Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29944.t1 | XP_003598034.1 | 95.3 | 150 | 7 | 0 | 1 | 150 | 1 | 150 | 2.30E-74 | 288.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29944.t1 | P56331 | 80.8 | 151 | 22 | 3 | 1 | 150 | 1 | 145 | 2.4e-59 | 229.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29944.t1 | G7IYF3 | 95.3 | 150 | 7 | 0 | 1 | 150 | 1 | 150 | 1.7e-74 | 288.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene057208 | MS.gene29944 | 0.800332 | 1.51E-48 | -1.69E-46 |
| MS.gene058769 | MS.gene29944 | 0.887772 | 1.06E-72 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29944.t1 | MTR_3g005520 | 95.333 | 150 | 7 | 0 | 1 | 150 | 1 | 150 | 5.66e-90 | 258 |
| MS.gene29944.t1 | MTR_8g028180 | 84.000 | 150 | 20 | 1 | 1 | 150 | 1 | 146 | 1.75e-74 | 219 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29944.t1 | AT2G04520 | 82.000 | 150 | 22 | 2 | 1 | 150 | 1 | 145 | 3.55e-77 | 226 |
| MS.gene29944.t1 | AT5G35680 | 80.000 | 150 | 25 | 2 | 1 | 150 | 1 | 145 | 2.75e-71 | 211 |
| MS.gene29944.t1 | AT5G35680 | 80.000 | 150 | 25 | 2 | 1 | 150 | 1 | 145 | 2.75e-71 | 211 |
| MS.gene29944.t1 | AT5G35680 | 86.179 | 123 | 13 | 1 | 1 | 123 | 1 | 119 | 1.58e-69 | 207 |
Find 35 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTTGGATTACGTGATTATC+AGG | 0.304283 | 3.4:+1186455 | MS.gene29944:CDS |
| ACGAGCTTCCGGAATCTATT+AGG | 0.305997 | 3.4:+1186541 | MS.gene29944:CDS |
| AACGGAGATATCATTCTTGT+TGG | 0.394753 | 3.4:+1186438 | MS.gene29944:CDS |
| GAAGGCTTATGACGAGCTTC+CGG | 0.397993 | 3.4:+1186530 | MS.gene29944:CDS |
| TTGAGGATGAGGATATTGAT+AGG | 0.400368 | 3.4:+1186634 | MS.gene29944:CDS |
| GTAAGATGCATAAGAAGGTT+TGG | 0.408295 | 3.4:+1186409 | MS.gene29944:CDS |
| TTCAACAATCTTGCCTCATC+CGG | 0.420919 | 3.4:-1186510 | None:intergenic |
| AGGCTTAATGAAGGGATTGC+TGG | 0.437830 | 3.4:+1186561 | MS.gene29944:CDS |
| GCGTCCGTTTCCGAGCATAT+TGG | 0.444772 | 3.4:-1186325 | None:intergenic |
| TCATTAAGCCTAATAGATTC+CGG | 0.444954 | 3.4:-1186549 | None:intergenic |
| ATGCCGAAGAACAAGGGAAA+AGG | 0.492369 | 3.4:+1186210 | MS.gene29944:CDS |
| GCTCGGAAACGGACGCTTGG+AGG | 0.497540 | 3.4:+1186332 | MS.gene29944:CDS |
| GGATGAGGCAAGATTGTTGA+AGG | 0.502559 | 3.4:+1186512 | MS.gene29944:CDS |
| TGAAGGGATTGCTGGTGGGA+TGG | 0.507121 | 3.4:+1186569 | MS.gene29944:CDS |
| ACGTGATTATCAGGATGATA+AGG | 0.510200 | 3.4:+1186464 | MS.gene29944:CDS |
| TATGCTCGGAAACGGACGCT+TGG | 0.513890 | 3.4:+1186329 | MS.gene29944:CDS |
