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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0868880 | XP_003618157.1 | 98.198 | 111 | 2 | 0 | 1 | 111 | 1 | 111 | 1.41e-72 | 221 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0868880 | sp|Q29Q81|SMR6_ARATH | 56.034 | 116 | 36 | 7 | 1 | 106 | 1 | 111 | 4.31e-23 | 89.0 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0868880 | G7KQ10 | 98.198 | 111 | 2 | 0 | 1 | 111 | 1 | 111 | 6.73e-73 | 221 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0024550 | Msa0868880 | 0.806222 | 9.133789e-50 | -8.615850e-47 |
| Msa0795870 | Msa0868880 | 0.809686 | 1.673659e-50 | -8.615850e-47 |
| Msa0833650 | Msa0868880 | 0.813399 | 2.610369e-51 | -8.615850e-47 |
| Msa0225860 | Msa0868880 | 0.803850 | 2.862708e-49 | -8.615850e-47 |
| Msa0428370 | Msa0868880 | 0.815029 | 1.139589e-51 | -8.615850e-47 |
| Msa0474730 | Msa0868880 | 0.803495 | 3.392079e-49 | -8.615850e-47 |
| Msa0300270 | Msa0868880 | 0.801266 | 9.764912e-49 | -8.615850e-47 |
| Msa0337700 | Msa0868880 | 0.805236 | 1.471250e-49 | -8.615850e-47 |
| Msa0580370 | Msa0868880 | 0.807052 | 6.100769e-50 | -8.615850e-47 |
| Msa0868880 | Msa0967380 | 0.800878 | 1.172097e-48 | -8.615850e-47 |
| Msa0868880 | Msa1132840 | 0.807718 | 4.407439e-50 | -8.615850e-47 |
| Msa0868880 | Msa1186020 | 0.802426 | 5.640827e-49 | -8.615850e-47 |
| Msa0868880 | Msa1208160 | 0.814214 | 1.726353e-51 | -8.615850e-47 |
| Msa0868880 | Msa1208430 | 0.801998 | 6.911452e-49 | -8.615850e-47 |
| Msa0868880 | Msa1298370 | 0.811735 | 6.033272e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0868880 | MtrunA17_Chr6g0449711 | 98.198 | 111 | 2 | 0 | 1 | 111 | 1 | 111 | 1.30e-76 | 221 |
| Msa0868880 | MtrunA17_Chr8g0368031 | 44.348 | 115 | 59 | 4 | 1 | 110 | 1 | 115 | 2.02e-20 | 79.3 |
| Msa0868880 | MtrunA17_Chr5g0412851 | 42.202 | 109 | 59 | 2 | 7 | 111 | 5 | 113 | 5.77e-17 | 70.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0868880 | AT5G40460.1 | 56.034 | 116 | 36 | 7 | 1 | 106 | 1 | 111 | 4.38e-24 | 89.0 |
| Msa0868880 | AT1G60783.1 | 48.624 | 109 | 48 | 5 | 1 | 106 | 1 | 104 | 6.64e-20 | 78.2 |
| Msa0868880 | AT1G10690.1 | 45.872 | 109 | 54 | 4 | 1 | 106 | 1 | 107 | 4.78e-18 | 73.6 |
Find 20 sgRNAs with CRISPR-Local
Find 25 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTGCTCATCTTTGTGTTTAT+AGG | 0.129879 | 6_1:+2688370 | None:intergenic |
| TTGAACACTGTTTCCAAATC+AGG | 0.345104 | 6_1:+2688184 | None:intergenic |
| AACACAAATGGAGAAGAGTT+TGG | 0.385335 | 6_1:-2688446 | Msa0868880:CDS |
| TGGAATCTGAAGCTAAGAAA+TGG | 0.392466 | 6_1:-2688426 | Msa0868880:CDS |
| GCTAAGAAATGGGTAATTGC+TGG | 0.408525 | 6_1:-2688415 | Msa0868880:CDS |
| TGATTTGGAAACAGTGTTCA+AGG | 0.433713 | 6_1:-2688182 | Msa0868880:CDS |
| TCAAAGTGTAACAATGTTGT+TGG | 0.464863 | 6_1:-2688229 | Msa0868880:CDS |
| TTCTTCTTCCTTGGTGCCGG+TGG | 0.474580 | 6_1:+2688256 | None:intergenic |
| GGAATCTGAAGCTAAGAAAT+GGG | 0.495322 | 6_1:-2688425 | Msa0868880:CDS |
| GAATTCGAAGAAAACACAAA+TGG | 0.515083 | 6_1:-2688458 | Msa0868880:CDS |
| TAATTGCTGGAATTTCCCTC+AGG | 0.537646 | 6_1:-2688402 | Msa0868880:CDS |
| TATAGGTTTCAATGACCTGA+GGG | 0.548525 | 6_1:+2688387 | None:intergenic |
| GGTGAACATGTCGTGTCCAC+CGG | 0.573845 | 6_1:-2688272 | Msa0868880:CDS |
