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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0463570 | AES92029.1 | 85.859 | 198 | 18 | 2 | 4 | 191 | 28 | 225 | 6.33e-121 | 351 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0463570 | G7JQ00 | 85.859 | 198 | 18 | 2 | 4 | 191 | 28 | 225 | 3.02e-121 | 351 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0463570 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0463570 | MtrunA17_Chr5g0393501 | 31.658 | 199 | 123 | 3 | 5 | 190 | 43 | 241 | 5.21e-31 | 113 |
| Msa0463570 | MtrunA17_Chr4g0034781 | 26.776 | 183 | 124 | 2 | 4 | 176 | 19 | 201 | 1.41e-15 | 72.0 |
| Msa0463570 | MtrunA17_Chr4g0044671 | 26.776 | 183 | 124 | 2 | 4 | 176 | 25 | 207 | 1.68e-15 | 72.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 40 sgRNAs with CRISPR-Local
Find 49 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAAGTTCCTATCGCTGGATA+TGG | 0.291188 | 3_3:+62975085 | Msa0463570:CDS |
| TAGGAACTACCTTAGACTTT+TGG | 0.328834 | 3_3:+62975226 | Msa0463570:intron |
| AATCGTGATGTTTCACTCTA+AGG | 0.341127 | 3_3:-62975255 | None:intergenic |
| CGATTATTCTACGAGTTTAG+TGG | 0.386306 | 3_3:+62974929 | Msa0463570:CDS |
| ACCTTTGAAGTTCCTATCGC+TGG | 0.405792 | 3_3:+62975079 | Msa0463570:CDS |
| TCCGAACATCACATTTGGTA+TGG | 0.417548 | 3_3:-62975341 | None:intergenic |
| ATCTACTTCCACCAAGGTAC+TGG | 0.428620 | 3_3:-62974970 | None:intergenic |
| TAAATATTTCTACGAGCTAC+TGG | 0.438787 | 3_3:+62974808 | Msa0463570:CDS |
| CCGAACATCACATTTGGTAT+GGG | 0.451435 | 3_3:-62975340 | None:intergenic |
| TTGTGCTGCCAATGGTATTG+AGG | 0.463000 | 3_3:+62975381 | Msa0463570:CDS |
| AAATATTTAGCAACAAAGAA+TGG | 0.465634 | 3_3:-62974794 | None:intergenic |
| CCCATACCAAATGTGATGTT+CGG | 0.470215 | 3_3:+62975340 | Msa0463570:CDS |
| CCAAATGTGATGTTCGGAAA+AGG | 0.475440 | 3_3:+62975346 | Msa0463570:CDS |
| GAGCAATGGCACTTGCTAGA+TGG | 0.475586 | 3_3:+62974830 | Msa0463570:CDS |
| GGCCGTTGTTGACAGATGGT+TGG | 0.487397 | 3_3:+62974897 | Msa0463570:CDS |
| GCACGATGCTGCCGCACTCA+TGG | 0.495354 | 3_3:-62975050 | None:intergenic |
| TGTGCTGCCAATGGTATTGA+GGG | 0.501205 | 3_3:+62975382 | Msa0463570:CDS |
| ATTATTGCTTTCCAGTACCT+TGG | 0.503165 | 3_3:+62974959 | Msa0463570:CDS |
| TCTGTATATTTGAGTCTCAC+AGG | 0.526938 | 3_3:-62975313 | None:intergenic |
| AGTCGGCCGTTGTTGACAGA+TGG | 0.531450 | 3_3:+62974893 | Msa0463570:intron |
| CGAACATCACATTTGGTATG+GGG | 0.544354 | 3_3:-62975339 | None:intergenic |
| ATTGCTTTCCAGTACCTTGG+TGG | 0.549152 | 3_3:+62974962 | Msa0463570:CDS |
| CACGATTACGTCGTGTTGTG+CGG | 0.557485 | 3_3:+62975271 | Msa0463570:CDS |
| TTTCAAGTGCAAGTGCGTCA+TGG | 0.567746 | 3_3:+62975420 | Msa0463570:CDS |
| CTGTCTAACTTCTAGGATGT+CGG | 0.570416 | 3_3:+62974761 | Msa0463570:intron |
| TGATAAGGTGGATAATCAGA+TGG | 0.578496 | 3_3:-62975025 | None:intergenic |
| GTCTCCGCCCTCAATACCAT+TGG | 0.581950 | 3_3:-62975389 | None:intergenic |
| TGGCACTTGCTAGATGGTGA+TGG | 0.587936 | 3_3:+62974836 | Msa0463570:CDS |
| GCCGCACTCATGGAATGATA+AGG | 0.592958 | 3_3:-62975040 | None:intergenic |
| ATGTGATGTTCGGAAAAGGT+TGG | 0.606400 | 3_3:+62975350 | Msa0463570:CDS |
