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.gene77550.t1 | XP_024633575.1 | 76.8 | 259 | 45 | 4 | 1 | 247 | 1 | 256 | 7.00E-84 | 320.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene77550.t1 | A0A396IXT0 | 73.5 | 257 | 20 | 4 | 1 | 244 | 1 | 222 | 7.9e-69 | 270.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene77550.t1 | TF | C2H2 |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene77550.t1 | MTR_3g084720 | 75.097 | 257 | 23 | 5 | 1 | 244 | 1 | 229 | 4.05e-100 | 291 |
| MS.gene77550.t1 | MTR_7g010470 | 55.000 | 80 | 35 | 1 | 169 | 247 | 1 | 80 | 5.50e-21 | 84.7 |
| MS.gene77550.t1 | MTR_6g055180 | 77.551 | 49 | 9 | 1 | 1 | 47 | 1 | 49 | 3.34e-16 | 72.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene77550.t1 | AT2G18490 | 58.462 | 65 | 27 | 0 | 128 | 192 | 147 | 211 | 9.20e-20 | 85.9 |
| MS.gene77550.t1 | AT2G18490 | 58.462 | 65 | 27 | 0 | 128 | 192 | 197 | 261 | 1.32e-19 | 86.3 |
| MS.gene77550.t1 | AT2G15740 | 53.247 | 77 | 32 | 1 | 125 | 201 | 219 | 291 | 5.58e-19 | 84.7 |
| MS.gene77550.t1 | AT5G22990 | 50.602 | 83 | 40 | 1 | 136 | 217 | 232 | 314 | 2.41e-18 | 83.2 |
| MS.gene77550.t1 | AT5G42640 | 51.471 | 68 | 29 | 1 | 129 | 192 | 218 | 285 | 7.07e-17 | 78.6 |
Find 29 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAGAGTCTTGAAGCACAATT+TGG | 0.219378 | 3.2:-72809440 | MS.gene77550:CDS |
| TCAGTTGGTACCAATAATTT+TGG | 0.290051 | 3.2:-72809494 | MS.gene77550:CDS |
| AGCATGACTACCAAAATTAT+TGG | 0.316188 | 3.2:+72809484 | None:intergenic |
| AGCCTACCACACAAGAAATA+TGG | 0.358104 | 3.2:-72809134 | MS.gene77550:CDS |
| TATTAATAATAATTATTTGA+AGG | 0.406891 | 3.2:+72808825 | None:intergenic |
| ACAATCATAGATTGGTTCAA+TGG | 0.452424 | 3.2:-72809550 | MS.gene77550:CDS |
| TTCTAGGATTCGAAAGAGAC+CGG | 0.465129 | 3.2:-72808997 | MS.gene77550:CDS |
| AGCAATGAAAATATTGATGA+TGG | 0.472887 | 3.2:-72809167 | MS.gene77550:CDS |
| CAATATGAACAATCATAGAT+TGG | 0.479701 | 3.2:-72809558 | None:intergenic |
| TTATCAGCACAAGCAATAAG+AGG | 0.487551 | 3.2:+72808930 | None:intergenic |
| AGAGTCTTGAAGCACAATTT+GGG | 0.488266 | 3.2:-72809439 | MS.gene77550:CDS |
| ATTTCTTGTGTGGTAGGCTG+TGG | 0.491007 | 3.2:+72809138 | None:intergenic |
| GATAAGCCTACATGGAGATC+AGG | 0.504896 | 3.2:+72809287 | None:intergenic |
| TCACATCCTGATCTCCATGT+AGG | 0.522755 | 3.2:-72809293 | MS.gene77550:CDS |
| ACCAACTGATGATGATGAAT+GGG | 0.541850 | 3.2:+72809508 | None:intergenic |
| GTCCATATTTCTTGTGTGGT+AGG | 0.551362 | 3.2:+72809132 | None:intergenic |