| GGCAAAAGAAGCTAGGATAC+CGG | 0.578164 | 6_1:-2688293 | Msa0868880:CDS |
| GGTGGACACGACATGTTCAC+CGG | 0.588547 | 6_1:+2688274 | None:intergenic |
| AAGTGTAACAATGTTGTTGG+TGG | 0.601001 | 6_1:-2688226 | Msa0868880:CDS |
| CACCAACGGCAAAAGAAGCT+AGG | 0.614440 | 6_1:-2688300 | Msa0868880:CDS |
| AGAAAATTCAACTACACCAA+CGG | 0.629624 | 6_1:-2688314 | Msa0868880:CDS |
| TTATAGGTTTCAATGACCTG+AGG | 0.630083 | 6_1:+2688386 | None:intergenic |
| TGTCGTGTCCACCGGCACCA+AGG | 0.645896 | 6_1:-2688264 | Msa0868880:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTGAAATTTTCTTCTTCCT+TGG | + | chr6_1:2688387-2688406 | None:intergenic | 25.0% |
| GAATTCGAAGAAAACACAAA+TGG | - | chr6_1:2688173-2688192 | Msa0868880:CDS | 30.0% | |
| ACAAAGATGAGCACAAAAAA+CGG | - | chr6_1:2688270-2688289 | Msa0868880:CDS | 30.0% | |
| AGAAAATTCAACTACACCAA+CGG | - | chr6_1:2688317-2688336 | Msa0868880:CDS | 30.0% | |
| TCAAAGTGTAACAATGTTGT+TGG | - | chr6_1:2688402-2688421 | Msa0868880:CDS | 30.0% | |
| AACACAAATGGAGAAGAGTT+TGG | - | chr6_1:2688185-2688204 | Msa0868880:CDS | 35.0% | |
| ! | TGGAATCTGAAGCTAAGAAA+TGG | - | chr6_1:2688205-2688224 | Msa0868880:CDS | 35.0% |
| ! | GGAATCTGAAGCTAAGAAAT+GGG | - | chr6_1:2688206-2688225 | Msa0868880:CDS | 35.0% |
| TATAGGTTTCAATGACCTGA+GGG | + | chr6_1:2688247-2688266 | None:intergenic | 35.0% | |
| TTATAGGTTTCAATGACCTG+AGG | + | chr6_1:2688248-2688267 | None:intergenic | 35.0% | |
| GTGCTCATCTTTGTGTTTAT+AGG | + | chr6_1:2688264-2688283 | None:intergenic | 35.0% | |
| AAGTGTAACAATGTTGTTGG+TGG | - | chr6_1:2688405-2688424 | Msa0868880:CDS | 35.0% | |
| !!! | GTTTTTCAAGTGTCCTGATT+TGG | - | chr6_1:2688434-2688453 | Msa0868880:CDS | 35.0% |
| TTGAACACTGTTTCCAAATC+AGG | + | chr6_1:2688450-2688469 | None:intergenic | 35.0% | |
| ! | TGATTTGGAAACAGTGTTCA+AGG | - | chr6_1:2688449-2688468 | Msa0868880:CDS | 35.0% |
| GCTAAGAAATGGGTAATTGC+TGG | - | chr6_1:2688216-2688235 | Msa0868880:CDS | 40.0% | |
| TAATTGCTGGAATTTCCCTC+AGG | - | chr6_1:2688229-2688248 | Msa0868880:CDS | 40.0% | |
| !! | ATTTTCTTCTTCCTTGGTGC+CGG | + | chr6_1:2688381-2688400 | None:intergenic | 40.0% |
| ! | ATCCTAGCTTCTTTTGCCGT+TGG | + | chr6_1:2688336-2688355 | None:intergenic | 45.0% |
| GGCAAAAGAAGCTAGGATAC+CGG | - | chr6_1:2688338-2688357 | Msa0868880:CDS | 45.0% | |
| CACCAACGGCAAAAGAAGCT+AGG | - | chr6_1:2688331-2688350 | Msa0868880:CDS | 50.0% | |
| GGTGGACACGACATGTTCAC+CGG | + | chr6_1:2688360-2688379 | None:intergenic | 55.0% | |
| GGTGAACATGTCGTGTCCAC+CGG | - | chr6_1:2688359-2688378 | Msa0868880:CDS | 55.0% | |
| !! | TTCTTCTTCCTTGGTGCCGG+TGG | + | chr6_1:2688378-2688397 | None:intergenic | 55.0% |
| TGTCGTGTCCACCGGCACCA+AGG | - | chr6_1:2688367-2688386 | Msa0868880:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_1 | gene | 2688159 | 2688494 | 2688159 | ID=Msa0868880;Name=Msa0868880 |
| chr6_1 | mRNA | 2688159 | 2688494 | 2688159 | ID=Msa0868880-mRNA-1;Parent=Msa0868880;Name=Msa0868880-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|111 |
| chr6_1 | exon | 2688159 | 2688494 | 2688159 | ID=Msa0868880-mRNA-1:exon:786;Parent=Msa0868880-mRNA-1 |
| chr6_1 | CDS | 2688159 | 2688494 | 2688159 | ID=Msa0868880-mRNA-1:cds;Parent=Msa0868880-mRNA-1 |
| Gene Sequence |
| Protein sequence |
