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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0346050 | XP_003598118.2 | 94.648 | 355 | 19 | 0 | 1 | 355 | 31 | 385 | 0.0 | 665 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001510 | Msa0346050 | 0.857124 | 2.020790e-62 | -8.615850e-47 |
| Msa0002690 | Msa0346050 | 0.825497 | 4.539018e-54 | -8.615850e-47 |
| Msa0002700 | Msa0346050 | 0.816585 | 5.125873e-52 | -8.615850e-47 |
| Msa0004180 | Msa0346050 | 0.838562 | 2.671061e-57 | -8.615850e-47 |
| Msa0005190 | Msa0346050 | 0.833738 | 4.487658e-56 | -8.615850e-47 |
| Msa0007570 | Msa0346050 | 0.834041 | 3.768472e-56 | -8.615850e-47 |
| Msa0015220 | Msa0346050 | 0.818651 | 1.754185e-52 | -8.615850e-47 |
| Msa0016380 | Msa0346050 | 0.812820 | 3.497751e-51 | -8.615850e-47 |
| Msa0017980 | Msa0346050 | 0.813226 | 2.849478e-51 | -8.615850e-47 |
| Msa0018010 | Msa0346050 | 0.817831 | 2.688978e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0346050 | MtrunA17_Chr3g0078481 | 94.085 | 355 | 19 | 1 | 1 | 355 | 31 | 383 | 0.0 | 656 |
| Msa0346050 | MtrunA17_Chr3g0114921 | 66.000 | 350 | 114 | 4 | 3 | 350 | 97 | 443 | 2.25e-160 | 456 |
| Msa0346050 | MtrunA17_Chr3g0114931 | 63.037 | 349 | 120 | 5 | 6 | 352 | 98 | 439 | 2.25e-134 | 390 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0346050 | AT2G41705.3 | 58.523 | 352 | 137 | 4 | 2 | 350 | 111 | 456 | 9.14e-126 | 369 |
| Msa0346050 | AT2G41705.2 | 58.523 | 352 | 137 | 4 | 2 | 350 | 111 | 456 | 9.14e-126 | 369 |
| Msa0346050 | AT2G41705.4 | 58.523 | 352 | 137 | 4 | 2 | 350 | 111 | 456 | 9.14e-126 | 369 |
| Msa0346050 | AT2G41705.1 | 58.523 | 352 | 137 | 4 | 2 | 350 | 111 | 456 | 9.14e-126 | 369 |
Find 82 sgRNAs with CRISPR-Local
Find 187 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACTGCTAAAGGTTTCAAG+TGG | 0.621543 | 3_1:+5990993 | Msa0346050:CDS |
| AAAGTAGAGACCATATTAGA+AGG | 0.455328 | 3_1:-5989853 | None:intergenic |
| AACAAATTGCAGCTTCATCT+TGG | 0.384111 | 3_1:+5988551 | Msa0346050:five_prime_UTR |
| AACTCAGTGTTACTGGGAAT+TGG | 0.357866 | 3_1:+5990396 | Msa0346050:CDS |
| AACTTTGGCAATTCTTTACT+AGG | 0.383927 | 3_1:-5988929 | None:intergenic |
| AAGACCAAGGCAAAGGTGGA+AGG | 0.588190 | 3_1:+5991064 | Msa0346050:CDS |
| AAGTTATTTGGCCCTAGTGT+CGG | 0.566597 | 3_1:+5989790 | Msa0346050:CDS |
