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0931040 | AES93574.1 | 88.265 | 196 | 7 | 1 | 1 | 180 | 1 | 196 | 4.06e-116 | 337 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0931040 | sp|Q9BBS9|RPOB_LOTJA | 77.674 | 215 | 8 | 2 | 6 | 180 | 1 | 215 | 4.18e-103 | 322 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0931040 | Msa0931050 | 0.832182 | 1.094073e-55 | -8.615850e-47 |
| Msa0931040 | Msa0931250 | 0.819692 | 1.016299e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0931040 | MtrunA17_Chr4g0016641 | 80.000 | 220 | 4 | 2 | 1 | 180 | 1 | 220 | 2.54e-109 | 335 |
| Msa0931040 | MtrunA17_CPg0493041 | 80.000 | 220 | 4 | 2 | 1 | 180 | 1 | 220 | 2.54e-109 | 335 |
| Msa0931040 | MtrunA17_Chr4g0015521 | 97.030 | 101 | 3 | 0 | 80 | 180 | 9 | 109 | 2.04e-67 | 201 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0931040 | ATCG00190.1 | 77.895 | 190 | 18 | 1 | 15 | 180 | 26 | 215 | 1.10e-92 | 291 |
Find 33 sgRNAs with CRISPR-Local
Find 61 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATATATCCGCGGGATTAATT+TGG | 0.209384 | 6_2:-80288914 | Msa0931040:CDS |
| TTGATAGAAAAGCAAGGATA+TGG | 0.252693 | 6_2:-80288672 | Msa0931040:CDS |
| TGGGGAAATTGAAAATGCTT+GGG | 0.386996 | 6_2:-80289168 | Msa0931040:CDS |
| AATTGAAAATGCTTGGGGTT+GGG | 0.394420 | 6_2:-80289162 | Msa0931040:CDS |
| ATGGGGAAATTGAAAATGCT+TGG | 0.425882 | 6_2:-80289169 | Msa0931040:CDS |
| TATGTCTTTCCTCAATGAAA+AGG | 0.429238 | 6_2:-80288545 | Msa0931040:CDS |
| ATGCTTGGGGTTGGGAATGA+AGG | 0.438598 | 6_2:-80289154 | Msa0931040:CDS |
| TGGCACAATAATATCCGATT+GGG | 0.439186 | 6_2:-80288716 | Msa0931040:CDS |
| AATTGAATTTCAGTTATTTG+TGG | 0.443334 | 6_2:-80289015 | Msa0931040:CDS |
| AACGGAATTTCAGTCTATAC+TGG | 0.455189 | 6_2:-80288736 | Msa0931040:CDS |
| AAATTGAAAATGCTTGGGGT+TGG | 0.457271 | 6_2:-80289163 | Msa0931040:CDS |
| ATTTGTGGAAACATATCAAT+TGG | 0.470517 | 6_2:-80289000 | Msa0931040:CDS |
| TCTAGTTCTATCATCAGCTA+TGG | 0.479428 | 6_2:-80288617 | Msa0931040:CDS |
| TATAGACTGAAATTCCGTTA+TGG | 0.489213 | 6_2:+80288740 | None:intergenic |
| CGTTCAGAGTTGGACCATAA+CGG | 0.495197 | 6_2:-80288754 | Msa0931040:CDS |
| TATCTATTATCGTTCAGAGT+TGG | 0.510246 | 6_2:-80288764 | Msa0931040:CDS |
| CTGGCACAATAATATCCGAT+TGG | 0.523488 | 6_2:-80288717 | Msa0931040:CDS |
| TGATAGAAAAGCAAGGATAT+GGG | 0.526528 | 6_2:-80288671 | Msa0931040:CDS |
| CTAGTTCTATCATCAGCTAT+GGG | 0.528023 | 6_2:-80288616 | Msa0931040:CDS |
| GGATATGGGCTCGTGTAAGT+AGG | 0.539731 | 6_2:-80288657 | Msa0931040:CDS |
