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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0043650 | XP_003592629.1 | 100.000 | 414 | 0 | 0 | 1 | 414 | 1 | 414 | 0.0 | 857 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0043650 | sp|Q9ZSY2|DNJ15_ARATH | 84.019 | 413 | 57 | 4 | 3 | 413 | 4 | 409 | 0.0 | 719 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0002560 | Msa0043650 | 0.837056 | 6.507909e-57 | -8.615850e-47 |
| Msa0002680 | Msa0043650 | 0.801972 | 6.996840e-49 | -8.615850e-47 |
| Msa0003220 | Msa0043650 | 0.834982 | 2.186936e-56 | -8.615850e-47 |
| Msa0003630 | Msa0043650 | 0.809189 | 2.139699e-50 | -8.615850e-47 |
| Msa0005270 | Msa0043650 | 0.801538 | 8.587267e-49 | -8.615850e-47 |
| Msa0005620 | Msa0043650 | 0.855304 | 6.904076e-62 | -8.615850e-47 |
| Msa0006110 | Msa0043650 | 0.819287 | 1.257288e-52 | -8.615850e-47 |
| Msa0007990 | Msa0043650 | 0.821847 | 3.248469e-53 | -8.615850e-47 |
| Msa0008220 | Msa0043650 | 0.866921 | 2.002009e-65 | -8.615850e-47 |
| Msa0009100 | Msa0043650 | 0.814707 | 1.343220e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0043650 | MtrunA17_Chr1g0209551 | 100.000 | 414 | 0 | 0 | 1 | 414 | 1 | 414 | 0.0 | 857 |
| Msa0043650 | MtrunA17_Chr5g0414471 | 61.461 | 397 | 138 | 3 | 13 | 405 | 22 | 407 | 0.0 | 514 |
| Msa0043650 | MtrunA17_Chr7g0269841 | 58.824 | 68 | 28 | 0 | 18 | 85 | 28 | 95 | 2.61e-17 | 82.8 |
| Msa0043650 | MtrunA17_Chr4g0010781 | 52.055 | 73 | 35 | 0 | 12 | 84 | 82 | 154 | 2.41e-16 | 80.5 |
| Msa0043650 | MtrunA17_Chr3g0087741 | 50.649 | 77 | 37 | 1 | 9 | 85 | 83 | 158 | 2.85e-16 | 80.5 |
| Msa0043650 | MtrunA17_Chr6g0478651 | 46.078 | 102 | 44 | 3 | 15 | 112 | 67 | 161 | 7.04e-16 | 79.3 |
| Msa0043650 | MtrunA17_Chr3g0123861 | 58.571 | 70 | 28 | 1 | 16 | 85 | 82 | 150 | 1.99e-15 | 77.8 |
| Msa0043650 | MtrunA17_Chr3g0088221 | 62.500 | 56 | 21 | 0 | 106 | 161 | 22 | 77 | 5.14e-15 | 70.1 |
| Msa0043650 | MtrunA17_Chr4g0006391 | 49.296 | 71 | 35 | 1 | 16 | 85 | 4 | 74 | 8.22e-15 | 75.1 |
| Msa0043650 | MtrunA17_Chr7g0271891 | 43.836 | 73 | 37 | 1 | 18 | 86 | 18 | 90 | 8.75e-15 | 72.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0043650 | AT1G68370.1 | 84.019 | 413 | 57 | 4 | 3 | 413 | 4 | 409 | 0.0 | 719 |
| Msa0043650 | AT1G24120.1 | 57.590 | 415 | 152 | 2 | 13 | 405 | 17 | 429 | 1.50e-177 | 502 |
| Msa0043650 | AT1G59980.1 | 52.618 | 401 | 179 | 3 | 14 | 412 | 21 | 412 | 5.67e-149 | 429 |
