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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0655860 | XP_039685399.1 | 90.000 | 140 | 14 | 0 | 1 | 140 | 1 | 140 | 1.82e-84 | 253 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0655860 | sp|P49215|RS17_SOLLC | 88.235 | 119 | 14 | 0 | 1 | 119 | 1 | 119 | 1.98e-72 | 216 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0655860 | A0A396GQ98 | 90.000 | 140 | 14 | 0 | 1 | 140 | 1 | 140 | 8.71e-85 | 253 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0655860 | Msa0824160 | 0.823332 | 1.466359e-53 | -8.615850e-47 |
| Msa0655860 | Msa0824170 | 0.800842 | 1.191994e-48 | -8.615850e-47 |
| Msa0655860 | Msa0892080 | 0.817816 | 2.710650e-52 | -8.615850e-47 |
| Msa0655860 | Msa0967580 | 0.838593 | 2.622568e-57 | -8.615850e-47 |
| Msa0655860 | Msa1147790 | 0.822423 | 2.388146e-53 | -8.615850e-47 |
| Msa0655860 | Msa1196960 | 0.843726 | 1.173832e-58 | -8.615850e-47 |
| Msa0655860 | Msa1240030 | 0.806061 | 9.877078e-50 | -8.615850e-47 |
| Msa0444180 | Msa0655860 | 0.825463 | 4.623961e-54 | -8.615850e-47 |
| Msa0350040 | Msa0655860 | 0.817031 | 4.071438e-52 | -8.615850e-47 |
| Msa0350060 | Msa0655860 | 0.802831 | 4.655774e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0655860 | MtrunA17_Chr8g0375941 | 90.000 | 140 | 14 | 0 | 1 | 140 | 1 | 140 | 1.68e-88 | 253 |
| Msa0655860 | MtrunA17_Chr8g0375831 | 90.476 | 126 | 12 | 0 | 1 | 126 | 1 | 126 | 2.86e-79 | 229 |
| Msa0655860 | MtrunA17_Chr1g0178041 | 93.966 | 116 | 7 | 0 | 1 | 116 | 1 | 116 | 4.22e-76 | 222 |
| Msa0655860 | MtrunA17_Chr8g0375961 | 93.077 | 130 | 9 | 0 | 1 | 130 | 1 | 130 | 5.25e-76 | 222 |
| Msa0655860 | MtrunA17_Chr8g0375841 | 93.077 | 130 | 9 | 0 | 1 | 130 | 1 | 130 | 5.25e-76 | 222 |
| Msa0655860 | MtrunA17_Chr8g0375931 | 90.517 | 116 | 11 | 0 | 24 | 139 | 1 | 116 | 6.54e-73 | 214 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0655860 | AT5G04800.2 | 76.087 | 138 | 31 | 1 | 1 | 138 | 1 | 136 | 1.80e-70 | 208 |
| Msa0655860 | AT5G04800.4 | 76.087 | 138 | 31 | 1 | 1 | 138 | 1 | 136 | 1.80e-70 | 208 |
| Msa0655860 | AT5G04800.3 | 76.087 | 138 | 31 | 1 | 1 | 138 | 1 | 136 | 1.80e-70 | 208 |
| Msa0655860 | AT5G04800.1 | 76.087 | 138 | 31 | 1 | 1 | 138 | 1 | 136 | 1.80e-70 | 208 |
| Msa0655860 | AT3G10610.1 | 74.286 | 140 | 35 | 1 | 1 | 139 | 1 | 140 | 7.99e-70 | 207 |
| Msa0655860 | AT2G04390.1 | 74.468 | 141 | 35 | 1 | 1 | 140 | 1 | 141 | 1.98e-69 | 206 |
| Msa0655860 | AT2G05220.2 | 81.818 | 121 | 22 | 0 | 1 | 121 | 1 | 121 | 6.70e-69 | 204 |
| Msa0655860 | AT2G05220.1 | 81.818 | 121 | 22 | 0 | 1 | 121 | 1 | 121 | 6.70e-69 | 204 |
Find 36 sgRNAs with CRISPR-Local
Find 39 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAGGATTTCTTCACGGTTT+TGG | 0.259892 | 4_3:+64815406 | None:intergenic |
| TTCCTGATGTTTCTGCTATT+AGG | 0.341443 | 4_3:-64815169 | Msa0655860:CDS |
| GAAGATTCCTGGTGTTGTTC+AGG | 0.347999 | 4_3:-64815087 | Msa0655860:CDS |
| CGTCTTCGTAACAAGATTGC+TGG | 0.356034 | 4_3:-64815290 | Msa0655860:CDS |
| CTTGGCATGTCGAAGATTCC+TGG | 0.368757 | 4_3:-64815098 | Msa0655860:CDS |
| TTCTTCAAGGATCTTCTTGT+TGG | 0.377402 | 4_3:+64815334 | None:intergenic |
