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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1225140 | XP_013458731.2 | 98.973 | 584 | 6 | 0 | 1 | 584 | 1 | 584 | 0.0 | 1196 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1225140 | sp|Q52QW3|CRTS1_ONCHC | 32.428 | 552 | 314 | 20 | 53 | 581 | 59 | 574 | 2.17e-64 | 224 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1225140 | A0A396G964 | 98.973 | 584 | 6 | 0 | 1 | 584 | 1 | 584 | 0.0 | 1196 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000180 | Msa1225140 | 0.819119 | 1.372653e-52 | -8.615850e-47 |
| Msa0000220 | Msa1225140 | 0.822189 | 2.706129e-53 | -8.615850e-47 |
| Msa0000610 | Msa1225140 | 0.866106 | 3.633617e-65 | -8.615850e-47 |
| Msa0000800 | Msa1225140 | -0.800097 | 1.690748e-48 | -8.615850e-47 |
| Msa0001040 | Msa1225140 | 0.837113 | 6.293885e-57 | -8.615850e-47 |
| Msa0001510 | Msa1225140 | 0.870410 | 1.490894e-66 | -8.615850e-47 |
| Msa0002110 | Msa1225140 | 0.869553 | 2.840328e-66 | -8.615850e-47 |
| Msa0002690 | Msa1225140 | 0.884403 | 1.976296e-71 | -8.615850e-47 |
| Msa0002700 | Msa1225140 | 0.881521 | 2.240362e-70 | -8.615850e-47 |
| Msa0003340 | Msa1225140 | 0.884229 | 2.292155e-71 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1225140 | MtrunA17_Chr0c12g0493641 | 98.973 | 584 | 6 | 0 | 1 | 584 | 1 | 584 | 0.0 | 1196 |
| Msa1225140 | MtrunA17_Chr4g0077041 | 82.156 | 269 | 6 | 1 | 287 | 555 | 1 | 227 | 1.49e-157 | 450 |
| Msa1225140 | MtrunA17_Chr4g0077021 | 97.297 | 111 | 3 | 0 | 1 | 111 | 1 | 111 | 1.18e-72 | 228 |
| Msa1225140 | MtrunA17_Chr1g0176461 | 31.681 | 565 | 319 | 21 | 38 | 571 | 42 | 570 | 3.29e-63 | 218 |
| Msa1225140 | MtrunA17_Chr4g0077031 | 100.000 | 70 | 0 | 0 | 152 | 221 | 3 | 72 | 2.26e-41 | 145 |
| Msa1225140 | MtrunA17_Chr8g0373291 | 24.744 | 586 | 325 | 29 | 45 | 555 | 4 | 548 | 1.60e-14 | 76.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1225140 | AT1G57770.1 | 80.952 | 525 | 100 | 0 | 60 | 584 | 50 | 574 | 0.0 | 900 |
| Msa1225140 | AT1G06820.1 | 31.758 | 529 | 310 | 16 | 60 | 571 | 75 | 569 | 3.00e-65 | 224 |
| Msa1225140 | AT1G06820.3 | 31.758 | 529 | 310 | 16 | 60 | 571 | 75 | 569 | 4.79e-65 | 223 |
| Msa1225140 | AT1G06820.4 | 34.181 | 354 | 216 | 9 | 224 | 571 | 108 | 450 | 7.56e-53 | 187 |
| Msa1225140 | AT1G06820.2 | 29.501 | 461 | 276 | 15 | 60 | 504 | 75 | 502 | 1.90e-44 | 166 |
| Msa1225140 | AT5G49555.1 | 22.968 | 566 | 343 | 25 | 52 | 555 | 3 | 537 | 8.31e-14 | 74.7 |
Find 172 sgRNAs with CRISPR-Local
Find 213 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGGTGAGAGAAGTTGTG+TGG | 0.652152 | 8_1:+90456744 | None:intergenic |
| AAACAGATGTAATTGTGATT+GGG | 0.492966 | 8_1:-90457275 | Msa1225140:CDS |
| AAAGGCTATAAGTTTGATTC+CGG | 0.484501 | 8_1:-90457141 | Msa1225140:CDS |
| AAATCTCCTCGAACAGATAG+AGG | 0.446661 | 8_1:+90456853 | None:intergenic |
