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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0366900 | RHN67855.1 | 71.429 | 70 | 16 | 2 | 10 | 76 | 82 | 150 | 9.12e-25 | 103 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0366900 | A0A396IV40 | 71.429 | 70 | 16 | 2 | 10 | 76 | 82 | 150 | 4.36e-25 | 103 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0366900 | Msa0639460 | 0.819718 | 1.002677e-52 | -8.615850e-47 |
| Msa0366900 | Msa0892310 | 0.840759 | 7.166555e-58 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0366900 | MtrunA17_Chr3g0107271 | 71.429 | 70 | 16 | 2 | 10 | 76 | 82 | 150 | 8.39e-29 | 103 |
| Msa0366900 | MtrunA17_Chr3g0108811 | 56.180 | 89 | 25 | 1 | 2 | 76 | 1392 | 1480 | 4.28e-28 | 105 |
| Msa0366900 | MtrunA17_Chr3g0108811 | 50.562 | 89 | 22 | 2 | 2 | 76 | 1336 | 1416 | 1.57e-22 | 89.4 |
| Msa0366900 | MtrunA17_Chr3g0108811 | 59.677 | 62 | 17 | 1 | 15 | 76 | 1307 | 1360 | 3.56e-20 | 82.8 |
| Msa0366900 | MtrunA17_Chr3g0108171 | 53.933 | 89 | 27 | 1 | 2 | 76 | 1186 | 1274 | 4.92e-27 | 102 |
| Msa0366900 | MtrunA17_Chr3g0108171 | 55.556 | 72 | 20 | 2 | 5 | 76 | 1151 | 1210 | 8.26e-21 | 84.3 |
| Msa0366900 | MtrunA17_Chr3g0108151 | 64.516 | 62 | 22 | 0 | 15 | 76 | 1060 | 1121 | 2.39e-23 | 91.7 |
| Msa0366900 | MtrunA17_Chr3g0108111 | 65.574 | 61 | 20 | 1 | 16 | 76 | 239 | 298 | 5.15e-23 | 90.9 |
| Msa0366900 | MtrunA17_Chr3g0091861 | 64.516 | 62 | 21 | 1 | 15 | 76 | 1242 | 1302 | 2.73e-22 | 88.6 |
| Msa0366900 | MtrunA17_Chr3g0107931 | 58.333 | 72 | 25 | 2 | 5 | 76 | 1309 | 1375 | 1.35e-21 | 86.7 |
| Msa0366900 | MtrunA17_Chr3g0097601 | 54.688 | 64 | 29 | 0 | 13 | 76 | 91 | 154 | 7.82e-21 | 82.4 |
| Msa0366900 | MtrunA17_Chr3g0096701 | 59.677 | 62 | 25 | 0 | 15 | 76 | 60 | 121 | 9.71e-21 | 84.3 |
| Msa0366900 | MtrunA17_Chr3g0108011 | 56.452 | 62 | 19 | 1 | 15 | 76 | 1310 | 1363 | 1.26e-18 | 78.2 |
| Msa0366900 | MtrunA17_Chr3g0108821 | 53.226 | 62 | 21 | 1 | 15 | 76 | 1286 | 1339 | 3.28e-17 | 74.3 |
| Msa0366900 | MtrunA17_Chr3g0105481 | 51.613 | 62 | 26 | 1 | 15 | 76 | 1111 | 1168 | 1.23e-16 | 72.8 |
| Msa0366900 | MtrunA17_Chr3g0108071 | 50.000 | 62 | 23 | 1 | 15 | 76 | 434 | 487 | 2.60e-15 | 68.9 |
| Msa0366900 | MtrunA17_Chr3g0105551 | 48.387 | 62 | 28 | 1 | 15 | 76 | 1197 | 1254 | 4.74e-15 | 68.2 |
| Msa0366900 | MtrunA17_Chr2g0288311 | 53.968 | 63 | 22 | 2 | 15 | 76 | 39 | 95 | 1.31e-14 | 64.7 |
| Msa0366900 | MtrunA17_Chr3g0105601 | 48.387 | 62 | 28 | 1 | 15 | 76 | 317 | 374 | 2.50e-14 | 65.9 |
