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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0090150 | XP_013470218.1 | 88.508 | 496 | 5 | 1 | 1 | 444 | 1 | 496 | 0.0 | 869 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0090150 | sp|Q869R1|CTLHB_DICDI | 27.072 | 362 | 204 | 8 | 114 | 420 | 199 | 555 | 2.78e-30 | 126 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0090150 | A0A072VRF2 | 88.508 | 496 | 5 | 1 | 1 | 444 | 1 | 496 | 0.0 | 869 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0030700 | Msa0090150 | 0.810388 | 1.181569e-50 | -8.615850e-47 |
| Msa0035020 | Msa0090150 | 0.864456 | 1.199964e-64 | -8.615850e-47 |
| Msa0070930 | Msa0090150 | 0.801924 | 7.155254e-49 | -8.615850e-47 |
| Msa0090150 | Msa0125650 | 0.804562 | 2.035395e-49 | -8.615850e-47 |
| Msa0090150 | Msa0137800 | 0.891333 | 4.370758e-74 | -8.615850e-47 |
| Msa0090150 | Msa0184000 | 0.804540 | 2.057083e-49 | -8.615850e-47 |
| Msa0090150 | Msa0267790 | 0.804901 | 1.729200e-49 | -8.615850e-47 |
| Msa0090150 | Msa0271550 | 0.801445 | 8.973675e-49 | -8.615850e-47 |
| Msa0090150 | Msa0319290 | 0.800973 | 1.120676e-48 | -8.615850e-47 |
| Msa0090150 | Msa0371950 | 0.804579 | 2.018389e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0090150 | MtrunA17_Chr1g0210161 | 88.508 | 496 | 5 | 1 | 1 | 444 | 1 | 496 | 0.0 | 869 |
| Msa0090150 | MtrunA17_Chr5g0422761 | 69.691 | 485 | 92 | 2 | 13 | 442 | 7 | 491 | 0.0 | 642 |
| Msa0090150 | MtrunA17_Chr4g0061051 | 95.312 | 64 | 3 | 0 | 381 | 444 | 1 | 64 | 7.13e-39 | 134 |
| Msa0090150 | MtrunA17_Chr7g0275761 | 92.188 | 64 | 5 | 0 | 381 | 444 | 1 | 64 | 5.72e-38 | 132 |
| Msa0090150 | MtrunA17_Chr3g0090051 | 28.750 | 240 | 150 | 5 | 156 | 395 | 262 | 480 | 1.66e-20 | 94.4 |
| Msa0090150 | MtrunA17_Chr7g0254111 | 24.662 | 296 | 197 | 9 | 96 | 383 | 80 | 357 | 3.35e-12 | 68.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0090150 | AT1G25500.2 | 63.786 | 486 | 117 | 5 | 1 | 430 | 1 | 483 | 0.0 | 576 |
| Msa0090150 | AT1G25500.3 | 64.792 | 409 | 91 | 3 | 75 | 430 | 17 | 425 | 5.93e-176 | 499 |
| Msa0090150 | AT1G25500.1 | 80.972 | 247 | 46 | 1 | 127 | 372 | 1 | 247 | 5.89e-133 | 385 |
| Msa0090150 | AT5G13760.1 | 26.042 | 384 | 226 | 13 | 31 | 395 | 126 | 470 | 3.83e-24 | 105 |
Find 145 sgRNAs with CRISPR-Local
Find 678 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGGTCATGTTTACCTCA+TGG | 0.558043 | 1_2:+72038812 | Msa0090150:three_prime_UTR |
| AAAGAGGGAGAATCCATCAT+TGG | 0.446656 | 1_2:-72035079 | None:intergenic |
| AAATTAATAGGAATAGGAGA+AGG | 0.602610 | 1_2:+72038746 | Msa0090150:three_prime_UTR |
| AAATTTGGTGTTAAATTAAT+AGG | 0.197359 | 1_2:+72038734 | Msa0090150:three_prime_UTR |