| AAATGTGAAGTGAAGTTAGT+TGG | 0.458953 | 8_1:-90455368 | Msa1225140:CDS |
| AACTCAAATGGTTCAGTTCC+TGG | 0.320765 | 8_1:+90455588 | None:intergenic |
| AACTGAACCATTTGAGTTGT+GGG | 0.419173 | 8_1:-90455583 | Msa1225140:CDS |
| AAGGACCTTCACAACTATGC+AGG | 0.545742 | 8_1:-90456952 | Msa1225140:CDS |
| AATACCTGCAGCTCCATCAA+GGG | 0.564396 | 8_1:+90456193 | None:intergenic |
| AATACTTGGTAGATGGGCAA+AGG | 0.607524 | 8_1:+90455013 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CATCATCATAGTCATAGTAA+TGG | - | chr8_1:90455098-90455117 | Msa1225140:three_prime_UTR | 30.0% | |
| GAAACAGATGTAATTGTGAT+TGG | - | chr8_1:90455179-90455198 | Msa1225140:CDS | 30.0% | |
| AAAGGCTATAAGTTTGATTC+CGG | - | chr8_1:90455314-90455333 | Msa1225140:CDS | 30.0% | |
| TTGCAAAGAGTCAAGTATTT+GGG | + | chr8_1:90455738-90455757 | None:intergenic | 30.0% | |
| AGGATAGAAACTAGTTATTG+TGG | + | chr8_1:90455933-90455952 | None:intergenic | 30.0% | |
| TTCCAAAGTCTTACTCAAAT+AGG | - | chr8_1:90456552-90456571 | Msa1225140:intron | 30.0% | |
| ATCCTATTTGAGTAAGACTT+TGG | + | chr8_1:90456557-90456576 | None:intergenic | 30.0% | |
| AAATGTGAAGTGAAGTTAGT+TGG | - | chr8_1:90457087-90457106 | Msa1225140:CDS | 30.0% | |
| GTTTCTAATACTTGGTAGAT+GGG | + | chr8_1:90457451-90457470 | None:intergenic | 30.0% | |
| AGTTTCTAATACTTGGTAGA+TGG | + | chr8_1:90457452-90457471 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 90454851 | 90457626 | 90454851 | ID=Msa1225140;Name=Msa1225140 |
| chr8_1 | mRNA | 90454851 | 90457626 | 90454851 | ID=Msa1225140-mRNA-1;Parent=Msa1225140;Name=Msa1225140-mRNA-1;_AED=0.09;_eAED=0.09;_QI=145|1|1|1|0.8|0.66|6|255|584 |
| chr8_1 | exon | 90454851 | 90454977 | 90454851 | ID=Msa1225140-mRNA-1:exon:32898;Parent=Msa1225140-mRNA-1 |
| chr8_1 | exon | 90454999 | 90455441 | 90454999 | ID=Msa1225140-mRNA-1:exon:32897;Parent=Msa1225140-mRNA-1 |
| chr8_1 | exon | 90455527 | 90455763 | 90455527 | ID=Msa1225140-mRNA-1:exon:32896;Parent=Msa1225140-mRNA-1 |
| chr8_1 | exon | 90455843 | 90456001 | 90455843 | ID=Msa1225140-mRNA-1:exon:32895;Parent=Msa1225140-mRNA-1 |
| chr8_1 | exon | 90456073 | 90456264 | 90456073 | ID=Msa1225140-mRNA-1:exon:32894;Parent=Msa1225140-mRNA-1 |
| chr8_1 | exon | 90456630 | 90457626 | 90456630 | ID=Msa1225140-mRNA-1:exon:32893;Parent=Msa1225140-mRNA-1 |
| chr8_1 | five_prime_UTR | 90457482 | 90457626 | 90457482 | ID=Msa1225140-mRNA-1:five_prime_utr;Parent=Msa1225140-mRNA-1 |
| chr8_1 | CDS | 90456630 | 90457481 | 90456630 | ID=Msa1225140-mRNA-1:cds;Parent=Msa1225140-mRNA-1 |
| chr8_1 | CDS | 90456073 | 90456264 | 90456073 | ID=Msa1225140-mRNA-1:cds;Parent=Msa1225140-mRNA-1 |
| chr8_1 | CDS | 90455843 | 90456001 | 90455843 | ID=Msa1225140-mRNA-1:cds;Parent=Msa1225140-mRNA-1 |
| chr8_1 | CDS | 90455527 | 90455763 | 90455527 | ID=Msa1225140-mRNA-1:cds;Parent=Msa1225140-mRNA-1 |