| TAGAAATTGATAGAAAAGCA+AGG | 0.548786 | 6_2:-80288678 | Msa0931040:CDS |
| TCTGAATTATATATATCCGC+GGG | 0.562320 | 6_2:-80288924 | Msa0931040:CDS |
| AATCAAATATTGCAAAGCCC+TGG | 0.569397 | 6_2:-80288787 | Msa0931040:CDS |
| CACAATAATATCCGATTGGG+GGG | 0.571960 | 6_2:-80288713 | Msa0931040:CDS |
| CTCTGAATTATATATATCCG+CGG | 0.577667 | 6_2:-80288925 | Msa0931040:CDS |
| GTCTTTCCTCAATGAAAAGG+AGG | 0.586724 | 6_2:-80288542 | Msa0931040:CDS |
| CGCGGATATATATAATTCAG+AGG | 0.586801 | 6_2:+80288926 | None:intergenic |
| TCTGAACGATAATAGATACC+AGG | 0.589979 | 6_2:+80288769 | None:intergenic |
| GGCACAATAATATCCGATTG+GGG | 0.627268 | 6_2:-80288715 | Msa0931040:CDS |
| ACAATAATATCCGATTGGGG+GGG | 0.637953 | 6_2:-80288712 | Msa0931040:CDS |
| CTGAACGATAATAGATACCA+GGG | 0.641198 | 6_2:+80288770 | None:intergenic |
| GGGGAAATTGAAAATGCTTG+GGG | 0.643696 | 6_2:-80289167 | Msa0931040:CDS |
| GCACAATAATATCCGATTGG+GGG | 0.683666 | 6_2:-80288714 | Msa0931040:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTAATCAAATACAATTTGA+AGG | - | chr6_2:80288587-80288606 | Msa0931040:CDS | 15.0% |
| !! | TTAATCAAATACAATTTGAA+GGG | - | chr6_2:80288588-80288607 | Msa0931040:CDS | 15.0% |
| !! | AAATTGTATTTGATTAATCC+GGG | + | chr6_2:80288585-80288604 | None:intergenic | 20.0% |
| !! | CAAATTGTATTTGATTAATC+CGG | + | chr6_2:80288586-80288605 | None:intergenic | 20.0% |
| !! | AATTGAATTTCAGTTATTTG+TGG | - | chr6_2:80288685-80288704 | Msa0931040:CDS | 20.0% |
| !!! | ATTAATTTGGAAAAACAGTA+GGG | - | chr6_2:80288799-80288818 | Msa0931040:CDS | 20.0% |
| !! | CCAATAAAAATAATTGTTCT+TGG | + | chr6_2:80288829-80288848 | None:intergenic | 20.0% |
| !!! | CCAAGAACAATTATTTTTAT+TGG | - | chr6_2:80288826-80288845 | Msa0931040:intron | 20.0% |
| ! | GTTTCCAAAAATTGAAGATA+CGG | - | chr6_2:80288655-80288674 | Msa0931040:CDS | 25.0% |
| ! | ATTTGTGGAAACATATCAAT+TGG | - | chr6_2:80288700-80288719 | Msa0931040:CDS | 25.0% |
| !! | GATTAATTTGGAAAAACAGT+AGG | - | chr6_2:80288798-80288817 | Msa0931040:CDS | 25.0% |
| ! | TAGAAATTGATAGAAAAGCA+AGG | - | chr6_2:80289022-80289041 | Msa0931040:CDS | 25.0% |
| ! | AGGAAAGACATAAAAATTTC+GGG | + | chr6_2:80289147-80289166 | None:intergenic | 25.0% |
| ! | GAGGAAAGACATAAAAATTT+CGG | + | chr6_2:80289148-80289167 | None:intergenic | 25.0% |
| !! | GGTTTTGTAGATTCATTGAT+CGG | - | chr6_2:80288609-80288628 | Msa0931040:CDS | 30.0% |
| ! | GTTTTGTAGATTCATTGATC+GGG | - | chr6_2:80288610-80288629 | Msa0931040:CDS | 30.0% |
