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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0893390 | XP_013451947.1 | 93.075 | 361 | 8 | 1 | 1 | 344 | 1 | 361 | 0.0 | 687 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0893390 | sp|Q9SZ83|Y4967_ARATH | 61.281 | 359 | 122 | 1 | 1 | 342 | 1 | 359 | 2.75e-167 | 473 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0893390 | A0A072UJH2 | 93.075 | 361 | 8 | 1 | 1 | 344 | 1 | 361 | 0.0 | 687 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000220 | Msa0893390 | 0.844994 | 5.352938e-59 | -8.615850e-47 |
| Msa0001420 | Msa0893390 | 0.848456 | 6.058641e-60 | -8.615850e-47 |
| Msa0001460 | Msa0893390 | 0.857548 | 1.514108e-62 | -8.615850e-47 |
| Msa0001510 | Msa0893390 | 0.808520 | 2.975082e-50 | -8.615850e-47 |
| Msa0001540 | Msa0893390 | 0.889910 | 1.585648e-73 | -8.615850e-47 |
| Msa0002060 | Msa0893390 | 0.835844 | 1.324347e-56 | -8.615850e-47 |
| Msa0003470 | Msa0893390 | 0.810325 | 1.219344e-50 | -8.615850e-47 |
| Msa0005160 | Msa0893390 | 0.805525 | 1.279882e-49 | -8.615850e-47 |
| Msa0006580 | Msa0893390 | 0.816730 | 4.757870e-52 | -8.615850e-47 |
| Msa0007160 | Msa0893390 | 0.807733 | 4.375160e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0893390 | MtrunA17_Chr6g0465111 | 93.075 | 361 | 8 | 1 | 1 | 344 | 1 | 361 | 0.0 | 687 |
| Msa0893390 | MtrunA17_Chr6g0465121 | 89.751 | 361 | 15 | 3 | 1 | 344 | 14 | 369 | 0.0 | 655 |
| Msa0893390 | MtrunA17_Chr1g0200981 | 68.169 | 355 | 96 | 1 | 7 | 344 | 6 | 360 | 0.0 | 507 |
| Msa0893390 | MtrunA17_Chr6g0464971 | 60.894 | 358 | 123 | 1 | 3 | 343 | 5 | 362 | 8.79e-166 | 466 |
| Msa0893390 | MtrunA17_Chr6g0464961 | 61.453 | 358 | 121 | 1 | 3 | 343 | 27 | 384 | 7.94e-158 | 449 |
| Msa0893390 | MtrunA17_Chr6g0477771 | 52.617 | 363 | 150 | 3 | 1 | 342 | 1 | 362 | 2.12e-138 | 397 |
| Msa0893390 | MtrunA17_Chr3g0110001 | 52.617 | 363 | 151 | 2 | 1 | 342 | 1 | 363 | 5.13e-134 | 386 |
| Msa0893390 | MtrunA17_Chr6g0464931 | 66.071 | 112 | 36 | 1 | 3 | 112 | 5 | 116 | 7.13e-40 | 137 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0893390 | AT4G09670.1 | 61.281 | 359 | 122 | 1 | 1 | 342 | 1 | 359 | 2.79e-168 | 473 |
| Msa0893390 | AT1G34200.1 | 55.307 | 358 | 131 | 3 | 1 | 340 | 1 | 347 | 1.09e-139 | 400 |
| Msa0893390 | AT1G66130.1 | 42.935 | 368 | 180 | 8 | 1 | 342 | 1 | 364 | 8.77e-93 | 281 |
Find 102 sgRNAs with CRISPR-Local
Find 282 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATCAATAACAAGACCAA+AGG | 0.609033 | 6_1:-77421401 | Msa0893390:three_prime_UTR |
| AACAAAGATCCAAGTTCAGC+AGG | 0.459556 | 6_1:+77421618 | None:intergenic |
| AAGCCAGATCTCGACGCTCT+TGG | 0.439470 | 6_1:-77422202 | Msa0893390:CDS |
| AATAGAAAACGATCTACCTC+AGG | 0.582701 | 6_1:-77421831 | Msa0893390:CDS |
| AATGCCGAAACGGATTGGTT+CGG | 0.512845 | 6_1:+77425388 | None:intergenic |
| AATGGCGCGTGAGAGTTTGC+GGG | 0.557508 | 6_1:+77425346 | None:intergenic |
| ACAAAGATCCAAGTTCAGCA+GGG | 0.651296 | 6_1:+77421619 | None:intergenic |
| ACAAATTGCGTCACAATTAT+TGG | 0.156822 | 6_1:+77421450 | None:intergenic |
| ACAAGACCAAAGGATTCAAA+AGG | 0.521263 | 6_1:-77421391 | None:intergenic |