| ATGTTAACAAGAACGATATG+AGG | 0.552379 | 3.2:-72809205 | MS.gene77550:CDS |
| CTCTCACCCCTCTTCCAAGT+GGG | 0.558684 | 3.2:-72808866 | MS.gene77550:CDS |
| TACCAACTGATGATGATGAA+TGG | 0.562352 | 3.2:+72809507 | None:intergenic |
| AGATTGGTTCAATGGATGCA+TGG | 0.584866 | 3.2:-72809542 | MS.gene77550:CDS |
| GCTCTCACCCCTCTTCCAAG+TGG | 0.584935 | 3.2:-72808867 | MS.gene77550:CDS |
| TATGGTCCATATTTCTTGTG+TGG | 0.586966 | 3.2:+72809128 | None:intergenic |
| ACCCATTCATCATCATCAGT+TGG | 0.590463 | 3.2:-72809509 | MS.gene77550:CDS |
| CAGATTCAAAAGCTCAATGA+CGG | 0.593887 | 3.2:-72808969 | MS.gene77550:CDS |
| TCTAGGATTCGAAAGAGACC+GGG | 0.623769 | 3.2:-72808996 | MS.gene77550:CDS |
| TCCGGGAATCATAAAAGCGA+TGG | 0.628214 | 3.2:-72809462 | MS.gene77550:CDS |
| AAGTGGGATAAAAGTCAAGT+CGG | 0.648453 | 3.2:-72808850 | MS.gene77550:CDS |
| GACGACGACGATGTTGATGT+AGG | 0.650410 | 3.2:+72809410 | None:intergenic |
| ATTGTGACGATAAGCCTACA+TGG | 0.663326 | 3.2:+72809279 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AGCAATGAAAATATTGATGA+TGG | - | chr3.2:72809214-72809233 | MS.gene77550:CDS | 25.0% |
| ! | GAAAAAAGAGATACATTTCT+AGG | - | chr3.2:72809368-72809387 | MS.gene77550:CDS | 25.0% |
| !! | ATTTTGTTGCATTTTGAACA+TGG | + | chr3.2:72809280-72809299 | None:intergenic | 25.0% |
| !!! | CAAACGATTAATATTTTTGC+TGG | - | chr3.2:72809142-72809161 | MS.gene77550:CDS | 25.0% |
| AGCATGACTACCAAAATTAT+TGG | + | chr3.2:72808900-72808919 | None:intergenic | 30.0% | |
| ATGTTAACAAGAACGATATG+AGG | - | chr3.2:72809176-72809195 | MS.gene77550:CDS | 30.0% | |
| ! | ACAATCATAGATTGGTTCAA+TGG | - | chr3.2:72808831-72808850 | MS.gene77550:CDS | 30.0% |
| ! | TTGCATTTTGAACATGGATA+TGG | + | chr3.2:72809274-72809293 | None:intergenic | 30.0% |
| !! | TCAGTTGGTACCAATAATTT+TGG | - | chr3.2:72808887-72808906 | MS.gene77550:CDS | 30.0% |
| AAGTGGGATAAAAGTCAAGT+CGG | - | chr3.2:72809531-72809550 | MS.gene77550:CDS | 35.0% | |
| AGAGTCTTGAAGCACAATTT+GGG | - | chr3.2:72808942-72808961 | MS.gene77550:CDS | 35.0% | |
| CAGATTCAAAAGCTCAATGA+CGG | - | chr3.2:72809412-72809431 | MS.gene77550:CDS | 35.0% | |
| TATGGTCCATATTTCTTGTG+TGG | + | chr3.2:72809256-72809275 | None:intergenic | 35.0% | |
| TTATCAGCACAAGCAATAAG+AGG | + | chr3.2:72809454-72809473 | None:intergenic | 35.0% | |
| ! | ACCAACTGATGATGATGAAT+GGG | + | chr3.2:72808876-72808895 | None:intergenic | 35.0% |
| ! | TACCAACTGATGATGATGAA+TGG | + | chr3.2:72808877-72808896 | None:intergenic | 35.0% |
| !! | TAATTTTGGTAGTCATGCTC+CGG | - | chr3.2:72808901-72808920 | MS.gene77550:CDS | 35.0% |
