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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1301960 | XP_024642367.1 | 76.056 | 71 | 17 | 0 | 1 | 71 | 123 | 193 | 2.61e-31 | 119 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1301960 | A0A072UJT5 | 71.831 | 71 | 19 | 1 | 1 | 71 | 62 | 131 | 2.59e-27 | 106 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1216070 | Msa1301960 | 0.823107 | 1.654924e-53 | -8.615850e-47 |
| Msa0916390 | Msa1301960 | 0.845713 | 3.419535e-59 | -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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 18 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTGTAATGAATTAAGATATT+TGG | 0.189007 | 8_3:+64245975 | Msa1301960:three_prime_UTR |
| TTCCACTTCATCTGGAATAT+TGG | 0.224732 | 8_3:-64245515 | None:intergenic |
| GAATTAAGATATTTGGCTAT+TGG | 0.308390 | 8_3:+64245982 | Msa1301960:three_prime_UTR |
| GATGATTTGCAAAACTTCAT+TGG | 0.315605 | 8_3:+64245490 | Msa1301960:CDS |
| GAGAGTTTATATTTCTCATT+TGG | 0.346364 | 8_3:+64245925 | Msa1301960:three_prime_UTR |
| GGAAGGATTTCCACTTCATC+TGG | 0.370932 | 8_3:-64245523 | None:intergenic |
| ATGGGAGTTCTAAGCAAAAC+AGG | 0.442206 | 8_3:+64245464 | Msa1301960:CDS |
| CTTGAAAGTAACATGGAAGA+TGG | 0.491264 | 8_3:+64245858 | Msa1301960:three_prime_UTR |
| ATCCAATATTCCAGATGAAG+TGG | 0.548791 | 8_3:+64245513 | Msa1301960:CDS |
| TATGCAAATACTAAAGGTAG+TGG | 0.550500 | 8_3:+64245553 | Msa1301960:CDS |
| TATTTGCATACTGTGGTGGA+AGG | 0.554728 | 8_3:-64245540 | None:intergenic |
| CCACAGTATGCAAATACTAA+AGG | 0.557310 | 8_3:+64245547 | Msa1301960:CDS |
| AATCAAAAGTGGCAAAGAGA+AGG | 0.585280 | 8_3:+64245582 | Msa1301960:CDS |
| TTAGTATTTGCATACTGTGG+TGG | 0.594473 | 8_3:-64245544 | None:intergenic |
| AGTGGTAAAAGAATCAAAAG+TGG | 0.595935 | 8_3:+64245571 | Msa1301960:CDS |
| CCTTTAGTATTTGCATACTG+TGG | 0.599993 | 8_3:-64245547 | None:intergenic |
| ACGAGACTGTGCAAGGCTTG+CGG | 0.628515 | 8_3:+64245628 | Msa1301960:CDS |
| TGAATGACTTGAAAGTAACA+TGG | 0.656385 | 8_3:+64245851 | Msa1301960:exon |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AGTTTTTTTTTTTTTGTTGA+AGG | + | chr8_3:64245885-64245904 | Msa1301960:three_prime_UTR | 15.0% |
| !!! | AACATTGGAGATTATTTTTT+AGG | - | chr8_3:64245685-64245704 | None:intergenic | 20.0% |
| !!! | AAAAATAATCTCCAATGTTT+TGG | + | chr8_3:64245686-64245705 | Msa1301960:intron | 20.0% |
| !!! | TTTTTCAATTACCAAAACAT+TGG | - | chr8_3:64245700-64245719 | None:intergenic | 20.0% |
| !!! | AAAACTTTAGTTTATGTTTC+TGG | + | chr8_3:64245782-64245801 | Msa1301960:intron | 20.0% |
| !! | GTGTAATGAATTAAGATATT+TGG | + | chr8_3:64245975-64245994 | Msa1301960:three_prime_UTR | 20.0% |
| !!! | ATTATTTTTTAGGACAGTTG+TGG | - | chr8_3:64245675-64245694 | None:intergenic | 25.0% |
| !!! | TAGTTTATGTTTCTGGTTTT+AGG | + | chr8_3:64245789-64245808 | Msa1301960:intron | 25.0% |
| ! | GAGAGTTTATATTTCTCATT+TGG | + | chr8_3:64245925-64245944 | Msa1301960:three_prime_UTR | 25.0% |