| AACATTGATAAGTACACTCC+TGG | 0.568478 | 1_2:+72035725 | Msa0090150:CDS |
| AACTTATTGGCCGCTTTATG+CGG | 0.485649 | 1_2:+72035778 | Msa0090150:CDS |
| AAGAGGGAGAATCCATCATT+GGG | 0.488839 | 1_2:-72035078 | None:intergenic |
| AAGGTCAATGGGTTATGGTA+GGG | 0.573961 | 1_2:-72034933 | None:intergenic |
| AAGTACACTCCTGGTCTTAC+CGG | 0.351688 | 1_2:+72035734 | Msa0090150:CDS |
| AATATAGGAGTGCTCGAGCC+AGG | 0.436736 | 1_2:+72038580 | Msa0090150:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATAAAAGATTAGAGAGGAGA+AGG | - | chr1_2:72034955-72034974 | None:intergenic | 30.0% | |
| GAGGAATGAATATGGAAAAA+GGG | - | chr1_2:72035012-72035031 | None:intergenic | 30.0% | |
| AGAGGAATGAATATGGAAAA+AGG | - | chr1_2:72035013-72035032 | None:intergenic | 30.0% | |
| GTAATAGAGAGGAATGAATA+TGG | - | chr1_2:72035020-72035039 | None:intergenic | 30.0% | |
| ATGATGATTCATAACCTGAA+TGG | - | chr1_2:72035134-72035153 | None:intergenic | 30.0% | |
| CAACACAAACATATGATTTC+AGG | - | chr1_2:72036026-72036045 | None:intergenic | 30.0% | |
| CTGAAATCATATGTTTGTGT+TGG | + | chr1_2:72036024-72036043 | Msa0090150:intron | 30.0% | |
| TCTATGTTTACTGCATCAAA+TGG | + | chr1_2:72036383-72036402 | Msa0090150:intron | 30.0% | |
| TTATGGCTCATTATTTACTG+CGG | + | chr1_2:72037180-72037199 | Msa0090150:CDS | 30.0% | |
| TAACAAATATGCCTATGTTC+AGG | + | chr1_2:72037421-72037440 | Msa0090150:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 72034836 | 72038954 | 72034836 | ID=Msa0090150;Name=Msa0090150 |
| chr1_2 | mRNA | 72034836 | 72038954 | 72034836 | ID=Msa0090150-mRNA-1;Parent=Msa0090150;Name=Msa0090150-mRNA-1;_AED=0.10;_eAED=0.11;_QI=246|0.83|0.71|1|1|1|7|304|444 |
| chr1_2 | exon | 72034836 | 72035138 | 72034836 | ID=Msa0090150-mRNA-1:exon:24943;Parent=Msa0090150-mRNA-1 |
| chr1_2 | exon | 72035548 | 72036014 | 72035548 | ID=Msa0090150-mRNA-1:exon:24944;Parent=Msa0090150-mRNA-1 |
| chr1_2 | exon | 72036697 | 72036880 | 72036697 | ID=Msa0090150-mRNA-1:exon:24945;Parent=Msa0090150-mRNA-1 |
| chr1_2 | exon | 72037001 | 72037225 | 72037001 | ID=Msa0090150-mRNA-1:exon:24946;Parent=Msa0090150-mRNA-1 |
| chr1_2 | exon | 72037326 | 72037442 | 72037326 | ID=Msa0090150-mRNA-1:exon:24947;Parent=Msa0090150-mRNA-1 |
| chr1_2 | exon | 72038019 | 72038096 | 72038019 | ID=Msa0090150-mRNA-1:exon:24948;Parent=Msa0090150-mRNA-1 |
| chr1_2 | exon | 72038444 | 72038954 | 72038444 | ID=Msa0090150-mRNA-1:exon:24949;Parent=Msa0090150-mRNA-1 |
| chr1_2 | five_prime_UTR | 72034836 | 72035081 | 72034836 | ID=Msa0090150-mRNA-1:five_prime_utr;Parent=Msa0090150-mRNA-1 |
| chr1_2 | CDS | 72035082 | 72035138 | 72035082 | ID=Msa0090150-mRNA-1:cds;Parent=Msa0090150-mRNA-1 |