| ! | TTTTGTAGATTCATTGATCG+GGG | - | chr6_2:80288611-80288630 | Msa0931040:CDS | 30.0% |
| ! | TGATCCGTATCTTCAATTTT+TGG | + | chr6_2:80288662-80288681 | None:intergenic | 30.0% |
| ! | GCATCTTTTTCTTTTATCGA+GGG | + | chr6_2:80288731-80288750 | None:intergenic | 30.0% |
| ! | AGCATCTTTTTCTTTTATCG+AGG | + | chr6_2:80288732-80288751 | None:intergenic | 30.0% |
| CTCTGAATTATATATATCCG+CGG | - | chr6_2:80288775-80288794 | Msa0931040:CDS | 30.0% | |
| TCTGAATTATATATATCCGC+GGG | - | chr6_2:80288776-80288795 | Msa0931040:CDS | 30.0% | |
| ATTTACTATAGAAGTTCCCA+GGG | + | chr6_2:80288872-80288891 | None:intergenic | 30.0% | |
| TATCTATTATCGTTCAGAGT+TGG | - | chr6_2:80288936-80288955 | Msa0931040:CDS | 30.0% | |
| TATAGACTGAAATTCCGTTA+TGG | + | chr6_2:80288963-80288982 | None:intergenic | 30.0% | |
| TTGATAGAAAAGCAAGGATA+TGG | - | chr6_2:80289028-80289047 | Msa0931040:CDS | 30.0% | |
| TGATAGAAAAGCAAGGATAT+GGG | - | chr6_2:80289029-80289048 | Msa0931040:CDS | 30.0% | |
| GGAAAGACATAAAAATTTCG+GGG | + | chr6_2:80289146-80289165 | None:intergenic | 30.0% | |
| TATGTCTTTCCTCAATGAAA+AGG | - | chr6_2:80289155-80289174 | Msa0931040:CDS | 30.0% | |
| !!! | TTTTTTCCTCCTTTTCATTG+AGG | + | chr6_2:80289167-80289186 | None:intergenic | 30.0% |
| ATGGGGAAATTGAAAATGCT+TGG | - | chr6_2:80288531-80288550 | Msa0931040:CDS | 35.0% | |
| TGGGGAAATTGAAAATGCTT+GGG | - | chr6_2:80288532-80288551 | Msa0931040:CDS | 35.0% | |
| AAATTGAAAATGCTTGGGGT+TGG | - | chr6_2:80288537-80288556 | Msa0931040:CDS | 35.0% | |
| AATTGAAAATGCTTGGGGTT+GGG | - | chr6_2:80288538-80288557 | Msa0931040:CDS | 35.0% | |
| CGCGGATATATATAATTCAG+AGG | + | chr6_2:80288777-80288796 | None:intergenic | 35.0% | |
| ATATATCCGCGGGATTAATT+TGG | - | chr6_2:80288786-80288805 | Msa0931040:CDS | 35.0% | |
| ! | GTTTTTCCAAATTAATCCCG+CGG | + | chr6_2:80288795-80288814 | None:intergenic | 35.0% |
| ATTCCTCTAATGAATTCCCT+GGG | - | chr6_2:80288853-80288872 | Msa0931040:intron | 35.0% | |
| CATTTACTATAGAAGTTCCC+AGG | + | chr6_2:80288873-80288892 | None:intergenic | 35.0% | |
| CTGGGAACTTCTATAGTAAA+TGG | - | chr6_2:80288871-80288890 | Msa0931040:intron | 35.0% | |
| AATCAAATATTGCAAAGCCC+TGG | - | chr6_2:80288913-80288932 | Msa0931040:CDS | 35.0% | |
| CTGAACGATAATAGATACCA+GGG | + | chr6_2:80288933-80288952 | None:intergenic | 35.0% | |
| TCTGAACGATAATAGATACC+AGG | + | chr6_2:80288934-80288953 | None:intergenic | 35.0% | |
| AACGGAATTTCAGTCTATAC+TGG | - | chr6_2:80288964-80288983 | Msa0931040:CDS | 35.0% | |
