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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0527200 | KEH40270.1 | 98.347 | 484 | 8 | 0 | 1 | 484 | 1 | 484 | 0.0 | 989 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0527200 | sp|Q9SRE5|Y1666_ARATH | 59.267 | 464 | 138 | 10 | 24 | 482 | 7 | 424 | 2.45e-169 | 487 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0527200 | A0A072VQ62 | 98.347 | 484 | 8 | 0 | 1 | 484 | 1 | 484 | 0.0 | 989 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0138350 | Msa0527200 | 0.993637 | 3.879747e-201 | -8.615850e-47 |
| Msa0147970 | Msa0527200 | 0.974862 | 6.553219e-139 | -8.615850e-47 |
| Msa0173380 | Msa0527200 | 0.803110 | 4.076055e-49 | -8.615850e-47 |
| Msa0300670 | Msa0527200 | -0.806594 | 7.625451e-50 | -8.615850e-47 |
| Msa0432200 | Msa0527200 | 0.804794 | 1.820230e-49 | -8.615850e-47 |
| Msa0521060 | Msa0527200 | 0.816012 | 6.887326e-52 | -8.615850e-47 |
| Msa0527200 | Msa0541880 | 0.826836 | 2.179670e-54 | -8.615850e-47 |
| Msa0527200 | Msa0541940 | 0.831025 | 2.109324e-55 | -8.615850e-47 |
| Msa0527200 | Msa0571350 | 0.825020 | 5.885840e-54 | -8.615850e-47 |
| Msa0527200 | Msa0575950 | 0.803185 | 3.932166e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0527200 | MtrunA17_Chr1g0157491 | 98.698 | 461 | 6 | 0 | 24 | 484 | 13 | 473 | 0.0 | 945 |
| Msa0527200 | MtrunA17_Chr6g0467841 | 46.948 | 213 | 101 | 4 | 25 | 230 | 33 | 240 | 5.80e-40 | 150 |
| Msa0527200 | MtrunA17_Chr8g0387051 | 47.030 | 202 | 95 | 5 | 24 | 219 | 42 | 237 | 7.93e-38 | 144 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0527200 | AT1G76660.1 | 59.267 | 464 | 138 | 10 | 24 | 482 | 7 | 424 | 2.49e-170 | 487 |
| Msa0527200 | AT1G76660.2 | 54.545 | 363 | 117 | 7 | 122 | 482 | 1 | 317 | 1.89e-116 | 345 |
| Msa0527200 | AT5G52430.1 | 43.750 | 224 | 105 | 8 | 24 | 232 | 32 | 249 | 1.96e-34 | 134 |
| Msa0527200 | AT1G63720.1 | 35.401 | 274 | 158 | 6 | 16 | 285 | 28 | 286 | 1.31e-31 | 125 |
| Msa0527200 | AT4G25620.1 | 42.326 | 215 | 98 | 9 | 25 | 226 | 32 | 233 | 5.31e-22 | 99.0 |
Find 167 sgRNAs with CRISPR-Local
Find 218 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACAAGGGACTACATTCA+TGG | 0.451350 | 3_4:-81480161 | None:intergenic |
| AAAAGATGGGGAGGTTGTTT+GGG | 0.341988 | 3_4:+81478184 | Msa0527200:CDS |