| AATTCATCCATTCTCCAAAT+AGG | 0.275234 | 3_1:-5991817 | None:intergenic |
| AATTGGCTCTTTGTTGTGCT+TGG | 0.359346 | 3_1:+5990413 | Msa0346050:CDS |
| ACATCACTTAGCAGTTATGG+TGG | 0.669583 | 3_1:+5991093 | Msa0346050:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAAAATAGAGGAGACAGAAT+TGG | - | chr3_1:5988582-5988601 | None:intergenic | 30.0% | |
| AGATGTTAAGGGAAAAATAG+AGG | - | chr3_1:5988594-5988613 | None:intergenic | 30.0% | |
| GACATTTGTTCAGATGTTAA+GGG | - | chr3_1:5988605-5988624 | None:intergenic | 30.0% | |
| AACTTTGGCAATTCTTTACT+AGG | - | chr3_1:5988932-5988951 | None:intergenic | 30.0% | |
| GTAATGGTCAAATGGAAATA+AGG | - | chr3_1:5989071-5989090 | None:intergenic | 30.0% | |
| TATTTCCATTTGACCATTAC+TGG | + | chr3_1:5989071-5989090 | Msa0346050:intron | 30.0% | |
| CGAAATAAAACCTCATGTAA+TGG | + | chr3_1:5989317-5989336 | Msa0346050:intron | 30.0% | |
| GTTTATAATATCGGTCGTAT+AGG | + | chr3_1:5989390-5989409 | Msa0346050:intron | 30.0% | |
| GGTATTAACAAGATATACTC+TGG | + | chr3_1:5989765-5989784 | Msa0346050:intron | 30.0% | |
| TATACTCTGGACAAGTTATT+TGG | + | chr3_1:5989778-5989797 | Msa0346050:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 5988370 | 5992035 | 5988370 | ID=Msa0346050;Name=Msa0346050 |
| chr3_1 | mRNA | 5988370 | 5992035 | 5988370 | ID=Msa0346050-mRNA-1;Parent=Msa0346050;Name=Msa0346050-mRNA-1;_AED=0.22;_eAED=0.22;_QI=228|1|1|1|0.66|0.71|7|192|355 |
| chr3_1 | exon | 5988370 | 5988586 | 5988370 | ID=Msa0346050-mRNA-1:exon:1737;Parent=Msa0346050-mRNA-1 |
| chr3_1 | exon | 5988609 | 5988670 | 5988609 | ID=Msa0346050-mRNA-1:exon:1738;Parent=Msa0346050-mRNA-1 |
| chr3_1 | exon | 5988920 | 5989003 | 5988920 | ID=Msa0346050-mRNA-1:exon:1739;Parent=Msa0346050-mRNA-1 |
| chr3_1 | exon | 5989766 | 5989864 | 5989766 | ID=Msa0346050-mRNA-1:exon:1740;Parent=Msa0346050-mRNA-1 |
| chr3_1 | exon | 5990254 | 5990446 | 5990254 | ID=Msa0346050-mRNA-1:exon:1741;Parent=Msa0346050-mRNA-1 |
| chr3_1 | exon | 5990954 | 5991375 | 5990954 | ID=Msa0346050-mRNA-1:exon:1742;Parent=Msa0346050-mRNA-1 |
| chr3_1 | exon | 5991625 | 5992035 | 5991625 | ID=Msa0346050-mRNA-1:exon:1743;Parent=Msa0346050-mRNA-1 |
| chr3_1 | five_prime_UTR | 5988370 | 5988586 | 5988370 | ID=Msa0346050-mRNA-1:five_prime_utr;Parent=Msa0346050-mRNA-1 |