| Msa0366900 | MtrunA17_Chr3g0105521 | 43.548 | 62 | 31 | 1 | 15 | 76 | 1079 | 1136 | 1.98e-13 | 63.5 |
| Msa0366900 | MtrunA17_Chr3g0107081 | 45.161 | 62 | 23 | 1 | 15 | 76 | 55 | 105 | 5.18e-13 | 61.2 |
| Msa0366900 | MtrunA17_Chr3g0105501 | 45.161 | 62 | 30 | 1 | 15 | 76 | 50 | 107 | 5.66e-13 | 60.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 4 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTAAAGGCAATTCATTATT+GGG | 0.280797 | 3_1:-61973514 | None:intergenic |
| GCATGTAATTGAATATGATT+TGG | 0.406423 | 3_1:+61973386 | Msa0366900:CDS |
| TGTTGTAGACATAACATTTG+AGG | 0.445194 | 3_1:-61973421 | None:intergenic |
| ATTCTCATATAATACAACCG+TGG | 0.735848 | 3_1:-61973342 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTTTGGAGCTTTTAATT+TGG | + | chr3_1:61973161-61973180 | Msa0366900:intron | 20.0% |
| !!! | ATTTTAAAGGTACATGCAAA+AGG | - | chr3_1:61973189-61973208 | None:intergenic | 25.0% |
| !! | TCATTGCTGCAAAATTTTAA+AGG | - | chr3_1:61973202-61973221 | None:intergenic | 25.0% |
| ! | GCATGTAATTGAATATGATT+TGG | + | chr3_1:61973386-61973405 | Msa0366900:CDS | 25.0% |
| !! | TAAAAACACTTGCTGTAGTA+CGG | + | chr3_1:61972852-61972871 | Msa0366900:CDS | 30.0% |
| !!! | GAAAGTGTTGATTTTGAAGA+TGG | + | chr3_1:61972906-61972925 | Msa0366900:intron | 30.0% |
| GAAAAACAAAACATAAGAGC+AGG | - | chr3_1:61973044-61973063 | None:intergenic | 30.0% | |
| ! | GTCTTGCATTTACATTTTTG+TGG | + | chr3_1:61973087-61973106 | Msa0366900:intron | 30.0% |
| ! | ATTTACATTTTTGTGGCTTG+AGG | + | chr3_1:61973094-61973113 | Msa0366900:intron | 30.0% |
| ! | ATTTTGTAAGGTGTATACCA+CGG | + | chr3_1:61973325-61973344 | Msa0366900:intron | 30.0% |
| ATTCTCATATAATACAACCG+TGG | - | chr3_1:61973345-61973364 | None:intergenic | 30.0% | |
| TGTTGTAGACATAACATTTG+AGG | - | chr3_1:61973424-61973443 | None:intergenic | 30.0% | |
| !! | TAAAAACACTTGCTGTAGTA+CGG | + | chr3_1:61972852-61972871 | Msa0366900:CDS | 30.0% |
| !!! | CAGCAAGTGTTTTTAGCTTT+GGG | - | chr3_1:61972847-61972866 | None:intergenic | 35.0% |
| !!! | ACAGCAAGTGTTTTTAGCTT+TGG | - | chr3_1:61972848-61972867 | None:intergenic | 35.0% |
| ! | TGAAGATGGTAATGTAGCTA+AGG | + | chr3_1:61972920-61972939 | Msa0366900:intron | 35.0% |
| GAATTCGTATGATTCGTCTT+CGG | + | chr3_1:61972965-61972984 | Msa0366900:intron | 35.0% | |
| AAGGAGTTAGGGAATGATTA+AGG | + | chr3_1:61973125-61973144 | Msa0366900:intron | 35.0% | |
| ! | AATGATTAAGGTGCCAAACT+TGG | + | chr3_1:61973137-61973156 | Msa0366900:intron | 35.0% |