| AAAAGGTACATCTGGGGAAG+AGG | 0.502005 | 3_4:-81478599 | None:intergenic |
| AAACTCCCGCTCAGGGAAAG+AGG | 0.535842 | 3_4:-81478779 | None:intergenic |
| AAAGCTCATGAGACTCAGGT+GGG | 0.647953 | 3_4:+81479252 | Msa0527200:CDS |
| AAAGGTACATCTGGGGAAGA+GGG | 0.565920 | 3_4:-81478598 | None:intergenic |
| AAATATCAGAGGACTGGGTC+TGG | 0.392276 | 3_4:+81478841 | Msa0527200:CDS |
| AAGGAAAGAAACTCTTTACT+TGG | 0.439431 | 3_4:+81480062 | Msa0527200:three_prime_UTR |
| AAGGATGCTGGTGAAGAAGG+TGG | 0.646683 | 3_4:-81478361 | None:intergenic |
| AAGTGAGCAAAAGGTACATC+TGG | 0.369839 | 3_4:-81478607 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TCTCGTATTCCTGATAATAA+TGG | + | chr3_4:81478259-81478278 | Msa0527200:CDS | 30.0% | |
| TCCTTGATATTGGAGATATA+AGG | - | chr3_4:81478738-81478757 | None:intergenic | 30.0% | |
| CTGAAAATGGAAAATATCAG+AGG | + | chr3_4:81478830-81478849 | Msa0527200:CDS | 30.0% | |
| TACCTATGCACAATTCTATT+TGG | + | chr3_4:81478933-81478952 | Msa0527200:CDS | 30.0% | |
| AATCAAATTCCTGTATGTGA+TGG | + | chr3_4:81479333-81479352 | Msa0527200:CDS | 30.0% | |
| AAAGTAACTACAACATACCA+AGG | - | chr3_4:81479551-81479570 | None:intergenic | 30.0% | |
| AATCTGCAGGAAATATCAAA+TGG | + | chr3_4:81479855-81479874 | Msa0527200:CDS | 30.0% | |
| ATCTGCAGGAAATATCAAAT+GGG | + | chr3_4:81479856-81479875 | Msa0527200:CDS | 30.0% | |
| AAAAAACCGCCAAAAAAAGA+AGG | + | chr3_4:81480030-81480049 | Msa0527200:three_prime_UTR | 30.0% | |
| AAGGAAAGAAACTCTTTACT+TGG | + | chr3_4:81480062-81480081 | Msa0527200:three_prime_UTR | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 81477722 | 81480356 | 81477722 | ID=Msa0527200;Name=Msa0527200 |
| chr3_4 | mRNA | 81477722 | 81480356 | 81477722 | ID=Msa0527200-mRNA-1;Parent=Msa0527200;Name=Msa0527200-mRNA-1;_AED=0.10;_eAED=0.10;_QI=0|0.5|0.66|1|1|1|3|408|484 |
| chr3_4 | exon | 81477722 | 81477793 | 81477722 | ID=Msa0527200-mRNA-1:exon:24567;Parent=Msa0527200-mRNA-1 |
| chr3_4 | exon | 81478181 | 81479363 | 81478181 | ID=Msa0527200-mRNA-1:exon:24568;Parent=Msa0527200-mRNA-1 |
| chr3_4 | exon | 81479749 | 81480356 | 81479749 | ID=Msa0527200-mRNA-1:exon:24569;Parent=Msa0527200-mRNA-1 |
| chr3_4 | CDS | 81477722 | 81477793 | 81477722 | ID=Msa0527200-mRNA-1:cds;Parent=Msa0527200-mRNA-1 |
