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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0096500 | XP_013465857.1 | 97.260 | 292 | 8 | 0 | 8 | 299 | 60 | 351 | 0.0 | 589 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0096500 | A0A072VER0 | 97.260 | 292 | 8 | 0 | 8 | 299 | 60 | 351 | 0.0 | 589 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0053950 | Msa0096500 | 0.954441 | 2.935852e-112 | -8.615850e-47 |
| Msa0096500 | Msa1347080 | 0.956252 | 4.568720e-114 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0096500 | MtrunA17_Chr1g0150621 | 97.260 | 292 | 8 | 0 | 8 | 299 | 60 | 351 | 0.0 | 589 |
| Msa0096500 | MtrunA17_Chr3g0136591 | 57.895 | 57 | 23 | 1 | 237 | 292 | 1 | 57 | 3.05e-14 | 67.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0096500 | AT5G21280.2 | 86.957 | 46 | 6 | 0 | 6 | 51 | 50 | 95 | 6.12e-20 | 88.2 |
| Msa0096500 | AT5G21280.1 | 86.957 | 46 | 6 | 0 | 6 | 51 | 50 | 95 | 7.75e-20 | 88.2 |
Find 44 sgRNAs with CRISPR-Local
Find 104 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTAAATTTCTTGAAGAAAA+TGG | 0.148225 | 1_3:-2213785 | Msa0096500:CDS |
| TGTTGTTGTTATTAAGTAAA+AGG | 0.179289 | 1_3:+2214088 | None:intergenic |
| TTGACATTGAGAAGGATTTA+AGG | 0.233891 | 1_3:-2214344 | Msa0096500:CDS |
| AGGATTTAAGGTTCAATTCT+AGG | 0.243711 | 1_3:-2214332 | Msa0096500:CDS |
| TTCAATCCTAAAGTTTGATT+TGG | 0.246187 | 1_3:+2214147 | None:intergenic |
| ATGGAATGATACTATGAATT+TGG | 0.276126 | 1_3:-2213824 | Msa0096500:CDS |
| TTGCATGATGGATAAATCTT+AGG | 0.307927 | 1_3:+2214303 | None:intergenic |
| ACCCTCCCAAATCAAACTTT+AGG | 0.328417 | 1_3:-2214153 | Msa0096500:CDS |
| GGAGAAAATGATGAAGAAAT+AGG | 0.340088 | 1_3:+2214204 | None:intergenic |
| TCAAGAAAGACTTCTAAATA+TGG | 0.345355 | 1_3:-2214523 | Msa0096500:CDS |
| ATGGAAGAAATGAGATCATT+AGG | 0.369233 | 1_3:-2213865 | Msa0096500:CDS |
| TCAATCCTAAAGTTTGATTT+GGG | 0.370962 | 1_3:+2214148 | None:intergenic |
| TTTAGAAGTCTTTCTTGATA+AGG | 0.374410 | 1_3:+2214528 | None:intergenic |
| AGTTGTAACCCTTGATTCAA+TGG | 0.375357 | 1_3:+2213933 | None:intergenic |
| GAAGGAACTTCATGATCATT+TGG | 0.380061 | 1_3:+2214003 | None:intergenic |
| TGTGATACTTTATTAATTGA+AGG | 0.389073 | 1_3:+2213985 | None:intergenic |
| AGCCGTGGATGATAAACTTA+TGG | 0.408848 | 1_3:-2213884 | Msa0096500:CDS |
| TTCAATGGTATCAACCTCTA+AGG | 0.421714 | 1_3:+2213948 | None:intergenic |
| GTTGTTGTTATTAAGTAAAA+GGG | 0.426331 | 1_3:+2214089 | None:intergenic |
| TGTTGAAATCATGTAAACTA+AGG | 0.431291 | 1_3:+2214124 | None:intergenic |
| AACTTAAAACATGTGAAAGT+TGG | 0.442891 | 1_3:+2214367 | None:intergenic |
| CACTTCCACACTTTCACACA+TGG | 0.459856 | 1_3:-2214227 | Msa0096500:CDS |
| ATTAGGAGAACAATATCAAA+TGG | 0.463158 | 1_3:-2213848 | Msa0096500:CDS |
| CATGTCATGTCTTTGAATCA+TGG | 0.468771 | 1_3:-2213729 | Msa0096500:CDS |
| TGAAGAAGGTGTGACCTTAG+AGG | 0.469277 | 1_3:-2213962 | Msa0096500:CDS |
| AGGTTGATACCATTGAATCA+AGG | 0.469976 | 1_3:-2213942 | Msa0096500:CDS |
