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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0376460 | XP_013461431.1 | 93.671 | 79 | 4 | 1 | 1 | 78 | 1 | 79 | 1.02e-45 | 150 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0376460 | A0A072V1A4 | 93.671 | 79 | 4 | 1 | 1 | 78 | 1 | 79 | 4.86e-46 | 150 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0069260 | Msa0376460 | 0.805188 | 1.505748e-49 | -8.615850e-47 |
| Msa0069310 | Msa0376460 | 0.809399 | 1.928897e-50 | -8.615850e-47 |
| Msa0376460 | Msa0425110 | 0.901978 | 1.549156e-78 | -8.615850e-47 |
| Msa0376460 | Msa0471730 | 0.997239 | 3.900861e-239 | -8.615850e-47 |
| Msa0376460 | Msa0516500 | 0.980130 | 1.630420e-149 | -8.615850e-47 |
| Msa0376460 | Msa0721150 | 0.805314 | 1.417388e-49 | -8.615850e-47 |
| Msa0376460 | Msa0842240 | 0.800786 | 1.224229e-48 | -8.615850e-47 |
| Msa0376460 | Msa0967660 | 0.998257 | 4.522303e-260 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0376460 | MtrunA17_Chr3g0127111 | 93.671 | 79 | 4 | 1 | 1 | 78 | 1 | 79 | 9.36e-50 | 150 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 25 sgRNAs with CRISPR-Local
Find 104 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCAGGTTTCTTTGAATGCTT+TGG | 0.177524 | 3_1:-76576771 | None:intergenic |
| TTCTTTGAATGCTTTGGGTT+GGG | 0.313836 | 3_1:-76576765 | None:intergenic |
| ATTTGTTTACCTGAAGATAA+AGG | 0.340472 | 3_1:-76576211 | None:intergenic |
| CAGGTTTCTTTGAATGCTTT+GGG | 0.352628 | 3_1:-76576770 | None:intergenic |
| AGGTATTAATAAATAAAGTA+TGG | 0.361284 | 3_1:+76576999 | Msa0376460:three_prime_UTR |
| AAACCAAGAGGATGGCTAAA+AGG | 0.364847 | 3_1:-76576177 | None:intergenic |
| TGATTAGTAATTAGTTGTTA+AGG | 0.392811 | 3_1:-76576810 | None:intergenic |
| TTTCTTTGAATGCTTTGGGT+TGG | 0.396872 | 3_1:-76576766 | None:intergenic |
| TTGTAAAGAAAGTTATTAGT+AGG | 0.421064 | 3_1:-76576346 | None:intergenic |
| TACTAATAACTTTCTTTACA+AGG | 0.464774 | 3_1:+76576348 | Msa0376460:CDS |
| TGAGTGTATTGTAACTTATG+AGG | 0.474983 | 3_1:+76576979 | Msa0376460:three_prime_UTR |
| GGTGTTTAACGACCCTTGCC+AGG | 0.478184 | 3_1:-76576789 | None:intergenic |
| TTCATTGCATATACTTGCCA+TGG | 0.509554 | 3_1:+76576135 | Msa0376460:exon |
| ATGAATATAAATGACTTGGC+AGG | 0.510347 | 3_1:-76576070 | None:intergenic |
| CCAAAGCATTCAAAGAAACC+TGG | 0.549609 | 3_1:+76576771 | Msa0376460:CDS |
| AATCGAGCTAGTTTCTTCAC+CGG | 0.549992 | 3_1:+76576946 | Msa0376460:three_prime_UTR |
| TAAAATGAATATAAATGACT+TGG | 0.575545 | 3_1:-76576074 | None:intergenic |
| ATGAATGAAAACCAAGAGGA+TGG | 0.580545 | 3_1:-76576185 | None:intergenic |
| ATACACTCAAGTAGTGGCTC+CGG | 0.581091 | 3_1:-76576965 | None:intergenic |
| GTGTTGGATTATGATGAAGC+AGG | 0.583814 | 3_1:+76576741 | Msa0376460:CDS |
| GCATTCAAAGAAACCTGGCA+AGG | 0.596187 | 3_1:+76576776 | Msa0376460:CDS |