| CCATATGGGATCTGCTGAAC+AGG | 0.380708 | 4_3:+64815053 | None:intergenic |
| CTAGACATGCTTGCTGCTCT+TGG | 0.411310 | 4_3:-64815116 | Msa0655860:CDS |
| GCACCAGCACCACGACCATA+TGG | 0.428749 | 4_3:+64815038 | None:intergenic |
| ATCCCATATGGTCGTGGTGC+TGG | 0.431174 | 4_3:-64815041 | Msa0655860:CDS |
| TATGGTCGTGGTGCTGGTGC+TGG | 0.432732 | 4_3:-64815035 | Msa0655860:CDS |
| TTCAATGAAATTCCACGAAC+AGG | 0.443778 | 4_3:+64815230 | None:intergenic |
| TCTCATGCAGCGTATTCAAA+AGG | 0.459582 | 4_3:-64815255 | Msa0655860:CDS |
| TTGTTACGAAGACGCTTTGA+AGG | 0.464587 | 4_3:+64815299 | None:intergenic |
| CAAGAGCAGCAAGCATGTCT+AGG | 0.475176 | 4_3:+64815117 | None:intergenic |
| GGATCAAAGCGACTTCTTCA+AGG | 0.477079 | 4_3:+64815321 | None:intergenic |
| TGATCATATTGAGGTTGATA+AGG | 0.481558 | 4_3:-64815144 | Msa0655860:CDS |
| GTCCTAATAGCAGAAACATC+AGG | 0.505221 | 4_3:+64815167 | None:intergenic |
| CCTGTTCAGCAGATCCCATA+TGG | 0.519231 | 4_3:-64815053 | Msa0655860:CDS |
| ATTCAAAAGGGACCTGTTCG+TGG | 0.521534 | 4_3:-64815242 | Msa0655860:CDS |
| TTTGGTTCGGACTCGTCCCA+TGG | 0.523667 | 4_3:+64815424 | None:intergenic |
| TTGACGAGAGGATTTCTTCA+CGG | 0.524605 | 4_3:+64815400 | None:intergenic |
| GGAGGAGCGTGATCGTCGTA+TGG | 0.525336 | 4_3:-64815198 | Msa0655860:CDS |
| TATTAGGACTGATCATATTG+AGG | 0.542204 | 4_3:-64815153 | Msa0655860:CDS |
| GTGGTGCTGGTGCTGGAAGG+AGG | 0.550588 | 4_3:-64815028 | Msa0655860:CDS |
| CTCATGCAGCGTATTCAAAA+GGG | 0.552450 | 4_3:-64815254 | Msa0655860:CDS |
| CACCAGCACCACGACCATAT+GGG | 0.556729 | 4_3:+64815039 | None:intergenic |
| AAGAGCAGCAAGCATGTCTA+GGG | 0.560169 | 4_3:+64815118 | None:intergenic |
| GTCGTGGTGCTGGTGCTGGA+AGG | 0.566651 | 4_3:-64815031 | Msa0655860:CDS |
| TTCATTGAAGCTGCAAGAGG+AGG | 0.567846 | 4_3:-64815216 | Msa0655860:CDS |
| CGATTAACCTGAACAACACC+AGG | 0.574528 | 4_3:+64815080 | None:intergenic |
| CAGCAGATCCCATATGGTCG+TGG | 0.574554 | 4_3:-64815047 | Msa0655860:CDS |
| TGTTACGAAGACGCTTTGAA+GGG | 0.597110 | 4_3:+64815300 | None:intergenic |
| ACGCTCGATGATTTGACGAG+AGG | 0.611995 | 4_3:+64815388 | None:intergenic |
| TAACCACCCTAAAATGACAC+TGG | 0.617615 | 4_3:-64815366 | Msa0655860:CDS |
| AATTTCATTGAAGCTGCAAG+AGG | 0.634258 | 4_3:-64815219 | Msa0655860:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | GAAAATCCAGTGTCATTTTA+GGG | + | chr4_3:64815087-64815106 | None:intergenic | 30.0% |
| !!! | TGAAAATCCAGTGTCATTTT+AGG | + | chr4_3:64815088-64815107 | None:intergenic | 30.0% |
| TATTAGGACTGATCATATTG+AGG | - | chr4_3:64815291-64815310 | Msa0655860:CDS | 30.0% | |
| !! | TGATCATATTGAGGTTGATA+AGG | - | chr4_3:64815300-64815319 | Msa0655860:CDS | 30.0% |
| !!! | ATTTCTTCACGGTTTTGGTT+CGG | + | chr4_3:64815036-64815055 | None:intergenic | 35.0% |
| TTCTTCAAGGATCTTCTTGT+TGG | + | chr4_3:64815113-64815132 | None:intergenic | 35.0% | |
| TTCAATGAAATTCCACGAAC+AGG | + | chr4_3:64815217-64815236 | None:intergenic | 35.0% | |
| AATTTCATTGAAGCTGCAAG+AGG | - | chr4_3:64815225-64815244 | Msa0655860:CDS | 35.0% | |
| ! | TTCCTGATGTTTCTGCTATT+AGG | - | chr4_3:64815275-64815294 | Msa0655860:CDS | 35.0% |
| ! | AGAGGATTTCTTCACGGTTT+TGG | + | chr4_3:64815041-64815060 | None:intergenic | 40.0% |
