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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0675860 | XP_024638727.2 | 75.714 | 70 | 17 | 0 | 4 | 73 | 4 | 73 | 6.65e-27 | 104 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0675860 | A0A072UK96 | 72.308 | 65 | 16 | 1 | 11 | 73 | 1 | 65 | 1.65e-22 | 92.0 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0675860 | Msa1184790 | 0.800720 | 1.262341e-48 | -8.615850e-47 |
| Msa0675860 | Msa1225100 | 0.807060 | 6.076760e-50 | -8.615850e-47 |
| Msa0675860 | Msa1329870 | 0.806134 | 9.533608e-50 | -8.615850e-47 |
| Msa0675860 | Msa1405220 | 0.805516 | 1.285522e-49 | -8.615850e-47 |
| Msa0152560 | Msa0675860 | 0.801607 | 8.313011e-49 | -8.615850e-47 |
| Msa0319290 | Msa0675860 | 0.809956 | 1.464223e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0675860 | MtrunA17_Chr4g0019351 | 72.308 | 65 | 16 | 1 | 11 | 73 | 1 | 65 | 3.18e-26 | 92.0 |
| Msa0675860 | MtrunA17_Chr4g0019341 | 72.308 | 65 | 16 | 1 | 11 | 73 | 1 | 65 | 5.33e-26 | 91.3 |
| Msa0675860 | MtrunA17_Chr4g0018981 | 53.846 | 78 | 20 | 3 | 11 | 73 | 1 | 77 | 4.77e-19 | 73.2 |
| Msa0675860 | MtrunA17_Chr4g0019361 | 58.904 | 73 | 20 | 3 | 11 | 73 | 1 | 73 | 7.74e-18 | 70.1 |
| Msa0675860 | MtrunA17_Chr4g0018971 | 53.333 | 75 | 23 | 2 | 11 | 73 | 1 | 75 | 6.57e-17 | 67.8 |
| Msa0675860 | MtrunA17_Chr4g0018931 | 45.455 | 77 | 28 | 2 | 11 | 73 | 1 | 77 | 1.40e-15 | 64.7 |
| Msa0675860 | MtrunA17_Chr4g0018961 | 44.595 | 74 | 30 | 3 | 11 | 73 | 1 | 74 | 5.69e-12 | 55.5 |
| Msa0675860 | MtrunA17_Chr8g0368881 | 54.545 | 55 | 22 | 2 | 11 | 62 | 1 | 55 | 9.67e-12 | 55.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 24 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGAAGTGCTATCTTATTT+TGG | 0.211090 | 4_4:+25146949 | Msa0675860:CDS |
| CAAGGAGTCTCTTCTTATTC+AGG | 0.301102 | 4_4:-25147185 | None:intergenic |
| CTGAGACTGTTACACATATA+TGG | 0.312357 | 4_4:-25147548 | None:intergenic |
| TGTATGGTTTCAGATGAAAT+AGG | 0.338064 | 4_4:+25147162 | Msa0675860:intron |
| AGAGACTCCTTGCCGATTGT+AGG | 0.407819 | 4_4:+25147196 | Msa0675860:CDS |
| TAACACGCACATATCATTCA+TGG | 0.426421 | 4_4:-25147252 | None:intergenic |
| CATATATGTGTAACAGTCTC+AGG | 0.434746 | 4_4:+25147549 | Msa0675860:three_prime_UTR |
| GTCCATTGTAGCAAGAATAC+TGG | 0.434835 | 4_4:+25146922 | Msa0675860:CDS |
| TTGTGGCATCTTGCAGCATC+AGG | 0.446720 | 4_4:-25147225 | None:intergenic |
| ATGAATGATATGTGCGTGTT+AGG | 0.455855 | 4_4:+25147254 | Msa0675860:exon |
| TGCATAAAGTTCCGAAGCAT+TGG | 0.459688 | 4_4:-25147029 | None:intergenic |
| TACAATGGACTCATTACATA+TGG | 0.465677 | 4_4:-25146909 | None:intergenic |
| ATCAGGCTGTGTCCTACAAT+CGG | 0.491333 | 4_4:-25147208 | None:intergenic |
| ATTTATTGATTAATTGATGT+AGG | 0.505668 | 4_4:+25147323 | Msa0675860:three_prime_UTR |
| AAGGAACATTGCCAATGCTT+CGG | 0.512835 | 4_4:+25147018 | Msa0675860:CDS |
| ATAGATGGAATCGCAAAATA+CGG | 0.523196 | 4_4:-25147592 | None:intergenic |
| GTGTTAGGTTGTACACCCTT+CGG | 0.547507 | 4_4:+25147269 | Msa0675860:three_prime_UTR |
| AGCCAGTATTCTTGCTACAA+TGG | 0.549453 | 4_4:-25146924 | None:intergenic |
| TACTTATAATAATGACCGAA+GGG | 0.554851 | 4_4:-25147284 | None:intergenic |
| TATTGATTAATTGATGTAGG+TGG | 0.571918 | 4_4:+25147326 | Msa0675860:three_prime_UTR |
| TTACTTATAATAATGACCGA+AGG | 0.575676 | 4_4:-25147285 | None:intergenic |
| TCACATCAAAAGCATTAGCA+AGG | 0.588138 | 4_4:+25146999 | Msa0675860:CDS |
| ATATCATTCATGGATAATTG+TGG | 0.608926 | 4_4:-25147242 | None:intergenic |
| GCTGTGTCCTACAATCGGCA+AGG | 0.670528 | 4_4:-25147203 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTGTTCTTATATTAATATT+TGG | + | chr4_4:25147133-25147152 | Msa0675860:intron | 10.0% |
