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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0337240 | AES62043.1 | 88.475 | 295 | 21 | 1 | 2 | 283 | 53 | 347 | 0.0 | 534 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0337240 | sp|Q9LRN8|RK3B_ARATH | 62.037 | 324 | 80 | 5 | 3 | 283 | 1 | 324 | 1.36e-132 | 381 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0003640 | Msa0337240 | 0.846317 | 2.343386e-59 | -8.615850e-47 |
| Msa0003720 | Msa0337240 | 0.822950 | 1.800787e-53 | -8.615850e-47 |
| Msa0003780 | Msa0337240 | 0.819937 | 8.935951e-53 | -8.615850e-47 |
| Msa0003890 | Msa0337240 | 0.816091 | 6.611923e-52 | -8.615850e-47 |
| Msa0004980 | Msa0337240 | 0.804966 | 1.675600e-49 | -8.615850e-47 |
| Msa0011960 | Msa0337240 | 0.858748 | 6.657906e-63 | -8.615850e-47 |
| Msa0012040 | Msa0337240 | 0.811732 | 6.042992e-51 | -8.615850e-47 |
| Msa0012080 | Msa0337240 | 0.806840 | 6.764795e-50 | -8.615850e-47 |
| Msa0012240 | Msa0337240 | 0.808891 | 2.478455e-50 | -8.615850e-47 |
| Msa0013050 | Msa0337240 | -0.811871 | 5.637413e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0337240 | MtrunA17_Chr1g0198561 | 88.435 | 294 | 21 | 1 | 3 | 283 | 1 | 294 | 0.0 | 533 |
| Msa0337240 | MtrunA17_Chr6g0450631 | 87.755 | 294 | 23 | 1 | 3 | 283 | 1 | 294 | 0.0 | 531 |
| Msa0337240 | MtrunA17_Chr2g0324401 | 98.113 | 106 | 2 | 0 | 178 | 283 | 1 | 106 | 1.42e-72 | 218 |
| Msa0337240 | MtrunA17_Chr3g0145851 | 40.097 | 207 | 105 | 7 | 51 | 240 | 58 | 262 | 4.31e-36 | 130 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0337240 | AT3G17465.1 | 62.037 | 324 | 80 | 5 | 3 | 283 | 1 | 324 | 1.38e-133 | 381 |
| Msa0337240 | AT2G43030.1 | 41.520 | 171 | 97 | 3 | 72 | 240 | 92 | 261 | 1.84e-32 | 120 |
Find 97 sgRNAs with CRISPR-Local
Find 234 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATGCCGGGGAGAATGGG+TGG | 0.532086 | 2_4:+57211378 | Msa0337240:CDS |
| AAACCTCTGGTTGCTGATCT+TGG | 0.349915 | 2_4:+57212134 | Msa0337240:CDS |
| AAAGAGATAGTTCAGAAAAT+GGG | 0.389407 | 2_4:+57212186 | Msa0337240:exon |
| AAAGGAAGTATAGATGTCTC+AGG | 0.543480 | 2_4:-57212068 | None:intergenic |
| AAATGCCGGGGAGAATGGGT+GGG | 0.614539 | 2_4:+57211379 | Msa0337240:CDS |
| AACCGCGGCAGTGGCACCAC+AGG | 0.433121 | 2_4:-57209812 | None:intergenic |
| AACCTCCCTTGAAATCATAC+CGG | 0.585348 | 2_4:-57211111 | None:intergenic |
| AACCTCTGGTTGCTGATCTT+GGG | 0.368580 | 2_4:+57212135 | Msa0337240:CDS |
| AAGCATTCCTGAAGAACCCA+TGG | 0.626684 | 2_4:-57211167 | None:intergenic |
| AAGGGAGGTTCAGCATCCCA+TGG | 0.557581 | 2_4:+57211124 | Msa0337240:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AGTTCCAATTTCTATCCTTT+GGG | + | chr2_4:57209967-57209986 | Msa0337240:CDS | 30.0% | |
| AAGTATTATTAGACACAAGC+AGG | - | chr2_4:57210520-57210539 | None:intergenic | 30.0% | |
| ATCCCAATTATGTAATCAAC+TGG | - | chr2_4:57210648-57210667 | None:intergenic | 30.0% | |
| TCGCCCAAAAGTAAATAAAT+CGG | - | chr2_4:57210766-57210785 | None:intergenic | 30.0% | |
| AGGACATAGATCTGTAAAAA+TGG | - | chr2_4:57211037-57211056 | None:intergenic | 30.0% | |
| TTAACAGTCATGTAACTGAA+AGG | - | chr2_4:57211057-57211076 | None:intergenic | 30.0% | |
| TTAAAGGTAAAAAAATGCCG+GGG | + | chr2_4:57211367-57211386 | Msa0337240:CDS | 30.0% | |
