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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0922290 | XP_039690980.1 | 93.548 | 93 | 6 | 0 | 2 | 94 | 126 | 218 | 2.43e-55 | 182 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0922290 | sp|Q6NUH2|NAA40_XENLA | 46.053 | 76 | 41 | 0 | 19 | 94 | 116 | 191 | 8.16e-15 | 69.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|---|---|
| Msa0922290 | TR | GNAT |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0922290 | MtrunA17_Chr6g0479551 | 93.548 | 93 | 6 | 0 | 2 | 94 | 129 | 221 | 2.55e-59 | 182 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0922290 | AT1G18335.1 | 69.231 | 78 | 24 | 0 | 16 | 93 | 147 | 224 | 3.16e-32 | 113 |
| Msa0922290 | AT1G18335.3 | 69.231 | 78 | 24 | 0 | 16 | 93 | 147 | 224 | 4.16e-32 | 113 |
| Msa0922290 | AT1G18335.2 | 69.231 | 78 | 24 | 0 | 16 | 93 | 147 | 224 | 4.16e-32 | 113 |
Find 28 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAAATACAATTAAATTAATA+AGG | 0.213531 | 6_2:-60499630 | None:intergenic |
| AGGCTTATACAAAAGCAGTT+AGG | 0.363730 | 6_2:-60499610 | None:intergenic |
| TGTACATTACCGCTTTGTTT+TGG | 0.388601 | 6_2:+60499050 | Msa0922290:CDS |
| CGTGTCCAGGGGAAAGGATT+GGG | 0.426522 | 6_2:+60499120 | Msa0922290:CDS |
| ACAGCTCGAGCCTCGTGTCC+AGG | 0.444598 | 6_2:+60499107 | Msa0922290:CDS |
| TCTTCTTGACGACTAGTTGA+AGG | 0.460099 | 6_2:-60499006 | None:intergenic |
| GCTTTCCCAATCCTTTCCCC+TGG | 0.468580 | 6_2:-60499125 | None:intergenic |
| GGCTTATACAAAAGCAGTTA+GGG | 0.471986 | 6_2:-60499609 | None:intergenic |
| AGGATTGGGAAAGCTTCTAA+TGG | 0.474839 | 6_2:+60499134 | Msa0922290:CDS |
| CTGTCGTGCTAACTGTTCAA+AGG | 0.475803 | 6_2:+60499444 | Msa0922290:CDS |
| CATGTCAAGTTTGATATGAA+TGG | 0.490055 | 6_2:+60499564 | Msa0922290:three_prime_UTR |
| CAGCTCGAGCCTCGTGTCCA+GGG | 0.491833 | 6_2:+60499108 | Msa0922290:CDS |
| GAAGATAGTGGTCCCTTGGT+TGG | 0.492453 | 6_2:+60499024 | Msa0922290:CDS |
| TATTGAGCTTATCGCCCAAA+AGG | 0.500241 | 6_2:+60499161 | Msa0922290:CDS |
| TCGTGTCCAGGGGAAAGGAT+TGG | 0.525244 | 6_2:+60499119 | Msa0922290:CDS |
| GAGCCTCGTGTCCAGGGGAA+AGG | 0.535185 | 6_2:+60499114 | Msa0922290:CDS |
| TCAAGTTTGATATGAATGGA+AGG | 0.552556 | 6_2:+60499568 | Msa0922290:three_prime_UTR |
| TCAAGAAGATAGTGGTCCCT+TGG | 0.557490 | 6_2:+60499020 | Msa0922290:CDS |
| AGTTCATACACATAAAGTAC+TGG | 0.583472 | 6_2:-60499084 | None:intergenic |
| TGTCGTGCTAACTGTTCAAA+GGG | 0.585683 | 6_2:+60499445 | Msa0922290:CDS |
| ACTAGTCGTCAAGAAGATAG+TGG | 0.589965 | 6_2:+60499012 | Msa0922290:CDS |
| CAAGTTTGATATGAATGGAA+GGG | 0.593426 | 6_2:+60499569 | Msa0922290:three_prime_UTR |
