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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0689740 | XP_039690064.1 | 90.722 | 97 | 8 | 1 | 10 | 106 | 10 | 105 | 1.75e-54 | 175 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0689740 | A0A2K3NST5 | 78.947 | 95 | 17 | 2 | 14 | 106 | 1 | 94 | 1.51e-44 | 149 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0689740 | Msa0716840 | 0.863439 | 2.488086e-64 | -8.615850e-47 |
| Msa0689740 | Msa1420220 | 0.969506 | 3.191030e-130 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0689740 | MtrunA17_Chr5g0404111 | 88.462 | 78 | 8 | 1 | 1 | 78 | 1 | 77 | 8.57e-46 | 142 |
| Msa0689740 | MtrunA17_Chr3g0081641 | 36.559 | 93 | 55 | 2 | 14 | 105 | 1 | 90 | 7.05e-14 | 62.0 |
| Msa0689740 | MtrunA17_Chr1g0173721 | 35.106 | 94 | 48 | 3 | 14 | 106 | 1 | 82 | 2.19e-13 | 60.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0689740 | AT2G21640.1 | 35.052 | 97 | 56 | 2 | 14 | 103 | 1 | 97 | 6.30e-12 | 57.4 |
| Msa0689740 | AT4G39235.2 | 34.783 | 69 | 37 | 1 | 14 | 82 | 1 | 61 | 3.19e-11 | 55.1 |
| Msa0689740 | AT4G39235.1 | 34.783 | 69 | 37 | 1 | 14 | 82 | 1 | 61 | 3.19e-11 | 55.1 |
Find 23 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTAATGCATCAAAGGATTT+TGG | 0.124757 | 4_4:+56963180 | Msa0689740:CDS |
| CTTGAATGTTACACATTAAT+TGG | 0.152502 | 4_4:-56963400 | None:intergenic |
| CATACAATACAATTGTTTAC+AGG | 0.285310 | 4_4:+56963372 | Msa0689740:three_prime_UTR |
| TCAGCTTTAACTTTCTCCTT+TGG | 0.324540 | 4_4:+56963488 | Msa0689740:three_prime_UTR |
| TTAACTATGTTGATGTCAAC+TGG | 0.344256 | 4_4:+56962853 | None:intergenic |
| ACAGTTTCATATGATTATCA+TGG | 0.433286 | 4_4:+56963432 | Msa0689740:three_prime_UTR |
| AGTCAATCATGTGTTCTCTA+AGG | 0.438611 | 4_4:-56963334 | None:intergenic |
| CAGAATGTGACTCTTTGTGC+TGG | 0.447400 | 4_4:-56962946 | None:intergenic |
| TTCTGTCAAAGAAACAAGTC+CGG | 0.465521 | 4_4:+56962964 | Msa0689740:CDS |
| TCATGTGTTCTCTAAGGTCT+TGG | 0.473675 | 4_4:-56963328 | None:intergenic |
| CTTGAGAAACACAATTCAAA+AGG | 0.489220 | 4_4:+56963065 | Msa0689740:CDS |
| ATTAATGTGTAACATTCAAG+TGG | 0.494096 | 4_4:+56963403 | Msa0689740:three_prime_UTR |
| ACAGATATTTAATGCATCAA+AGG | 0.510172 | 4_4:+56963173 | Msa0689740:intron |
| TCTGTCAAAGAAACAAGTCC+GGG | 0.516482 | 4_4:+56962965 | Msa0689740:CDS |
| CAAAGAAACAAGTCCGGGGA+TGG | 0.518949 | 4_4:+56962970 | Msa0689740:CDS |
| TGTGTTCATCAACGGATGCA+TGG | 0.564961 | 4_4:-56963035 | None:intergenic |
| AGTCACAAAACTCCCATCCC+CGG | 0.586279 | 4_4:-56962983 | None:intergenic |
| AAAGAAACAAGTCCGGGGAT+GGG | 0.589500 | 4_4:+56962971 | Msa0689740:CDS |
| GCATCTCCTGTGTTCATCAA+CGG | 0.594973 | 4_4:-56963043 | None:intergenic |
| TTAATGTGTAACATTCAAGT+GGG | 0.633879 | 4_4:+56963404 | Msa0689740:three_prime_UTR |
| ATGCATCCGTTGATGAACAC+AGG | 0.635825 | 4_4:+56963037 | Msa0689740:CDS |
| TATAAACGAAGATGAAAACT+CGG | 0.670859 | 4_4:+56963218 | Msa0689740:CDS |
| CTGTCAAAGAAACAAGTCCG+GGG | 0.697051 | 4_4:+56962966 | Msa0689740:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TATTGATGTATATACATCCA+CGG | - | chr4_4:56963102-56963121 | None:intergenic | 25.0% |
| ! | TTGTTAGCATAATAATCGAA+GGG | - | chr4_4:56963127-56963146 | None:intergenic | 25.0% |
| ! | ACAGATATTTAATGCATCAA+AGG | + | chr4_4:56963173-56963192 | Msa0689740:intron | 25.0% |