| chr8_1 | CDS | 90455127 | 90455441 | 90455127 | ID=Msa1225140-mRNA-1:cds;Parent=Msa1225140-mRNA-1 |
| chr8_1 | three_prime_UTR | 90454999 | 90455126 | 90454999 | ID=Msa1225140-mRNA-1:three_prime_utr;Parent=Msa1225140-mRNA-1 |
| chr8_1 | three_prime_UTR | 90454851 | 90454977 | 90454851 | ID=Msa1225140-mRNA-1:three_prime_utr;Parent=Msa1225140-mRNA-1 |
| Gene Sequence |
>Msa1225140 ATGCCATGCCATGCCATGAATGCGATGAGGGGTGTAAGTGTTGGTGTGTTTCCTTGTAATGTAATGAGAGTGAGAAGATACTGTTCAAGAATTGATGATGATCATCATCATAGTCATAGTAATGGGAGGATTAGGAAAGGTGGGGTTGTGGTGCGAAACAGCAGCAACAAAGTAGATGAAACAGAAACAGATGTAATTGTGATTGGGAGTGGTATTGGTGGACTGAGTTGTGCAGCACTGTTGGCAAGATATGAACAAGATGTTGTCGTTTTCGAAAGCCACGACCATGCTGGAGGTGCTGCTCATTCTTTTGATGTCAAAGGCTATAAGTTTGATTCCGGTCCATCATTATTCTCTGGTTTGCAGTCAAGAGGTCCACAGGCTAACCCTCTTGCTCAAGTTCTTGATGCTTTGGGAGAGTCCGTCCCCTGCGCTACTTATGATTCATGGATGGTCCATGTACCTGAAGCTGATTTCTTGTCACGCATAGGTCCTACTGAGTTTTTAAAGGACCTTCACAACTATGCAGGTCCTGAAGCTGTTCAAGAATGGCAGAAGCTTTTGGATGCTGTACTTCCCTTGTCTACAGCTGCAATGGCTCTTCCCCCTCTATCTGTTCGAGGAGATTTCGGTGTTCTTTACACCGCTGCTGCTAGATATGCACCTTCTCTTTTCAATACCTTTTTCCAAATGGGTCCTCAGGCTGCTCTTCGTTCCACACAACTTCTCTCACCTTTTTCCCAAATACTTGACTCTTTGCAACTAAAGAATCCTTTCATACGCAATTGGATTGACTTACTTTCTTTCTTGCTTGCTGGTGTCAAATCTGATAGTATATTGTCTGCAGAGATGGTTTACATGTTTGCAGAATGGTACAAACCAGGGGGCTGTCTTGAGTACCCCCTTGATGGAGCTGCAGGTATTGTTGATGCTCTTGTACGAGGACTAGAGAAGTTTGGTGGGCGGATTTCTCTTCAAAGTCACGTGGAAAAGATTGTTGTTGAAAATGACAGAGCCATTGGAGTGAAGCTGAGAAGCGGCCAATTCGTACATGCCAAGAAGGCTGTTGTGAGCAATGCATCAATGTGGGATACTTTAAAATTGCTCCCTCAAGAAGTTGTTCCAAAGTCTTACTCAAATAGGATTAACACGACTAGTCAGTGTGAATCTTTCATGCATCTCCATTTGGGATTTGATGCTGAGGGTATACGCAGCGATCTAGGAATTCATCATATAGTTGTAAATGATTGGGAAAGAGGAGTTGACGCAGATCAGAATGTTGTGTTGATATCAGTTCCTAGTGTACTTACTCCTAATCTGGCACCTACTGGGAAACATGTGTTACATGCTTATCTTCCAGGAACTGAACCATTTGAGTTGTGGGAAGGACTTGATCGTAAGAGTGCCGAATACAGAAATCTTAAAGCTCAAAGATCAGAGATAATGTGGAGAGCAGTGGAGAGAGCAGTGGGACCAGGATTCAGCAGGGAGAAATGTGAAGTGAAGTTAGTTGGAAGTCCACTCACACATCAAAGGTTTCTTCGGAGGAACAGAGGAACATATGGACCAGCTATACAAGCTGGTACAGATACCTTTCCTGGACATTCAACTCCAATTCCACACCTTTATTGTTGTGGAGACTCCACTTTTCCTGGCATTGGCGTCCCTGCAGTTGCTGCCAGTGGTGCAATTGTAGCTAATTCTCTAGTTTCAGTGTCTCAGCATTCCCAGCTGCTTGATGCAATTGGAATTTGA |
| Protein sequence |
>Msa1225140 MPCHAMNAMRGVSVGVFPCNVMRVRRYCSRIDDDHHHSHSNGRIRKGGVVVRNSSNKVDETETDVIVIGSGIGGLSCAALLARYEQDVVVFESHDHAGGAAHSFDVKGYKFDSGPSLFSGLQSRGPQANPLAQVLDALGESVPCATYDSWMVHVPEADFLSRIGPTEFLKDLHNYAGPEAVQEWQKLLDAVLPLSTAAMALPPLSVRGDFGVLYTAAARYAPSLFNTFFQMGPQAALRSTQLLSPFSQILDSLQLKNPFIRNWIDLLSFLLAGVKSDSILSAEMVYMFAEWYKPGGCLEYPLDGAAGIVDALVRGLEKFGGRISLQSHVEKIVVENDRAIGVKLRSGQFVHAKKAVVSNASMWDTLKLLPQEVVPKSYSNRINTTSQCESFMHLHLGFDAEGIRSDLGIHHIVVNDWERGVDADQNVVLISVPSVLTPNLAPTGKHVLHAYLPGTEPFELWEGLDRKSAEYRNLKAQRSEIMWRAVERAVGPGFSREKCEVKLVGSPLTHQRFLRRNRGTYGPAIQAGTDTFPGHSTPIPHLYCCGDSTFPGIGVPAVAASGAIVANSLVSVSQHSQLLDAIGI* |