| Msa0043650 | AT1G59980.2 | 55.952 | 336 | 147 | 1 | 14 | 349 | 21 | 355 | 1.03e-137 | 398 |
| Msa0043650 | AT1G59980.3 | 51.117 | 358 | 164 | 3 | 57 | 412 | 1 | 349 | 7.29e-124 | 363 |
| Msa0043650 | AT3G62600.1 | 57.353 | 68 | 29 | 0 | 18 | 85 | 28 | 95 | 6.21e-16 | 79.0 |
| Msa0043650 | AT5G01390.3 | 51.389 | 72 | 34 | 1 | 16 | 86 | 4 | 75 | 8.06e-16 | 77.0 |
| Msa0043650 | AT5G01390.4 | 51.389 | 72 | 34 | 1 | 16 | 86 | 4 | 75 | 1.02e-15 | 76.6 |
| Msa0043650 | AT5G01390.2 | 51.389 | 72 | 34 | 1 | 16 | 86 | 4 | 75 | 1.40e-15 | 77.0 |
| Msa0043650 | AT2G20560.1 | 50.704 | 71 | 34 | 1 | 16 | 85 | 4 | 74 | 1.67e-15 | 77.8 |
Find 129 sgRNAs with CRISPR-Local
Find 405 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACCAAAGCAGCATTGGGA+TGG | 0.595402 | 1_1:+74909730 | Msa0043650:five_prime_UTR |
| AAACGCCTAAAACTTCGTAA+GGG | 0.680076 | 1_1:-74910300 | None:intergenic |
| AAAGAAAGAAAGAAAGAAAC+AGG | 0.355747 | 1_1:-74909918 | None:intergenic |
| AAAGAGAGGCTTCAGGTCTA+TGG | 0.335119 | 1_1:+74910234 | Msa0043650:exon |
| AAAGCAGCCCGTGGATATAT+TGG | 0.290376 | 1_1:+74915407 | Msa0043650:three_prime_UTR |
| AAATCGATTTATCTAATCTT+GGG | 0.433620 | 1_1:+74912147 | Msa0043650:CDS |
| AACCCGAGCCCTTAAGATTG+AGG | 0.504980 | 1_1:-74915293 | None:intergenic |
| AACCTCAATCTTAAGGGCTC+GGG | 0.448187 | 1_1:+74915291 | Msa0043650:CDS |
| AACTGCACAAAGCAAATTCA+AGG | 0.433774 | 1_1:+74912571 | Msa0043650:CDS |
| AAGAACACAAGAAACTGGTT+TGG | 0.445552 | 1_1:-74909860 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TAATTAAACCAAAGCAGCAT+TGG | + | chr1_1:74909725-74909744 | Msa0043650:five_prime_UTR | 30.0% | |
| AATTAAACCAAAGCAGCATT+GGG | + | chr1_1:74909726-74909745 | Msa0043650:five_prime_UTR | 30.0% | |
| AATTCAAGAACACAAGAAAC+TGG | - | chr1_1:74909868-74909887 | None:intergenic | 30.0% | |
| GTATTGTTTGACCTAATAAG+TGG | - | chr1_1:74910089-74910108 | None:intergenic | 30.0% | |
| AGTAGCTGTTGAATGAAAAA+AGG | - | chr1_1:74910176-74910195 | None:intergenic | 30.0% | |
| ATCTTTCTATTCGAACAACA+CGG | - | chr1_1:74910202-74910221 | None:intergenic | 30.0% | |
| ATGAGGTAGAAAGTGAAAAA+GGG | - | chr1_1:74910394-74910413 | None:intergenic | 30.0% | |
| AATGAGGTAGAAAGTGAAAA+AGG | - | chr1_1:74910395-74910414 | None:intergenic | 30.0% | |
| GAAACATAAAGACTAAAGGT+TGG | - | chr1_1:74910587-74910606 | None:intergenic | 30.0% | |
