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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0471730 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0471730 | 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 | Msa0471730 | 0.803669 | 3.122656e-49 | -8.615850e-47 |
| Msa0069310 | Msa0471730 | 0.806887 | 6.612233e-50 | -8.615850e-47 |
| Msa0376460 | Msa0471730 | 0.997239 | 3.900861e-239 | -8.615850e-47 |
| Msa0425110 | Msa0471730 | 0.900375 | 7.802434e-78 | -8.615850e-47 |
| Msa0471730 | Msa0516500 | 0.980576 | 1.543479e-150 | -8.615850e-47 |
| Msa0471730 | Msa0721150 | 0.806671 | 7.343761e-50 | -8.615850e-47 |
| Msa0471730 | Msa0842240 | 0.802416 | 5.669914e-49 | -8.615850e-47 |
| Msa0471730 | Msa0967660 | 0.999093 | 7.628212e-290 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0471730 | 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_3:-74118862 | None:intergenic |
| TTCTTTGAATGCTTTGGGTT+GGG | 0.313836 | 3_3:-74118856 | None:intergenic |
| ATTTGTTTACCTGAAGATAA+AGG | 0.340472 | 3_3:-74118303 | None:intergenic |
| CAGGTTTCTTTGAATGCTTT+GGG | 0.352628 | 3_3:-74118861 | None:intergenic |
| AGGTATTAATAAATAAAGTA+TGG | 0.361284 | 3_3:+74119090 | Msa0471730:three_prime_UTR |
| AAACCAAGAGGATGGCTAAA+AGG | 0.364847 | 3_3:-74118269 | None:intergenic |
| TGATTAGTAATTAGTTGTTA+AGG | 0.392811 | 3_3:-74118901 | None:intergenic |
| TTTCTTTGAATGCTTTGGGT+TGG | 0.396872 | 3_3:-74118857 | None:intergenic |
| TTGTAAAGAAAGTTATTAGT+AGG | 0.421064 | 3_3:-74118438 | None:intergenic |
| TACTAATAACTTTCTTTACA+AGG | 0.464774 | 3_3:+74118440 | Msa0471730:CDS |
| TGAGTGTATTGTAACTTATG+AGG | 0.474983 | 3_3:+74119070 | Msa0471730:three_prime_UTR |
| GGTGTTTAACGACCCTTGCC+AGG | 0.478184 | 3_3:-74118880 | None:intergenic |
| TTCATTGCATATACTTGCCA+TGG | 0.509554 | 3_3:+74118227 | Msa0471730:exon |
| ATGAATATAAATGACTTGGC+AGG | 0.510347 | 3_3:-74118162 | None:intergenic |
| CCAAAGCATTCAAAGAAACC+TGG | 0.549609 | 3_3:+74118862 | Msa0471730:CDS |
| AATCGAGCTAGTTTCTTCAC+CGG | 0.549992 | 3_3:+74119037 | Msa0471730:three_prime_UTR |
| TAAAATGAATATAAATGACT+TGG | 0.575545 | 3_3:-74118166 | None:intergenic |
| ATGAATGAAAACCAAGAGGA+TGG | 0.580545 | 3_3:-74118277 | None:intergenic |
| ATACACTCAAGTAGTGGCTC+CGG | 0.581091 | 3_3:-74119056 | None:intergenic |
| GTGTTGGATTATGATGAAGC+AGG | 0.583814 | 3_3:+74118832 | Msa0471730:CDS |
| GCATTCAAAGAAACCTGGCA+AGG | 0.596187 | 3_3:+74118867 | Msa0471730:CDS |
| CATTCAAAGAAACCTGGCAA+GGG | 0.630511 | 3_3:+74118868 | Msa0471730:CDS |
| GTTACAATACACTCAAGTAG+TGG | 0.639021 | 3_3:-74119062 | None:intergenic |
| GAAAATGAATGAAAACCAAG+AGG | 0.671422 | 3_3:-74118281 | None:intergenic |
