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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1326450 | XP_013445507.1 | 97.590 | 83 | 2 | 0 | 1 | 83 | 314 | 396 | 3.43e-50 | 175 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1326450 | A0A072TRR1 | 97.590 | 83 | 2 | 0 | 1 | 83 | 314 | 396 | 1.64e-50 | 175 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1191020 | Msa1326450 | 0.873168 | 1.812191e-67 | -8.615850e-47 |
| Msa0867490 | Msa1326450 | 0.820776 | 5.737754e-53 | -8.615850e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1326450 | MtrunA17_Chr8g0360441 | 97.590 | 83 | 2 | 0 | 1 | 83 | 314 | 396 | 3.15e-54 | 175 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 40 sgRNAs with CRISPR-Local
Find 68 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCGTATACCAGCACGAATTC+AGG | 0.286283 | 8_4:+40945630 | Msa1326450:CDS |
| GAAGGTAGAACCTGAAAGTT+TGG | 0.314906 | 8_4:-40945740 | None:intergenic |
| GCACCGGCGTTTGGCGGTTA+TGG | 0.331523 | 8_4:+40945442 | Msa1326450:CDS |
| CTCCGACTCTCGCCATTGAT+TGG | 0.363072 | 8_4:+40945699 | Msa1326450:CDS |
| TGACTGTTCTTTCAGGTTCA+GGG | 0.367816 | 8_4:+40945840 | Msa1326450:intron |
| TTTATCAGTGTTCCAATCAA+TGG | 0.382593 | 8_4:-40945711 | None:intergenic |
| GGAAGCAGAGGACGGTTTAT+CGG | 0.389422 | 8_4:-40945677 | None:intergenic |
| AGTACACCGGCACCGGCGTT+TGG | 0.392086 | 8_4:+40945433 | Msa1326450:CDS |
| GGTAACAGTGGCCATGGTGC+TGG | 0.446213 | 8_4:+40945400 | Msa1326450:CDS |
| ACGAACTGAAGGATTGTAAC+TGG | 0.446835 | 8_4:-40945497 | None:intergenic |
| ACAGAAGCCTGATGGATCAT+TGG | 0.470560 | 8_4:-40945583 | None:intergenic |
| ACACCGGCACCGGCGTTTGG+CGG | 0.478717 | 8_4:+40945436 | Msa1326450:CDS |
| ATATTCGCCGTCGCCATTGA+AGG | 0.485547 | 8_4:-40945532 | None:intergenic |
| ACAATCCTTCAGTTCGTGCT+TGG | 0.487224 | 8_4:+40945503 | Msa1326450:CDS |
| CGTATACCAGCACGAATTCA+GGG | 0.492711 | 8_4:+40945631 | Msa1326450:CDS |
| TCTTTCGCCAATGATCCATC+AGG | 0.495748 | 8_4:+40945576 | Msa1326450:CDS |
| TCTTCACCCTGAATTCGTGC+TGG | 0.532864 | 8_4:-40945637 | None:intergenic |
| TGCTTGGATAGATCCTTCAA+TGG | 0.540229 | 8_4:+40945519 | Msa1326450:CDS |
| TGTGTTCAGTACACCGGCAC+CGG | 0.543423 | 8_4:+40945426 | Msa1326450:CDS |
| AGGATTGTAACTGGACTGAA+GGG | 0.547857 | 8_4:-40945488 | None:intergenic |
| CACCAGAGACAGAAGCCTGA+TGG | 0.548735 | 8_4:-40945591 | None:intergenic |
| GATTGCATAGAATGATGGCT+TGG | 0.567846 | 8_4:+40945341 | None:intergenic |
| GCGAGAGTCGGAGGAAGCAG+AGG | 0.568701 | 8_4:-40945689 | None:intergenic |
| AAGGATTGTAACTGGACTGA+AGG | 0.573483 | 8_4:-40945489 | None:intergenic |
| CAATCAATGGCGAGAGTCGG+AGG | 0.587240 | 8_4:-40945698 | None:intergenic |
| TCTATCCAAGCACGAACTGA+AGG | 0.592530 | 8_4:-40945508 | None:intergenic |
| TTCCAATCAATGGCGAGAGT+CGG | 0.602863 | 8_4:-40945701 | None:intergenic |