| GTCATAACCATTCAAATTGA+AGG | - | chr1_1:74910939-74910958 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 74909708 | 74915739 | 74909708 | ID=Msa0043650;Name=Msa0043650 |
| chr1_1 | mRNA | 74909708 | 74915739 | 74909708 | ID=Msa0043650-mRNA-1;Parent=Msa0043650;Name=Msa0043650-mRNA-1;_AED=0.12;_eAED=0.12;_QI=336|1|1|1|0.90|0.83|12|404|414 |
| chr1_1 | exon | 74909708 | 74909981 | 74909708 | ID=Msa0043650-mRNA-1:exon:25272;Parent=Msa0043650-mRNA-1 |
| chr1_1 | exon | 74910191 | 74910377 | 74910191 | ID=Msa0043650-mRNA-1:exon:25273;Parent=Msa0043650-mRNA-1 |
| chr1_1 | exon | 74911238 | 74911361 | 74911238 | ID=Msa0043650-mRNA-1:exon:25274;Parent=Msa0043650-mRNA-1 |
| chr1_1 | exon | 74912119 | 74912201 | 74912119 | ID=Msa0043650-mRNA-1:exon:25275;Parent=Msa0043650-mRNA-1 |
| chr1_1 | exon | 74912285 | 74912396 | 74912285 | ID=Msa0043650-mRNA-1:exon:25276;Parent=Msa0043650-mRNA-1 |
| chr1_1 | exon | 74912488 | 74912592 | 74912488 | ID=Msa0043650-mRNA-1:exon:25277;Parent=Msa0043650-mRNA-1 |
| chr1_1 | exon | 74912669 | 74912719 | 74912669 | ID=Msa0043650-mRNA-1:exon:25278;Parent=Msa0043650-mRNA-1 |
| chr1_1 | exon | 74913825 | 74913914 | 74913825 | ID=Msa0043650-mRNA-1:exon:25279;Parent=Msa0043650-mRNA-1 |
| chr1_1 | exon | 74913996 | 74914104 | 74913996 | ID=Msa0043650-mRNA-1:exon:25280;Parent=Msa0043650-mRNA-1 |
| chr1_1 | exon | 74914200 | 74914348 | 74914200 | ID=Msa0043650-mRNA-1:exon:25281;Parent=Msa0043650-mRNA-1 |
| chr1_1 | exon | 74914429 | 74914482 | 74914429 | ID=Msa0043650-mRNA-1:exon:25282;Parent=Msa0043650-mRNA-1 |
| chr1_1 | exon | 74915093 | 74915739 | 74915093 | ID=Msa0043650-mRNA-1:exon:25283;Parent=Msa0043650-mRNA-1 |
| chr1_1 | five_prime_UTR | 74909708 | 74909981 | 74909708 | ID=Msa0043650-mRNA-1:five_prime_utr;Parent=Msa0043650-mRNA-1 |
| chr1_1 | five_prime_UTR | 74910191 | 74910252 | 74910191 | ID=Msa0043650-mRNA-1:five_prime_utr;Parent=Msa0043650-mRNA-1 |
| chr1_1 | CDS | 74910253 | 74910377 | 74910253 | ID=Msa0043650-mRNA-1:cds;Parent=Msa0043650-mRNA-1 |
| chr1_1 | CDS | 74911238 | 74911361 | 74911238 | ID=Msa0043650-mRNA-1:cds;Parent=Msa0043650-mRNA-1 |
| chr1_1 | CDS | 74912119 | 74912201 | 74912119 | ID=Msa0043650-mRNA-1:cds;Parent=Msa0043650-mRNA-1 |
| chr1_1 | CDS | 74912285 | 74912396 | 74912285 | ID=Msa0043650-mRNA-1:cds;Parent=Msa0043650-mRNA-1 |
| chr1_1 | CDS | 74912488 | 74912592 | 74912488 | ID=Msa0043650-mRNA-1:cds;Parent=Msa0043650-mRNA-1 |
| chr1_1 | CDS | 74912669 | 74912719 | 74912669 | ID=Msa0043650-mRNA-1:cds;Parent=Msa0043650-mRNA-1 |
