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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0387180 | XP_003601750.1 | 99.237 | 131 | 0 | 1 | 1 | 131 | 1 | 130 | 6.99e-86 | 256 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000610 | Msa0387180 | -0.806492 | 8.012930e-50 | -8.615850e-47 |
| Msa0025060 | Msa0387180 | -0.851384 | 9.193225e-61 | -8.615850e-47 |
| Msa0025090 | Msa0387180 | -0.816758 | 4.689482e-52 | -8.615850e-47 |
| Msa0029010 | Msa0387180 | 0.805256 | 1.457057e-49 | -8.615850e-47 |
| Msa0030320 | Msa0387180 | -0.834380 | 3.099139e-56 | -8.615850e-47 |
| Msa0036560 | Msa0387180 | -0.813223 | 2.854287e-51 | -8.615850e-47 |
| Msa0060740 | Msa0387180 | -0.813201 | 2.885343e-51 | -8.615850e-47 |
| Msa0072590 | Msa0387180 | -0.815562 | 8.675085e-52 | -8.615850e-47 |
| Msa0076640 | Msa0387180 | 0.804623 | 1.976095e-49 | -8.615850e-47 |
| Msa0077920 | Msa0387180 | -0.820146 | 8.002910e-53 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0387180 | MtrunA17_Chr3g0122261 | 99.237 | 131 | 0 | 1 | 1 | 131 | 1 | 130 | 6.43e-90 | 256 |
| Msa0387180 | MtrunA17_Chr8g0377531 | 53.957 | 139 | 49 | 5 | 1 | 131 | 82 | 213 | 4.58e-41 | 135 |
| Msa0387180 | MtrunA17_Chr5g0434711 | 88.235 | 68 | 8 | 0 | 15 | 82 | 4 | 71 | 7.06e-37 | 120 |
| Msa0387180 | MtrunA17_Chr7g0224931 | 37.500 | 128 | 61 | 3 | 1 | 109 | 21 | 148 | 7.11e-17 | 72.4 |
| Msa0387180 | MtrunA17_Chr7g0224971 | 37.500 | 128 | 61 | 3 | 1 | 109 | 21 | 148 | 7.11e-17 | 72.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0387180 | AT1G27290.2 | 56.944 | 144 | 47 | 2 | 1 | 131 | 1 | 142 | 6.52e-51 | 158 |
| Msa0387180 | AT1G27290.1 | 56.944 | 144 | 47 | 2 | 1 | 131 | 1 | 142 | 6.52e-51 | 158 |
Find 76 sgRNAs with CRISPR-Local
Find 274 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACAACTTATAACAGGGGA+AGG | 0.591367 | 3_1:-91090452 | None:intergenic |
| AAACCCGCAGGTGAGATTTG+AGG | 0.566480 | 3_1:-91089323 | None:intergenic |
| AAACGCCGTAACGGTTGCTC+CGG | 0.554974 | 3_1:-91089293 | None:intergenic |
| AAATTGGGATTGACTGAGTT+TGG | 0.366889 | 3_1:-91089012 | None:intergenic |
| AAATTTCTCCAATCATCCAC+CGG | 0.571678 | 3_1:+91089274 | Msa0387180:CDS |
| AACTTATAACAGGGGAAGGA+GGG | 0.490173 | 3_1:-91090448 | None:intergenic |
| AAGAGAAGGAAAATATGATT+TGG | 0.392654 | 3_1:+91090572 | Msa0387180:three_prime_UTR |
| AAGCTAATGTGAGTACCAAT+TGG | 0.492910 | 3_1:+91090253 | Msa0387180:exon |
| AAGTAAAACAACTTATAACA+GGG | 0.642019 | 3_1:-91090457 | None:intergenic |