| !! | TATTTTTGCTGGTGATGTTG+AGG | - | chr3.2:72809153-72809172 | MS.gene77550:CDS | 35.0% |
| ACCCATTCATCATCATCAGT+TGG | - | chr3.2:72808872-72808891 | MS.gene77550:CDS | 40.0% | |
| AGCCTACCACACAAGAAATA+TGG | - | chr3.2:72809247-72809266 | MS.gene77550:CDS | 40.0% | |
| ATTGTGACGATAAGCCTACA+TGG | + | chr3.2:72809105-72809124 | None:intergenic | 40.0% | |
| GAGAGTCTTGAAGCACAATT+TGG | - | chr3.2:72808941-72808960 | MS.gene77550:CDS | 40.0% | |
| GTCCATATTTCTTGTGTGGT+AGG | + | chr3.2:72809252-72809271 | None:intergenic | 40.0% | |
| ! | ACTTTTATCCCACTTGGAAG+AGG | + | chr3.2:72809526-72809545 | None:intergenic | 40.0% |
| ! | AGATTGGTTCAATGGATGCA+TGG | - | chr3.2:72808839-72808858 | MS.gene77550:CDS | 40.0% |
| ! | AGCTTTTGAATCTGAAGACC+CGG | + | chr3.2:72809406-72809425 | None:intergenic | 40.0% |
| ! | CTTTTATCCCACTTGGAAGA+GGG | + | chr3.2:72809525-72809544 | None:intergenic | 40.0% |
| ! | GACTTGACTTTTATCCCACT+TGG | + | chr3.2:72809532-72809551 | None:intergenic | 40.0% |
| ! | TTTTATCCCACTTGGAAGAG+GGG | + | chr3.2:72809524-72809543 | None:intergenic | 40.0% |
| !! | AATTTTGGTAGTCATGCTCC+GGG | - | chr3.2:72808902-72808921 | MS.gene77550:CDS | 40.0% |
| !! | TCCATCGCTTTTATGATTCC+CGG | + | chr3.2:72808923-72808942 | None:intergenic | 40.0% |
| !! | TTCTAGGATTCGAAAGAGAC+CGG | - | chr3.2:72809384-72809403 | MS.gene77550:CDS | 40.0% |
| ATTTCTTGTGTGGTAGGCTG+TGG | + | chr3.2:72809246-72809265 | None:intergenic | 45.0% | |
| GATAAGCCTACATGGAGATC+AGG | + | chr3.2:72809097-72809116 | None:intergenic | 45.0% | |
| TCACATCCTGATCTCCATGT+AGG | - | chr3.2:72809088-72809107 | MS.gene77550:CDS | 45.0% | |
| TCCGGGAATCATAAAAGCGA+TGG | - | chr3.2:72808919-72808938 | MS.gene77550:CDS | 45.0% | |
| ! | TCTAGGATTCGAAAGAGACC+GGG | - | chr3.2:72809385-72809404 | MS.gene77550:CDS | 45.0% |
| GACGACGACGATGTTGATGT+AGG | + | chr3.2:72808974-72808993 | None:intergenic | 50.0% | |
| CTCTCACCCCTCTTCCAAGT+GGG | - | chr3.2:72809515-72809534 | MS.gene77550:CDS | 55.0% | |
| GCTCTCACCCCTCTTCCAAG+TGG | - | chr3.2:72809514-72809533 | MS.gene77550:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 72808827 | 72809576 | 72808827 | ID=MS.gene77550 |
| chr3.2 | mRNA | 72808827 | 72809576 | 72808827 | ID=MS.gene77550.t1;Parent=MS.gene77550 |
| chr3.2 | exon | 72808827 | 72809576 | 72808827 | ID=MS.gene77550.t1.exon1;Parent=MS.gene77550.t1 |
| chr3.2 | CDS | 72808827 | 72809576 | 72808827 | ID=cds.MS.gene77550.t1;Parent=MS.gene77550.t1 |
| Gene Sequence |
| Protein sequence |