| GGCACTTGCTAGATGGTGAT+GGG | 0.608333 | 3_3:+62974837 | Msa0463570:CDS |
| GTCGATCCATATCCAGCGAT+AGG | 0.621657 | 3_3:-62975091 | None:intergenic |
| TCTACGAGCTACTGGAGCAA+TGG | 0.624007 | 3_3:+62974816 | Msa0463570:CDS |
| ACCTTATCATTCCATGAGTG+CGG | 0.629226 | 3_3:+62975039 | Msa0463570:CDS |
| GCACTCATGGAATGATAAGG+TGG | 0.632936 | 3_3:-62975037 | None:intergenic |
| TCCAGCGATAGGAACTTCAA+AGG | 0.641566 | 3_3:-62975080 | None:intergenic |
| TTTGAAATCTACTTCCACCA+AGG | 0.677389 | 3_3:-62974976 | None:intergenic |
| CTCCAACCATCTGTCAACAA+CGG | 0.679074 | 3_3:-62974899 | None:intergenic |
| TGGATCGACGAAATCACCGA+AGG | 0.700849 | 3_3:+62975105 | Msa0463570:CDS |
| GCTGCCAATGGTATTGAGGG+CGG | 0.739556 | 3_3:+62975385 | Msa0463570:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTAGACAGTGTATTAAAAAA+AGG | - | chr3_3:62974749-62974768 | None:intergenic | 20.0% |
| !! | AAATATTTAGCAACAAAGAA+TGG | - | chr3_3:62974797-62974816 | None:intergenic | 20.0% |
| !! | AAAAAACAATAAACAACCTT+CGG | - | chr3_3:62975124-62975143 | None:intergenic | 20.0% |
| !!! | TTTTTATGCTATTCATTTAG+AGG | + | chr3_3:62975142-62975161 | Msa0463570:intron | 20.0% |
| TAATACACTGTCTAACTTCT+AGG | + | chr3_3:62974754-62974773 | Msa0463570:intron | 30.0% | |
| ! | TAAATATTTCTACGAGCTAC+TGG | + | chr3_3:62974808-62974827 | Msa0463570:CDS | 30.0% |
| TGTTCAACAAATCAGTTAGT+CGG | + | chr3_3:62974876-62974895 | Msa0463570:intron | 30.0% | |
| CGATTATTCTACGAGTTTAG+TGG | + | chr3_3:62974929-62974948 | Msa0463570:CDS | 35.0% | |
| ATTATTGCTTTCCAGTACCT+TGG | + | chr3_3:62974959-62974978 | Msa0463570:CDS | 35.0% | |
| ! | TTTGAAATCTACTTCCACCA+AGG | - | chr3_3:62974979-62974998 | None:intergenic | 35.0% |
| TGATAAGGTGGATAATCAGA+TGG | - | chr3_3:62975028-62975047 | None:intergenic | 35.0% | |
| ! | TAGGAACTACCTTAGACTTT+TGG | + | chr3_3:62975226-62975245 | Msa0463570:intron | 35.0% |
| AGGAATTTGCCAAAAGTCTA+AGG | - | chr3_3:62975238-62975257 | None:intergenic | 35.0% | |
| AATCGTGATGTTTCACTCTA+AGG | - | chr3_3:62975258-62975277 | None:intergenic | 35.0% | |
| TCTGTATATTTGAGTCTCAC+AGG | - | chr3_3:62975316-62975335 | None:intergenic | 35.0% | |
| !! | CTGTCTAACTTCTAGGATGT+CGG | + | chr3_3:62974761-62974780 | Msa0463570:intron | 40.0% |
| ACCTTATCATTCCATGAGTG+CGG | + | chr3_3:62975039-62975058 | Msa0463570:CDS | 40.0% | |
| CGAACATCACATTTGGTATG+GGG | - | chr3_3:62975342-62975361 | None:intergenic | 40.0% | |
| CCGAACATCACATTTGGTAT+GGG | - | chr3_3:62975343-62975362 | None:intergenic | 40.0% | |
| CCCATACCAAATGTGATGTT+CGG | + | chr3_3:62975340-62975359 | Msa0463570:CDS | 40.0% | |
| TCCGAACATCACATTTGGTA+TGG | - | chr3_3:62975344-62975363 | None:intergenic | 40.0% | |
| ! | CCTTTTCCGAACATCACATT+TGG | - | chr3_3:62975349-62975368 | None:intergenic | 40.0% |
| CCAAATGTGATGTTCGGAAA+AGG | + | chr3_3:62975346-62975365 | Msa0463570:CDS | 40.0% | |
| ATGTGATGTTCGGAAAAGGT+TGG | + | chr3_3:62975350-62975369 | Msa0463570:CDS | 40.0% | |
| CTCCAACCATCTGTCAACAA+CGG | - | chr3_3:62974902-62974921 | None:intergenic | 45.0% | |
| ATTGCTTTCCAGTACCTTGG+TGG | + | chr3_3:62974962-62974981 | Msa0463570:CDS | 45.0% | |
| ATCTACTTCCACCAAGGTAC+TGG | - | chr3_3:62974973-62974992 | None:intergenic | 45.0% | |