| ACAATGGATATAACTGCTGT+TGG | 0.509647 | 6_1:-77421986 | Msa0893390:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTCAGTGTAATTATCTGTGT+GGG | + | chr6_1:77421979-77421998 | None:intergenic | 30.0% | |
| ATTCAGTGTAATTATCTGTG+TGG | + | chr6_1:77421980-77421999 | None:intergenic | 30.0% | |
| TCCAATAAAATAGTGAGTGT+TGG | - | chr6_1:77422213-77422232 | Msa0893390:CDS | 30.0% | |
| CATTGATGTATGAAGCTAAA+AGG | - | chr6_1:77422735-77422754 | Msa0893390:intron | 30.0% | |
| TATGAAGCTAAAAGGGATTT+AGG | - | chr6_1:77422743-77422762 | Msa0893390:intron | 30.0% | |
| GTTTGATACTCAAGAAACAT+AGG | - | chr6_1:77422859-77422878 | Msa0893390:intron | 30.0% | |
| ACGAGTACATTTGATATGTT+GGG | + | chr6_1:77423172-77423191 | None:intergenic | 30.0% | |
| TACGAGTACATTTGATATGT+TGG | + | chr6_1:77423173-77423192 | None:intergenic | 30.0% | |
| CATTATCTATACTCATCCAA+TGG | - | chr6_1:77423265-77423284 | Msa0893390:intron | 30.0% | |
| TAATACGACCTTCATATACT+TGG | + | chr6_1:77423412-77423431 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_1 | gene | 77421394 | 77425420 | 77421394 | ID=Msa0893390;Name=Msa0893390 |
| chr6_1 | mRNA | 77421394 | 77425420 | 77421394 | ID=Msa0893390-mRNA-1;Parent=Msa0893390;Name=Msa0893390-mRNA-1;_AED=0.12;_eAED=0.12;_QI=0|0|0.5|1|1|1|2|270|344 |
| chr6_1 | exon | 77421394 | 77422284 | 77421394 | ID=Msa0893390-mRNA-1:exon:12848;Parent=Msa0893390-mRNA-1 |
| chr6_1 | exon | 77425007 | 77425420 | 77425007 | ID=Msa0893390-mRNA-1:exon:12847;Parent=Msa0893390-mRNA-1 |
| chr6_1 | CDS | 77425007 | 77425420 | 77425007 | ID=Msa0893390-mRNA-1:cds;Parent=Msa0893390-mRNA-1 |
| chr6_1 | CDS | 77421664 | 77422284 | 77421664 | ID=Msa0893390-mRNA-1:cds;Parent=Msa0893390-mRNA-1 |
| chr6_1 | three_prime_UTR | 77421394 | 77421663 | 77421394 | ID=Msa0893390-mRNA-1:three_prime_utr;Parent=Msa0893390-mRNA-1 |
| Gene Sequence |
>Msa0893390 ATGTCACAAACCGAACCAATCCGTTTCGGCATTCTCGGCTGTGCCGACATAGCCCGCAAACTCTCACGCGCCATTCTCCTCTCTTCCACCGCCACCATCTCCGCCGTCGGCAGCCGCACTCTCTCCAAAGCAACCACCTTCGCACACTCCAACAACTTCCCTCCCACCGCCAAAATCTACGGCTCCTATGAAGAAGTTCTTGACGACCCTAATGTTGACGCTGTTTACGTGCCGTTACCGACGACGTTGCATGTGAAGTGGGCGGTGGCTGCGGCGAAGAAGGGGAAGCATGTTTTGTTGGAGAAGCCGGTGGCGGTTAGTGTGAAGGAGTTTGATGAGATTGTGAAGGTGTGTGAGGAGTGTGGGGTGCAGTTTATGGATGGGACTATGTGGATGCATCATCCTAGAACGGAGATTCACACCTGCTTTACATTTGGTGCTGATCCTGATTTTCTCGAGAACGACATTCGTGTGAAGCCAGATCTCGACGCTCTTGGCTCTCTTGGCGACGAAGGATGGTATTGTGTTAGAGCAATTCTGTGGGCTAACAATTACGAATTACCTAAAACAGTATTAGCGTATCGCGAGCCAGTGCTTAATAAAGCTGGAGTGATTCTATCTTGTGGCGCTTCTTTATATTGGGAAGATGGAAGAGTAGCAACATTCTATTGCTCTTTCTTATCTAACCTAACAATGGATATAACTGCTGTTGGGACAAAAGGAACACTTCATGTTCATGATTTCATCATCCCTTATGAAGAAAAGAAAGCATCATTTTATGCAGCTTCAGAATCAAGCTTTGATGATCTTGTCACTAGATGGGGTTCGCAGCCGAGTAAGCACGTAATAGAAAACGATCTACCTCAGGAGGCTCTTATGGTAACCGAATTTTCTCGTTTGGTGGCAGAAATCAAATTCAAAAACGCGAAACCAGAGAAGAAATGGCCGACGATTAGTAGGAAAACACAACTGATACTGGATGCAGTGAAGGCTTCGATTGATAAGGGTTTTGAGCCTGTACAGATTCAGGAATGA |
| Protein sequence |
>Msa0893390 MSQTEPIRFGILGCADIARKLSRAILLSSTATISAVGSRTLSKATTFAHSNNFPPTAKIYGSYEEVLDDPNVDAVYVPLPTTLHVKWAVAAAKKGKHVLLEKPVAVSVKEFDEIVKVCEECGVQFMDGTMWMHHPRTEIHTCFTFGADPDFLENDIRVKPDLDALGSLGDEGWYCVRAILWANNYELPKTVLAYREPVLNKAGVILSCGASLYWEDGRVATFYCSFLSNLTMDITAVGTKGTLHVHDFIIPYEEKKASFYAASESSFDDLVTRWGSQPSKHVIENDLPQEALMVTEFSRLVAEIKFKNAKPEKKWPTISRKTQLILDAVKASIDKGFEPVQIQE* |