| AATCTCTTTGCATTACAAAT+AGG | 0.200673 | 3_1:+91090406 | Msa0387180:three_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GGATGATTGGAGAAATTTAA+CGG | - | chr3_1:91089272-91089291 | None:intergenic | 30.0% | |
| ATAATCAATCCAATAACCCA+CGG | - | chr3_1:91089428-91089447 | None:intergenic | 30.0% | |
| TTCTGTTCTCTGTTATATCA+TGG | + | chr3_1:91089496-91089515 | Msa0387180:CDS | 30.0% | |
| AGCGAAAATCGAACATATTT+GGG | - | chr3_1:91089850-91089869 | None:intergenic | 30.0% | |
| TGGTTTGATCATAAAAGACA+AGG | + | chr3_1:91089952-91089971 | Msa0387180:intron | 30.0% | |
| TTAAGCCACACATGATAAAA+GGG | - | chr3_1:91090205-91090224 | None:intergenic | 30.0% | |
| ATTAAGCCACACATGATAAA+AGG | - | chr3_1:91090206-91090225 | None:intergenic | 30.0% | |
| GGAGAAAGAAATCAAAGATA+CGG | + | chr3_1:91090274-91090293 | Msa0387180:three_prime_UTR | 30.0% | |
| TTGCATCTAATAAAAGGAGA+AGG | - | chr3_1:91090362-91090381 | None:intergenic | 30.0% | |
| GTAACCTTGCATCTAATAAA+AGG | - | chr3_1:91090368-91090387 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 91088929 | 91090607 | 91088929 | ID=Msa0387180;Name=Msa0387180 |
| chr3_1 | mRNA | 91088929 | 91090607 | 91088929 | ID=Msa0387180-mRNA-1;Parent=Msa0387180;Name=Msa0387180-mRNA-1;_AED=0.00;_eAED=0.00;_QI=250|1|1|1|1|1|2|343|131 |
| chr3_1 | exon | 91088929 | 91089557 | 91088929 | ID=Msa0387180-mRNA-1:exon:25313;Parent=Msa0387180-mRNA-1 |
| chr3_1 | exon | 91090248 | 91090607 | 91090248 | ID=Msa0387180-mRNA-1:exon:25314;Parent=Msa0387180-mRNA-1 |
| chr3_1 | five_prime_UTR | 91088929 | 91089178 | 91088929 | ID=Msa0387180-mRNA-1:five_prime_utr;Parent=Msa0387180-mRNA-1 |
| chr3_1 | CDS | 91089179 | 91089557 | 91089179 | ID=Msa0387180-mRNA-1:cds;Parent=Msa0387180-mRNA-1 |
| chr3_1 | CDS | 91090248 | 91090264 | 91090248 | ID=Msa0387180-mRNA-1:cds;Parent=Msa0387180-mRNA-1 |
| chr3_1 | three_prime_UTR | 91090265 | 91090607 | 91090265 | ID=Msa0387180-mRNA-1:three_prime_utr;Parent=Msa0387180-mRNA-1 |
| Gene Sequence |
>Msa0387180 ATGATGAGAAGAACACGTGAAGATGAACAATCACGAGCTTTCTACGACCTATCTGCAATCCTTCTCAACCTCCTCCGTTCACCACCAACGCCGTTAAATTTCTCCAATCATCCACCGGAGCAACCGTTACGGCGTTTACCTCCACCTCAAATCTCACCTGCGGGTTTTGCCTCTCTGCTTCTGGGAATTTCTATGGCTCTGATGCTCTGTGGATCGGTCACGTTCTTTATTGGATTTGTTTTGATGCCGTGGGTTATTGGATTGATTATGGTTCTCTATGTTGCTGGAATTGTTACCACTCTCTCTGATATAGGTCGTTCTGTTCTCTGTTATATCATGGCGGCGCCGGAGCCACCGCCGCGTAAAGATTCTATTCCAGCGTGGAAGCTAATGTGA |
| Protein sequence |
>Msa0387180 MMRRTREDEQSRAFYDLSAILLNLLRSPPTPLNFSNHPPEQPLRRLPPPQISPAGFASLLLGISMALMLCGSVTFFIGFVLMPWVIGLIMVLYVAGIVTTLSDIGRSVLCYIMAAPEPPPRKDSIPAWKLM* |