| TTGACGAGAGGATTTCTTCA+CGG | + | chr4_3:64815047-64815066 | None:intergenic | 40.0% | |
| TAACCACCCTAAAATGACAC+TGG | - | chr4_3:64815078-64815097 | Msa0655860:CDS | 40.0% | |
| !!! | AATCCAGTGTCATTTTAGGG+TGG | + | chr4_3:64815084-64815103 | None:intergenic | 40.0% |
| ! | TGTTACGAAGACGCTTTGAA+GGG | + | chr4_3:64815147-64815166 | None:intergenic | 40.0% |
| TTGTTACGAAGACGCTTTGA+AGG | + | chr4_3:64815148-64815167 | None:intergenic | 40.0% | |
| TCTCATGCAGCGTATTCAAA+AGG | - | chr4_3:64815189-64815208 | Msa0655860:CDS | 40.0% | |
| CTCATGCAGCGTATTCAAAA+GGG | - | chr4_3:64815190-64815209 | Msa0655860:CDS | 40.0% | |
| GTCCTAATAGCAGAAACATC+AGG | + | chr4_3:64815280-64815299 | None:intergenic | 40.0% | |
| GGATCAAAGCGACTTCTTCA+AGG | + | chr4_3:64815126-64815145 | None:intergenic | 45.0% | |
| CGTCTTCGTAACAAGATTGC+TGG | - | chr4_3:64815154-64815173 | Msa0655860:CDS | 45.0% | |
| ATTCAAAAGGGACCTGTTCG+TGG | - | chr4_3:64815202-64815221 | Msa0655860:CDS | 45.0% | |
| TTCATTGAAGCTGCAAGAGG+AGG | - | chr4_3:64815228-64815247 | Msa0655860:CDS | 45.0% | |
| AAGAGCAGCAAGCATGTCTA+GGG | + | chr4_3:64815329-64815348 | None:intergenic | 45.0% | |
| !! | GAAGATTCCTGGTGTTGTTC+AGG | - | chr4_3:64815357-64815376 | Msa0655860:CDS | 45.0% |
| CGATTAACCTGAACAACACC+AGG | + | chr4_3:64815367-64815386 | None:intergenic | 45.0% | |
| ACGCTCGATGATTTGACGAG+AGG | + | chr4_3:64815059-64815078 | None:intergenic | 50.0% | |
| CAAGAGCAGCAAGCATGTCT+AGG | + | chr4_3:64815330-64815349 | None:intergenic | 50.0% | |
| ! | CTAGACATGCTTGCTGCTCT+TGG | - | chr4_3:64815328-64815347 | Msa0655860:CDS | 50.0% |
| CTTGGCATGTCGAAGATTCC+TGG | - | chr4_3:64815346-64815365 | Msa0655860:CDS | 50.0% | |
| CCATATGGGATCTGCTGAAC+AGG | + | chr4_3:64815394-64815413 | None:intergenic | 50.0% | |
| CCTGTTCAGCAGATCCCATA+TGG | - | chr4_3:64815391-64815410 | Msa0655860:CDS | 50.0% | |
| CAGCAGATCCCATATGGTCG+TGG | - | chr4_3:64815397-64815416 | Msa0655860:CDS | 55.0% | |
| ATCCCATATGGTCGTGGTGC+TGG | - | chr4_3:64815403-64815422 | Msa0655860:CDS | 55.0% | |
| CACCAGCACCACGACCATAT+GGG | + | chr4_3:64815408-64815427 | None:intergenic | 55.0% | |
| ! | GGAGGAGCGTGATCGTCGTA+TGG | - | chr4_3:64815246-64815265 | Msa0655860:CDS | 60.0% |
| GCACCAGCACCACGACCATA+TGG | + | chr4_3:64815409-64815428 | None:intergenic | 60.0% | |
| !! | TATGGTCGTGGTGCTGGTGC+TGG | - | chr4_3:64815409-64815428 | Msa0655860:CDS | 60.0% |
| !! | GTCGTGGTGCTGGTGCTGGA+AGG | - | chr4_3:64815413-64815432 | Msa0655860:CDS | 65.0% |
| !! | GTGGTGCTGGTGCTGGAAGG+AGG | - | chr4_3:64815416-64815435 | Msa0655860:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 64815022 | 64815444 | 64815022 | ID=Msa0655860;Name=Msa0655860 |
| chr4_3 | mRNA | 64815022 | 64815444 | 64815022 | ID=Msa0655860-mRNA-1;Parent=Msa0655860;Name=Msa0655860-mRNA-1;_AED=0.28;_eAED=0.28;_QI=0|-1|0|1|-1|1|1|0|140 |
| chr4_3 | exon | 64815022 | 64815444 | 64815022 | ID=Msa0655860-mRNA-1:exon:18387;Parent=Msa0655860-mRNA-1 |
| chr4_3 | CDS | 64815022 | 64815444 | 64815022 | ID=Msa0655860-mRNA-1:cds;Parent=Msa0655860-mRNA-1 |
| Gene Sequence |
| Protein sequence |
