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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1211040 | XP_013443965.1 | 90.794 | 315 | 28 | 1 | 1 | 314 | 1 | 315 | 0.0 | 574 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1211040 | sp|Q2JJQ0|TRMB_SYNJB | 45.909 | 220 | 105 | 5 | 95 | 314 | 34 | 239 | 1.98e-53 | 177 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1211040 | A0A072TKN9 | 90.794 | 315 | 28 | 1 | 1 | 314 | 1 | 315 | 0.0 | 574 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000220 | Msa1211040 | 0.810038 | 1.405749e-50 | -8.615850e-47 |
| Msa0001460 | Msa1211040 | 0.805603 | 1.232587e-49 | -8.615850e-47 |
| Msa0001540 | Msa1211040 | 0.825832 | 3.780694e-54 | -8.615850e-47 |
| Msa0003470 | Msa1211040 | 0.807931 | 3.970849e-50 | -8.615850e-47 |
| Msa0012460 | Msa1211040 | 0.818320 | 2.084067e-52 | -8.615850e-47 |
| Msa0017060 | Msa1211040 | 0.807606 | 4.657128e-50 | -8.615850e-47 |
| Msa0017120 | Msa1211040 | 0.815156 | 1.068052e-51 | -8.615850e-47 |
| Msa0018220 | Msa1211040 | 0.823644 | 1.239757e-53 | -8.615850e-47 |
| Msa0025830 | Msa1211040 | 0.816470 | 5.439000e-52 | -8.615850e-47 |
| Msa0030000 | Msa1211040 | 0.809001 | 2.347648e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1211040 | MtrunA17_Chr8g0337231 | 90.794 | 315 | 28 | 1 | 1 | 314 | 1 | 315 | 0.0 | 574 |
| Msa1211040 | MtrunA17_Chr8g0337241 | 83.333 | 282 | 44 | 2 | 35 | 316 | 2 | 280 | 2.44e-165 | 461 |
| Msa1211040 | MtrunA17_Chr6g0457691 | 42.347 | 196 | 104 | 4 | 119 | 313 | 538 | 725 | 3.84e-42 | 154 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1211040 | AT5G17660.1 | 65.306 | 245 | 77 | 3 | 75 | 316 | 69 | 308 | 3.47e-120 | 348 |
| Msa1211040 | AT5G24840.1 | 28.512 | 242 | 128 | 11 | 99 | 313 | 23 | 246 | 5.95e-12 | 65.1 |
Find 85 sgRNAs with CRISPR-Local
Find 246 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATTGAAACTAACTGCAA+GGG | 0.620397 | 8_1:+70404980 | None:intergenic |
| AAATAATGACAGGCAGTGGT+AGG | 0.578508 | 8_1:-70405410 | Msa1211040:intron |
| AAGGAGGGAAAATCTATCGA+AGG | 0.623652 | 8_1:-70404273 | Msa1211040:CDS |
| ACACTATAAAATGTCTGCAA+TGG | 0.555855 | 8_1:+70404196 | None:intergenic |
| ACAGAGAAAGAAGAACTTAA+GGG | 0.478265 | 8_1:+70407181 | None:intergenic |
| ACAGTCTGATGTGGTTGAAG+TGG | 0.648166 | 8_1:-70404443 | Msa1211040:CDS |
| ACCAACTGCTTGAAAGAAAT+AGG | 0.378434 | 8_1:+70405019 | None:intergenic |