| AGCACGAATTCAGGGTGAAG+AGG | 0.603117 | 8_4:+40945639 | Msa1326450:CDS |
| GATGGTGGTAACAGTGGCCA+TGG | 0.608651 | 8_4:+40945394 | Msa1326450:CDS |
| TGACCATAACCGCCAAACGC+CGG | 0.611880 | 8_4:-40945445 | None:intergenic |
| GATAGATCCTTCAATGGCGA+CGG | 0.613580 | 8_4:+40945525 | Msa1326450:CDS |
| TTGGCGAAAGATAGTGATGA+TGG | 0.622368 | 8_4:-40945564 | None:intergenic |
| GAGTCGGAGGAAGCAGAGGA+CGG | 0.623160 | 8_4:-40945685 | None:intergenic |
| TGGATTTGTGTTCAGTACAC+CGG | 0.633611 | 8_4:+40945420 | Msa1326450:CDS |
| GTTAATGCTAATGCTGCAGA+TGG | 0.654669 | 8_4:+40945376 | Msa1326450:CDS |
| AATGCTAATGCTGCAGATGG+TGG | 0.664064 | 8_4:+40945379 | Msa1326450:CDS |
| GCTGCAGATGGTGGTAACAG+TGG | 0.701228 | 8_4:+40945388 | Msa1326450:CDS |
| GGATTGTAACTGGACTGAAG+GGG | 0.704803 | 8_4:-40945487 | None:intergenic |
| TGAACACAAATCCAGCACCA+TGG | 0.705786 | 8_4:-40945411 | None:intergenic |
| CAGGGTGAAGAGGAACACGA+CGG | 0.776987 | 8_4:+40945649 | Msa1326450:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAAAAATAATCCAAACTTTC+AGG | + | chr8_4:40945730-40945749 | Msa1326450:CDS | 20.0% |
| !!! | CAATTGAAATTTTAAGAACT+GGG | - | chr8_4:40945770-40945789 | None:intergenic | 20.0% |
| !!! | TCAATTGAAATTTTAAGAAC+TGG | - | chr8_4:40945771-40945790 | None:intergenic | 20.0% |
| !!! | GATTGATTTTAAGCTACAAT+TGG | + | chr8_4:40945917-40945936 | Msa1326450:intron | 25.0% |
| ! | ATGTTTCAACTTCAATTCAA+TGG | + | chr8_4:40945977-40945996 | Msa1326450:intron | 25.0% |
| TTTATCAGTGTTCCAATCAA+TGG | - | chr8_4:40945714-40945733 | None:intergenic | 30.0% | |
| !!! | TTTTAAGAACTGGGTATTGA+AGG | - | chr8_4:40945761-40945780 | None:intergenic | 30.0% |
| CTTATAGTTATATACCGTGT+GGG | + | chr8_4:40946000-40946019 | Msa1326450:intron | 30.0% | |
| !!! | ATGGTCAGTTTTTTACTCAG+AGG | + | chr8_4:40945461-40945480 | Msa1326450:CDS | 35.0% |
| !!! | TGGTCAGTTTTTTACTCAGA+GGG | + | chr8_4:40945462-40945481 | Msa1326450:CDS | 35.0% |
| !!! | TGTGTTTTGACTGTTCTTTC+AGG | + | chr8_4:40945833-40945852 | Msa1326450:intron | 35.0% |
| !!! | ACGTTGCAGATAGTCTTTTT+TGG | + | chr8_4:40945866-40945885 | Msa1326450:intron | 35.0% |
| !!! | CGTTGCAGATAGTCTTTTTT+GGG | + | chr8_4:40945867-40945886 | Msa1326450:intron | 35.0% |
| ATTGGAATTCAAAAGCAACC+TGG | + | chr8_4:40945935-40945954 | Msa1326450:intron | 35.0% | |
| TTGGAATTCAAAAGCAACCT+GGG | + | chr8_4:40945936-40945955 | Msa1326450:intron | 35.0% | |
| GCTTATAGTTATATACCGTG+TGG | + | chr8_4:40945999-40946018 | Msa1326450:intron | 35.0% | |
| ! | AGATTTTCTTCATTCCCACA+CGG | - | chr8_4:40946017-40946036 | None:intergenic | 35.0% |
| GTTAATGCTAATGCTGCAGA+TGG | + | chr8_4:40945376-40945395 | Msa1326450:CDS | 40.0% | |
| TGGATTTGTGTTCAGTACAC+CGG | + | chr8_4:40945420-40945439 | Msa1326450:CDS | 40.0% | |