| TTCCATAAGTTTATCATCCA+CGG | 0.471668 | 1_3:+2213882 | None:intergenic |
| ATTTGGTTACATCAACTTTG+TGG | 0.479810 | 1_3:-2213807 | Msa0096500:CDS |
| TGAATCAAGGGTTACAACTA+AGG | 0.480638 | 1_3:-2213929 | Msa0096500:CDS |
| AGCTGCTCTATGAAACTTCA+AGG | 0.495899 | 1_3:+2214473 | None:intergenic |
| TCCTAAAGTTTGATTTGGGA+GGG | 0.506107 | 1_3:+2214152 | None:intergenic |
| GAAAATTTGTCATTGCATGA+TGG | 0.520699 | 1_3:+2214291 | None:intergenic |
| GGTTGATACCATTGAATCAA+GGG | 0.522133 | 1_3:-2213941 | Msa0096500:CDS |
| GAGAACAATATCAAATGGAA+TGG | 0.524719 | 1_3:-2213843 | Msa0096500:CDS |
| ATCCTAAAGTTTGATTTGGG+AGG | 0.543720 | 1_3:+2214151 | None:intergenic |
| AATAAAGTATCACATGAAGA+AGG | 0.553615 | 1_3:-2213976 | Msa0096500:CDS |
| AAGACTTCTAAATATGGCTG+AGG | 0.562565 | 1_3:-2214517 | Msa0096500:CDS |
| GTTACAACTAAGGTCGATGA+AGG | 0.563088 | 1_3:-2213919 | Msa0096500:CDS |
| AGCTATGAAACAAGCTAGTG+AGG | 0.606916 | 1_3:-2214454 | Msa0096500:CDS |
| TGATGCATATACAACACAAG+AGG | 0.624458 | 1_3:-2213758 | Msa0096500:CDS |
| ATAGGCCATGTGTGAAAGTG+TGG | 0.642059 | 1_3:+2214222 | None:intergenic |
| AGGAGAATGTCATTCAGCCG+TGG | 0.671234 | 1_3:-2213899 | Msa0096500:CDS |
| TCATTTGGTAGAGAAAGTGA+AGG | 0.702280 | 1_3:+2214018 | None:intergenic |
| AAGTGTGGAAGTGAAAGTGA+AGG | 0.709037 | 1_3:+2214237 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTAAATTTTCAGCCAAAA+GGG | + | chr1_3:2214123-2214142 | None:intergenic | 20.0% |
| !!! | AATTTAAATTTTCAGCCAAA+AGG | + | chr1_3:2214124-2214143 | None:intergenic | 20.0% |
| !!! | GTTGTTGTTATTAAGTAAAA+GGG | + | chr1_3:2214213-2214232 | None:intergenic | 20.0% |
| !!! | TGTTGTTGTTATTAAGTAAA+AGG | + | chr1_3:2214214-2214233 | None:intergenic | 20.0% |
| !! | TGTGATACTTTATTAATTGA+AGG | + | chr1_3:2214317-2214336 | None:intergenic | 20.0% |
| !! | GTTAAATTTCTTGAAGAAAA+TGG | - | chr1_3:2214514-2214533 | Msa0096500:CDS | 20.0% |
| !!! | ATTTAAATTTTCAGCCAAAA+GGG | + | chr1_3:2214123-2214142 | None:intergenic | 20.0% |
| !!! | AATTTAAATTTTCAGCCAAA+AGG | + | chr1_3:2214124-2214143 | None:intergenic | 20.0% |
| !!! | GTTGTTGTTATTAAGTAAAA+GGG | + | chr1_3:2214213-2214232 | None:intergenic | 20.0% |
| !!! | TGTTGTTGTTATTAAGTAAA+AGG | + | chr1_3:2214214-2214233 | None:intergenic | 20.0% |
| !! | TGTGATACTTTATTAATTGA+AGG | + | chr1_3:2214317-2214336 | None:intergenic | 20.0% |
| !! | GTTAAATTTCTTGAAGAAAA+TGG | - | chr1_3:2214514-2214533 | Msa0096500:CDS | 20.0% |
| ! | ACAAAAAACAAGTTAGAAGA+AGG | - | chr1_3:2213733-2213752 | Msa0096500:CDS | 25.0% |
| ! | TTTAGAAGTCTTTCTTGATA+AGG | + | chr1_3:2213774-2213793 | None:intergenic | 25.0% |
| ! | TCAAGAAAGACTTCTAAATA+TGG | - | chr1_3:2213776-2213795 | Msa0096500:CDS | 25.0% |
| ! | AACTTAAAACATGTGAAAGT+TGG | + | chr1_3:2213935-2213954 | None:intergenic | 25.0% |
| !!! | TTTAAGTTTTGACATTGAGA+AGG | - | chr1_3:2213947-2213966 | Msa0096500:CDS | 25.0% |
| !! | TCAATCCTAAAGTTTGATTT+GGG | + | chr1_3:2214154-2214173 | None:intergenic | 25.0% |
