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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1397100 | XP_019433617.1 | 100.000 | 124 | 0 | 0 | 1 | 124 | 10 | 133 | 3.25e-85 | 254 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1397100 | sp|P49636|RL40_NICSY | 98.387 | 124 | 2 | 0 | 1 | 124 | 5 | 128 | 6.79e-87 | 251 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1397100 | A0A022R0F0 | 100.000 | 124 | 0 | 0 | 1 | 124 | 5 | 128 | 1.60e-85 | 254 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0002790 | Msa1397100 | 0.818346 | 2.056492e-52 | -8.615850e-47 |
| Msa0027590 | Msa1397100 | 0.808840 | 2.541899e-50 | -8.615850e-47 |
| Msa0044890 | Msa1397100 | 0.824944 | 6.133390e-54 | -8.615850e-47 |
| Msa0068970 | Msa1397100 | 0.831395 | 1.710404e-55 | -8.615850e-47 |
| Msa0075350 | Msa1397100 | 0.813784 | 2.147726e-51 | -8.615850e-47 |
| Msa0085780 | Msa1397100 | 0.804170 | 2.456953e-49 | -8.615850e-47 |
| Msa0116670 | Msa1397100 | 0.837546 | 4.875665e-57 | -8.615850e-47 |
| Msa0128330 | Msa1397100 | 0.813714 | 2.225927e-51 | -8.615850e-47 |
| Msa0128750 | Msa1397100 | 0.839085 | 1.955916e-57 | -8.615850e-47 |
| Msa0173530 | Msa1397100 | 0.837766 | 4.283550e-57 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1397100 | MtrunA17_Chr7g0266661 | 100.000 | 124 | 0 | 0 | 1 | 124 | 5 | 128 | 3.08e-89 | 254 |
| Msa1397100 | MtrunA17_Chr1g0178381 | 100.000 | 124 | 0 | 0 | 1 | 124 | 5 | 128 | 3.08e-89 | 254 |
| Msa1397100 | MtrunA17_Chr3g0127481 | 100.000 | 124 | 0 | 0 | 1 | 124 | 5 | 128 | 3.08e-89 | 254 |
| Msa1397100 | MtrunA17_Chr6g0475951 | 98.630 | 73 | 1 | 0 | 1 | 73 | 5 | 77 | 1.68e-47 | 147 |
| Msa1397100 | MtrunA17_Chr6g0475961 | 98.630 | 73 | 1 | 0 | 1 | 73 | 8 | 80 | 2.23e-46 | 148 |
| Msa1397100 | MtrunA17_Chr6g0475961 | 98.630 | 73 | 1 | 0 | 1 | 73 | 84 | 156 | 2.23e-46 | 148 |
| Msa1397100 | MtrunA17_Chr6g0475961 | 100.000 | 33 | 0 | 0 | 1 | 33 | 160 | 192 | 1.30e-14 | 67.0 |
| Msa1397100 | MtrunA17_Chr4g0037241 | 100.000 | 72 | 0 | 0 | 1 | 72 | 5 | 76 | 2.61e-46 | 146 |
| Msa1397100 | MtrunA17_Chr4g0037241 | 62.500 | 72 | 27 | 0 | 1 | 72 | 81 | 152 | 1.88e-26 | 96.3 |
| Msa1397100 | MtrunA17_Chr5g0444101 | 100.000 | 72 | 0 | 0 | 1 | 72 | 5 | 76 | 2.61e-46 | 146 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1397100 | AT2G36170.1 | 98.387 | 124 | 2 | 0 | 1 | 124 | 5 | 128 | 1.39e-87 | 250 |
| Msa1397100 | AT3G52590.1 | 98.387 | 124 | 2 | 0 | 1 | 124 | 5 | 128 | 1.39e-87 | 250 |
| Msa1397100 | AT4G05320.7 | 98.630 | 73 | 1 | 0 | 1 | 73 | 5 | 77 | 1.57e-46 | 147 |
| Msa1397100 | AT4G05320.7 | 98.630 | 73 | 1 | 0 | 1 | 73 | 81 | 153 | 1.99e-46 | 147 |
| Msa1397100 | AT4G05050.4 | 98.630 | 73 | 1 | 0 | 1 | 73 | 5 | 77 | 1.57e-46 | 147 |
| Msa1397100 | AT4G05050.4 | 98.630 | 73 | 1 | 0 | 1 | 73 | 81 | 153 | 1.99e-46 | 147 |
| Msa1397100 | AT2G35635.1 | 100.000 | 72 | 0 | 0 | 1 | 72 | 5 | 76 | 3.59e-46 | 147 |
| Msa1397100 | AT2G35635.1 | 60.811 | 74 | 29 | 0 | 1 | 74 | 81 | 154 | 2.87e-26 | 96.3 |
| Msa1397100 | AT2G47110.2 | 100.000 | 72 | 0 | 0 | 1 | 72 | 5 | 76 | 4.73e-46 | 146 |
| Msa1397100 | AT2G47110.1 | 100.000 | 72 | 0 | 0 | 1 | 72 | 5 | 76 | 4.73e-46 | 146 |
Find 39 sgRNAs with CRISPR-Local
Find 263 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAGATCAACCTCTGCTGGTC+CGG | 0.328982 | tig0022126:-65572 | None:intergenic |
| AATCATTGAGCCTTCTTTGA+TGG | 0.363914 | tig0022126:+65815 | Msa1397100:CDS |
| AATTCAGAAATTAACCTTTC+TGG | 0.099822 | tig0022126:-65643 | None:intergenic |