| GCACTCATGGAATGATAAGG+TGG | - | chr3_3:62975040-62975059 | None:intergenic | 45.0% | |
| !! | ACCTTTGAAGTTCCTATCGC+TGG | + | chr3_3:62975079-62975098 | Msa0463570:CDS | 45.0% |
| TCCAGCGATAGGAACTTCAA+AGG | - | chr3_3:62975083-62975102 | None:intergenic | 45.0% | |
| GAAGTTCCTATCGCTGGATA+TGG | + | chr3_3:62975085-62975104 | Msa0463570:CDS | 45.0% | |
| ! | ACGAGTTTTTGTGCTGCCAA+TGG | + | chr3_3:62975373-62975392 | Msa0463570:CDS | 45.0% |
| TTGTGCTGCCAATGGTATTG+AGG | + | chr3_3:62975381-62975400 | Msa0463570:CDS | 45.0% | |
| ! | TGTGCTGCCAATGGTATTGA+GGG | + | chr3_3:62975382-62975401 | Msa0463570:CDS | 45.0% |
| ! | TTTCAAGTGCAAGTGCGTCA+TGG | + | chr3_3:62975420-62975439 | Msa0463570:CDS | 45.0% |
| !!! | ATTTTTTTTTTCTTTTTTTT+AGG | + | chr3_3:62975207-62975226 | Msa0463570:intron | 5.0% |
| TCTACGAGCTACTGGAGCAA+TGG | + | chr3_3:62974816-62974835 | Msa0463570:CDS | 50.0% | |
| ! | GAGCAATGGCACTTGCTAGA+TGG | + | chr3_3:62974830-62974849 | Msa0463570:CDS | 50.0% |
| ! | TGGCACTTGCTAGATGGTGA+TGG | + | chr3_3:62974836-62974855 | Msa0463570:CDS | 50.0% |
| ! | GGCACTTGCTAGATGGTGAT+GGG | + | chr3_3:62974837-62974856 | Msa0463570:CDS | 50.0% |
| GCCGCACTCATGGAATGATA+AGG | - | chr3_3:62975043-62975062 | None:intergenic | 50.0% | |
| GTCGATCCATATCCAGCGAT+AGG | - | chr3_3:62975094-62975113 | None:intergenic | 50.0% | |
| TGGATCGACGAAATCACCGA+AGG | + | chr3_3:62975105-62975124 | Msa0463570:CDS | 50.0% | |
| CACGATTACGTCGTGTTGTG+CGG | + | chr3_3:62975271-62975290 | Msa0463570:CDS | 50.0% | |
| AGTCGGCCGTTGTTGACAGA+TGG | + | chr3_3:62974893-62974912 | Msa0463570:intron | 55.0% | |
| GGCCGTTGTTGACAGATGGT+TGG | + | chr3_3:62974897-62974916 | Msa0463570:CDS | 55.0% | |
| ! | GCTGCCAATGGTATTGAGGG+CGG | + | chr3_3:62975385-62975404 | Msa0463570:CDS | 55.0% |
| GTCTCCGCCCTCAATACCAT+TGG | - | chr3_3:62975392-62975411 | None:intergenic | 55.0% | |
| GCACGATGCTGCCGCACTCA+TGG | - | chr3_3:62975053-62975072 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 62974731 | 62975474 | 62974731 | ID=Msa0463570;Name=Msa0463570 |
| chr3_3 | mRNA | 62974731 | 62975474 | 62974731 | ID=Msa0463570-mRNA-1;Parent=Msa0463570;Name=Msa0463570-mRNA-1;_AED=0.18;_eAED=0.18;_QI=0|0|0|1|0.33|0.5|4|0|191 |
| chr3_3 | exon | 62974731 | 62974739 | 62974731 | ID=Msa0463570-mRNA-1:exon:13610;Parent=Msa0463570-mRNA-1 |
| chr3_3 | exon | 62974776 | 62974876 | 62974776 | ID=Msa0463570-mRNA-1:exon:13611;Parent=Msa0463570-mRNA-1 |
| chr3_3 | exon | 62974895 | 62975126 | 62974895 | ID=Msa0463570-mRNA-1:exon:13612;Parent=Msa0463570-mRNA-1 |
| chr3_3 | exon | 62975241 | 62975474 | 62975241 | ID=Msa0463570-mRNA-1:exon:13613;Parent=Msa0463570-mRNA-1 |
| chr3_3 | CDS | 62974731 | 62974739 | 62974731 | ID=Msa0463570-mRNA-1:cds;Parent=Msa0463570-mRNA-1 |
| chr3_3 | CDS | 62974776 | 62974876 | 62974776 | ID=Msa0463570-mRNA-1:cds;Parent=Msa0463570-mRNA-1 |
| chr3_3 | CDS | 62974895 | 62975126 | 62974895 | ID=Msa0463570-mRNA-1:cds;Parent=Msa0463570-mRNA-1 |
| chr3_3 | CDS | 62975241 | 62975474 | 62975241 | ID=Msa0463570-mRNA-1:cds;Parent=Msa0463570-mRNA-1 |
| Gene Sequence |
| Protein sequence |