| chr1_2 | CDS | 72035548 | 72036014 | 72035548 | ID=Msa0090150-mRNA-1:cds;Parent=Msa0090150-mRNA-1 |
| chr1_2 | CDS | 72036697 | 72036880 | 72036697 | ID=Msa0090150-mRNA-1:cds;Parent=Msa0090150-mRNA-1 |
| chr1_2 | CDS | 72037001 | 72037225 | 72037001 | ID=Msa0090150-mRNA-1:cds;Parent=Msa0090150-mRNA-1 |
| chr1_2 | CDS | 72037326 | 72037442 | 72037326 | ID=Msa0090150-mRNA-1:cds;Parent=Msa0090150-mRNA-1 |
| chr1_2 | CDS | 72038019 | 72038096 | 72038019 | ID=Msa0090150-mRNA-1:cds;Parent=Msa0090150-mRNA-1 |
| chr1_2 | CDS | 72038444 | 72038650 | 72038444 | ID=Msa0090150-mRNA-1:cds;Parent=Msa0090150-mRNA-1 |
| chr1_2 | three_prime_UTR | 72038651 | 72038954 | 72038651 | ID=Msa0090150-mRNA-1:three_prime_utr;Parent=Msa0090150-mRNA-1 |
| Gene Sequence |
>Msa0090150 ATGATGGATTCTCCCTCTTTTTCCTCTTCTTCCTCTGACTTCGCTTCCGCCATTCAGAGTGCATCCCGGAGCAGGAGAAGTGGCGGCGGCAGCAGTGAAATGGTGGTGGCGGCAGAACAATCGCGGCGGTGGCATGATGTTTTCTGGTTAGGAATATTTGTGATTCATTTGATTGCACTGGGATTCCTTTTGGGGGTTCTTGGTCTCAATAGGTTTGAGAAAGAGAATAGACTGAACATTGATAAGTACACTCCTGGTCTTACCGGGAATCATGCCGGGTTAACCGAAACTTATTGGCCGCTTTATGCGGCTGCTGGTGGAATTGGGACTGTTCTTGGATGGACTTGGTTGTTGTTGTTGGGTTCCCAGGCTACTCAAATGATGAAAGTTTCTGTTCACATCCTCACCACTTATCTGGCTGTCATAAGTGTTTTGTGTTTCTGGACTAACCAGATTTTCTGGGGGGTTGCTTTCGCTGTTGGAGCTGCTCTTCAGTTCTTGTATGTTATATCCGTCATAGACAGACTTCCATTTACGATGCTGGTTCTGCAAAAAGCTGTGAAGATGGTTTGGAATCTTCCCGAGGTCATGAGAGTGTCATGTGCATTCATGTTTGCTGTGCTTTTATGGATGGCCTTATGGTCATTTGGAGCAGCAGGTGTTGTGGCTTCAAACTTGAGTGATGGGGGACGCTGGTGGCTTCTTGTGGTTTTCTCTGTAAGCTTATTTTGGACAGGTGCAGTGCTCTGTAATACTGTGCATGTTATAGTGTCTGGGATGGTGTTTCTTGTTCTTCTTCATGGTGGTAGAGAGGCAGCTTCAATTCCTGCTAACTCCTTAATGAAATCTTTGCAGTATGCTTTAACAACATCTTTTGGTAGCATTTGTTATGGCTCATTATTTACTGCGGCTATCAGGACACTGCGATGGGAGATACGTGGACTTAGGTCAAAGATTGGCAACAATGAGTGTTTGCTTTGCTGTGTTGATTTCCTCTTTCATCTTGTGGAGACTCTTGTTCGATTTTTTAACAAATATGCCTATGTTCAGATAGCTGTTAATGGTAAAAGCTTCAACAATTCGGCTAGAGATGCATGGGAGTTATTCCAATCAACTGTGATTGTTCAGGTTGGATTGGCAATGGTTGTGGTGGAGAGTGCTGTTACATCGATATATATTTGCTATGCAGAAGACCCTTTATTGATTCAAAGATGGGATGCTGAATTTTTCAACCAGATGTCTGAGACACTACATCACCGACTTCAATATAGGAGTGCTCGAGCCAGGGACTATCGATTCCATGATGACCCTATACGAGAAAACGCCTCTATATGA |
| Protein sequence |
>Msa0090150 MMDSPSFSSSSSDFASAIQSASRSRRSGGGSSEMVVAAEQSRRWHDVFWLGIFVIHLIALGFLLGVLGLNRFEKENRLNIDKYTPGLTGNHAGLTETYWPLYAAAGGIGTVLGWTWLLLLGSQATQMMKVSVHILTTYLAVISVLCFWTNQIFWGVAFAVGAALQFLYVISVIDRLPFTMLVLQKAVKMVWNLPEVMRVSCAFMFAVLLWMALWSFGAAGVVASNLSDGGRWWLLVVFSVSLFWTGAVLCNTVHVIVSGMVFLVLLHGGREAASIPANSLMKSLQYALTTSFGSICYGSLFTAAIRTLRWEIRGLRSKIGNNECLLCCVDFLFHLVETLVRFFNKYAYVQIAVNGKSFNNSARDAWELFQSTVIVQVGLAMVVVESAVTSIYICYAEDPLLIQRWDAEFFNQMSETLHHRLQYRSARARDYRFHDDPIRENASI* |
