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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0110560 | AES60398.2 | 86.364 | 66 | 9 | 0 | 1 | 66 | 1 | 66 | 8.05e-34 | 125 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0110560 | G7I6L4 | 86.364 | 66 | 9 | 0 | 1 | 66 | 1 | 66 | 3.85e-34 | 125 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0110560 | TF | C2C2-GATA |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0110560 | MtrunA17_Chr5g0399781 | 52.830 | 53 | 24 | 1 | 3 | 55 | 12 | 63 | 9.52e-11 | 57.4 |
| 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 122 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTCCACATTCATACATTTA+TGG | 0.193918 | 1_3:+23414466 | Msa0110560:CDS |
| TGCTGATCGCACTGTCCTTA+AGG | 0.394074 | 1_3:+23414918 | Msa0110560:CDS |
| CGCTTGTGGACTACATTTCA+AGG | 0.405648 | 1_3:+23414021 | Msa0110560:CDS |
| AAGAAGGGTCTGTTAAATCC+TGG | 0.447476 | 1_3:-23414969 | None:intergenic |
| TGGAGATTGGTTTGAAAGCT+CGG | 0.447768 | 1_3:-23414134 | None:intergenic |
| CCACAAGCGTTACATAGTAT+TGG | 0.448818 | 1_3:-23414007 | None:intergenic |
| GAAACTAAACTTTGGCGTAA+AGG | 0.456777 | 1_3:+23413971 | Msa0110560:CDS |
| ATCAGACCTTGACGTTGAAA+AGG | 0.465983 | 1_3:+23414096 | Msa0110560:CDS |
| GGACTACATTTCAAGGCTAA+AGG | 0.474721 | 1_3:+23414028 | Msa0110560:CDS |
| TCTTCGGAAGATAGTTATCA+AGG | 0.478433 | 1_3:-23414054 | None:intergenic |
| CATAGTATTGGCTTCTCATA+CGG | 0.490978 | 1_3:-23413995 | None:intergenic |
| GGAGATTGGTTTGAAAGCTC+GGG | 0.493147 | 1_3:-23414133 | None:intergenic |
| AATTACGCGGAAAATCCTTA+AGG | 0.494267 | 1_3:-23414933 | None:intergenic |
| AGAAGGGTCTGTTAAATCCT+GGG | 0.503472 | 1_3:-23414968 | None:intergenic |
| ATGCAAATACAACAAGAGAA+TGG | 0.543799 | 1_3:+23414503 | Msa0110560:CDS |
| AAATACAACAAGAGAATGGT+TGG | 0.554118 | 1_3:+23414507 | Msa0110560:CDS |
| GAGCTTTCAAACCAATCTCC+AGG | 0.568278 | 1_3:+23414136 | Msa0110560:CDS |
| TATCCATAAATGTATGAATG+TGG | 0.578354 | 1_3:-23414469 | None:intergenic |
| GAAGGGTCTGTTAAATCCTG+GGG | 0.590259 | 1_3:-23414967 | None:intergenic |
| CCAATACTATGTAACGCTTG+TGG | 0.608782 | 1_3:+23414007 | Msa0110560:CDS |
| CTTCGGAAGATAGTTATCAA+GGG | 0.629882 | 1_3:-23414053 | None:intergenic |
| AAGGGTCTGTTAAATCCTGG+GGG | 0.732667 | 1_3:-23414966 | None:intergenic |
| GGGATTAGCGTATAATTACG+CGG | 0.737741 | 1_3:-23414946 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTATATTTGTTGAAAAAT+GGG | - | chr1_3:23414197-23414216 | None:intergenic | 10.0% |
| !!! | AATTTTAATTTTTTCTAGAA+AGG | + | chr1_3:23414649-23414668 | Msa0110560:intron | 10.0% |
| !!! | ATTTATATTTGTTGAAAAAT+GGG | - | chr1_3:23414197-23414216 | None:intergenic | 10.0% |
| !!! | AATTTTAATTTTTTCTAGAA+AGG | + | chr1_3:23414649-23414668 | Msa0110560:intron | 10.0% |
| !!! | TTTATATTTGTTGAAAAATG+GGG | - | chr1_3:23414196-23414215 | None:intergenic | 15.0% |