| ACCAGTACCAGACTGGAACC+AGG | 0.600428 | 8_1:-70405997 | Msa1211040:CDS |
| ACCTAAAGTGAGAAATTATT+TGG | 0.126545 | 8_1:-70405361 | Msa1211040:CDS |
| ACCTATTTCTTTCAAGCAGT+TGG | 0.457053 | 8_1:-70405020 | Msa1211040:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ACAGAGAAAGAAGAACTTAA+GGG | + | chr8_1:70404429-70404448 | None:intergenic | 30.0% | |
| TACAGAGAAAGAAGAACTTA+AGG | + | chr8_1:70404430-70404449 | None:intergenic | 30.0% | |
| AAAGGGGAAAACAATTGAAT+TGG | + | chr8_1:70404473-70404492 | None:intergenic | 30.0% | |
| CCATTAATCAATTATAACGG+TGG | + | chr8_1:70404634-70404653 | None:intergenic | 30.0% | |
| CCACCGTTATAATTGATTAA+TGG | - | chr8_1:70404631-70404650 | Msa1211040:CDS | 30.0% | |
| GTAAAAAATCTTTACACCGA+CGG | - | chr8_1:70404655-70404674 | Msa1211040:CDS | 30.0% | |
| TGAAACCTAAAATAGAGGTA+AGG | - | chr8_1:70405267-70405286 | Msa1211040:intron | 30.0% | |
| GAAACCTAAAATAGAGGTAA+GGG | - | chr8_1:70405268-70405287 | Msa1211040:intron | 30.0% | |
| TGAAGGCTAAATTGTATGTT+TGG | + | chr8_1:70405295-70405314 | None:intergenic | 30.0% | |
| AAAGAAATGCCTATTATGTC+TGG | + | chr8_1:70405508-70405527 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 70404015 | 70407614 | 70404015 | ID=Msa1211040;Name=Msa1211040 |
| chr8_1 | mRNA | 70404015 | 70407614 | 70404015 | ID=Msa1211040-mRNA-1;Parent=Msa1211040;Name=Msa1211040-mRNA-1;_AED=0.40;_eAED=0.40;_QI=20|1|1|1|1|1|8|234|316 |
| chr8_1 | exon | 70404015 | 70404473 | 70404015 | ID=Msa1211040-mRNA-1:exon:23602;Parent=Msa1211040-mRNA-1 |
| chr8_1 | exon | 70404599 | 70404697 | 70404599 | ID=Msa1211040-mRNA-1:exon:23601;Parent=Msa1211040-mRNA-1 |
| chr8_1 | exon | 70404979 | 70405063 | 70404979 | ID=Msa1211040-mRNA-1:exon:23600;Parent=Msa1211040-mRNA-1 |
| chr8_1 | exon | 70405165 | 70405214 | 70405165 | ID=Msa1211040-mRNA-1:exon:23599;Parent=Msa1211040-mRNA-1 |
| chr8_1 | exon | 70405341 | 70405420 | 70405341 | ID=Msa1211040-mRNA-1:exon:23598;Parent=Msa1211040-mRNA-1 |
| chr8_1 | exon | 70405952 | 70406027 | 70405952 | ID=Msa1211040-mRNA-1:exon:23597;Parent=Msa1211040-mRNA-1 |
| chr8_1 | exon | 70407183 | 70407239 | 70407183 | ID=Msa1211040-mRNA-1:exon:23596;Parent=Msa1211040-mRNA-1 |
| chr8_1 | exon | 70407316 | 70407614 | 70407316 | ID=Msa1211040-mRNA-1:exon:23595;Parent=Msa1211040-mRNA-1 |