| ATGGTGTAAAGATGAACTCG+AGG | 0.686471 | 3_3:+74118788 | Msa0471730:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTTCATATAGTTTTAAA+TGG | + | chr3_3:74118475-74118494 | Msa0471730:intron | 10.0% |
| !!! | TTATTTGTAAACATTATTTT+GGG | - | chr3_3:74118650-74118669 | None:intergenic | 10.0% |
| !!! | TTTATTTGTAAACATTATTT+TGG | - | chr3_3:74118651-74118670 | None:intergenic | 10.0% |
| !!! | AGATTACAAATTTTTTTTAT+AGG | - | chr3_3:74118685-74118704 | None:intergenic | 10.0% |
| !!! | TTTTTTCATATAGTTTTAAA+TGG | + | chr3_3:74118475-74118494 | Msa0471730:intron | 10.0% |
| !!! | TTATTTGTAAACATTATTTT+GGG | - | chr3_3:74118650-74118669 | None:intergenic | 10.0% |
| !!! | TTTATTTGTAAACATTATTT+TGG | - | chr3_3:74118651-74118670 | None:intergenic | 10.0% |
| !!! | AGATTACAAATTTTTTTTAT+AGG | - | chr3_3:74118685-74118704 | None:intergenic | 10.0% |
| !! | TAAAATGAATATAAATGACT+TGG | - | chr3_3:74118169-74118188 | None:intergenic | 15.0% |
| !!! | ATTTATTTTTTTGCTCTTTT+AGG | + | chr3_3:74118384-74118403 | Msa0471730:intron | 15.0% |
| !! | AGGTATTAATAAATAAAGTA+TGG | + | chr3_3:74119090-74119109 | Msa0471730:three_prime_UTR | 15.0% |
| !! | TAAAATGAATATAAATGACT+TGG | - | chr3_3:74118169-74118188 | None:intergenic | 15.0% |
| !!! | ATTTATTTTTTTGCTCTTTT+AGG | + | chr3_3:74118384-74118403 | Msa0471730:intron | 15.0% |
| !! | AGGTATTAATAAATAAAGTA+TGG | + | chr3_3:74119090-74119109 | Msa0471730:three_prime_UTR | 15.0% |
| !! | AAATTCTTACTTGATATAAG+TGG | + | chr3_3:74118322-74118341 | Msa0471730:intron | 20.0% |
| !! | TTGTAAAGAAAGTTATTAGT+AGG | - | chr3_3:74118441-74118460 | None:intergenic | 20.0% |
| !! | TACTAATAACTTTCTTTACA+AGG | + | chr3_3:74118440-74118459 | Msa0471730:CDS | 20.0% |
| !! | CTATATGAAAAAAGATAGTA+AGG | - | chr3_3:74118468-74118487 | None:intergenic | 20.0% |
| !! | AAAATTAAGATGAATACAGA+TGG | + | chr3_3:74118559-74118578 | Msa0471730:intron | 20.0% |
| !!! | ACATTATTTTGGGATTATAT+GGG | - | chr3_3:74118640-74118659 | None:intergenic | 20.0% |
| !!! | AACATTATTTTGGGATTATA+TGG | - | chr3_3:74118641-74118660 | None:intergenic | 20.0% |
| !!! | TTTTTAACTAACAAGTACTT+TGG | + | chr3_3:74118752-74118771 | Msa0471730:intron | 20.0% |
| !! | TGATTAGTAATTAGTTGTTA+AGG | - | chr3_3:74118904-74118923 | None:intergenic | 20.0% |
| !! | AAATTCTTACTTGATATAAG+TGG | + | chr3_3:74118322-74118341 | Msa0471730:intron | 20.0% |
| !! | TTGTAAAGAAAGTTATTAGT+AGG | - | chr3_3:74118441-74118460 | None:intergenic | 20.0% |
| !! | TACTAATAACTTTCTTTACA+AGG | + | chr3_3:74118440-74118459 | Msa0471730:CDS | 20.0% |
| !! | CTATATGAAAAAAGATAGTA+AGG | - | chr3_3:74118468-74118487 | None:intergenic | 20.0% |
| !! | AAAATTAAGATGAATACAGA+TGG | + | chr3_3:74118559-74118578 | Msa0471730:intron | 20.0% |