| !!! | GATTTATATTTGTTGAAAAA+TGG | - | chr1_3:23414198-23414217 | None:intergenic | 15.0% |
| !!! | TTTATATTTGTTGAAAAATG+GGG | - | chr1_3:23414196-23414215 | None:intergenic | 15.0% |
| !!! | GATTTATATTTGTTGAAAAA+TGG | - | chr1_3:23414198-23414217 | None:intergenic | 15.0% |
| !!! | TTATTGCATTTTTTATTACC+TGG | - | chr1_3:23414157-23414176 | None:intergenic | 20.0% |
| !!! | ATTGTAAGAATTTTCTTAAG+AGG | + | chr1_3:23414251-23414270 | Msa0110560:intron | 20.0% |
| !! | AACACTACTATTTATATATG+TGG | + | chr1_3:23414329-23414348 | Msa0110560:intron | 20.0% |
| !!! | TTTTGAATGAATTGTATTGA+TGG | + | chr1_3:23414422-23414441 | Msa0110560:intron | 20.0% |
| !!! | TTTGAATGAATTGTATTGAT+GGG | + | chr1_3:23414423-23414442 | Msa0110560:intron | 20.0% |
| !! | AAATATATGCTATTAAAGTG+TGG | - | chr1_3:23414566-23414585 | None:intergenic | 20.0% |
| !! | TTATATGTATACATCATACA+CGG | - | chr1_3:23414629-23414648 | None:intergenic | 20.0% |
| !! | TTAAACATCAATTTGATAAG+AGG | + | chr1_3:23414857-23414876 | Msa0110560:intron | 20.0% |
| !!! | TTATTGCATTTTTTATTACC+TGG | - | chr1_3:23414157-23414176 | None:intergenic | 20.0% |
| !!! | ATTGTAAGAATTTTCTTAAG+AGG | + | chr1_3:23414251-23414270 | Msa0110560:intron | 20.0% |
| !! | AACACTACTATTTATATATG+TGG | + | chr1_3:23414329-23414348 | Msa0110560:intron | 20.0% |
| !!! | TTTTGAATGAATTGTATTGA+TGG | + | chr1_3:23414422-23414441 | Msa0110560:intron | 20.0% |
| !!! | TTTGAATGAATTGTATTGAT+GGG | + | chr1_3:23414423-23414442 | Msa0110560:intron | 20.0% |
| !! | AAATATATGCTATTAAAGTG+TGG | - | chr1_3:23414566-23414585 | None:intergenic | 20.0% |
| !! | TTATATGTATACATCATACA+CGG | - | chr1_3:23414629-23414648 | None:intergenic | 20.0% |
| !! | TTAAACATCAATTTGATAAG+AGG | + | chr1_3:23414857-23414876 | Msa0110560:intron | 20.0% |
| !! | TTTTGACAGAAACTAAACTT+TGG | + | chr1_3:23413963-23413982 | Msa0110560:CDS | 25.0% |
| !!! | ATTTTTTATTACCTGGAGAT+TGG | - | chr1_3:23414150-23414169 | None:intergenic | 25.0% |
| !! | TTTCTTAAGAGGTACAATTT+AGG | + | chr1_3:23414289-23414308 | Msa0110560:intron | 25.0% |
| ! | ATTGACAATGAAAGGAATTA+GGG | - | chr1_3:23414369-23414388 | None:intergenic | 25.0% |
| ! | TATTGACAATGAAAGGAATT+AGG | - | chr1_3:23414370-23414389 | None:intergenic | 25.0% |
| ! | ATTCATTCAAAACCTAATAC+CGG | - | chr1_3:23414414-23414433 | None:intergenic | 25.0% |
| !! | TTGAATGAATTGTATTGATG+GGG | + | chr1_3:23414424-23414443 | Msa0110560:intron | 25.0% |
| ! | TATCCATAAATGTATGAATG+TGG | - | chr1_3:23414472-23414491 | None:intergenic | 25.0% |
| ! | GATATAAGATTGAGATTGAT+TGG | - | chr1_3:23414544-23414563 | None:intergenic | 25.0% |
| !! | TTTTGACAGAAACTAAACTT+TGG | + | chr1_3:23413963-23413982 | Msa0110560:CDS | 25.0% |
| !!! | ATTTTTTATTACCTGGAGAT+TGG | - | chr1_3:23414150-23414169 | None:intergenic | 25.0% |
| !! | TTTCTTAAGAGGTACAATTT+AGG | + | chr1_3:23414289-23414308 | Msa0110560:intron | 25.0% |