| chr3_1 | five_prime_UTR | 5988609 | 5988619 | 5988609 | ID=Msa0346050-mRNA-1:five_prime_utr;Parent=Msa0346050-mRNA-1 |
| chr3_1 | CDS | 5988620 | 5988670 | 5988620 | ID=Msa0346050-mRNA-1:cds;Parent=Msa0346050-mRNA-1 |
| chr3_1 | CDS | 5988920 | 5989003 | 5988920 | ID=Msa0346050-mRNA-1:cds;Parent=Msa0346050-mRNA-1 |
| chr3_1 | CDS | 5989766 | 5989864 | 5989766 | ID=Msa0346050-mRNA-1:cds;Parent=Msa0346050-mRNA-1 |
| chr3_1 | CDS | 5990254 | 5990446 | 5990254 | ID=Msa0346050-mRNA-1:cds;Parent=Msa0346050-mRNA-1 |
| chr3_1 | CDS | 5990954 | 5991375 | 5990954 | ID=Msa0346050-mRNA-1:cds;Parent=Msa0346050-mRNA-1 |
| chr3_1 | CDS | 5991625 | 5991843 | 5991625 | ID=Msa0346050-mRNA-1:cds;Parent=Msa0346050-mRNA-1 |
| chr3_1 | three_prime_UTR | 5991844 | 5992035 | 5991844 | ID=Msa0346050-mRNA-1:three_prime_utr;Parent=Msa0346050-mRNA-1 |
| Gene Sequence |
>Msa0346050 ATGTCCCCTCTTTTAAGCAATGAAAATGAAGGTTCTGAAGACATAGAACAGTTGCAGGAACCTAGTAAAGAATTGCCAAAGTTATTGGATAATGCTTCATATTTGATTCATTTGGCTGTTTTCGGTATTCTCGGGGTATTAACAAGATATACTCTGGACAAGTTATTTGGCCCTAGTGTCGGTCATGTGACTAGTGACCAGACCATTCTTTACCTTGACCTTCCTTCTAATATGGTTGGTTCTTTTCTTATGGGATGGTTTGGTGTTGTATTCAAAGAAGACATATCAAATGTGTCCAAGTATCTGGCTGTTGCACTAACAACTGGTTACTTAGGGAGTCTAACAACGTTCAGCGGCTGGAATCAGAAAATGCTTGAACTCAGTGTTACTGGGAATTGGCTCTTTGTTGTGCTTGGCTTTCTAATAGGGTTATTTCTTGTTGCCTTTTCCATCATATTTGGGATAGAAACTGCTAAAGGTTTCAAGTGGCTTCTTATAAGGCTAAACGTGACTTCACGAAGTGAAGTTAGCAGAGACAAGACCAAGGCAAAGGTGGAAGGCTTCAAACATCACTTAGCAGTTATGGTGGTGTTTTTGCTGATTTTAGGCTTGTTATGGGGTATTAGTGGTGTATTAATGATTGCTGAATTCAAGAATGGTGAAAATGCTTATCTGTGGATCGCTTGCATTGTTGGACCTCTTGGTGTGTGGATTAGATGGCTTTTATCCGGATTAAATGGACATGGTTTAGGACCAAGAGGTTTGTTGAATTGGATGCGATTTGGAACTCTAATTGCAAATGTCTCTGCTGCTTGTATCATGGCTGCACTTGCTACAACAAAGATATATGTGAACACCAGAGATTGTGATGCAATTGTAAAAGGCATACAGTTTGGCCTGTTGGGCTGTTTGAGTACTGTCTCTACCTTTGTCGCTGAGTTCAATGAAATGAGAGAAAGCGAGCACCCTTGGAGAGCATATGTTTATACTATAATCACAATATGTTCCTCATTCTTTTTAGGGATCTTAATATACTGTGTGCCTATTTGGAGAATGGATGAATTATAA |
| Protein sequence |
>Msa0346050 MSPLLSNENEGSEDIEQLQEPSKELPKLLDNASYLIHLAVFGILGVLTRYTLDKLFGPSVGHVTSDQTILYLDLPSNMVGSFLMGWFGVVFKEDISNVSKYLAVALTTGYLGSLTTFSGWNQKMLELSVTGNWLFVVLGFLIGLFLVAFSIIFGIETAKGFKWLLIRLNVTSRSEVSRDKTKAKVEGFKHHLAVMVVFLLILGLLWGISGVLMIAEFKNGENAYLWIACIVGPLGVWIRWLLSGLNGHGLGPRGLLNWMRFGTLIANVSAACIMAALATTKIYVNTRDCDAIVKGIQFGLLGCLSTVSTFVAEFNEMRESEHPWRAYVYTIITICSSFFLGILIYCVPIWRMDEL* |