| CATTCAAAGAAACCTGGCAA+GGG | 0.630511 | 3_1:+76576777 | Msa0376460:CDS |
| GTTACAATACACTCAAGTAG+TGG | 0.639021 | 3_1:-76576971 | None:intergenic |
| GAAAATGAATGAAAACCAAG+AGG | 0.671422 | 3_1:-76576189 | None:intergenic |
| ATGGTGTAAAGATGAACTCG+AGG | 0.686471 | 3_1:+76576697 | Msa0376460:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTTCATATAGTTTTAAA+TGG | + | chr3_1:76576383-76576402 | Msa0376460:intron | 10.0% |
| !!! | TTATTTGTAAACATTATTTT+GGG | - | chr3_1:76576558-76576577 | None:intergenic | 10.0% |
| !!! | TTTATTTGTAAACATTATTT+TGG | - | chr3_1:76576559-76576578 | None:intergenic | 10.0% |
| !!! | GATTACAAATTTTTTTTTAT+AGG | - | chr3_1:76576593-76576612 | None:intergenic | 10.0% |
| !!! | TTTTTTCATATAGTTTTAAA+TGG | + | chr3_1:76576383-76576402 | Msa0376460:intron | 10.0% |
| !!! | TTATTTGTAAACATTATTTT+GGG | - | chr3_1:76576558-76576577 | None:intergenic | 10.0% |
| !!! | TTTATTTGTAAACATTATTT+TGG | - | chr3_1:76576559-76576578 | None:intergenic | 10.0% |
| !!! | GATTACAAATTTTTTTTTAT+AGG | - | chr3_1:76576593-76576612 | None:intergenic | 10.0% |
| !! | TAAAATGAATATAAATGACT+TGG | - | chr3_1:76576077-76576096 | None:intergenic | 15.0% |
| !!! | ATTTATTTTTTTGCTCTTTT+AGG | + | chr3_1:76576292-76576311 | Msa0376460:intron | 15.0% |
| !! | AGGTATTAATAAATAAAGTA+TGG | + | chr3_1:76576999-76577018 | Msa0376460:three_prime_UTR | 15.0% |
| !! | TAAAATGAATATAAATGACT+TGG | - | chr3_1:76576077-76576096 | None:intergenic | 15.0% |
| !!! | ATTTATTTTTTTGCTCTTTT+AGG | + | chr3_1:76576292-76576311 | Msa0376460:intron | 15.0% |
| !! | AGGTATTAATAAATAAAGTA+TGG | + | chr3_1:76576999-76577018 | Msa0376460:three_prime_UTR | 15.0% |
| !! | AAATTCTTACTTGATATAAG+TGG | + | chr3_1:76576230-76576249 | Msa0376460:intron | 20.0% |
| !! | TTGTAAAGAAAGTTATTAGT+AGG | - | chr3_1:76576349-76576368 | None:intergenic | 20.0% |
| !! | TACTAATAACTTTCTTTACA+AGG | + | chr3_1:76576348-76576367 | Msa0376460:CDS | 20.0% |
| !! | CTATATGAAAAAAGATAGTA+AGG | - | chr3_1:76576376-76576395 | None:intergenic | 20.0% |
| !! | AAAATTAAGATGAATACAGA+TGG | + | chr3_1:76576467-76576486 | Msa0376460:intron | 20.0% |
| !!! | ACATTATTTTGGGATTATAT+GGG | - | chr3_1:76576548-76576567 | None:intergenic | 20.0% |
| !!! | AACATTATTTTGGGATTATA+TGG | - | chr3_1:76576549-76576568 | None:intergenic | 20.0% |
| !!! | TTTTTAACTAACAAGTACTT+TGG | + | chr3_1:76576661-76576680 | Msa0376460:intron | 20.0% |
| !! | TGATTAGTAATTAGTTGTTA+AGG | - | chr3_1:76576813-76576832 | None:intergenic | 20.0% |
| !! | AAATTCTTACTTGATATAAG+TGG | + | chr3_1:76576230-76576249 | Msa0376460:intron | 20.0% |
| !! | TTGTAAAGAAAGTTATTAGT+AGG | - | chr3_1:76576349-76576368 | None:intergenic | 20.0% |
| !! | TACTAATAACTTTCTTTACA+AGG | + | chr3_1:76576348-76576367 | Msa0376460:CDS | 20.0% |