| ! | ATTGACAATGAAAGGAATTA+GGG | - | chr1_3:23414369-23414388 | None:intergenic | 25.0% |
| ! | TATTGACAATGAAAGGAATT+AGG | - | chr1_3:23414370-23414389 | None:intergenic | 25.0% |
| ! | ATTCATTCAAAACCTAATAC+CGG | - | chr1_3:23414414-23414433 | None:intergenic | 25.0% |
| !! | TTGAATGAATTGTATTGATG+GGG | + | chr1_3:23414424-23414443 | Msa0110560:intron | 25.0% |
| ! | TATCCATAAATGTATGAATG+TGG | - | chr1_3:23414472-23414491 | None:intergenic | 25.0% |
| ! | GATATAAGATTGAGATTGAT+TGG | - | chr1_3:23414544-23414563 | None:intergenic | 25.0% |
| !! | GTCTGATAACTGATTTTGTT+GGG | - | chr1_3:23414083-23414102 | None:intergenic | 30.0% |
| ATGCTCTTATTGACAATGAA+AGG | - | chr1_3:23414377-23414396 | None:intergenic | 30.0% | |
| TTCATTCAAAACCTAATACC+GGG | - | chr1_3:23414413-23414432 | None:intergenic | 30.0% | |
| ACTCCACATTCATACATTTA+TGG | + | chr1_3:23414466-23414485 | Msa0110560:CDS | 30.0% | |
| ATGCAAATACAACAAGAGAA+TGG | + | chr1_3:23414503-23414522 | Msa0110560:CDS | 30.0% | |
| AAATACAACAAGAGAATGGT+TGG | + | chr1_3:23414507-23414526 | Msa0110560:CDS | 30.0% | |
| ATTTGATTCTTCACAATCGA+TGG | - | chr1_3:23414678-23414697 | None:intergenic | 30.0% | |
| ATCGATTGTGAAGAATCAAA+TGG | + | chr1_3:23414677-23414696 | Msa0110560:intron | 30.0% | |
| ATGCTGATGAATTATGTAGA+TGG | - | chr1_3:23414835-23414854 | None:intergenic | 30.0% | |
| AGGACTGCAAAAAAAACAAA+CGG | + | chr1_3:23414877-23414896 | Msa0110560:CDS | 30.0% | |
| !! | GTCTGATAACTGATTTTGTT+GGG | - | chr1_3:23414083-23414102 | None:intergenic | 30.0% |
| ATGCTCTTATTGACAATGAA+AGG | - | chr1_3:23414377-23414396 | None:intergenic | 30.0% | |
| TTCATTCAAAACCTAATACC+GGG | - | chr1_3:23414413-23414432 | None:intergenic | 30.0% | |
| ACTCCACATTCATACATTTA+TGG | + | chr1_3:23414466-23414485 | Msa0110560:CDS | 30.0% | |
| ATGCAAATACAACAAGAGAA+TGG | + | chr1_3:23414503-23414522 | Msa0110560:CDS | 30.0% | |
| AAATACAACAAGAGAATGGT+TGG | + | chr1_3:23414507-23414526 | Msa0110560:CDS | 30.0% | |
| ATTTGATTCTTCACAATCGA+TGG | - | chr1_3:23414678-23414697 | None:intergenic | 30.0% | |
| ATCGATTGTGAAGAATCAAA+TGG | + | chr1_3:23414677-23414696 | Msa0110560:intron | 30.0% | |
| ATGCTGATGAATTATGTAGA+TGG | - | chr1_3:23414835-23414854 | None:intergenic | 30.0% | |
| AGGACTGCAAAAAAAACAAA+CGG | + | chr1_3:23414877-23414896 | Msa0110560:CDS | 30.0% | |
| GAAACTAAACTTTGGCGTAA+AGG | + | chr1_3:23413971-23413990 | Msa0110560:CDS | 35.0% | |
| !! | CATAGTATTGGCTTCTCATA+CGG | - | chr1_3:23413998-23414017 | None:intergenic | 35.0% |
| CTTCGGAAGATAGTTATCAA+GGG | - | chr1_3:23414056-23414075 | None:intergenic | 35.0% | |
| TCTTCGGAAGATAGTTATCA+AGG | - | chr1_3:23414057-23414076 | None:intergenic | 35.0% | |
| ! | TGATTTTGTTGGGATGTCTT+CGG | - | chr1_3:23414073-23414092 | None:intergenic | 35.0% |
| !! | GGTCTGATAACTGATTTTGT+TGG | - | chr1_3:23414084-23414103 | None:intergenic | 35.0% |