| !!! | ACATTATTTTGGGATTATAT+GGG | - | chr3_3:74118640-74118659 | None:intergenic | 20.0% |
| !!! | AACATTATTTTGGGATTATA+TGG | - | chr3_3:74118641-74118660 | None:intergenic | 20.0% |
| !!! | TTTTTAACTAACAAGTACTT+TGG | + | chr3_3:74118752-74118771 | Msa0471730:intron | 20.0% |
| !! | TGATTAGTAATTAGTTGTTA+AGG | - | chr3_3:74118904-74118923 | None:intergenic | 20.0% |
| !! | ATTCATTTTCCTTTATCTTC+AGG | + | chr3_3:74118294-74118313 | Msa0471730:CDS | 25.0% |
| ! | ATTTGTTTACCTGAAGATAA+AGG | - | chr3_3:74118306-74118325 | None:intergenic | 25.0% |
| !!! | TTTTTTTGCTCTTTTAGGAT+TGG | + | chr3_3:74118389-74118408 | Msa0471730:intron | 25.0% |
| !! | TATGTTCATCTTAAGTATTG+TGG | - | chr3_3:74118527-74118546 | None:intergenic | 25.0% |
| !! | ACATGAACAAAACATTTTGA+GGG | - | chr3_3:74118985-74119004 | None:intergenic | 25.0% |
| !! | TACATGAACAAAACATTTTG+AGG | - | chr3_3:74118986-74119005 | None:intergenic | 25.0% |
| !!! | AAATGTTTTGTTCATGTAAG+AGG | + | chr3_3:74118988-74119007 | Msa0471730:three_prime_UTR | 25.0% |
| !! | ATTCATTTTCCTTTATCTTC+AGG | + | chr3_3:74118294-74118313 | Msa0471730:CDS | 25.0% |
| ! | ATTTGTTTACCTGAAGATAA+AGG | - | chr3_3:74118306-74118325 | None:intergenic | 25.0% |
| !!! | TTTTTTTGCTCTTTTAGGAT+TGG | + | chr3_3:74118389-74118408 | Msa0471730:intron | 25.0% |
| !! | TATGTTCATCTTAAGTATTG+TGG | - | chr3_3:74118527-74118546 | None:intergenic | 25.0% |
| !! | ACATGAACAAAACATTTTGA+GGG | - | chr3_3:74118985-74119004 | None:intergenic | 25.0% |
| !! | TACATGAACAAAACATTTTG+AGG | - | chr3_3:74118986-74119005 | None:intergenic | 25.0% |
| !!! | AAATGTTTTGTTCATGTAAG+AGG | + | chr3_3:74118988-74119007 | Msa0471730:three_prime_UTR | 25.0% |
| ! | ATGAATATAAATGACTTGGC+AGG | - | chr3_3:74118165-74118184 | None:intergenic | 30.0% |
| !!! | TTTTAGCTTCTCATAAAGAG+AGG | + | chr3_3:74118184-74118203 | Msa0471730:five_prime_UTR | 30.0% |
| GAAAATGAATGAAAACCAAG+AGG | - | chr3_3:74118284-74118303 | None:intergenic | 30.0% | |
| ! | AGTACTTTGGTATTGAATGA+AGG | + | chr3_3:74118765-74118784 | Msa0471730:intron | 30.0% |
| ! | CATGAACAAAACATTTTGAG+GGG | - | chr3_3:74118984-74119003 | None:intergenic | 30.0% |
| TGAGTGTATTGTAACTTATG+AGG | + | chr3_3:74119070-74119089 | Msa0471730:three_prime_UTR | 30.0% | |
| ! | ATGAATATAAATGACTTGGC+AGG | - | chr3_3:74118165-74118184 | None:intergenic | 30.0% |
| !!! | TTTTAGCTTCTCATAAAGAG+AGG | + | chr3_3:74118184-74118203 | Msa0471730:five_prime_UTR | 30.0% |
| GAAAATGAATGAAAACCAAG+AGG | - | chr3_3:74118284-74118303 | None:intergenic | 30.0% | |
| ! | AGTACTTTGGTATTGAATGA+AGG | + | chr3_3:74118765-74118784 | Msa0471730:intron | 30.0% |
| ! | CATGAACAAAACATTTTGAG+GGG | - | chr3_3:74118984-74119003 | None:intergenic | 30.0% |