| chr1_1 | CDS | 74913825 | 74913914 | 74913825 | ID=Msa0043650-mRNA-1:cds;Parent=Msa0043650-mRNA-1 |
| chr1_1 | CDS | 74913996 | 74914104 | 74913996 | ID=Msa0043650-mRNA-1:cds;Parent=Msa0043650-mRNA-1 |
| chr1_1 | CDS | 74914200 | 74914348 | 74914200 | ID=Msa0043650-mRNA-1:cds;Parent=Msa0043650-mRNA-1 |
| chr1_1 | CDS | 74914429 | 74914482 | 74914429 | ID=Msa0043650-mRNA-1:cds;Parent=Msa0043650-mRNA-1 |
| chr1_1 | CDS | 74915093 | 74915335 | 74915093 | ID=Msa0043650-mRNA-1:cds;Parent=Msa0043650-mRNA-1 |
| chr1_1 | three_prime_UTR | 74915336 | 74915739 | 74915336 | ID=Msa0043650-mRNA-1:three_prime_utr;Parent=Msa0043650-mRNA-1 |
| Gene Sequence |
>Msa0043650 ATGGATCAAAAGATGGAAGGAACGTCTGCACCAGCAATTCGACGTGACCCTTACGAAGTTTTAGGCGTTTCCAAGGAATCATCCGATCAGGAAATTAAAACCGCTTACAGAAAACTTGCTCTCAAGTATCACCCTGACAAGAATGCCAACAATCCTGAAGCTTCAGAACTATTCAAAGAGGTTGCATATTCTTATAATATCTTATCTGACCCAGAAAAGAGAAGGCAGTACGACAGTGCAGGATTTGAGGCACTTGATGCTGATAGCATGGACATGGAAATCGATTTATCTAATCTTGGGACTGTGAACACAATGTTTGCAGCTTTATTCAGCAAGCTGGGTGTCCCAATCAAGACTACCATTTCGGCTAATGTTCTTGAAGAAGCTTTGAATGGCACTGTTACAGTCAGACCCCTTCCAATGGGAACATCTGTCAGTGGAAAGGTAGAGAAGCAATGTGCTCATTTTTTTGGTGTGACAATAAATGAGCAGCAAGCTGAGTCCGGGATTGTAGTAAGAGTTACTTCAACTGCACAAAGCAAATTCAAGTTGCTCTATTTCGAACAAGATGCAAACGGGGGCTATGGTTTAGCATTGCAGGAAGATAGTGAGAAGACTGGCAAAGTGACATCTGCTGGAATGTATTTCTTACATTTTCAAGTGTACAGAATGGATTCAACTGTGAATGCGTTAGCGATGGCCAAGGATCCTGAGGGGGCTTTCTTTAAAAGGTTGGAAGGTCTTCAACCTTGTGAAGTTTCGGAACTAAAGCCTGGCACACATATATTTGCCGTTTATGGCGATAACTTCTTTAAGACTGCTAGCTATACAATTGAAGCAGTATGTGCAAAATCACATGAAGATACCACCCAAAAACTTCAGGATATTGAGGCTCAAATTTTAAGAAAGAGGAATGAGCTACGGCAATTCGAATCAGAATATAGAAAGGCATTGGCACGCTATCAGGAAGTGACAGACAGATACACAAAAGAAAAACAGTCTGTAGATGAGCTTCTGAAGCAAAGGGACGGTATCCATTCTACCTTCACCATTGTCAAGCCAACCAGTACTAGTGGAAGTGGCAGTAATTTAAGCAATGGAAGTTCTAGCAAAATTTCTGGTGAAGATTCCAAAGGTGAGAGCCCTGGGGAAGATGGAGGGTCAGATAGTAAGGATAAATCAGGCAAAAAGAAATGGTTCAACCTCAATCTTAAGGGCTCGGGTTCTGATAAGAAGTTGATTTAA |
| Protein sequence |
>Msa0043650 MDQKMEGTSAPAIRRDPYEVLGVSKESSDQEIKTAYRKLALKYHPDKNANNPEASELFKEVAYSYNILSDPEKRRQYDSAGFEALDADSMDMEIDLSNLGTVNTMFAALFSKLGVPIKTTISANVLEEALNGTVTVRPLPMGTSVSGKVEKQCAHFFGVTINEQQAESGIVVRVTSTAQSKFKLLYFEQDANGGYGLALQEDSEKTGKVTSAGMYFLHFQVYRMDSTVNALAMAKDPEGAFFKRLEGLQPCEVSELKPGTHIFAVYGDNFFKTASYTIEAVCAKSHEDTTQKLQDIEAQILRKRNELRQFESEYRKALARYQEVTDRYTKEKQSVDELLKQRDGIHSTFTIVKPTSTSGSGSNLSNGSSSKISGEDSKGESPGEDGGSDSKDKSGKKKWFNLNLKGSGSDKKLI* |