| !! | TTTAATGCATCAAAGGATTT+TGG | + | chr4_4:56963180-56963199 | Msa0689740:CDS | 25.0% |
| ! | TATAAACGAAGATGAAAACT+CGG | + | chr4_4:56963218-56963237 | Msa0689740:CDS | 25.0% |
| !! | TTTTCTGAATCATTAGTAGA+TGG | + | chr4_4:56963275-56963294 | Msa0689740:three_prime_UTR | 25.0% |
| ! | CATACAATACAATTGTTTAC+AGG | + | chr4_4:56963372-56963391 | Msa0689740:three_prime_UTR | 25.0% |
| ! | CTTGAATGTTACACATTAAT+TGG | - | chr4_4:56963403-56963422 | None:intergenic | 25.0% |
| ! | ATTAATGTGTAACATTCAAG+TGG | + | chr4_4:56963403-56963422 | Msa0689740:three_prime_UTR | 25.0% |
| ! | TTAATGTGTAACATTCAAGT+GGG | + | chr4_4:56963404-56963423 | Msa0689740:three_prime_UTR | 25.0% |
| ! | ACAGTTTCATATGATTATCA+TGG | + | chr4_4:56963432-56963451 | Msa0689740:three_prime_UTR | 25.0% |
| ! | AACTGGATTAACTTTTCTTC+AGG | + | chr4_4:56962870-56962889 | Msa0689740:CDS | 30.0% |
| ! | AACTTTTCTTCAGGTGTTAA+TGG | + | chr4_4:56962879-56962898 | Msa0689740:CDS | 30.0% |
| !!! | GTTTTAGTTTTTCATCAGTC+TGG | - | chr4_4:56962918-56962937 | None:intergenic | 30.0% |
| CTTGAGAAACACAATTCAAA+AGG | + | chr4_4:56963065-56963084 | Msa0689740:CDS | 30.0% | |
| !! | AAAAGGTATATTTTCTACCG+TGG | + | chr4_4:56963082-56963101 | Msa0689740:intron | 30.0% |
| CTTGTTAGCATAATAATCGA+AGG | - | chr4_4:56963128-56963147 | None:intergenic | 30.0% | |
| TTCTGTCAAAGAAACAAGTC+CGG | + | chr4_4:56962964-56962983 | Msa0689740:CDS | 35.0% | |
| AGTCAATCATGTGTTCTCTA+AGG | - | chr4_4:56963337-56963356 | None:intergenic | 35.0% | |
| ! | TCAGCTTTAACTTTCTCCTT+TGG | + | chr4_4:56963488-56963507 | Msa0689740:three_prime_UTR | 35.0% |
| TCTGTCAAAGAAACAAGTCC+GGG | + | chr4_4:56962965-56962984 | Msa0689740:CDS | 40.0% | |
| !! | TCATGTGTTCTCTAAGGTCT+TGG | - | chr4_4:56963331-56963350 | None:intergenic | 40.0% |
| CAGAATGTGACTCTTTGTGC+TGG | - | chr4_4:56962949-56962968 | None:intergenic | 45.0% | |
| CTGTCAAAGAAACAAGTCCG+GGG | + | chr4_4:56962966-56962985 | Msa0689740:CDS | 45.0% | |
| AAAGAAACAAGTCCGGGGAT+GGG | + | chr4_4:56962971-56962990 | Msa0689740:CDS | 45.0% | |
| TGTGTTCATCAACGGATGCA+TGG | - | chr4_4:56963038-56963057 | None:intergenic | 45.0% | |
| ! | ATGCATCCGTTGATGAACAC+AGG | + | chr4_4:56963037-56963056 | Msa0689740:CDS | 45.0% |
| GCATCTCCTGTGTTCATCAA+CGG | - | chr4_4:56963046-56963065 | None:intergenic | 45.0% | |
| CAAAGAAACAAGTCCGGGGA+TGG | + | chr4_4:56962970-56962989 | Msa0689740:CDS | 50.0% | |
| AGTCACAAAACTCCCATCCC+CGG | - | chr4_4:56962986-56963005 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 56962859 | 56963522 | 56962859 | ID=Msa0689740;Name=Msa0689740 |
| chr4_4 | mRNA | 56962859 | 56963522 | 56962859 | ID=Msa0689740-mRNA-1;Parent=Msa0689740;Name=Msa0689740-mRNA-1;_AED=0.08;_eAED=0.08;_QI=0|1|0.5|1|1|1|2|253|106 |
| chr4_4 | exon | 56962859 | 56963086 | 56962859 | ID=Msa0689740-mRNA-1:exon:15133;Parent=Msa0689740-mRNA-1 |
| chr4_4 | exon | 56963177 | 56963522 | 56963177 | ID=Msa0689740-mRNA-1:exon:15134;Parent=Msa0689740-mRNA-1 |
| chr4_4 | CDS | 56962859 | 56963086 | 56962859 | ID=Msa0689740-mRNA-1:cds;Parent=Msa0689740-mRNA-1 |
| chr4_4 | CDS | 56963177 | 56963269 | 56963177 | ID=Msa0689740-mRNA-1:cds;Parent=Msa0689740-mRNA-1 |
| chr4_4 | three_prime_UTR | 56963270 | 56963522 | 56963270 | ID=Msa0689740-mRNA-1:three_prime_utr;Parent=Msa0689740-mRNA-1 |
| Gene Sequence |
| Protein sequence |