| !!! | TAATATTTGGTATTTTTGTA+TGG | + | chr4_4:25147146-25147165 | Msa0675860:intron | 15.0% |
| !!! | ATTTATTGATTAATTGATGT+AGG | + | chr4_4:25147323-25147342 | Msa0675860:three_prime_UTR | 15.0% |
| !!! | AACAAGCAATTTTTATTTTT+TGG | - | chr4_4:25147509-25147528 | None:intergenic | 15.0% |
| !! | ATTGCATTTACACAATATTA+TGG | + | chr4_4:25147086-25147105 | Msa0675860:intron | 20.0% |
| !!! | TTTTTGTTTATAATAGTGAG+CGG | + | chr4_4:25147400-25147419 | Msa0675860:three_prime_UTR | 20.0% |
| !!! | TATTAATTTTACCGTGAAAT+TGG | + | chr4_4:25147429-25147448 | Msa0675860:three_prime_UTR | 20.0% |
| !!! | AAAGAAGTGCTATCTTATTT+TGG | + | chr4_4:25146949-25146968 | Msa0675860:CDS | 25.0% |
| ! | CAATAACAAAATGGATATTG+TGG | - | chr4_4:25147070-25147089 | None:intergenic | 25.0% |
| ! | GTGTAAATGCAATAACAAAA+TGG | - | chr4_4:25147079-25147098 | None:intergenic | 25.0% |
| ! | ATATCATTCATGGATAATTG+TGG | - | chr4_4:25147245-25147264 | None:intergenic | 25.0% |
| ! | TACTTATAATAATGACCGAA+GGG | - | chr4_4:25147287-25147306 | None:intergenic | 25.0% |
| ! | TTACTTATAATAATGACCGA+AGG | - | chr4_4:25147288-25147307 | None:intergenic | 25.0% |
| !! | TATTGATTAATTGATGTAGG+TGG | + | chr4_4:25147326-25147345 | Msa0675860:three_prime_UTR | 25.0% |
| !!! | TATTTTTTCCACCAATTTCA+CGG | - | chr4_4:25147443-25147462 | None:intergenic | 25.0% |
| TGTATGGTTTCAGATGAAAT+AGG | + | chr4_4:25147162-25147181 | Msa0675860:intron | 30.0% | |
| ! | TAATTTTACCGTGAAATTGG+TGG | + | chr4_4:25147432-25147451 | Msa0675860:three_prime_UTR | 30.0% |
| !! | TCACATCAAAAGCATTAGCA+AGG | + | chr4_4:25146999-25147018 | Msa0675860:CDS | 35.0% |
| TAACACGCACATATCATTCA+TGG | - | chr4_4:25147255-25147274 | None:intergenic | 35.0% | |
| ATGAATGATATGTGCGTGTT+AGG | + | chr4_4:25147254-25147273 | Msa0675860:exon | 35.0% | |
| CTGAGACTGTTACACATATA+TGG | - | chr4_4:25147551-25147570 | None:intergenic | 35.0% | |
| CATATATGTGTAACAGTCTC+AGG | + | chr4_4:25147549-25147568 | Msa0675860:three_prime_UTR | 35.0% | |
| GTCCATTGTAGCAAGAATAC+TGG | + | chr4_4:25146922-25146941 | Msa0675860:CDS | 40.0% | |
| AGCCAGTATTCTTGCTACAA+TGG | - | chr4_4:25146927-25146946 | None:intergenic | 40.0% | |
| AAGGAACATTGCCAATGCTT+CGG | + | chr4_4:25147018-25147037 | Msa0675860:CDS | 40.0% | |
| TGCATAAAGTTCCGAAGCAT+TGG | - | chr4_4:25147032-25147051 | None:intergenic | 40.0% | |
| CAAGGAGTCTCTTCTTATTC+AGG | - | chr4_4:25147188-25147207 | None:intergenic | 40.0% | |
| ATCAGGCTGTGTCCTACAAT+CGG | - | chr4_4:25147211-25147230 | None:intergenic | 45.0% | |
| ! | GTGTTAGGTTGTACACCCTT+CGG | + | chr4_4:25147269-25147288 | Msa0675860:three_prime_UTR | 45.0% |
| ! | AGAGACTCCTTGCCGATTGT+AGG | + | chr4_4:25147196-25147215 | Msa0675860:CDS | 50.0% |
| TTGTGGCATCTTGCAGCATC+AGG | - | chr4_4:25147228-25147247 | None:intergenic | 50.0% | |
| GCTGTGTCCTACAATCGGCA+AGG | - | chr4_4:25147206-25147225 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 25146911 | 25147601 | 25146911 | ID=Msa0675860;Name=Msa0675860 |
| chr4_4 | mRNA | 25146911 | 25147601 | 25146911 | ID=Msa0675860-mRNA-1;Parent=Msa0675860;Name=Msa0675860-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|1|0.5|1|0|0|2|344|74 |
| chr4_4 | exon | 25146911 | 25147052 | 25146911 | ID=Msa0675860-mRNA-1:exon:6844;Parent=Msa0675860-mRNA-1 |
| chr4_4 | exon | 25147175 | 25147601 | 25147175 | ID=Msa0675860-mRNA-1:exon:6845;Parent=Msa0675860-mRNA-1 |
| chr4_4 | CDS | 25146911 | 25147052 | 25146911 | ID=Msa0675860-mRNA-1:cds;Parent=Msa0675860-mRNA-1 |
| chr4_4 | CDS | 25147175 | 25147257 | 25147175 | ID=Msa0675860-mRNA-1:cds;Parent=Msa0675860-mRNA-1 |
| chr4_4 | three_prime_UTR | 25147258 | 25147601 | 25147258 | ID=Msa0675860-mRNA-1:three_prime_utr;Parent=Msa0675860-mRNA-1 |
| Gene Sequence |
| Protein sequence |
