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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580029823.01.T01 | XP_024627301.1 | 84.416 | 77 | 12 | 0 | 1 | 77 | 180 | 256 | 3.26E-37 | 135 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580029823.01.T01 | Q6IP65 | 45.946 | 74 | 40 | 0 | 1 | 74 | 171 | 244 | 1.98E-12 | 64.3 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580029823.01.T01 | A0A396GV60 | 86.486 | 74 | 10 | 0 | 1 | 74 | 180 | 253 | 1.84e-36 | 134 |
| Gene ID | Type | Classification |
|---|---|---|
| MsG0580029823.01.T01 | TR | Rcd1-like |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580029823.01.T01 | MTR_1g056470 | 63.889 | 72 | 26 | 0 | 1 | 72 | 182 | 253 | 1.96e-26 | 98.2 |
| MsG0580029823.01.T01 | MTR_8g106940 | 56.757 | 74 | 32 | 0 | 1 | 74 | 186 | 259 | 1.54e-23 | 91.7 |
| MsG0580029823.01.T01 | MTR_1g043540 | 54.217 | 83 | 37 | 1 | 1 | 83 | 53 | 134 | 6.70e-23 | 85.9 |
| MsG0580029823.01.T01 | MTR_6g065170 | 60.000 | 70 | 28 | 0 | 1 | 70 | 186 | 255 | 1.31e-22 | 89.4 |
| MsG0580029823.01.T01 | MTR_3g018640 | 52.703 | 74 | 35 | 0 | 1 | 74 | 186 | 259 | 3.34e-19 | 79.7 |
| MsG0580029823.01.T01 | MTR_3g053170 | 54.054 | 74 | 34 | 0 | 1 | 74 | 174 | 247 | 2.60e-17 | 74.7 |
| MsG0580029823.01.T01 | MTR_5g093460 | 51.351 | 74 | 36 | 0 | 1 | 74 | 314 | 387 | 5.55e-17 | 74.7 |
| MsG0580029823.01.T01 | MTR_1g043500 | 46.377 | 69 | 36 | 1 | 18 | 85 | 10 | 78 | 2.77e-15 | 65.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580029823.01.T01 | AT3G20800 | 54.054 | 74 | 34 | 0 | 1 | 74 | 187 | 260 | 1.76e-17 | 75.5 |
| MsG0580029823.01.T01 | AT5G12980 | 48.649 | 74 | 38 | 0 | 1 | 74 | 183 | 256 | 1.73e-14 | 67.4 |
Find 9 sgRNAs with CRISPR-Local
Find 15 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGCCTACGCAATATGGAAAT+CGG | 0.453703 | 5:-102449155 | None:intergenic |
| AAAATTCTGTCAGATGATGA+TGG | 0.458374 | 5:-102448943 | MsG0580029823.01.T01:CDS |
| GATGGTTTGATTTATATTTG+TGG | 0.512982 | 5:-102448925 | MsG0580029823.01.T01:CDS |
| TTTGTCTCAACATCATAGGT+TGG | 0.517793 | 5:-102448791 | MsG0580029823.01.T01:CDS |
| AGTTTCATCAATCGATGTGA+AGG | 0.577131 | 5:+102448835 | None:intergenic |
| AACATGGTATTGGAAAGTGT+TGG | 0.637520 | 5:-102448865 | MsG0580029823.01.T01:CDS |
| ACGCAATATGGAAATCGGCA+AGG | 0.671375 | 5:-102449150 | None:intergenic |
| GAGACAAAAGAGAATAACAC+GGG | 0.671617 | 5:+102448806 | None:intergenic |
| TGAGACAAAAGAGAATAACA+CGG | 0.720458 | 5:+102448805 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GAATAACAAAAAAATTAAGA+AGG | + | Chr5:102448841-102448860 | None:intergenic | 15.0% |
| !! | TTGTTTATATGAATTTGACT+TGG | - | Chr5:102448806-102448825 | MsG0580029823.01.T01:CDS | 20.0% |
| ! | AAGACTCTGTAAAAAGAAAT+TGG | + | Chr5:102448786-102448805 | None:intergenic | 25.0% |
| ! | CAACTTTGATTAGATGATAT+TGG | + | Chr5:102448874-102448893 | None:intergenic | 25.0% |
| !! | GATGGTTTGATTTATATTTG+TGG | - | Chr5:102448944-102448963 | MsG0580029823.01.T01:CDS | 25.0% |
| AAAATTCTGTCAGATGATGA+TGG | - | Chr5:102448926-102448945 | MsG0580029823.01.T01:CDS | 30.0% | |
| TGAGACAAAAGAGAATAACA+CGG | + | Chr5:102449067-102449086 | None:intergenic | 30.0% | |
| !!! | AGTAGTTCAAGTTTTGAACA+TGG | - | Chr5:102448988-102449007 | MsG0580029823.01.T01:intron | 30.0% |
| !!! | TCAAGTTTTGAACATGGTAT+TGG | - | Chr5:102448994-102449013 | MsG0580029823.01.T01:intron | 30.0% |
| AGTTTCATCAATCGATGTGA+AGG | + | Chr5:102449037-102449056 | None:intergenic | 35.0% | |
| GAGACAAAAGAGAATAACAC+GGG | + | Chr5:102449066-102449085 | None:intergenic | 35.0% | |
| TTTGTCTCAACATCATAGGT+TGG | - | Chr5:102449078-102449097 | MsG0580029823.01.T01:intron | 35.0% | |
| ! | AACATGGTATTGGAAAGTGT+TGG | - | Chr5:102449004-102449023 | MsG0580029823.01.T01:intron | 35.0% |
| ! | CTCTTTTGTCTCAACATCAT+AGG | - | Chr5:102449074-102449093 | MsG0580029823.01.T01:intron | 35.0% |
| ATCAAAGTTGTCATCTCTGC+AGG | - | Chr5:102448884-102448903 | MsG0580029823.01.T01:CDS | 40.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr5 | gene | 102448726 | 102449165 | 102448726 | ID=MsG0580029823.01;Name=MsG0580029823.01 |
| Chr5 | mRNA | 102448726 | 102449165 | 102448726 | ID=MsG0580029823.01.T01;Parent=MsG0580029823.01;Name=MsG0580029823.01.T01;_AED=0.48;_eAED=0.48;_QI=0|0|0|1|0|0|2|0|96 |
| Chr5 | exon | 102448726 | 102448985 | 102448726 | ID=MsG0580029823.01.T01:exon:8800;Parent=MsG0580029823.01.T01 |
| Chr5 | exon | 102449135 | 102449165 | 102449135 | ID=MsG0580029823.01.T01:exon:8799;Parent=MsG0580029823.01.T01 |
| Chr5 | CDS | 102449135 | 102449165 | 102449135 | ID=MsG0580029823.01.T01:cds;Parent=MsG0580029823.01.T01 |
| Chr5 | CDS | 102448726 | 102448985 | 102448726 | ID=MsG0580029823.01.T01:cds;Parent=MsG0580029823.01.T01 |
| Gene Sequence |
| Protein sequence |