| ! | GAATTAAGATATTTGGCTAT+TGG | + | chr8_3:64245982-64246001 | Msa1301960:three_prime_UTR | 25.0% |
| ! | AAACAGTTGGATGATTTTGA+TGG | + | chr8_3:64245445-64245464 | Msa1301960:CDS | 30.0% |
| !! | AACAGTTGGATGATTTTGAT+GGG | + | chr8_3:64245446-64245465 | Msa1301960:CDS | 30.0% |
| ! | GATGATTTGCAAAACTTCAT+TGG | + | chr8_3:64245490-64245509 | Msa1301960:CDS | 30.0% |
| TATGCAAATACTAAAGGTAG+TGG | + | chr8_3:64245553-64245572 | Msa1301960:CDS | 30.0% | |
| AGTGGTAAAAGAATCAAAAG+TGG | + | chr8_3:64245571-64245590 | Msa1301960:CDS | 30.0% | |
| !!! | TTTCTGGTTTTAGGTTTTGA+AGG | + | chr8_3:64245798-64245817 | Msa1301960:intron | 30.0% |
| TGAATGACTTGAAAGTAACA+TGG | + | chr8_3:64245851-64245870 | Msa1301960:exon | 30.0% | |
| !!! | GAAGGAAGAGCTATTTTTTA+TGG | + | chr8_3:64245903-64245922 | Msa1301960:three_prime_UTR | 30.0% |
| !!! | TCAGTGTACTTGTTTTGATT+TGG | + | chr8_3:64245953-64245972 | Msa1301960:three_prime_UTR | 30.0% |
| ATCCAATATTCCAGATGAAG+TGG | + | chr8_3:64245513-64245532 | Msa1301960:CDS | 35.0% | |
| ! | TTCCACTTCATCTGGAATAT+TGG | - | chr8_3:64245518-64245537 | None:intergenic | 35.0% |
| TTAGTATTTGCATACTGTGG+TGG | - | chr8_3:64245547-64245566 | None:intergenic | 35.0% | |
| CCTTTAGTATTTGCATACTG+TGG | - | chr8_3:64245550-64245569 | None:intergenic | 35.0% | |
| CCACAGTATGCAAATACTAA+AGG | + | chr8_3:64245547-64245566 | Msa1301960:CDS | 35.0% | |
| AATCAAAAGTGGCAAAGAGA+AGG | + | chr8_3:64245582-64245601 | Msa1301960:CDS | 35.0% | |
| CTTGAAAGTAACATGGAAGA+TGG | + | chr8_3:64245858-64245877 | Msa1301960:three_prime_UTR | 35.0% | |
| !! | ATGGGAGTTCTAAGCAAAAC+AGG | + | chr8_3:64245464-64245483 | Msa1301960:CDS | 40.0% |
| ! | TATTTGCATACTGTGGTGGA+AGG | - | chr8_3:64245543-64245562 | None:intergenic | 40.0% |
| GGAAGGATTTCCACTTCATC+TGG | - | chr8_3:64245526-64245545 | None:intergenic | 45.0% | |
| GAAAAAGACGAGACTGTGCA+AGG | + | chr8_3:64245621-64245640 | Msa1301960:CDS | 45.0% | |
| ACGAGACTGTGCAAGGCTTG+CGG | + | chr8_3:64245628-64245647 | Msa1301960:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 64245439 | 64246050 | 64245439 | ID=Msa1301960;Name=Msa1301960 |
| chr8_3 | mRNA | 64245439 | 64246050 | 64245439 | ID=Msa1301960-mRNA-1;Parent=Msa1301960;Name=Msa1301960-mRNA-1;_AED=0.20;_eAED=0.20;_QI=0|0|0.5|1|1|1|2|193|85 |
| chr8_3 | exon | 64245439 | 64245649 | 64245439 | ID=Msa1301960-mRNA-1:exon:19374;Parent=Msa1301960-mRNA-1 |
| chr8_3 | exon | 64245811 | 64246050 | 64245811 | ID=Msa1301960-mRNA-1:exon:19375;Parent=Msa1301960-mRNA-1 |
| chr8_3 | CDS | 64245439 | 64245649 | 64245439 | ID=Msa1301960-mRNA-1:cds;Parent=Msa1301960-mRNA-1 |
| chr8_3 | CDS | 64245811 | 64245857 | 64245811 | ID=Msa1301960-mRNA-1:cds;Parent=Msa1301960-mRNA-1 |
| chr8_3 | three_prime_UTR | 64245858 | 64246050 | 64245858 | ID=Msa1301960-mRNA-1:three_prime_utr;Parent=Msa1301960-mRNA-1 |
| Gene Sequence |
| Protein sequence |
