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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1043730 | KEH40036.1 | 87.302 | 63 | 8 | 0 | 42 | 104 | 1 | 63 | 9.20e-29 | 110 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1043730 | A0A072VEK2 | 87.302 | 63 | 8 | 0 | 42 | 104 | 1 | 63 | 4.39e-29 | 110 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0102020 | Msa1043730 | 0.831691 | 1.446297e-55 | -8.615850e-47 |
| Msa0102030 | Msa1043730 | 0.948492 | 8.479425e-107 | -8.615850e-47 |
| Msa1043730 | Msa1043740 | 0.823155 | 1.613018e-53 | -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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 16 sgRNAs with CRISPR-Local
Find 39 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCATCATCTGCAGAAAATT+TGG | 0.207024 | 7_2:+1902095 | Msa1043730:CDS |
| TTCATGACAGTACACTATTC+AGG | 0.303824 | 7_2:+1902138 | Msa1043730:CDS |
| CACCGATACAAGAGCCTTGA+TGG | 0.355752 | 7_2:-1902052 | Msa1043740:CDS |
| TTAGCTTAACTTTGAATCCT+AGG | 0.400245 | 7_2:+1901699 | Msa1043730:CDS |
| TCTGAAGAAGTTAAAATCTC+TGG | 0.431243 | 7_2:+1902282 | Msa1043730:CDS |
| CAGATTCAGTGGAATCTGTA+AGG | 0.450140 | 7_2:-1902263 | Msa1043740:intron |
| CTGCAGATGATGATGACATC+AGG | 0.461918 | 7_2:-1902086 | Msa1043740:intron |
| TGGAGTTCAAAGCTGGAGTA+AGG | 0.508936 | 7_2:-1902032 | Msa1043740:CDS |
| CTCCATCAAGGCTCTTGTAT+CGG | 0.512255 | 7_2:+1902050 | Msa1043730:CDS |
| TTTAACTTCTTCAGATTCAG+TGG | 0.515006 | 7_2:-1902274 | Msa1043740:intron |
| GCCTTGATGGAGTTCAAAGC+TGG | 0.517462 | 7_2:-1902039 | Msa1043740:CDS |
| TCCAGCTTTGAACTCCATCA+AGG | 0.536851 | 7_2:+1902038 | Msa1043730:CDS |
| TGCTCGAAGTCTAAGTGAAG+AGG | 0.569580 | 7_2:-1902223 | Msa1043740:intron |
| GCAACCTTTGAAAACAGTGT+AGG | 0.611405 | 7_2:-1902196 | Msa1043740:intron |
| CATCTGCAGAAAATTTGGAG+AGG | 0.692643 | 7_2:+1902100 | Msa1043730:CDS |
| TGTATGCAGCAAGAAGTGTG+AGG | 0.814348 | 7_2:+1902305 | Msa1043730:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTATTATGCTATATTACGT+CGG | + | chr7_2:1901910-1901929 | Msa1043730:intron | 20.0% |
| TTAGCTTAACTTTGAATCCT+AGG | + | chr7_2:1901699-1901718 | Msa1043730:CDS | 30.0% | |
| TTAACTTTGAATCCTAGGTA+GGG | + | chr7_2:1901704-1901723 | Msa1043730:intron | 30.0% | |
| TTACTTATATTACCCTTACC+AGG | - | chr7_2:1901769-1901788 | None:intergenic | 30.0% | |
| ! | CAGTGAAAGGAATTTAAGTT+GGG | - | chr7_2:1901800-1901819 | None:intergenic | 30.0% |
| TCAGTGAAAGGAATTTAAGT+TGG | - | chr7_2:1901801-1901820 | None:intergenic | 30.0% | |
| ATCATCATCTGCAGAAAATT+TGG | + | chr7_2:1902095-1902114 | Msa1043730:CDS | 30.0% | |
| ! | TTTAACTTCTTCAGATTCAG+TGG | - | chr7_2:1902277-1902296 | Msa1043740:intron | 30.0% |
| TCTGAAGAAGTTAAAATCTC+TGG | + | chr7_2:1902282-1902301 | Msa1043730:CDS | 30.0% | |
| CTTAACTTTGAATCCTAGGT+AGG | + | chr7_2:1901703-1901722 | Msa1043730:intron | 35.0% | |
| ! | CTTTGAACTTACACTTTTCC+TGG | + | chr7_2:1901748-1901767 | Msa1043730:intron | 35.0% |
| ! | AACTTACACTTTTCCTGGTA+AGG | + | chr7_2:1901753-1901772 | Msa1043730:intron | 35.0% |
| ! | ACTTACACTTTTCCTGGTAA+GGG | + | chr7_2:1901754-1901773 | Msa1043730:intron | 35.0% |