| AATTCTGTTGGAAGTTGAAC+TGG | 0.449207 | tig0022126:+67318 | Msa1397100:three_prime_UTR |
| ACCCTCGTGCTGTCAACTGC+AGG | 0.545009 | tig0022126:+67067 | Msa1397100:CDS |
| AGATCAACCTCTGCTGGTCC+GGG | 0.424083 | tig0022126:-65571 | None:intergenic |
| ATCAACCTCTGCTGGTCCGG+GGG | 0.575505 | tig0022126:-65569 | None:intergenic |
| ATCTTCGTGAAAACCCTCAC+CGG | 0.581247 | tig0022126:+65371 | None:intergenic |
| CAACGTCAAAGCTAAGATTC+AGG | 0.397707 | tig0022126:+65436 | Msa1397100:CDS |
| CAAGACTATCACCCTTGAGG+TGG | 0.603784 | tig0022126:+65394 | Msa1397100:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATCAAACAAAAACGAATCGA+AGG | - | tig0022126:65515-65534 | None:intergenic | 30.0% | |
| TTAGACTTTAGTTAAGGTTC+AGG | + | tig0022126:66049-66068 | Msa1397100:intron | 30.0% | |
| TGCAATAAGTGCAAATTCAT+AGG | + | tig0022126:66198-66217 | Msa1397100:intron | 30.0% | |
| TTGGCATTACATACACTTAT+AGG | + | tig0022126:66293-66312 | Msa1397100:intron | 30.0% | |
| ACTTCTGATTACATTGAATC+AGG | + | tig0022126:66519-66538 | Msa1397100:intron | 30.0% | |
| GATTCATACACTATGAAGTA+TGG | - | tig0022126:66609-66628 | None:intergenic | 30.0% | |
| AATAATAGTAATTGCCTAGG+GGG | + | tig0022126:66840-66859 | Msa1397100:intron | 30.0% | |
| ACAATTATAAGTAAGCACAC+TGG | - | tig0022126:67021-67040 | None:intergenic | 30.0% | |
| TACTTATAATTGTGCTGTAC+AGG | + | tig0022126:67028-67047 | Msa1397100:intron | 30.0% | |
| ATCAAACAAAAACGAATCGA+AGG | - | tig0022126:65515-65534 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0022126 | gene | 65377 | 67527 | 65377 | ID=Msa1397100;Name=Msa1397100 |
| tig0022126 | mRNA | 65377 | 67527 | 65377 | ID=Msa1397100-mRNA-1;Parent=Msa1397100;Name=Msa1397100-mRNA-1;_AED=0.04;_eAED=0.04;_QI=0|1|0.8|1|1|0.8|5|291|124 |
| tig0022126 | exon | 65377 | 65467 | 65377 | ID=Msa1397100-mRNA-1:exon:15840;Parent=Msa1397100-mRNA-1 |
| tig0022126 | exon | 65564 | 65650 | 65564 | ID=Msa1397100-mRNA-1:exon:15841;Parent=Msa1397100-mRNA-1 |
| tig0022126 | exon | 65778 | 65880 | 65778 | ID=Msa1397100-mRNA-1:exon:15842;Parent=Msa1397100-mRNA-1 |
| tig0022126 | exon | 67050 | 67116 | 67050 | ID=Msa1397100-mRNA-1:exon:15843;Parent=Msa1397100-mRNA-1 |
| tig0022126 | exon | 67210 | 67527 | 67210 | ID=Msa1397100-mRNA-1:exon:15844;Parent=Msa1397100-mRNA-1 |
| tig0022126 | CDS | 65377 | 65467 | 65377 | ID=Msa1397100-mRNA-1:cds;Parent=Msa1397100-mRNA-1 |
| tig0022126 | CDS | 65564 | 65650 | 65564 | ID=Msa1397100-mRNA-1:cds;Parent=Msa1397100-mRNA-1 |
| tig0022126 | CDS | 65778 | 65880 | 65778 | ID=Msa1397100-mRNA-1:cds;Parent=Msa1397100-mRNA-1 |
| tig0022126 | CDS | 67050 | 67116 | 67050 | ID=Msa1397100-mRNA-1:cds;Parent=Msa1397100-mRNA-1 |
| tig0022126 | CDS | 67210 | 67236 | 67210 | ID=Msa1397100-mRNA-1:cds;Parent=Msa1397100-mRNA-1 |
| tig0022126 | three_prime_UTR | 67237 | 67527 | 67237 | ID=Msa1397100-mRNA-1:three_prime_utr;Parent=Msa1397100-mRNA-1 |
| Gene Sequence |
>Msa1397100 GTGAAAACCCTCACCGGCAAGACTATCACCCTTGAGGTGGAGTCAAGCGACACTATCGACAACGTCAAAGCTAAGATTCAGGATAAAGAAGGAATTCCCCCGGACCAGCAGAGGTTGATCTTCGCCGGAAAGCAGTTGGAAGATGGACGTACCCTTGCTGACTACAACATCCAGAAAGAATCAACTTTGCATCTTGTTTTGAGGCTTCGTGGTGGAATCATTGAGCCTTCTTTGATGGCGTTGGCCAGGAAGTATAACCAGGATAAGACTATCTGCCGCAAGTGCTATGCACGTTTACACCCTCGTGCTGTCAACTGCAGGAAAAAGAAGTGTGGACACAGCAATCAGTTGAGGCCAAAGAAGAAGATCAAGTAG |
| Protein sequence |
>Msa1397100 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGIIEPSLMALARKYNQDKTICRKCYARLHPRAVNCRKKKCGHSNQLRPKKKIK* |