| ! | GAATTGTATTGATGGGGATT+AGG | + | chr1_3:23414430-23414449 | Msa0110560:intron | 35.0% |
| GATTGTGAAGAATCAAATGG+AGG | + | chr1_3:23414680-23414699 | Msa0110560:intron | 35.0% | |
| ACTGCAAAAAAAACAAACGG+TGG | + | chr1_3:23414880-23414899 | Msa0110560:CDS | 35.0% | |
| AATTACGCGGAAAATCCTTA+AGG | - | chr1_3:23414936-23414955 | None:intergenic | 35.0% | |
| GAAACTAAACTTTGGCGTAA+AGG | + | chr1_3:23413971-23413990 | Msa0110560:CDS | 35.0% | |
| !! | CATAGTATTGGCTTCTCATA+CGG | - | chr1_3:23413998-23414017 | None:intergenic | 35.0% |
| CTTCGGAAGATAGTTATCAA+GGG | - | chr1_3:23414056-23414075 | None:intergenic | 35.0% | |
| TCTTCGGAAGATAGTTATCA+AGG | - | chr1_3:23414057-23414076 | None:intergenic | 35.0% | |
| ! | TGATTTTGTTGGGATGTCTT+CGG | - | chr1_3:23414073-23414092 | None:intergenic | 35.0% |
| !! | GGTCTGATAACTGATTTTGT+TGG | - | chr1_3:23414084-23414103 | None:intergenic | 35.0% |
| ! | GAATTGTATTGATGGGGATT+AGG | + | chr1_3:23414430-23414449 | Msa0110560:intron | 35.0% |
| GATTGTGAAGAATCAAATGG+AGG | + | chr1_3:23414680-23414699 | Msa0110560:intron | 35.0% | |
| ACTGCAAAAAAAACAAACGG+TGG | + | chr1_3:23414880-23414899 | Msa0110560:CDS | 35.0% | |
| AATTACGCGGAAAATCCTTA+AGG | - | chr1_3:23414936-23414955 | None:intergenic | 35.0% | |
| CCACAAGCGTTACATAGTAT+TGG | - | chr1_3:23414010-23414029 | None:intergenic | 40.0% | |
| CCAATACTATGTAACGCTTG+TGG | + | chr1_3:23414007-23414026 | Msa0110560:CDS | 40.0% | |
| GGACTACATTTCAAGGCTAA+AGG | + | chr1_3:23414028-23414047 | Msa0110560:CDS | 40.0% | |
| ATCAGACCTTGACGTTGAAA+AGG | + | chr1_3:23414096-23414115 | Msa0110560:CDS | 40.0% | |
| ! | CAGATTCCTTTTCAACGTCA+AGG | - | chr1_3:23414105-23414124 | None:intergenic | 40.0% |
| !! | TGGAGATTGGTTTGAAAGCT+CGG | - | chr1_3:23414137-23414156 | None:intergenic | 40.0% |
| TCATACACGGTGCATATCAA+TGG | - | chr1_3:23414616-23414635 | None:intergenic | 40.0% | |
| GCAAAAAAAACAAACGGTGG+AGG | + | chr1_3:23414883-23414902 | Msa0110560:CDS | 40.0% | |
| ! | GGGATTAGCGTATAATTACG+CGG | - | chr1_3:23414949-23414968 | None:intergenic | 40.0% |
| TAATTATACGCTAATCCCCC+AGG | + | chr1_3:23414951-23414970 | Msa0110560:CDS | 40.0% | |
| AGAAGGGTCTGTTAAATCCT+GGG | - | chr1_3:23414971-23414990 | None:intergenic | 40.0% | |
| AAGAAGGGTCTGTTAAATCC+TGG | - | chr1_3:23414972-23414991 | None:intergenic | 40.0% | |
| CCACAAGCGTTACATAGTAT+TGG | - | chr1_3:23414010-23414029 | None:intergenic | 40.0% | |
| CCAATACTATGTAACGCTTG+TGG | + | chr1_3:23414007-23414026 | Msa0110560:CDS | 40.0% | |
| GGACTACATTTCAAGGCTAA+AGG | + | chr1_3:23414028-23414047 | Msa0110560:CDS | 40.0% | |
| ATCAGACCTTGACGTTGAAA+AGG | + | chr1_3:23414096-23414115 | Msa0110560:CDS | 40.0% | |
| ! | CAGATTCCTTTTCAACGTCA+AGG | - | chr1_3:23414105-23414124 | None:intergenic | 40.0% |
| !! | TGGAGATTGGTTTGAAAGCT+CGG | - | chr1_3:23414137-23414156 | None:intergenic | 40.0% |
