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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1466540 | KEH43194.1 | 96.471 | 85 | 3 | 0 | 1 | 85 | 32 | 116 | 2.30e-50 | 169 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1466540 | A0A072VMF3 | 96.471 | 85 | 3 | 0 | 1 | 85 | 32 | 116 | 1.10e-50 | 169 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000050 | Msa1466540 | 0.804030 | 2.627116e-49 | -8.615850e-47 |
| Msa0000550 | Msa1466540 | -0.805126 | 1.551748e-49 | -8.615850e-47 |
| Msa0002230 | Msa1466540 | 0.834376 | 3.105870e-56 | -8.615850e-47 |
| Msa0002240 | Msa1466540 | 0.834853 | 2.356968e-56 | -8.615850e-47 |
| Msa0002460 | Msa1466540 | 0.807784 | 4.267904e-50 | -8.615850e-47 |
| Msa0003700 | Msa1466540 | 0.841324 | 5.090876e-58 | -8.615850e-47 |
| Msa0003720 | Msa1466540 | 0.812518 | 4.073145e-51 | -8.615850e-47 |
| Msa0003890 | Msa1466540 | 0.893108 | 8.539938e-75 | -8.615850e-47 |
| Msa0004640 | Msa1466540 | 0.806029 | 1.003159e-49 | -8.615850e-47 |
| Msa0006070 | Msa1466540 | 0.846844 | 1.683005e-59 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1466540 | MtrunA17_Chr1g0194401 | 94.595 | 37 | 2 | 0 | 49 | 85 | 1 | 37 | 9.17e-18 | 73.9 |
Find 7 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAGGAGGTACCTCAAGTCAA+AGG | 0.539248 | tig0047485:+521 | Msa1466530:intergenic |
| AGGAATGTGTTGATGCACGC+AGG | 0.636801 | tig0047485:+587 | Msa1466530:intergenic |
| AGGAGGTACCTCAAGTCAAA+GGG | 0.570753 | tig0047485:+522 | Msa1466530:intergenic |
| CAACAATAACATCGTTTCTA+GGG | 0.472288 | tig0047485:-550 | Msa1466540:five_prime_UTR |
| GGGTTCTACCCTTTGACTTG+AGG | 0.495824 | tig0047485:-530 | Msa1466540:intron |
| TCAACAATAACATCGTTTCT+AGG | 0.240162 | tig0047485:-551 | Msa1466540:five_prime_UTR |
| TTGTTGAAACATTCTTAACT+AGG | 0.456257 | tig0047485:+567 | Msa1466540:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CAAAAAGAGAGAAAAACCAT+TGG | - | tig0047485:6-25 | Msa1466540:CDS | 30.0% | |
| TCAACAATAACATCGTTTCT+AGG | - | tig0047485:155-174 | Msa1466540:CDS | 30.0% | |
| CAACAATAACATCGTTTCTA+GGG | - | tig0047485:156-175 | Msa1466540:CDS | 30.0% | |
| AAGAAGATGAAGAAAAAAGG+GGG | + | tig0047485:214-233 | Msa1466540:intergenic | 30.0% | |
| TCTTTAGCATGATTATGAGA+TGG | - | tig0047485:412-431 | Msa1466540:intron | 30.0% | |
| CTTTAGCATGATTATGAGAT+GGG | - | tig0047485:413-432 | Msa1466540:intron | 30.0% | |
| GTTGAATTTGACATTGAAAG+TGG | - | tig0047485:509-528 | Msa1466540:intron | 30.0% | |
| AGAGATTCAACTTCAAAGAA+TGG | - | tig0047485:569-588 | Msa1466540:five_prime_UTR | 30.0% | |
| AATGGGGTTATGAATTTAGA+TGG | - | tig0047485:608-627 | Msa1466540:five_prime_UTR | 30.0% | |
| GAATTTAGATGGATCAGAAA+AGG | - | tig0047485:619-638 | Msa1466540:five_prime_UTR | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0047485 | gene | 1 | 727 | 1 | ID=Msa1466540;Name=Msa1466540 |
| tig0047485 | mRNA | 1 | 727 | 1 | ID=Msa1466540-mRNA-1;Parent=Msa1466540;Name=Msa1466540-mRNA-1;_AED=0.00;_eAED=0.00;_QI=197|1|1|1|0|0.5|2|0|85 |
| tig0047485 | exon | 1 | 255 | 1 | ID=Msa1466540-mRNA-1:exon:25092;Parent=Msa1466540-mRNA-1 |
| tig0047485 | exon | 531 | 727 | 531 | ID=Msa1466540-mRNA-1:exon:25091;Parent=Msa1466540-mRNA-1 |
| tig0047485 | five_prime_UTR | 531 | 727 | 531 | ID=Msa1466540-mRNA-1:five_prime_utr;Parent=Msa1466540-mRNA-1 |
| tig0047485 | CDS | 1 | 255 | 1 | ID=Msa1466540-mRNA-1:cds;Parent=Msa1466540-mRNA-1 |
| Gene Sequence |
>Msa1466540 ATGGGTCGTGCTATTCAAAGAGAAAAAGAAAAAGAGGTTGAATTTGACATTGAAAGTGGTGAAAACACGAGCGAAGAGGATACAAGCAATGATGAGAGAGATTCAACTTCAAAGAATGGTTTTCCTTGGTCATGGAATGGGGTTATGAATTTAGATGGATCAGAAAAGGGTAAAAATGGAATTGAAGCATCATGTAGCAGTTCTTCAAATTCTTGTGATGTTTTTGGTGTAGATGAATGTAATCTAGAATTGTTG |
| Protein sequence |
>Msa1466540 MGRAIQREKEKEVEFDIESGENTSEEDTSNDERDSTSKNGFPWSWNGVMNLDGSEKGKNGIEASCSSSSNSCDVFGVDECNLELL |
