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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0723200 | PNX71283.1 | 88.312 | 77 | 8 | 1 | 3 | 78 | 1 | 77 | 1.45e-26 | 111 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0723200 | A0A2K3KYD4 | 88.312 | 77 | 8 | 1 | 3 | 78 | 1 | 77 | 6.95e-27 | 111 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0061340 | Msa0723200 | 0.816839 | 4.495622e-52 | -8.615850e-47 |
| Msa0619420 | Msa0723200 | 0.805426 | 1.342874e-49 | -8.615850e-47 |
| Msa0689760 | Msa0723200 | 0.811807 | 5.818715e-51 | -8.615850e-47 |
| Msa0716860 | Msa0723200 | 0.813064 | 3.092579e-51 | -8.615850e-47 |
| Msa0723200 | Msa0757800 | 0.824495 | 7.826524e-54 | -8.615850e-47 |
| Msa0723200 | Msa0861510 | 0.808340 | 3.250138e-50 | -8.615850e-47 |
| Msa0723200 | Msa0861530 | 0.801352 | 9.377913e-49 | -8.615850e-47 |
| Msa0723200 | Msa0861600 | 0.804069 | 2.578729e-49 | -8.615850e-47 |
| Msa0723200 | Msa1010070 | 0.817720 | 2.848677e-52 | -8.615850e-47 |
| Msa0723200 | Msa1137570 | 0.806323 | 8.698275e-50 | -8.615850e-47 |
| Msa0723200 | Msa1420250 | 0.811599 | 6.458082e-51 | -8.615850e-47 |
| Msa0133720 | Msa0723200 | 0.804812 | 1.805229e-49 | -8.615850e-47 |
| Msa0133820 | Msa0723200 | 0.810609 | 1.058902e-50 | -8.615850e-47 |
| Msa0144360 | Msa0723200 | 0.805109 | 1.564218e-49 | -8.615850e-47 |
| Msa0152400 | Msa0723200 | 0.809350 | 1.976069e-50 | -8.615850e-47 |
| Msa0387950 | Msa0723200 | 0.808573 | 2.897981e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0723200 | MtrunA17_Chr5g0414041 | 96.825 | 63 | 2 | 0 | 1 | 63 | 1 | 63 | 1.08e-27 | 103 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 29 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACCAAAATGGTCATGAAAA+TGG | 0.179263 | 5_1:-20801461 | Msa0723200:exon |
| TTTATGTCCACTTTCTTAAT+TGG | 0.199323 | 5_1:-20801552 | Msa0723200:five_prime_UTR |
| CTTGTTATTGTGTTTCTTTA+TGG | 0.212365 | 5_1:+20801503 | None:intergenic |
| AGGTGTAGAGTGGGAGATAA+TGG | 0.303368 | 5_1:+20801279 | None:intergenic |
| AAGAAAGTGGACATAAAGTA+TGG | 0.324717 | 5_1:+20801558 | None:intergenic |
| GGAAGCTCAGATTCAGTAGA+AGG | 0.404741 | 5_1:+20801316 | None:intergenic |
| TAAAAGAAGGAGGTGTAGAG+TGG | 0.427411 | 5_1:+20801269 | None:intergenic |
| GGGAAAGTTGTGACTTGGTT+GGG | 0.427518 | 5_1:+20801601 | None:intergenic |
| ACCAAAATGGTCATGAAAAT+GGG | 0.432239 | 5_1:-20801460 | Msa0723200:exon |
| GAGTGGAATTGATCTTTGAA+TGG | 0.450724 | 5_1:+20801427 | None:intergenic |
| AGATTCAGTAGAAGGAAGAA+AGG | 0.471233 | 5_1:+20801324 | None:intergenic |
| GTAAGCAAAAGCAACCAAAA+TGG | 0.471309 | 5_1:-20801473 | Msa0723200:exon |
| TAGAAGGAAGAAAGGGAAGA+GGG | 0.484026 | 5_1:+20801332 | None:intergenic |
| TGAAGAACCAATTAAGAAAG+TGG | 0.490693 | 5_1:+20801545 | None:intergenic |
| TATAAACTAAGAAGAGCAAT+GGG | 0.491035 | 5_1:+20801361 | None:intergenic |
| AAAAGAAGGAGGTGTAGAGT+GGG | 0.507492 | 5_1:+20801270 | None:intergenic |