| TCATACACGGTGCATATCAA+TGG | - | chr1_3:23414616-23414635 | None:intergenic | 40.0% | |
| GCAAAAAAAACAAACGGTGG+AGG | + | chr1_3:23414883-23414902 | Msa0110560:CDS | 40.0% | |
| ! | GGGATTAGCGTATAATTACG+CGG | - | chr1_3:23414949-23414968 | None:intergenic | 40.0% |
| TAATTATACGCTAATCCCCC+AGG | + | chr1_3:23414951-23414970 | Msa0110560:CDS | 40.0% | |
| AGAAGGGTCTGTTAAATCCT+GGG | - | chr1_3:23414971-23414990 | None:intergenic | 40.0% | |
| AAGAAGGGTCTGTTAAATCC+TGG | - | chr1_3:23414972-23414991 | None:intergenic | 40.0% | |
| ! | CGCTTGTGGACTACATTTCA+AGG | + | chr1_3:23414021-23414040 | Msa0110560:CDS | 45.0% |
| !! | GGAGATTGGTTTGAAAGCTC+GGG | - | chr1_3:23414136-23414155 | None:intergenic | 45.0% |
| GAGCTTTCAAACCAATCTCC+AGG | + | chr1_3:23414136-23414155 | Msa0110560:CDS | 45.0% | |
| AGCATTCATTTGCGTAGACC+CGG | + | chr1_3:23414392-23414411 | Msa0110560:intron | 45.0% | |
| ATTTGCGTAGACCCGGTATT+AGG | + | chr1_3:23414399-23414418 | Msa0110560:intron | 45.0% | |
| AAGGGTCTGTTAAATCCTGG+GGG | - | chr1_3:23414969-23414988 | None:intergenic | 45.0% | |
| GAAGGGTCTGTTAAATCCTG+GGG | - | chr1_3:23414970-23414989 | None:intergenic | 45.0% | |
| ! | CGCTTGTGGACTACATTTCA+AGG | + | chr1_3:23414021-23414040 | Msa0110560:CDS | 45.0% |
| !! | GGAGATTGGTTTGAAAGCTC+GGG | - | chr1_3:23414136-23414155 | None:intergenic | 45.0% |
| GAGCTTTCAAACCAATCTCC+AGG | + | chr1_3:23414136-23414155 | Msa0110560:CDS | 45.0% | |
| AGCATTCATTTGCGTAGACC+CGG | + | chr1_3:23414392-23414411 | Msa0110560:intron | 45.0% | |
| ATTTGCGTAGACCCGGTATT+AGG | + | chr1_3:23414399-23414418 | Msa0110560:intron | 45.0% | |
| AAGGGTCTGTTAAATCCTGG+GGG | - | chr1_3:23414969-23414988 | None:intergenic | 45.0% | |
| GAAGGGTCTGTTAAATCCTG+GGG | - | chr1_3:23414970-23414989 | None:intergenic | 45.0% | |
| TGCTGATCGCACTGTCCTTA+AGG | + | chr1_3:23414918-23414937 | Msa0110560:CDS | 50.0% | |
| TGCTGATCGCACTGTCCTTA+AGG | + | chr1_3:23414918-23414937 | Msa0110560:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 23413959 | 23414993 | 23413959 | ID=Msa0110560;Name=Msa0110560 |
| chr1_3 | mRNA | 23413959 | 23414993 | 23413959 | ID=Msa0110560-mRNA-1;Parent=Msa0110560;Name=Msa0110560-mRNA-1;_AED=0.71;_eAED=0.71;_QI=0|0|0|0.33|1|1|3|0|130 |
| chr1_3 | exon | 23413959 | 23414157 | 23413959 | ID=Msa0110560-mRNA-1:exon:8220;Parent=Msa0110560-mRNA-1 |
| chr1_3 | exon | 23414452 | 23414528 | 23414452 | ID=Msa0110560-mRNA-1:exon:8221;Parent=Msa0110560-mRNA-1 |
| chr1_3 | exon | 23414877 | 23414993 | 23414877 | ID=Msa0110560-mRNA-1:exon:8222;Parent=Msa0110560-mRNA-1 |
| chr1_3 | CDS | 23413959 | 23414157 | 23413959 | ID=Msa0110560-mRNA-1:cds;Parent=Msa0110560-mRNA-1 |
| chr1_3 | CDS | 23414452 | 23414528 | 23414452 | ID=Msa0110560-mRNA-1:cds;Parent=Msa0110560-mRNA-1 |
| chr1_3 | CDS | 23414877 | 23414993 | 23414877 | ID=Msa0110560-mRNA-1:cds;Parent=Msa0110560-mRNA-1 |
| Gene Sequence |
| Protein sequence |