| TGAGTGTATTGTAACTTATG+AGG | + | chr3_3:74119070-74119089 | Msa0471730:three_prime_UTR | 30.0% | |
| TTCATTGCATATACTTGCCA+TGG | + | chr3_3:74118227-74118246 | Msa0471730:exon | 35.0% | |
| !!! | AGTTTTGACTTTGTGTTCCA+TGG | - | chr3_3:74118247-74118266 | None:intergenic | 35.0% |
| ATGAATGAAAACCAAGAGGA+TGG | - | chr3_3:74118280-74118299 | None:intergenic | 35.0% | |
| GGCAAATGCTAATATTTGCT+TGG | + | chr3_3:74118602-74118621 | Msa0471730:intron | 35.0% | |
| ! | CTTTGGTATTGAATGAAGGA+TGG | + | chr3_3:74118769-74118788 | Msa0471730:intron | 35.0% |
| ! | ATTGTCTCATGCTTTTGTGT+TGG | + | chr3_3:74118816-74118835 | Msa0471730:CDS | 35.0% |
| ! | TTCTTTGAATGCTTTGGGTT+GGG | - | chr3_3:74118859-74118878 | None:intergenic | 35.0% |
| ! | TTTCTTTGAATGCTTTGGGT+TGG | - | chr3_3:74118860-74118879 | None:intergenic | 35.0% |
| CAGGTTTCTTTGAATGCTTT+GGG | - | chr3_3:74118864-74118883 | None:intergenic | 35.0% | |
| GTTACAATACACTCAAGTAG+TGG | - | chr3_3:74119065-74119084 | None:intergenic | 35.0% | |
| TTCATTGCATATACTTGCCA+TGG | + | chr3_3:74118227-74118246 | Msa0471730:exon | 35.0% | |
| !!! | AGTTTTGACTTTGTGTTCCA+TGG | - | chr3_3:74118247-74118266 | None:intergenic | 35.0% |
| ATGAATGAAAACCAAGAGGA+TGG | - | chr3_3:74118280-74118299 | None:intergenic | 35.0% | |
| GGCAAATGCTAATATTTGCT+TGG | + | chr3_3:74118602-74118621 | Msa0471730:intron | 35.0% | |
| ! | CTTTGGTATTGAATGAAGGA+TGG | + | chr3_3:74118769-74118788 | Msa0471730:intron | 35.0% |
| ! | ATTGTCTCATGCTTTTGTGT+TGG | + | chr3_3:74118816-74118835 | Msa0471730:CDS | 35.0% |
| ! | TTCTTTGAATGCTTTGGGTT+GGG | - | chr3_3:74118859-74118878 | None:intergenic | 35.0% |
| ! | TTTCTTTGAATGCTTTGGGT+TGG | - | chr3_3:74118860-74118879 | None:intergenic | 35.0% |
| CAGGTTTCTTTGAATGCTTT+GGG | - | chr3_3:74118864-74118883 | None:intergenic | 35.0% | |
| GTTACAATACACTCAAGTAG+TGG | - | chr3_3:74119065-74119084 | None:intergenic | 35.0% | |
| ! | TTTCCTTTTAGCCATCCTCT+TGG | + | chr3_3:74118266-74118285 | Msa0471730:CDS | 40.0% |
| AAACCAAGAGGATGGCTAAA+AGG | - | chr3_3:74118272-74118291 | None:intergenic | 40.0% | |
| GAGCTACTACATTCACATTG+AGG | + | chr3_3:74118581-74118600 | Msa0471730:intron | 40.0% | |
| ATGGTGTAAAGATGAACTCG+AGG | + | chr3_3:74118788-74118807 | Msa0471730:CDS | 40.0% | |
| GTGTTGGATTATGATGAAGC+AGG | + | chr3_3:74118832-74118851 | Msa0471730:CDS | 40.0% | |
| CCAGGTTTCTTTGAATGCTT+TGG | - | chr3_3:74118865-74118884 | None:intergenic | 40.0% | |
| ! | CCAAAGCATTCAAAGAAACC+TGG | + | chr3_3:74118862-74118881 | Msa0471730:CDS | 40.0% |
| CATTCAAAGAAACCTGGCAA+GGG | + | chr3_3:74118868-74118887 | Msa0471730:CDS | 40.0% | |
| ! | AATCGAGCTAGTTTCTTCAC+CGG | + | chr3_3:74119037-74119056 | Msa0471730:three_prime_UTR | 40.0% |