| GAATCTATTAGGCTTAATGA+AGG | 0.530788 | 3.4:+1186552 | MS.gene29944:CDS |
| ATTGAAATATATGCCGGATG+AGG | 0.546058 | 3.4:+1186497 | MS.gene29944:CDS |
| ATCAACCATGCCGAAGAACA+AGG | 0.554015 | 3.4:+1186203 | None:intergenic |
| GTAACCAATATGCTCGGAAA+CGG | 0.559215 | 3.4:+1186321 | MS.gene29944:CDS |
| CCGCGGTAAGATGCATAAGA+AGG | 0.576217 | 3.4:+1186404 | MS.gene29944:CDS |
| AAGAAGGTTTGGATTGCTAA+CGG | 0.592201 | 3.4:+1186420 | MS.gene29944:CDS |
| CCGAAGAACAAGGGAAAAGG+AGG | 0.596700 | 3.4:+1186213 | MS.gene29944:CDS |
| CTTAATGAAGGGATTGCTGG+TGG | 0.602290 | 3.4:+1186564 | MS.gene29944:CDS |
| AATCTATTAGGCTTAATGAA+GGG | 0.608999 | 3.4:+1186553 | MS.gene29944:CDS |
| ATGGATGATCATGATGATGA+TGG | 0.612732 | 3.4:+1186588 | MS.gene29944:CDS |
| TGTCATATTGAAATATATGC+CGG | 0.619355 | 3.4:+1186491 | MS.gene29944:CDS |
| TCAACCATGCCGAAGAACAA+GGG | 0.623500 | 3.4:+1186204 | None:intergenic |
| GGAGGAAAGAATCGAAAGCG+AGG | 0.627611 | 3.4:+1186231 | MS.gene29944:CDS |
| CCTTCTTATGCATCTTACCG+CGG | 0.648150 | 3.4:-1186404 | None:intergenic |
| GAACTCATCTTCAAAGAAGA+CGG | 0.648957 | 3.4:+1186282 | MS.gene29944:CDS |
| GCACAGGTAACCAATATGCT+CGG | 0.649194 | 3.4:+1186315 | MS.gene29944:CDS |
| TTAATGAAGGGATTGCTGGT+GGG | 0.657015 | 3.4:+1186565 | MS.gene29944:CDS |
| AGACGGTCAAGAATACGCAC+AGG | 0.669279 | 3.4:+1186299 | MS.gene29944:CDS |
| AAACGTCTCTGTCATATCCG+CGG | 0.693679 | 3.4:+1186387 | MS.gene29944:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TAATGATTATGTTCATTTTG+AGG | + | chr3.4:1186617-1186636 | MS.gene29944:CDS | 20.0% |
| ! | AATCTATTAGGCTTAATGAA+GGG | + | chr3.4:1186553-1186572 | MS.gene29944:CDS | 25.0% |
| ! | TGTCATATTGAAATATATGC+CGG | + | chr3.4:1186491-1186510 | MS.gene29944:CDS | 25.0% |
| GAATCTATTAGGCTTAATGA+AGG | + | chr3.4:1186552-1186571 | MS.gene29944:CDS | 30.0% | |
| TCATTAAGCCTAATAGATTC+CGG | - | chr3.4:1186552-1186571 | None:intergenic | 30.0% | |
| !! | TTATGTTCATTTTGAGGATG+AGG | + | chr3.4:1186623-1186642 | MS.gene29944:CDS | 30.0% |
| AACGGAGATATCATTCTTGT+TGG | + | chr3.4:1186438-1186457 | MS.gene29944:CDS | 35.0% | |
| AAGAAGGTTTGGATTGCTAA+CGG | + | chr3.4:1186420-1186439 | MS.gene29944:CDS | 35.0% | |
| ACGTGATTATCAGGATGATA+AGG | + | chr3.4:1186464-1186483 | MS.gene29944:CDS | 35.0% | |
| ATTGAAATATATGCCGGATG+AGG | + | chr3.4:1186497-1186516 | MS.gene29944:CDS | 35.0% | |
| GAACTCATCTTCAAAGAAGA+CGG | + | chr3.4:1186282-1186301 | MS.gene29944:CDS | 35.0% | |
| GTAAGATGCATAAGAAGGTT+TGG | + | chr3.4:1186409-1186428 | MS.gene29944:CDS | 35.0% | |