| GATTCAGTAGAAGGAAGAAA+GGG | 0.509845 | 5_1:+20801325 | None:intergenic |
| CATAAACGTACCTGAAGGAG+GGG | 0.517380 | 5_1:+20801237 | None:intergenic |
| AGAAGAGCATAAAGAGTCCA+AGG | 0.521608 | 5_1:+20801385 | None:intergenic |
| GTAGAAGGAAGAAAGGGAAG+AGG | 0.526273 | 5_1:+20801331 | None:intergenic |
| AGGGAAAGTTGTGACTTGGT+TGG | 0.527804 | 5_1:+20801600 | None:intergenic |
| AGTGGAATTGATCTTTGAAT+GGG | 0.540788 | 5_1:+20801428 | None:intergenic |
| ATAATGGTAGTAGTTGAATG+AGG | 0.558338 | 5_1:+20801295 | None:intergenic |
| ATATAAACTAAGAAGAGCAA+TGG | 0.579490 | 5_1:+20801360 | None:intergenic |
| TGCATAAACGTACCTGAAGG+AGG | 0.585332 | 5_1:+20801235 | None:intergenic |
| TCAAAGGGAAAGTTGTGACT+TGG | 0.589684 | 5_1:+20801596 | None:intergenic |
| GGTGTAGAAGTAAAAGAAGG+AGG | 0.614256 | 5_1:+20801259 | None:intergenic |
| GCATAAACGTACCTGAAGGA+GGG | 0.633056 | 5_1:+20801236 | None:intergenic |
| ATAAACGTACCTGAAGGAGG+GGG | 0.706780 | 5_1:+20801238 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAAAATGATGTTTTTACAAA+TGG | - | chr5_1:20801538-20801557 | Msa0723200:five_prime_UTR | 15.0% |
| !!! | AAAATGATGTTTTTACAAAT+GGG | - | chr5_1:20801539-20801558 | Msa0723200:five_prime_UTR | 15.0% |
| !!! | AATTTTCTTTATTGTAGAGA+AGG | - | chr5_1:20801624-20801643 | Msa0723200:five_prime_UTR | 20.0% |
| !! | TTTTTGCAGTAATTGTCAAA+GGG | + | chr5_1:20801157-20801176 | None:intergenic | 25.0% |
| ! | TTTATGTCCACTTTCTTAAT+TGG | - | chr5_1:20801183-20801202 | Msa0723200:intron | 25.0% |
| !!! | CTTGTTATTGTGTTTCTTTA+TGG | + | chr5_1:20801235-20801254 | None:intergenic | 25.0% |
| ! | TATAAACTAAGAAGAGCAAT+GGG | + | chr5_1:20801377-20801396 | None:intergenic | 25.0% |
| ! | ATATAAACTAAGAAGAGCAA+TGG | + | chr5_1:20801378-20801397 | None:intergenic | 25.0% |
| ! | GTTTTTGCAGTAATTGTCAA+AGG | + | chr5_1:20801158-20801177 | None:intergenic | 30.0% |
| AAGAAAGTGGACATAAAGTA+TGG | + | chr5_1:20801180-20801199 | None:intergenic | 30.0% | |
| TGAAGAACCAATTAAGAAAG+TGG | + | chr5_1:20801193-20801212 | None:intergenic | 30.0% | |
| AACCAAAATGGTCATGAAAA+TGG | - | chr5_1:20801274-20801293 | Msa0723200:CDS | 30.0% | |
| ACCAAAATGGTCATGAAAAT+GGG | - | chr5_1:20801275-20801294 | Msa0723200:CDS | 30.0% | |
| AGTGGAATTGATCTTTGAAT+GGG | + | chr5_1:20801310-20801329 | None:intergenic | 30.0% | |
| !!! | AGGAAAAAGTTTTTTGGTGA+TGG | + | chr5_1:20801333-20801352 | None:intergenic | 30.0% |
| !! | TCACCAAAAAACTTTTTCCT+TGG | - | chr5_1:20801333-20801352 | Msa0723200:CDS | 30.0% |
| !!! | AGTCCAAGGAAAAAGTTTTT+TGG | + | chr5_1:20801339-20801358 | None:intergenic | 30.0% |
| ATAATGGTAGTAGTTGAATG+AGG | + | chr5_1:20801443-20801462 | None:intergenic | 30.0% | |
| GTAAGCAAAAGCAACCAAAA+TGG | - | chr5_1:20801262-20801281 | Msa0723200:CDS | 35.0% | |
| ! | ACCCATTTTCATGACCATTT+TGG | + | chr5_1:20801279-20801298 | None:intergenic | 35.0% |