| !! | CTATATGAAAAAAGATAGTA+AGG | - | chr3_1:76576376-76576395 | None:intergenic | 20.0% |
| !! | AAAATTAAGATGAATACAGA+TGG | + | chr3_1:76576467-76576486 | Msa0376460:intron | 20.0% |
| !!! | ACATTATTTTGGGATTATAT+GGG | - | chr3_1:76576548-76576567 | None:intergenic | 20.0% |
| !!! | AACATTATTTTGGGATTATA+TGG | - | chr3_1:76576549-76576568 | None:intergenic | 20.0% |
| !!! | TTTTTAACTAACAAGTACTT+TGG | + | chr3_1:76576661-76576680 | Msa0376460:intron | 20.0% |
| !! | TGATTAGTAATTAGTTGTTA+AGG | - | chr3_1:76576813-76576832 | None:intergenic | 20.0% |
| !! | ATTCATTTTCCTTTATCTTC+AGG | + | chr3_1:76576202-76576221 | Msa0376460:CDS | 25.0% |
| ! | ATTTGTTTACCTGAAGATAA+AGG | - | chr3_1:76576214-76576233 | None:intergenic | 25.0% |
| !!! | TTTTTTTGCTCTTTTAGGAT+TGG | + | chr3_1:76576297-76576316 | Msa0376460:intron | 25.0% |
| !! | TATGTTCATCTTAAGTATTG+TGG | - | chr3_1:76576435-76576454 | None:intergenic | 25.0% |
| !! | ACATGAACAAAACATTTTGA+GGG | - | chr3_1:76576894-76576913 | None:intergenic | 25.0% |
| !! | TACATGAACAAAACATTTTG+AGG | - | chr3_1:76576895-76576914 | None:intergenic | 25.0% |
| !!! | AAATGTTTTGTTCATGTAAG+AGG | + | chr3_1:76576897-76576916 | Msa0376460:three_prime_UTR | 25.0% |
| !! | ATTCATTTTCCTTTATCTTC+AGG | + | chr3_1:76576202-76576221 | Msa0376460:CDS | 25.0% |
| ! | ATTTGTTTACCTGAAGATAA+AGG | - | chr3_1:76576214-76576233 | None:intergenic | 25.0% |
| !!! | TTTTTTTGCTCTTTTAGGAT+TGG | + | chr3_1:76576297-76576316 | Msa0376460:intron | 25.0% |
| !! | TATGTTCATCTTAAGTATTG+TGG | - | chr3_1:76576435-76576454 | None:intergenic | 25.0% |
| !! | ACATGAACAAAACATTTTGA+GGG | - | chr3_1:76576894-76576913 | None:intergenic | 25.0% |
| !! | TACATGAACAAAACATTTTG+AGG | - | chr3_1:76576895-76576914 | None:intergenic | 25.0% |
| !!! | AAATGTTTTGTTCATGTAAG+AGG | + | chr3_1:76576897-76576916 | Msa0376460:three_prime_UTR | 25.0% |
| ! | ATGAATATAAATGACTTGGC+AGG | - | chr3_1:76576073-76576092 | None:intergenic | 30.0% |
| !!! | TTTTAGCTTCTCATAAAGAG+AGG | + | chr3_1:76576092-76576111 | Msa0376460:five_prime_UTR | 30.0% |
| GAAAATGAATGAAAACCAAG+AGG | - | chr3_1:76576192-76576211 | None:intergenic | 30.0% | |
| GGCAAATACTAATATTTGCT+TGG | + | chr3_1:76576510-76576529 | Msa0376460:intron | 30.0% | |
| ! | AGTACTTTGGTATTGAATGA+AGG | + | chr3_1:76576674-76576693 | Msa0376460:intron | 30.0% |
| ! | CATGAACAAAACATTTTGAG+GGG | - | chr3_1:76576893-76576912 | None:intergenic | 30.0% |
| TGAGTGTATTGTAACTTATG+AGG | + | chr3_1:76576979-76576998 | Msa0376460:three_prime_UTR | 30.0% | |
| ! | ATGAATATAAATGACTTGGC+AGG | - | chr3_1:76576073-76576092 | None:intergenic | 30.0% |
| !!! | TTTTAGCTTCTCATAAAGAG+AGG | + | chr3_1:76576092-76576111 | Msa0376460:five_prime_UTR | 30.0% |
| GAAAATGAATGAAAACCAAG+AGG | - | chr3_1:76576192-76576211 | None:intergenic | 30.0% | |