| !!! | GGTCAGTTTTTTACTCAGAG+GGG | + | chr8_4:40945463-40945482 | Msa1326450:CDS | 40.0% |
| AGGATTGTAACTGGACTGAA+GGG | - | chr8_4:40945491-40945510 | None:intergenic | 40.0% | |
| AAGGATTGTAACTGGACTGA+AGG | - | chr8_4:40945492-40945511 | None:intergenic | 40.0% | |
| ACGAACTGAAGGATTGTAAC+TGG | - | chr8_4:40945500-40945519 | None:intergenic | 40.0% | |
| TGCTTGGATAGATCCTTCAA+TGG | + | chr8_4:40945519-40945538 | Msa1326450:CDS | 40.0% | |
| TTGGCGAAAGATAGTGATGA+TGG | - | chr8_4:40945567-40945586 | None:intergenic | 40.0% | |
| GAAGGTAGAACCTGAAAGTT+TGG | - | chr8_4:40945743-40945762 | None:intergenic | 40.0% | |
| !! | TTGACTGTTCTTTCAGGTTC+AGG | + | chr8_4:40945839-40945858 | Msa1326450:intron | 40.0% |
| !! | TGACTGTTCTTTCAGGTTCA+GGG | + | chr8_4:40945840-40945859 | Msa1326450:intron | 40.0% |
| !!! | CTTTTTTGGGAGAGAGCTTT+TGG | + | chr8_4:40945880-40945899 | Msa1326450:intron | 40.0% |
| AATTCAAAAGCAACCTGGGT+GGG | + | chr8_4:40945940-40945959 | Msa1326450:intron | 40.0% | |
| GTGTGGGAATGAAGAAAATC+TGG | + | chr8_4:40946016-40946035 | Msa1326450:intron | 40.0% | |
| AATGCTAATGCTGCAGATGG+TGG | + | chr8_4:40945379-40945398 | Msa1326450:CDS | 45.0% | |
| TGAACACAAATCCAGCACCA+TGG | - | chr8_4:40945414-40945433 | None:intergenic | 45.0% | |
| GGATTGTAACTGGACTGAAG+GGG | - | chr8_4:40945490-40945509 | None:intergenic | 45.0% | |
| ACAATCCTTCAGTTCGTGCT+TGG | + | chr8_4:40945503-40945522 | Msa1326450:CDS | 45.0% | |
| TCTATCCAAGCACGAACTGA+AGG | - | chr8_4:40945511-40945530 | None:intergenic | 45.0% | |
| GATAGATCCTTCAATGGCGA+CGG | + | chr8_4:40945525-40945544 | Msa1326450:CDS | 45.0% | |
| TCTTTCGCCAATGATCCATC+AGG | + | chr8_4:40945576-40945595 | Msa1326450:CDS | 45.0% | |
| ! | ACAGAAGCCTGATGGATCAT+TGG | - | chr8_4:40945586-40945605 | None:intergenic | 45.0% |
| TCGTATACCAGCACGAATTC+AGG | + | chr8_4:40945630-40945649 | Msa1326450:CDS | 45.0% | |
| CGTATACCAGCACGAATTCA+GGG | + | chr8_4:40945631-40945650 | Msa1326450:CDS | 45.0% | |
| TTCCAATCAATGGCGAGAGT+CGG | - | chr8_4:40945704-40945723 | None:intergenic | 45.0% | |
| GAATTCAAAAGCAACCTGGG+TGG | + | chr8_4:40945939-40945958 | Msa1326450:intron | 45.0% | |
| TGAAAAATCCAAACCCACCC+AGG | - | chr8_4:40945956-40945975 | None:intergenic | 45.0% | |
| ATATTCGCCGTCGCCATTGA+AGG | - | chr8_4:40945535-40945554 | None:intergenic | 50.0% | |
| ATCCATCAGGCTTCTGTCTC+TGG | + | chr8_4:40945589-40945608 | Msa1326450:intron | 50.0% | |
| TCTTCACCCTGAATTCGTGC+TGG | - | chr8_4:40945640-40945659 | None:intergenic | 50.0% | |
| AGCACGAATTCAGGGTGAAG+AGG | + | chr8_4:40945639-40945658 | Msa1326450:CDS | 50.0% | |
| GGAAGCAGAGGACGGTTTAT+CGG | - | chr8_4:40945680-40945699 | None:intergenic | 50.0% | |
| ! | AAAAGCAACCTGGGTGGGTT+TGG | + | chr8_4:40945945-40945964 | Msa1326450:intron | 50.0% |