| ! | ATGATTAAGGTGCCAAACTT+GGG | + | chr3_1:61973138-61973157 | Msa0366900:intron | 35.0% |
| !!! | ACTTGTTCGTCGATTTTGTA+TGG | + | chr3_1:61973297-61973316 | Msa0366900:intron | 35.0% |
| !!! | CTTGTTCGTCGATTTTGTAT+GGG | + | chr3_1:61973298-61973317 | Msa0366900:intron | 35.0% |
| !! | TGTATGGGATGGATTTTGTA+AGG | + | chr3_1:61973313-61973332 | Msa0366900:intron | 35.0% |
| !!! | CAGCAAGTGTTTTTAGCTTT+GGG | - | chr3_1:61972847-61972866 | None:intergenic | 35.0% |
| !!! | ACAGCAAGTGTTTTTAGCTT+TGG | - | chr3_1:61972848-61972867 | None:intergenic | 35.0% |
| TAATGTAGCTAAGGCTTCTG+CGG | + | chr3_1:61972929-61972948 | Msa0366900:intron | 40.0% | |
| ! | TTTTGTGGCTTGAGGTGTAT+AGG | + | chr3_1:61973102-61973121 | Msa0366900:intron | 40.0% |
| AGGTGTATAGGAAGGAGTTA+GGG | + | chr3_1:61973114-61973133 | Msa0366900:intron | 40.0% | |
| !!! | GTGCCAAACTTGGGTTTTTT+TGG | + | chr3_1:61973147-61973166 | Msa0366900:intron | 40.0% |
| GCTCCAAAAAAACCCAAGTT+TGG | - | chr3_1:61973153-61973172 | None:intergenic | 40.0% | |
| !!! | TACTGTTCGTCGATTTTGCA+TGG | + | chr3_1:61973259-61973278 | Msa0366900:intron | 40.0% |
| !!! | ACTGTTCGTCGATTTTGCAT+GGG | + | chr3_1:61973260-61973279 | Msa0366900:intron | 40.0% |
| !!! | TTCGTCGATTTTGTATGGGA+TGG | + | chr3_1:61973302-61973321 | Msa0366900:intron | 40.0% |
| !! | AATCCTCACACTGATTCAGC+TGG | - | chr3_1:61973005-61973024 | None:intergenic | 45.0% |
| GAGGTGTATAGGAAGGAGTT+AGG | + | chr3_1:61973113-61973132 | Msa0366900:intron | 45.0% | |
| !!! | TTCGTCGATTTTGCATGGGA+TGG | + | chr3_1:61973264-61973283 | Msa0366900:intron | 45.0% |
| CAACCAGCTGAATCAGTGTG+AGG | + | chr3_1:61972999-61973018 | Msa0366900:intron | 50.0% | |
| GTGGCTTGAGGTGTATAGGA+AGG | + | chr3_1:61973106-61973125 | Msa0366900:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 61972821 | 61973521 | 61972821 | ID=Msa0366900;Name=Msa0366900 |
| chr3_1 | mRNA | 61972821 | 61973521 | 61972821 | ID=Msa0366900-mRNA-1;Parent=Msa0366900;Name=Msa0366900-mRNA-1;_AED=0.29;_eAED=0.33;_QI=0|0|0|1|0|0|2|0|79 |
| chr3_1 | exon | 61972821 | 61972873 | 61972821 | ID=Msa0366900-mRNA-1:exon:12067;Parent=Msa0366900-mRNA-1 |
| chr3_1 | exon | 61973335 | 61973521 | 61973335 | ID=Msa0366900-mRNA-1:exon:12068;Parent=Msa0366900-mRNA-1 |
| chr3_1 | CDS | 61972821 | 61972873 | 61972821 | ID=Msa0366900-mRNA-1:cds;Parent=Msa0366900-mRNA-1 |
| chr3_1 | CDS | 61973335 | 61973521 | 61973335 | ID=Msa0366900-mRNA-1:cds;Parent=Msa0366900-mRNA-1 |
| Gene Sequence |
| Protein sequence |