| GGCAAATACTAATATTTGCT+TGG | + | chr3_1:76576510-76576529 | Msa0376460:intron | 30.0% | |
| ! | AGTACTTTGGTATTGAATGA+AGG | + | chr3_1:76576674-76576693 | Msa0376460:intron | 30.0% |
| ! | CATGAACAAAACATTTTGAG+GGG | - | chr3_1:76576893-76576912 | None:intergenic | 30.0% |
| TGAGTGTATTGTAACTTATG+AGG | + | chr3_1:76576979-76576998 | Msa0376460:three_prime_UTR | 30.0% | |
| TTCATTGCATATACTTGCCA+TGG | + | chr3_1:76576135-76576154 | Msa0376460:exon | 35.0% | |
| !!! | AGTTTTGACTTTGTGTTCCA+TGG | - | chr3_1:76576155-76576174 | None:intergenic | 35.0% |
| ATGAATGAAAACCAAGAGGA+TGG | - | chr3_1:76576188-76576207 | None:intergenic | 35.0% | |
| ! | CTTTGGTATTGAATGAAGGA+TGG | + | chr3_1:76576678-76576697 | Msa0376460:intron | 35.0% |
| ! | ATTGTCTCATGCTTTTGTGT+TGG | + | chr3_1:76576725-76576744 | Msa0376460:CDS | 35.0% |
| ! | TTCTTTGAATGCTTTGGGTT+GGG | - | chr3_1:76576768-76576787 | None:intergenic | 35.0% |
| ! | TTTCTTTGAATGCTTTGGGT+TGG | - | chr3_1:76576769-76576788 | None:intergenic | 35.0% |
| CAGGTTTCTTTGAATGCTTT+GGG | - | chr3_1:76576773-76576792 | None:intergenic | 35.0% | |
| GTTACAATACACTCAAGTAG+TGG | - | chr3_1:76576974-76576993 | None:intergenic | 35.0% | |
| TTCATTGCATATACTTGCCA+TGG | + | chr3_1:76576135-76576154 | Msa0376460:exon | 35.0% | |
| !!! | AGTTTTGACTTTGTGTTCCA+TGG | - | chr3_1:76576155-76576174 | None:intergenic | 35.0% |
| ATGAATGAAAACCAAGAGGA+TGG | - | chr3_1:76576188-76576207 | None:intergenic | 35.0% | |
| ! | CTTTGGTATTGAATGAAGGA+TGG | + | chr3_1:76576678-76576697 | Msa0376460:intron | 35.0% |
| ! | ATTGTCTCATGCTTTTGTGT+TGG | + | chr3_1:76576725-76576744 | Msa0376460:CDS | 35.0% |
| ! | TTCTTTGAATGCTTTGGGTT+GGG | - | chr3_1:76576768-76576787 | None:intergenic | 35.0% |
| ! | TTTCTTTGAATGCTTTGGGT+TGG | - | chr3_1:76576769-76576788 | None:intergenic | 35.0% |
| CAGGTTTCTTTGAATGCTTT+GGG | - | chr3_1:76576773-76576792 | None:intergenic | 35.0% | |
| GTTACAATACACTCAAGTAG+TGG | - | chr3_1:76576974-76576993 | None:intergenic | 35.0% | |
| ! | TTTCCTTTTAGCCATCCTCT+TGG | + | chr3_1:76576174-76576193 | Msa0376460:CDS | 40.0% |
| AAACCAAGAGGATGGCTAAA+AGG | - | chr3_1:76576180-76576199 | None:intergenic | 40.0% | |
| GAGCTACTACATTCACATTG+AGG | + | chr3_1:76576489-76576508 | Msa0376460:intron | 40.0% | |
| ATGGTGTAAAGATGAACTCG+AGG | + | chr3_1:76576697-76576716 | Msa0376460:CDS | 40.0% | |
| GTGTTGGATTATGATGAAGC+AGG | + | chr3_1:76576741-76576760 | Msa0376460:CDS | 40.0% | |
| CCAGGTTTCTTTGAATGCTT+TGG | - | chr3_1:76576774-76576793 | None:intergenic | 40.0% | |
| ! | CCAAAGCATTCAAAGAAACC+TGG | + | chr3_1:76576771-76576790 | Msa0376460:CDS | 40.0% |
| CATTCAAAGAAACCTGGCAA+GGG | + | chr3_1:76576777-76576796 | Msa0376460:CDS | 40.0% | |