| ! | TTTCCTTTTAGCCATCCTCT+TGG | + | chr3_3:74118266-74118285 | Msa0471730:CDS | 40.0% |
| AAACCAAGAGGATGGCTAAA+AGG | - | chr3_3:74118272-74118291 | None:intergenic | 40.0% | |
| GAGCTACTACATTCACATTG+AGG | + | chr3_3:74118581-74118600 | Msa0471730:intron | 40.0% | |
| ATGGTGTAAAGATGAACTCG+AGG | + | chr3_3:74118788-74118807 | Msa0471730:CDS | 40.0% | |
| GTGTTGGATTATGATGAAGC+AGG | + | chr3_3:74118832-74118851 | Msa0471730:CDS | 40.0% | |
| CCAGGTTTCTTTGAATGCTT+TGG | - | chr3_3:74118865-74118884 | None:intergenic | 40.0% | |
| ! | CCAAAGCATTCAAAGAAACC+TGG | + | chr3_3:74118862-74118881 | Msa0471730:CDS | 40.0% |
| CATTCAAAGAAACCTGGCAA+GGG | + | chr3_3:74118868-74118887 | Msa0471730:CDS | 40.0% | |
| ! | AATCGAGCTAGTTTCTTCAC+CGG | + | chr3_3:74119037-74119056 | Msa0471730:three_prime_UTR | 40.0% |
| !!! | GCTCTTTTAGGATTGGCTGA+AGG | + | chr3_3:74118396-74118415 | Msa0471730:intron | 45.0% |
| GCATTCAAAGAAACCTGGCA+AGG | + | chr3_3:74118867-74118886 | Msa0471730:CDS | 45.0% | |
| ATACACTCAAGTAGTGGCTC+CGG | - | chr3_3:74119059-74119078 | None:intergenic | 45.0% | |
| !!! | GCTCTTTTAGGATTGGCTGA+AGG | + | chr3_3:74118396-74118415 | Msa0471730:intron | 45.0% |
| GCATTCAAAGAAACCTGGCA+AGG | + | chr3_3:74118867-74118886 | Msa0471730:CDS | 45.0% | |
| ATACACTCAAGTAGTGGCTC+CGG | - | chr3_3:74119059-74119078 | None:intergenic | 45.0% | |
| GGTGTTTAACGACCCTTGCC+AGG | - | chr3_3:74118883-74118902 | None:intergenic | 55.0% | |
| GGTGTTTAACGACCCTTGCC+AGG | - | chr3_3:74118883-74118902 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 74118157 | 74119125 | 74118157 | ID=Msa0471730;Name=Msa0471730 |
| chr3_3 | mRNA | 74118157 | 74119125 | 74118157 | ID=Msa0471730-mRNA-1;Parent=Msa0471730;Name=Msa0471730-mRNA-1;_AED=0.02;_eAED=0.02;_QI=89|1|1|1|1|1|3|228|78 |
| chr3_3 | exon | 74118157 | 74118315 | 74118157 | ID=Msa0471730-mRNA-1:exon:18882;Parent=Msa0471730-mRNA-1 |
| chr3_3 | exon | 74118406 | 74118461 | 74118406 | ID=Msa0471730-mRNA-1:exon:18883;Parent=Msa0471730-mRNA-1 |
| chr3_3 | exon | 74118787 | 74119125 | 74118787 | ID=Msa0471730-mRNA-1:exon:18884;Parent=Msa0471730-mRNA-1 |
| chr3_3 | five_prime_UTR | 74118157 | 74118245 | 74118157 | ID=Msa0471730-mRNA-1:five_prime_utr;Parent=Msa0471730-mRNA-1 |
| chr3_3 | CDS | 74118246 | 74118315 | 74118246 | ID=Msa0471730-mRNA-1:cds;Parent=Msa0471730-mRNA-1 |
| chr3_3 | CDS | 74118406 | 74118461 | 74118406 | ID=Msa0471730-mRNA-1:cds;Parent=Msa0471730-mRNA-1 |
| chr3_3 | CDS | 74118787 | 74118897 | 74118787 | ID=Msa0471730-mRNA-1:cds;Parent=Msa0471730-mRNA-1 |
| chr3_3 | three_prime_UTR | 74118898 | 74119125 | 74118898 | ID=Msa0471730-mRNA-1:three_prime_utr;Parent=Msa0471730-mRNA-1 |
| Gene Sequence |
| Protein sequence |