| TGTTGGATTACGTGATTATC+AGG | + | chr3.4:1186455-1186474 | MS.gene29944:CDS | 35.0% | |
| TTGAGGATGAGGATATTGAT+AGG | + | chr3.4:1186634-1186653 | MS.gene29944:CDS | 35.0% | |
| ! | ATGGATGATCATGATGATGA+TGG | + | chr3.4:1186588-1186607 | MS.gene29944:CDS | 35.0% |
| GTAACCAATATGCTCGGAAA+CGG | + | chr3.4:1186321-1186340 | MS.gene29944:CDS | 40.0% | |
| TTAATGAAGGGATTGCTGGT+GGG | + | chr3.4:1186565-1186584 | MS.gene29944:CDS | 40.0% | |
| TTCAACAATCTTGCCTCATC+CGG | - | chr3.4:1186513-1186532 | None:intergenic | 40.0% | |
| AAACGTCTCTGTCATATCCG+CGG | + | chr3.4:1186387-1186406 | MS.gene29944:CDS | 45.0% | |
| ACGAGCTTCCGGAATCTATT+AGG | + | chr3.4:1186541-1186560 | MS.gene29944:CDS | 45.0% | |
| AGGCTTAATGAAGGGATTGC+TGG | + | chr3.4:1186561-1186580 | MS.gene29944:CDS | 45.0% | |
| ATGCCGAAGAACAAGGGAAA+AGG | + | chr3.4:1186210-1186229 | MS.gene29944:CDS | 45.0% | |
| CCTTCTTATGCATCTTACCG+CGG | - | chr3.4:1186407-1186426 | None:intergenic | 45.0% | |
| CTTAATGAAGGGATTGCTGG+TGG | + | chr3.4:1186564-1186583 | MS.gene29944:CDS | 45.0% | |
| GCACAGGTAACCAATATGCT+CGG | + | chr3.4:1186315-1186334 | MS.gene29944:CDS | 45.0% | |
| GGATGAGGCAAGATTGTTGA+AGG | + | chr3.4:1186512-1186531 | MS.gene29944:CDS | 45.0% | |
| ! | CCTCCTTTTCCCTTGTTCTT+CGG | - | chr3.4:1186216-1186235 | None:intergenic | 45.0% |
| AGACGGTCAAGAATACGCAC+AGG | + | chr3.4:1186299-1186318 | MS.gene29944:CDS | 50.0% | |
| CCGAAGAACAAGGGAAAAGG+AGG | + | chr3.4:1186213-1186232 | MS.gene29944:CDS | 50.0% | |
| CCGCGGTAAGATGCATAAGA+AGG | + | chr3.4:1186404-1186423 | MS.gene29944:CDS | 50.0% | |
| GAAGGCTTATGACGAGCTTC+CGG | + | chr3.4:1186530-1186549 | MS.gene29944:CDS | 50.0% | |
| GGAGGAAAGAATCGAAAGCG+AGG | + | chr3.4:1186231-1186250 | MS.gene29944:CDS | 50.0% | |
| GCGTCCGTTTCCGAGCATAT+TGG | - | chr3.4:1186328-1186347 | None:intergenic | 55.0% | |
| TATGCTCGGAAACGGACGCT+TGG | + | chr3.4:1186329-1186348 | MS.gene29944:CDS | 55.0% | |
| TGAAGGGATTGCTGGTGGGA+TGG | + | chr3.4:1186569-1186588 | MS.gene29944:CDS | 55.0% | |
| GCTCGGAAACGGACGCTTGG+AGG | + | chr3.4:1186332-1186351 | MS.gene29944:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 1186210 | 1186662 | 1186210 | ID=MS.gene29944 |
| chr3.4 | mRNA | 1186210 | 1186662 | 1186210 | ID=MS.gene29944.t1;Parent=MS.gene29944 |
| chr3.4 | exon | 1186210 | 1186662 | 1186210 | ID=MS.gene29944.t1.exon1;Parent=MS.gene29944.t1 |
| chr3.4 | CDS | 1186210 | 1186662 | 1186210 | ID=cds.MS.gene29944.t1;Parent=MS.gene29944.t1 |
| Gene Sequence |
| Protein sequence |