| AATCCTTTCCCCTGGACACG+AGG | 0.597062 | 6_2:-60499117 | None:intergenic |
| AGCTCGAGCCTCGTGTCCAG+GGG | 0.623716 | 6_2:+60499109 | Msa0922290:CDS |
| TAATGTACAAATCCAACCAA+GGG | 0.669573 | 6_2:-60499036 | None:intergenic |
| GTAATGTACAAATCCAACCA+AGG | 0.669580 | 6_2:-60499037 | None:intergenic |
| GATGACAACAGTGTTGACTG+AGG | 0.683653 | 6_2:+60498978 | None:intergenic |
| CCTCTTCTTCCAAAACAAAG+CGG | 0.723548 | 6_2:-60499059 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GAAATACAATTAAATTAATA+AGG | - | chr6_2:60499633-60499652 | None:intergenic | 10.0% |
| !!! | CAATTTATTGATTTTTTTAC+AGG | + | chr6_2:60499350-60499369 | Msa0922290:intron | 15.0% |
| !! | TATCAAAGATCATATTAGAT+GGG | - | chr6_2:60499390-60499409 | None:intergenic | 20.0% |
| !! | ATATCAAAGATCATATTAGA+TGG | - | chr6_2:60499391-60499410 | None:intergenic | 20.0% |
| !!! | ATTTTTACACTAGTAAACTA+AGG | + | chr6_2:60499486-60499505 | Msa0922290:CDS | 20.0% |
| !! | AGAGATAAAAAATTCAATGA+TGG | - | chr6_2:60499533-60499552 | None:intergenic | 20.0% |
| !! | AAAACAATTAAGCACCTTTT+GGG | - | chr6_2:60499178-60499197 | None:intergenic | 25.0% |
| !! | AAAAACAATTAAGCACCTTT+TGG | - | chr6_2:60499179-60499198 | None:intergenic | 25.0% |
| ! | AGAGAATTATTATGTTGCAA+AGG | + | chr6_2:60499228-60499247 | Msa0922290:intron | 25.0% |
| !!! | ATATTTTCTGGAATGCATTA+AGG | - | chr6_2:60499658-60499677 | None:intergenic | 25.0% |
| !! | AAAAGCAGAGAAATATTTTC+TGG | - | chr6_2:60499670-60499689 | None:intergenic | 25.0% |
| TAATGTACAAATCCAACCAA+GGG | - | chr6_2:60499039-60499058 | None:intergenic | 30.0% | |
| AGTTCATACACATAAAGTAC+TGG | - | chr6_2:60499087-60499106 | None:intergenic | 30.0% | |
| !!! | ACTTTTCTTTTAGAACTGCA+TGG | + | chr6_2:60499418-60499437 | Msa0922290:intron | 30.0% |
| !!! | CTTTTCTTTTAGAACTGCAT+GGG | + | chr6_2:60499419-60499438 | Msa0922290:intron | 30.0% |
| CATGTCAAGTTTGATATGAA+TGG | + | chr6_2:60499564-60499583 | Msa0922290:three_prime_UTR | 30.0% | |
| TCAAGTTTGATATGAATGGA+AGG | + | chr6_2:60499568-60499587 | Msa0922290:three_prime_UTR | 30.0% | |
| CAAGTTTGATATGAATGGAA+GGG | + | chr6_2:60499569-60499588 | Msa0922290:three_prime_UTR | 30.0% | |
| GTAATGTACAAATCCAACCA+AGG | - | chr6_2:60499040-60499059 | None:intergenic | 35.0% | |
| !!! | TGTACATTACCGCTTTGTTT+TGG | + | chr6_2:60499050-60499069 | Msa0922290:CDS | 35.0% |
| GGCTTATACAAAAGCAGTTA+GGG | - | chr6_2:60499612-60499631 | None:intergenic | 35.0% | |
| AGGCTTATACAAAAGCAGTT+AGG | - | chr6_2:60499613-60499632 | None:intergenic | 35.0% | |
| !! | ATATTTCTCTGCTTTTGAGC+AGG | + | chr6_2:60499674-60499693 | Msa0922290:three_prime_UTR | 35.0% |