| chr3_4 | CDS | 81478181 | 81479363 | 81478181 | ID=Msa0527200-mRNA-1:cds;Parent=Msa0527200-mRNA-1 |
| chr3_4 | CDS | 81479749 | 81479948 | 81479749 | ID=Msa0527200-mRNA-1:cds;Parent=Msa0527200-mRNA-1 |
| chr3_4 | three_prime_UTR | 81479949 | 81480356 | 81479949 | ID=Msa0527200-mRNA-1:three_prime_utr;Parent=Msa0527200-mRNA-1 |
| Gene Sequence |
>Msa0527200 ATGAAGATTCGACGGGGTGTTACGTTAGCCGTTGACTTCCTAATACTTATACAATCTTTCTCTTTTCTTCGGAGAAAAAGATGGGGAGGTTGTTTGGGTGCATTTTCTTGTTTCAGTTCACAGAAAGGTGGGAAACGCATTGTACCTGCATCTCGTATTCCTGATAATAATGGATCAGCCAGTCAACCAAATGGGCCCCAAGTGGCTGGGTTGACCAATCAAGTCACAGGCATAGCTCCTTCTCTCTTAGCTCCACCTTCTTCACCAGCATCCTTTACACATTCTGCCCTTCCTTCAACTGCACAGTCACCAAGTTGTTTTTTGTCATTATCTGCAAACTCACCTGGCGGTCCTTCAAATACGATGTATGCGACTGGACCATATGCTCATGAAACACAGCTGGTGTCTCCTCCAGTCTTCTCAAATTTCACTACCGAACCATCTACTGCTCCTCTCACTCCTCCCCCAGAGTTGGCTCACTTAACAACTCCCTCTTCCCCAGATGTACCTTTTGCTCACTTTCTAACATCCTCAGCAAATCTCAAAAATGGTGGCAAGGGTAACTACATCACTGCAAATGATCTTCAAACTACATATTCGCTCTACCCTGGAAGTCCTGCCAGTAGCCTTATATCTCCAATATCAAGGAACTCTGGTGACTGTCTGTCAACCTCTTTCCCTGAGCGGGAGTTTCGCCCACAGTGGGATTCATCACTGTATCCTGAAAATGGAAAATATCAGAGGACTGGGTCTGGGAGGGTTTCTGGGCACGACACTAATGATGTTACTATGGCATCACAGGATACAAATTTCTTTTGCCCTGCTACCTATGCACAATTCTATTTGGACCAAAATCCTCCATTCCCTCATAATGGTGGCAGATTAAGTGTTTCAAAAGACTCGGATGCTCAATCTACGGGTGGAAATGGACATCAGAGTAGGCCTTCTAGAAGTCCTAAGCAAGATGTGGAAGAAATAGAAGCTTACCGGGCATCCTTTGGTTTCAGTGCAGATGAGATTATAACCACCAGTCAATACGTGGAGATTTCTGATGTAATGGACGACTCGTTTACCATGATGCCCTTGACCTCTGGCAAATCAATGATGGAAGAAAACATAGAGCCTTCATTGATGAAAGAATTCAAAGCTCATGAGACTCAGGTGGGTTTGCAGAATCTAAAATGCCTTCGATTAGACGCGAGTCCAGTTGGCAAGCAAGCAAAGAATCAAATTCCTGTATGTGATGGATATGAAGATCATAAATCACCGGGATATTGTAGCAACAGCTCTGGATTAAGTACGCCTGATAATCATACTCTCATGGATGATGAAGATATATTCTCAAAAATGGGATCATCCAGAATCTGCAGGAAATATCAAATGGGGTTATCATGCTCCGATGCAGAGGTTGACTATAGAAGGGGCAGAAGCTTGCGAGAAAGAAAGGGAATATGA |
| Protein sequence |
>Msa0527200 MKIRRGVTLAVDFLILIQSFSFLRRKRWGGCLGAFSCFSSQKGGKRIVPASRIPDNNGSASQPNGPQVAGLTNQVTGIAPSLLAPPSSPASFTHSALPSTAQSPSCFLSLSANSPGGPSNTMYATGPYAHETQLVSPPVFSNFTTEPSTAPLTPPPELAHLTTPSSPDVPFAHFLTSSANLKNGGKGNYITANDLQTTYSLYPGSPASSLISPISRNSGDCLSTSFPEREFRPQWDSSLYPENGKYQRTGSGRVSGHDTNDVTMASQDTNFFCPATYAQFYLDQNPPFPHNGGRLSVSKDSDAQSTGGNGHQSRPSRSPKQDVEEIEAYRASFGFSADEIITTSQYVEISDVMDDSFTMMPLTSGKSMMEENIEPSLMKEFKAHETQVGLQNLKCLRLDASPVGKQAKNQIPVCDGYEDHKSPGYCSNSSGLSTPDNHTLMDDEDIFSKMGSSRICRKYQMGLSCSDAEVDYRRGRSLRERKGI* |