| GCTTTCTTTCAATAACCAGT+TGG | - | chr7_2:1901880-1901899 | None:intergenic | 35.0% | |
| TTCATGACAGTACACTATTC+AGG | + | chr7_2:1902138-1902157 | Msa1043730:CDS | 35.0% | |
| ! | AAGTCCTACACTGTTTTCAA+AGG | + | chr7_2:1902192-1902211 | Msa1043730:CDS | 35.0% |
| TAATGCATGTTTCCCTACCT+AGG | - | chr7_2:1901719-1901738 | None:intergenic | 40.0% | |
| CTTTCACTGATCACCATCAT+GGG | + | chr7_2:1901832-1901851 | Msa1043730:intron | 40.0% | |
| CTTTACAAACAGTCCCATGA+TGG | - | chr7_2:1901848-1901867 | None:intergenic | 40.0% | |
| TCATGGGACTGTTTGTAAAG+TGG | + | chr7_2:1901848-1901867 | Msa1043730:intron | 40.0% | |
| GGACTGTTTGTAAAGTGGTT+TGG | + | chr7_2:1901853-1901872 | Msa1043730:intron | 40.0% | |
| TTGCTGCAAGCTGATGAATT+AGG | - | chr7_2:1901977-1901996 | None:intergenic | 40.0% | |
| CATCTGCAGAAAATTTGGAG+AGG | + | chr7_2:1902100-1902119 | Msa1043730:CDS | 40.0% | |
| ! | GCAACCTTTGAAAACAGTGT+AGG | - | chr7_2:1902199-1902218 | Msa1043740:intron | 40.0% |
| CAGATTCAGTGGAATCTGTA+AGG | - | chr7_2:1902266-1902285 | Msa1043740:intron | 40.0% | |
| GGTTCATGGTGATCAGTGAA+AGG | - | chr7_2:1901813-1901832 | None:intergenic | 45.0% | |
| GGTGATCAGTGAAAGGTTCA+TGG | - | chr7_2:1901827-1901846 | None:intergenic | 45.0% | |
| ! | CCATGATGGTGATCAGTGAA+AGG | - | chr7_2:1901834-1901853 | None:intergenic | 45.0% |
| CCTTTCACTGATCACCATCA+TGG | + | chr7_2:1901831-1901850 | Msa1043730:intron | 45.0% | |
| !! | GTAAAGTGGTTTGGTCCAAC+TGG | + | chr7_2:1901862-1901881 | Msa1043730:intron | 45.0% |
| TACGTCGGAAGCTGATCATA+TGG | + | chr7_2:1901925-1901944 | Msa1043730:intron | 45.0% | |
| TGGAGTTCAAAGCTGGAGTA+AGG | - | chr7_2:1902035-1902054 | Msa1043740:CDS | 45.0% | |
| !! | TCCAGCTTTGAACTCCATCA+AGG | + | chr7_2:1902038-1902057 | Msa1043730:CDS | 45.0% |
| CTCCATCAAGGCTCTTGTAT+CGG | + | chr7_2:1902050-1902069 | Msa1043730:CDS | 45.0% | |
| ! | CTGCAGATGATGATGACATC+AGG | - | chr7_2:1902089-1902108 | Msa1043740:intron | 45.0% |
| TGCTCGAAGTCTAAGTGAAG+AGG | - | chr7_2:1902226-1902245 | Msa1043740:intron | 45.0% | |
| ! | TGTATGCAGCAAGAAGTGTG+AGG | + | chr7_2:1902305-1902324 | Msa1043730:CDS | 45.0% |
| GCCTTGATGGAGTTCAAAGC+TGG | - | chr7_2:1902042-1902061 | Msa1043740:CDS | 50.0% | |
| CACCGATACAAGAGCCTTGA+TGG | - | chr7_2:1902055-1902074 | Msa1043740:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 1901695 | 1902332 | 1901695 | ID=Msa1043730;Name=Msa1043730 |
| chr7_2 | mRNA | 1901695 | 1902332 | 1901695 | ID=Msa1043730-mRNA-1;Parent=Msa1043730;Name=Msa1043730-mRNA-1;_AED=0.49;_eAED=0.49;_QI=0|0|0|0.33|1|1|3|0|104 |
| chr7_2 | exon | 1901695 | 1901720 | 1901695 | ID=Msa1043730-mRNA-1:exon:402;Parent=Msa1043730-mRNA-1 |
| chr7_2 | exon | 1902031 | 1902121 | 1902031 | ID=Msa1043730-mRNA-1:exon:403;Parent=Msa1043730-mRNA-1 |
| chr7_2 | exon | 1902135 | 1902332 | 1902135 | ID=Msa1043730-mRNA-1:exon:404;Parent=Msa1043730-mRNA-1 |
| chr7_2 | CDS | 1901695 | 1901720 | 1901695 | ID=Msa1043730-mRNA-1:cds;Parent=Msa1043730-mRNA-1 |
| chr7_2 | CDS | 1902031 | 1902121 | 1902031 | ID=Msa1043730-mRNA-1:cds;Parent=Msa1043730-mRNA-1 |
| chr7_2 | CDS | 1902135 | 1902332 | 1902135 | ID=Msa1043730-mRNA-1:cds;Parent=Msa1043730-mRNA-1 |
| Gene Sequence |
| Protein sequence |