| ! | TCTTCTTGACGACTAGTTGA+AGG | - | chr6_2:60499009-60499028 | None:intergenic | 40.0% |
| ACTAGTCGTCAAGAAGATAG+TGG | + | chr6_2:60499012-60499031 | Msa0922290:CDS | 40.0% | |
| CCTCTTCTTCCAAAACAAAG+CGG | - | chr6_2:60499062-60499081 | None:intergenic | 40.0% | |
| AGGATTGGGAAAGCTTCTAA+TGG | + | chr6_2:60499134-60499153 | Msa0922290:CDS | 40.0% | |
| TATTGAGCTTATCGCCCAAA+AGG | + | chr6_2:60499161-60499180 | Msa0922290:CDS | 40.0% | |
| AAGGACGCAACTTATAGTCT+AGG | + | chr6_2:60499247-60499266 | Msa0922290:intron | 40.0% | |
| TGTCGTGCTAACTGTTCAAA+GGG | + | chr6_2:60499445-60499464 | Msa0922290:CDS | 40.0% | |
| ! | TCAAGAAGATAGTGGTCCCT+TGG | + | chr6_2:60499020-60499039 | Msa0922290:CDS | 45.0% |
| !!! | CCGCTTTGTTTTGGAAGAAG+AGG | + | chr6_2:60499059-60499078 | Msa0922290:CDS | 45.0% |
| CTGTCGTGCTAACTGTTCAA+AGG | + | chr6_2:60499444-60499463 | Msa0922290:CDS | 45.0% | |
| ! | GAAGATAGTGGTCCCTTGGT+TGG | + | chr6_2:60499024-60499043 | Msa0922290:CDS | 50.0% |
| AATCCTTTCCCCTGGACACG+AGG | - | chr6_2:60499120-60499139 | None:intergenic | 55.0% | |
| TCGTGTCCAGGGGAAAGGAT+TGG | + | chr6_2:60499119-60499138 | Msa0922290:CDS | 55.0% | |
| CGTGTCCAGGGGAAAGGATT+GGG | + | chr6_2:60499120-60499139 | Msa0922290:CDS | 55.0% | |
| GCTTTCCCAATCCTTTCCCC+TGG | - | chr6_2:60499128-60499147 | None:intergenic | 55.0% | |
| ACAGCTCGAGCCTCGTGTCC+AGG | + | chr6_2:60499107-60499126 | Msa0922290:CDS | 65.0% | |
| CAGCTCGAGCCTCGTGTCCA+GGG | + | chr6_2:60499108-60499127 | Msa0922290:CDS | 65.0% | |
| AGCTCGAGCCTCGTGTCCAG+GGG | + | chr6_2:60499109-60499128 | Msa0922290:CDS | 65.0% | |
| GAGCCTCGTGTCCAGGGGAA+AGG | + | chr6_2:60499114-60499133 | Msa0922290:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_2 | gene | 60498979 | 60499700 | 60498979 | ID=Msa0922290;Name=Msa0922290 |
| chr6_2 | mRNA | 60498979 | 60499700 | 60498979 | ID=Msa0922290-mRNA-1;Parent=Msa0922290;Name=Msa0922290-mRNA-1;_AED=0.10;_eAED=0.10;_QI=0|1|0.5|1|1|1|2|189|94 |
| chr6_2 | exon | 60498979 | 60499182 | 60498979 | ID=Msa0922290-mRNA-1:exon:9306;Parent=Msa0922290-mRNA-1 |
| chr6_2 | exon | 60499431 | 60499700 | 60499431 | ID=Msa0922290-mRNA-1:exon:9307;Parent=Msa0922290-mRNA-1 |
| chr6_2 | CDS | 60498979 | 60499182 | 60498979 | ID=Msa0922290-mRNA-1:cds;Parent=Msa0922290-mRNA-1 |
| chr6_2 | CDS | 60499431 | 60499511 | 60499431 | ID=Msa0922290-mRNA-1:cds;Parent=Msa0922290-mRNA-1 |
| chr6_2 | three_prime_UTR | 60499512 | 60499700 | 60499512 | ID=Msa0922290-mRNA-1:three_prime_utr;Parent=Msa0922290-mRNA-1 |
| Gene Sequence |
| Protein sequence |