| ! | AATCGAGCTAGTTTCTTCAC+CGG | + | chr3_1:76576946-76576965 | Msa0376460:three_prime_UTR | 40.0% |
| ! | TTTCCTTTTAGCCATCCTCT+TGG | + | chr3_1:76576174-76576193 | Msa0376460:CDS | 40.0% |
| AAACCAAGAGGATGGCTAAA+AGG | - | chr3_1:76576180-76576199 | None:intergenic | 40.0% | |
| GAGCTACTACATTCACATTG+AGG | + | chr3_1:76576489-76576508 | Msa0376460:intron | 40.0% | |
| ATGGTGTAAAGATGAACTCG+AGG | + | chr3_1:76576697-76576716 | Msa0376460:CDS | 40.0% | |
| GTGTTGGATTATGATGAAGC+AGG | + | chr3_1:76576741-76576760 | Msa0376460:CDS | 40.0% | |
| CCAGGTTTCTTTGAATGCTT+TGG | - | chr3_1:76576774-76576793 | None:intergenic | 40.0% | |
| ! | CCAAAGCATTCAAAGAAACC+TGG | + | chr3_1:76576771-76576790 | Msa0376460:CDS | 40.0% |
| CATTCAAAGAAACCTGGCAA+GGG | + | chr3_1:76576777-76576796 | Msa0376460:CDS | 40.0% | |
| ! | AATCGAGCTAGTTTCTTCAC+CGG | + | chr3_1:76576946-76576965 | Msa0376460:three_prime_UTR | 40.0% |
| !!! | GCTCTTTTAGGATTGGCTGA+AGG | + | chr3_1:76576304-76576323 | Msa0376460:intron | 45.0% |
| GCATTCAAAGAAACCTGGCA+AGG | + | chr3_1:76576776-76576795 | Msa0376460:CDS | 45.0% | |
| ATACACTCAAGTAGTGGCTC+CGG | - | chr3_1:76576968-76576987 | None:intergenic | 45.0% | |
| !!! | GCTCTTTTAGGATTGGCTGA+AGG | + | chr3_1:76576304-76576323 | Msa0376460:intron | 45.0% |
| GCATTCAAAGAAACCTGGCA+AGG | + | chr3_1:76576776-76576795 | Msa0376460:CDS | 45.0% | |
| ATACACTCAAGTAGTGGCTC+CGG | - | chr3_1:76576968-76576987 | None:intergenic | 45.0% | |
| GGTGTTTAACGACCCTTGCC+AGG | - | chr3_1:76576792-76576811 | None:intergenic | 55.0% | |
| GGTGTTTAACGACCCTTGCC+AGG | - | chr3_1:76576792-76576811 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 76576065 | 76577034 | 76576065 | ID=Msa0376460;Name=Msa0376460 |
| chr3_1 | mRNA | 76576065 | 76577034 | 76576065 | ID=Msa0376460-mRNA-1;Parent=Msa0376460;Name=Msa0376460-mRNA-1;_AED=0.00;_eAED=0.00;_QI=89|1|1|1|1|1|3|228|78 |
| chr3_1 | exon | 76576065 | 76576223 | 76576065 | ID=Msa0376460-mRNA-1:exon:18178;Parent=Msa0376460-mRNA-1 |
| chr3_1 | exon | 76576314 | 76576369 | 76576314 | ID=Msa0376460-mRNA-1:exon:18179;Parent=Msa0376460-mRNA-1 |
| chr3_1 | exon | 76576696 | 76577034 | 76576696 | ID=Msa0376460-mRNA-1:exon:18180;Parent=Msa0376460-mRNA-1 |
| chr3_1 | five_prime_UTR | 76576065 | 76576153 | 76576065 | ID=Msa0376460-mRNA-1:five_prime_utr;Parent=Msa0376460-mRNA-1 |
| chr3_1 | CDS | 76576154 | 76576223 | 76576154 | ID=Msa0376460-mRNA-1:cds;Parent=Msa0376460-mRNA-1 |
| chr3_1 | CDS | 76576314 | 76576369 | 76576314 | ID=Msa0376460-mRNA-1:cds;Parent=Msa0376460-mRNA-1 |
| chr3_1 | CDS | 76576696 | 76576806 | 76576696 | ID=Msa0376460-mRNA-1:cds;Parent=Msa0376460-mRNA-1 |
| chr3_1 | three_prime_UTR | 76576807 | 76577034 | 76576807 | ID=Msa0376460-mRNA-1:three_prime_utr;Parent=Msa0376460-mRNA-1 |
| Gene Sequence |
| Protein sequence |