| TGGCACAATAATATCCGATT+GGG | - | chr6_2:80288984-80289003 | Msa0931040:CDS | 35.0% | |
| !! | TCTAGTTCTATCATCAGCTA+TGG | - | chr6_2:80289083-80289102 | Msa0931040:CDS | 35.0% |
| !! | CTAGTTCTATCATCAGCTAT+GGG | - | chr6_2:80289084-80289103 | Msa0931040:CDS | 35.0% |
| GGGGAAATTGAAAATGCTTG+GGG | - | chr6_2:80288533-80288552 | Msa0931040:CDS | 40.0% | |
| CATTCCTCTAATGAATTCCC+TGG | - | chr6_2:80288852-80288871 | Msa0931040:intron | 40.0% | |
| CTGGCACAATAATATCCGAT+TGG | - | chr6_2:80288983-80289002 | Msa0931040:CDS | 40.0% | |
| GGCACAATAATATCCGATTG+GGG | - | chr6_2:80288985-80289004 | Msa0931040:CDS | 40.0% | |
| GCACAATAATATCCGATTGG+GGG | - | chr6_2:80288986-80289005 | Msa0931040:CDS | 40.0% | |
| CACAATAATATCCGATTGGG+GGG | - | chr6_2:80288987-80289006 | Msa0931040:CDS | 40.0% | |
| ACAATAATATCCGATTGGGG+GGG | - | chr6_2:80288988-80289007 | Msa0931040:CDS | 40.0% | |
| GTCTTTCCTCAATGAAAAGG+AGG | - | chr6_2:80289158-80289177 | Msa0931040:CDS | 40.0% | |
| GAAGGAATGTCTACACTACC+CGG | - | chr6_2:80288564-80288583 | Msa0931040:CDS | 45.0% | |
| GTTCCCAGGGAATTCATTAG+AGG | + | chr6_2:80288859-80288878 | None:intergenic | 45.0% | |
| CGTTCAGAGTTGGACCATAA+CGG | - | chr6_2:80288946-80288965 | Msa0931040:CDS | 45.0% | |
| ATGCTTGGGGTTGGGAATGA+AGG | - | chr6_2:80288546-80288565 | Msa0931040:CDS | 50.0% | |
| CTCTAATCTTCCCCCCCAAT+CGG | + | chr6_2:80289001-80289020 | None:intergenic | 50.0% | |
| GGATATGGGCTCGTGTAAGT+AGG | - | chr6_2:80289043-80289062 | Msa0931040:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_2 | gene | 80288531 | 80289191 | 80288531 | ID=Msa0931040;Name=Msa0931040 |
| chr6_2 | mRNA | 80288531 | 80289191 | 80288531 | ID=Msa0931040-mRNA-1;Parent=Msa0931040;Name=Msa0931040-mRNA-1;_AED=0.05;_eAED=0.05;_QI=0|0|0|1|0|0|3|0|180 |
| chr6_2 | exon | 80289151 | 80289191 | 80289151 | ID=Msa0931040-mRNA-1:exon:14068;Parent=Msa0931040-mRNA-1 |
| chr6_2 | exon | 80288907 | 80289103 | 80288907 | ID=Msa0931040-mRNA-1:exon:14067;Parent=Msa0931040-mRNA-1 |
| chr6_2 | exon | 80288531 | 80288835 | 80288531 | ID=Msa0931040-mRNA-1:exon:14066;Parent=Msa0931040-mRNA-1 |
| chr6_2 | CDS | 80289151 | 80289191 | 80289151 | ID=Msa0931040-mRNA-1:cds;Parent=Msa0931040-mRNA-1 |
| chr6_2 | CDS | 80288907 | 80289103 | 80288907 | ID=Msa0931040-mRNA-1:cds;Parent=Msa0931040-mRNA-1 |
| chr6_2 | CDS | 80288531 | 80288835 | 80288531 | ID=Msa0931040-mRNA-1:cds;Parent=Msa0931040-mRNA-1 |
| Gene Sequence |
| Protein sequence |