| chr8_1 | five_prime_UTR | 70407595 | 70407614 | 70407595 | ID=Msa1211040-mRNA-1:five_prime_utr;Parent=Msa1211040-mRNA-1 |
| chr8_1 | CDS | 70407316 | 70407594 | 70407316 | ID=Msa1211040-mRNA-1:cds;Parent=Msa1211040-mRNA-1 |
| chr8_1 | CDS | 70407183 | 70407239 | 70407183 | ID=Msa1211040-mRNA-1:cds;Parent=Msa1211040-mRNA-1 |
| chr8_1 | CDS | 70405952 | 70406027 | 70405952 | ID=Msa1211040-mRNA-1:cds;Parent=Msa1211040-mRNA-1 |
| chr8_1 | CDS | 70405341 | 70405420 | 70405341 | ID=Msa1211040-mRNA-1:cds;Parent=Msa1211040-mRNA-1 |
| chr8_1 | CDS | 70405165 | 70405214 | 70405165 | ID=Msa1211040-mRNA-1:cds;Parent=Msa1211040-mRNA-1 |
| chr8_1 | CDS | 70404979 | 70405063 | 70404979 | ID=Msa1211040-mRNA-1:cds;Parent=Msa1211040-mRNA-1 |
| chr8_1 | CDS | 70404599 | 70404697 | 70404599 | ID=Msa1211040-mRNA-1:cds;Parent=Msa1211040-mRNA-1 |
| chr8_1 | CDS | 70404249 | 70404473 | 70404249 | ID=Msa1211040-mRNA-1:cds;Parent=Msa1211040-mRNA-1 |
| chr8_1 | three_prime_UTR | 70404015 | 70404248 | 70404015 | ID=Msa1211040-mRNA-1:three_prime_utr;Parent=Msa1211040-mRNA-1 |
| Gene Sequence |
>Msa1211040 ATGGGTTATTGCTGTGGAGGTTGGCGTATATTACAGATACAGAGTCGTCACAAGAAGTTAGTATATGGCATTGATACTGCTTTAGTAATGTTACCACTCTCACTCTCATTTTCACCCTTTCGTCCTCTCTCTTCTTCTTCTTCTTCTTCTCTTCCACTCTCCTCTTCCTCTATTTCCCAAGTAACAGCTGAACAAGACCAACAACAACATAAGTCACAACGAAAAAGCTCACAACTTGTCGCATTAGAATATGCTGAACTCAATCTCTCTAACAACTTGGATATGGGTCATGTCAGAATCAGACAACATGTCAATCCCTTAAGTTCTTCTTTCTCTACTCCTGCACCAGTACCAGACTGGAACCAGGTGTTTGCAGACCCTGCTCTGCCACTCATGGTGGATATTGGATGTGGCAGTGGTAGGTTTCTTATGTGGCTTGCAAAAAGAACACCTAAAGTGAGAAATTATTTGGGATTGGAAATACGGCAAAGGATGGTGAAGCGTGCTGAGTTATGGGTAAAAGATCTGGCTCTGGATAACATACATTTCTTGTTTGCAAATGCACCTATTTCTTTCAAGCAGTTGGTAGAATCATATCCTGGACCCTTGCAGTTAGTTTCAATTTTGTGTCCAGACCCTCATTTCAAGAAAAAACATCATAAAAGAAGAGTTTTGCAGAAGCCTTTGGTTGGTGCTATTGTAGATAATTTATCTCCTGGGGGACAGGTATTTGTACAGTCTGATGTGGTTGAAGTGGCACTTGACATGAAAAACCAGTTTGATGAAGTTGATGCACTTAGTCACACAGATGCTTTGAACCCTTCTATATTGTGTGACAGTGAAGGATGGTTATTAAGCAACCCTATGGGGATTAGGACCGAGAGAGAGATTCATGCAGAATTCGAAGGAGGGAAAATCTATCGAAGGTTGTACCAAAAGAAACAGATGTGA |
| Protein sequence |
>Msa1211040 MGYCCGGWRILQIQSRHKKLVYGIDTALVMLPLSLSFSPFRPLSSSSSSSLPLSSSSISQVTAEQDQQQHKSQRKSSQLVALEYAELNLSNNLDMGHVRIRQHVNPLSSSFSTPAPVPDWNQVFADPALPLMVDIGCGSGRFLMWLAKRTPKVRNYLGLEIRQRMVKRAELWVKDLALDNIHFLFANAPISFKQLVESYPGPLQLVSILCPDPHFKKKHHKRRVLQKPLVGAIVDNLSPGGQVFVQSDVVEVALDMKNQFDEVDALSHTDALNPSILCDSEGWLLSNPMGIRTEREIHAEFEGGKIYRRLYQKKQM* |