| GAGTGGAATTGATCTTTGAA+TGG | + | chr5_1:20801311-20801330 | None:intergenic | 35.0% | |
| !!! | AAAGTTTTTTGGTGATGGAG+TGG | + | chr5_1:20801328-20801347 | None:intergenic | 35.0% |
| GATTCAGTAGAAGGAAGAAA+GGG | + | chr5_1:20801413-20801432 | None:intergenic | 35.0% | |
| AGATTCAGTAGAAGGAAGAA+AGG | + | chr5_1:20801414-20801433 | None:intergenic | 35.0% | |
| TCAAAGGGAAAGTTGTGACT+TGG | + | chr5_1:20801142-20801161 | None:intergenic | 40.0% | |
| !!! | GGTTGCTTTTGCTTACTTTG+TGG | + | chr5_1:20801258-20801277 | None:intergenic | 40.0% |
| ! | AGAAGAGCATAAAGAGTCCA+AGG | + | chr5_1:20801353-20801372 | None:intergenic | 40.0% |
| TAGAAGGAAGAAAGGGAAGA+GGG | + | chr5_1:20801406-20801425 | None:intergenic | 40.0% | |
| ! | AAAAGAAGGAGGTGTAGAGT+GGG | + | chr5_1:20801468-20801487 | None:intergenic | 40.0% |
| ! | TAAAAGAAGGAGGTGTAGAG+TGG | + | chr5_1:20801469-20801488 | None:intergenic | 40.0% |
| GGTGTAGAAGTAAAAGAAGG+AGG | + | chr5_1:20801479-20801498 | None:intergenic | 40.0% | |
| GTATGCATAAACGTACCTGA+AGG | + | chr5_1:20801506-20801525 | None:intergenic | 40.0% | |
| !! | GGGAAAGTTGTGACTTGGTT+GGG | + | chr5_1:20801137-20801156 | None:intergenic | 45.0% |
| !! | AGGGAAAGTTGTGACTTGGT+TGG | + | chr5_1:20801138-20801157 | None:intergenic | 45.0% |
| GTAGAAGGAAGAAAGGGAAG+AGG | + | chr5_1:20801407-20801426 | None:intergenic | 45.0% | |
| GGAAGCTCAGATTCAGTAGA+AGG | + | chr5_1:20801422-20801441 | None:intergenic | 45.0% | |
| AGGTGTAGAGTGGGAGATAA+TGG | + | chr5_1:20801459-20801478 | None:intergenic | 45.0% | |
| ! | GGGGGTGTAGAAGTAAAAGA+AGG | + | chr5_1:20801482-20801501 | None:intergenic | 45.0% |
| ATAAACGTACCTGAAGGAGG+GGG | + | chr5_1:20801500-20801519 | None:intergenic | 45.0% | |
| CATAAACGTACCTGAAGGAG+GGG | + | chr5_1:20801501-20801520 | None:intergenic | 45.0% | |
| GCATAAACGTACCTGAAGGA+GGG | + | chr5_1:20801502-20801521 | None:intergenic | 45.0% | |
| TGCATAAACGTACCTGAAGG+AGG | + | chr5_1:20801503-20801522 | None:intergenic | 45.0% | |
| ACTTCTACACCCCCTCCTTC+AGG | - | chr5_1:20801488-20801507 | Msa0723200:five_prime_UTR | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_1 | gene | 20801098 | 20801659 | 20801098 | ID=Msa0723200;Name=Msa0723200 |
| chr5_1 | mRNA | 20801098 | 20801659 | 20801098 | ID=Msa0723200-mRNA-1;Parent=Msa0723200;Name=Msa0723200-mRNA-1;_AED=0.46;_eAED=0.48;_QI=183|0|0.5|1|0|0.5|2|0|80 |
| chr5_1 | exon | 20801098 | 20801111 | 20801098 | ID=Msa0723200-mRNA-1:exon:7976;Parent=Msa0723200-mRNA-1 |
| chr5_1 | exon | 20801248 | 20801659 | 20801248 | ID=Msa0723200-mRNA-1:exon:7975;Parent=Msa0723200-mRNA-1 |
| chr5_1 | five_prime_UTR | 20801477 | 20801659 | 20801477 | ID=Msa0723200-mRNA-1:five_prime_utr;Parent=Msa0723200-mRNA-1 |
| chr5_1 | CDS | 20801248 | 20801476 | 20801248 | ID=Msa0723200-mRNA-1:cds;Parent=Msa0723200-mRNA-1 |
| chr5_1 | CDS | 20801098 | 20801111 | 20801098 | ID=Msa0723200-mRNA-1:cds;Parent=Msa0723200-mRNA-1 |
| Gene Sequence |
| Protein sequence |