| ATTTGAATGAGGATTGTTTC+AGG | - | chr2_4:57211638-57211657 | None:intergenic | 30.0% | |
| TACTGCAATGTGAATTAAGT+GGG | - | chr2_4:57211789-57211808 | None:intergenic | 30.0% | |
| CGATATCATTAAGAAAACGA+TGG | + | chr2_4:57211860-57211879 | Msa0337240:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 57209761 | 57212609 | 57209761 | ID=Msa0337240;Name=Msa0337240 |
| chr2_4 | mRNA | 57209761 | 57212609 | 57209761 | ID=Msa0337240-mRNA-1;Parent=Msa0337240;Name=Msa0337240-mRNA-1;_AED=0.11;_eAED=0.11;_QI=0|0.8|0.83|1|0.8|0.66|6|400|283 |
| chr2_4 | exon | 57209761 | 57210012 | 57209761 | ID=Msa0337240-mRNA-1:exon:17394;Parent=Msa0337240-mRNA-1 |
| chr2_4 | exon | 57210191 | 57210400 | 57210191 | ID=Msa0337240-mRNA-1:exon:17395;Parent=Msa0337240-mRNA-1 |
| chr2_4 | exon | 57211100 | 57211201 | 57211100 | ID=Msa0337240-mRNA-1:exon:17396;Parent=Msa0337240-mRNA-1 |
| chr2_4 | exon | 57211363 | 57211476 | 57211363 | ID=Msa0337240-mRNA-1:exon:17397;Parent=Msa0337240-mRNA-1 |
| chr2_4 | exon | 57212014 | 57212290 | 57212014 | ID=Msa0337240-mRNA-1:exon:17398;Parent=Msa0337240-mRNA-1 |
| chr2_4 | exon | 57212313 | 57212609 | 57212313 | ID=Msa0337240-mRNA-1:exon:17399;Parent=Msa0337240-mRNA-1 |
| chr2_4 | CDS | 57209761 | 57210012 | 57209761 | ID=Msa0337240-mRNA-1:cds;Parent=Msa0337240-mRNA-1 |
| chr2_4 | CDS | 57210191 | 57210400 | 57210191 | ID=Msa0337240-mRNA-1:cds;Parent=Msa0337240-mRNA-1 |
| chr2_4 | CDS | 57211100 | 57211201 | 57211100 | ID=Msa0337240-mRNA-1:cds;Parent=Msa0337240-mRNA-1 |
| chr2_4 | CDS | 57211363 | 57211476 | 57211363 | ID=Msa0337240-mRNA-1:cds;Parent=Msa0337240-mRNA-1 |
| chr2_4 | CDS | 57212014 | 57212187 | 57212014 | ID=Msa0337240-mRNA-1:cds;Parent=Msa0337240-mRNA-1 |
| chr2_4 | three_prime_UTR | 57212188 | 57212290 | 57212188 | ID=Msa0337240-mRNA-1:three_prime_utr;Parent=Msa0337240-mRNA-1 |
| chr2_4 | three_prime_UTR | 57212313 | 57212609 | 57212313 | ID=Msa0337240-mRNA-1:three_prime_utr;Parent=Msa0337240-mRNA-1 |
| Gene Sequence |
>Msa0337240 GTTGCTATGCTAGCGTTTTCGAGAGGCGTGGTTTCTCGTCTACGGCAATTCCCTGTGGTGCCACTGCCGCGGTTTTTGAGTTCGGAGGTGGAGACTATACGGAGGATTGAAGCAAAACCTAGTGTGATGACACCGAATTCACAACGAACTGGTGTTATAGCTGTAAAATGTGGAATGACTGCACTTTGGGATAAATGGGGTGCTAGAGTTCCAATTTCTATCCTTTGGGTTGATGACAACATTGTCTCTCAGATTGGTTGTGGACAGAAGAAGGAGAAACACTCGACAAAGCCGGAAGTGGGTCATTTTAGGGCTCAAGGAGTTCCCATGAAGAGGAAGCTTCAGGAGTTTCGAGTGACAGAGGATGCACTTCTTCCTGTTGGTACATCGCTTAATGTTCGCCATTTTGTTCCCGGACAGTATGTTGACATCACAGGAATCACTAAAGGAAAAGGTTTTCAGGGTGTAATGGACCGGTATGATTTCAAGGGAGGTTCAGCATCCCATGGGAATTCGAAAGCACATAGAACCATGGGTTCTTCAGGAATGCTTGGTCCTTGTAAGGTTTTTAAAGGTAAAAAAATGCCGGGGAGAATGGGTGGGAAGCAAAGAACAGTAAAAAATGTATGGGTCTACAAAATTGATCCAGCAAGAAATTTGATGTGGGTGAAAGGCCAGGTCCCAGGAGCTACAGGGAACTTTGTTTTTATAAAAGATGCAGTTTATGAAAAACCTGAGACATCTATACTTCCTTTCCCAACTTACTTTGTGCCAGAAGATGAAGATACAGATGATATGAAACCTCTGGTTGCTGATCTTGGGGATGTGGATCCATTTATGGTTACTGATTAA |
| Protein sequence |
>Msa0337240 VAMLAFSRGVVSRLRQFPVVPLPRFLSSEVETIRRIEAKPSVMTPNSQRTGVIAVKCGMTALWDKWGARVPISILWVDDNIVSQIGCGQKKEKHSTKPEVGHFRAQGVPMKRKLQEFRVTEDALLPVGTSLNVRHFVPGQYVDITGITKGKGFQGVMDRYDFKGGSASHGNSKAHRTMGSSGMLGPCKVFKGKKMPGRMGGKQRTVKNVWVYKIDPARNLMWVKGQVPGATGNFVFIKDAVYEKPETSILPFPTYFVPEDEDTDDMKPLVADLGDVDPFMVTD* |