| ! | GCTGCAGATGGTGGTAACAG+TGG | + | chr8_4:40945388-40945407 | Msa1326450:CDS | 55.0% |
| ! | GATGGTGGTAACAGTGGCCA+TGG | + | chr8_4:40945394-40945413 | Msa1326450:CDS | 55.0% |
| TGTGTTCAGTACACCGGCAC+CGG | + | chr8_4:40945426-40945445 | Msa1326450:CDS | 55.0% | |
| TGACCATAACCGCCAAACGC+CGG | - | chr8_4:40945448-40945467 | None:intergenic | 55.0% | |
| CACCAGAGACAGAAGCCTGA+TGG | - | chr8_4:40945594-40945613 | None:intergenic | 55.0% | |
| CATCAGGCTTCTGTCTCTGG+TGG | + | chr8_4:40945592-40945611 | Msa1326450:intron | 55.0% | |
| !! | GTCTCTGGTGGTGGATTCTC+AGG | + | chr8_4:40945604-40945623 | Msa1326450:intron | 55.0% |
| CAGGGTGAAGAGGAACACGA+CGG | + | chr8_4:40945649-40945668 | Msa1326450:CDS | 55.0% | |
| CAATCAATGGCGAGAGTCGG+AGG | - | chr8_4:40945701-40945720 | None:intergenic | 55.0% | |
| CTCCGACTCTCGCCATTGAT+TGG | + | chr8_4:40945699-40945718 | Msa1326450:CDS | 55.0% | |
| GGTAACAGTGGCCATGGTGC+TGG | + | chr8_4:40945400-40945419 | Msa1326450:CDS | 60.0% | |
| CAGGCTTCTGTCTCTGGTGG+TGG | + | chr8_4:40945595-40945614 | Msa1326450:intron | 60.0% | |
| GAGTCGGAGGAAGCAGAGGA+CGG | - | chr8_4:40945688-40945707 | None:intergenic | 60.0% | |
| !! | AGTACACCGGCACCGGCGTT+TGG | + | chr8_4:40945433-40945452 | Msa1326450:CDS | 65.0% |
| TAACCGCCAAACGCCGGTGC+CGG | - | chr8_4:40945442-40945461 | None:intergenic | 65.0% | |
| ! | GCACCGGCGTTTGGCGGTTA+TGG | + | chr8_4:40945442-40945461 | Msa1326450:CDS | 65.0% |
| GCGAGAGTCGGAGGAAGCAG+AGG | - | chr8_4:40945692-40945711 | None:intergenic | 65.0% | |
| !! | ACACCGGCACCGGCGTTTGG+CGG | + | chr8_4:40945436-40945455 | Msa1326450:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_4 | gene | 40945355 | 40946076 | 40945355 | ID=Msa1326450;Name=Msa1326450 |
| chr8_4 | mRNA | 40945355 | 40946076 | 40945355 | ID=Msa1326450-mRNA-1;Parent=Msa1326450;Name=Msa1326450-mRNA-1;_AED=0.43;_eAED=0.43;_QI=0|0.33|0|1|0|0|4|0|129 |
| chr8_4 | exon | 40945355 | 40945603 | 40945355 | ID=Msa1326450-mRNA-1:exon:12057;Parent=Msa1326450-mRNA-1 |
| chr8_4 | exon | 40945626 | 40945751 | 40945626 | ID=Msa1326450-mRNA-1:exon:12058;Parent=Msa1326450-mRNA-1 |
| chr8_4 | exon | 40945855 | 40945861 | 40945855 | ID=Msa1326450-mRNA-1:exon:12059;Parent=Msa1326450-mRNA-1 |
| chr8_4 | exon | 40946072 | 40946076 | 40946072 | ID=Msa1326450-mRNA-1:exon:12060;Parent=Msa1326450-mRNA-1 |
| chr8_4 | CDS | 40945355 | 40945603 | 40945355 | ID=Msa1326450-mRNA-1:cds;Parent=Msa1326450-mRNA-1 |
| chr8_4 | CDS | 40945626 | 40945751 | 40945626 | ID=Msa1326450-mRNA-1:cds;Parent=Msa1326450-mRNA-1 |
| chr8_4 | CDS | 40945855 | 40945861 | 40945855 | ID=Msa1326450-mRNA-1:cds;Parent=Msa1326450-mRNA-1 |
| chr8_4 | CDS | 40946072 | 40946076 | 40946072 | ID=Msa1326450-mRNA-1:cds;Parent=Msa1326450-mRNA-1 |
| Gene Sequence |
| Protein sequence |