| ! | TTCAATCCTAAAGTTTGATT+TGG | + | chr1_3:2214155-2214174 | None:intergenic | 25.0% |
| ! | TGTTGAAATCATGTAAACTA+AGG | + | chr1_3:2214178-2214197 | None:intergenic | 25.0% |
| !! | AATAAAGTATCACATGAAGA+AGG | - | chr1_3:2214323-2214342 | Msa0096500:CDS | 25.0% |
| ! | ATTAGGAGAACAATATCAAA+TGG | - | chr1_3:2214451-2214470 | Msa0096500:CDS | 25.0% |
| ! | ATGGAATGATACTATGAATT+TGG | - | chr1_3:2214475-2214494 | Msa0096500:CDS | 25.0% |
| ! | ACAAAAAACAAGTTAGAAGA+AGG | - | chr1_3:2213733-2213752 | Msa0096500:CDS | 25.0% |
| ! | TTTAGAAGTCTTTCTTGATA+AGG | + | chr1_3:2213774-2213793 | None:intergenic | 25.0% |
| ! | TCAAGAAAGACTTCTAAATA+TGG | - | chr1_3:2213776-2213795 | Msa0096500:CDS | 25.0% |
| ! | AACTTAAAACATGTGAAAGT+TGG | + | chr1_3:2213935-2213954 | None:intergenic | 25.0% |
| !!! | TTTAAGTTTTGACATTGAGA+AGG | - | chr1_3:2213947-2213966 | Msa0096500:CDS | 25.0% |
| !! | TCAATCCTAAAGTTTGATTT+GGG | + | chr1_3:2214154-2214173 | None:intergenic | 25.0% |
| ! | TTCAATCCTAAAGTTTGATT+TGG | + | chr1_3:2214155-2214174 | None:intergenic | 25.0% |
| ! | TGTTGAAATCATGTAAACTA+AGG | + | chr1_3:2214178-2214197 | None:intergenic | 25.0% |
| !! | AATAAAGTATCACATGAAGA+AGG | - | chr1_3:2214323-2214342 | Msa0096500:CDS | 25.0% |
| ! | ATTAGGAGAACAATATCAAA+TGG | - | chr1_3:2214451-2214470 | Msa0096500:CDS | 25.0% |
| ! | ATGGAATGATACTATGAATT+TGG | - | chr1_3:2214475-2214494 | Msa0096500:CDS | 25.0% |
| TTGACATTGAGAAGGATTTA+AGG | - | chr1_3:2213955-2213974 | Msa0096500:CDS | 30.0% | |
| ! | AGGATTTAAGGTTCAATTCT+AGG | - | chr1_3:2213967-2213986 | Msa0096500:CDS | 30.0% |
| !! | TTGCATGATGGATAAATCTT+AGG | + | chr1_3:2213999-2214018 | None:intergenic | 30.0% |
| GAAAATTTGTCATTGCATGA+TGG | + | chr1_3:2214011-2214030 | None:intergenic | 30.0% | |
| AGGATGAGAAAAAGAAGAAT+AGG | + | chr1_3:2214045-2214064 | None:intergenic | 30.0% | |
| GGAGAAAATGATGAAGAAAT+AGG | + | chr1_3:2214098-2214117 | None:intergenic | 30.0% | |
| TTCCATAAGTTTATCATCCA+CGG | + | chr1_3:2214420-2214439 | None:intergenic | 30.0% | |
| ATGGAAGAAATGAGATCATT+AGG | - | chr1_3:2214434-2214453 | Msa0096500:CDS | 30.0% | |
| GAGAACAATATCAAATGGAA+TGG | - | chr1_3:2214456-2214475 | Msa0096500:CDS | 30.0% | |
| ATTTGGTTACATCAACTTTG+TGG | - | chr1_3:2214492-2214511 | Msa0096500:CDS | 30.0% | |
| ! | GAATCATGGAATTTTCAACT+TGG | - | chr1_3:2214584-2214603 | Msa0096500:CDS | 30.0% |
| TTGACATTGAGAAGGATTTA+AGG | - | chr1_3:2213955-2213974 | Msa0096500:CDS | 30.0% | |
| ! | AGGATTTAAGGTTCAATTCT+AGG | - | chr1_3:2213967-2213986 | Msa0096500:CDS | 30.0% |
| !! | TTGCATGATGGATAAATCTT+AGG | + | chr1_3:2213999-2214018 | None:intergenic | 30.0% |
| GAAAATTTGTCATTGCATGA+TGG | + | chr1_3:2214011-2214030 | None:intergenic | 30.0% | |
| AGGATGAGAAAAAGAAGAAT+AGG | + | chr1_3:2214045-2214064 | None:intergenic | 30.0% | |
| GGAGAAAATGATGAAGAAAT+AGG | + | chr1_3:2214098-2214117 | None:intergenic | 30.0% | |
| TTCCATAAGTTTATCATCCA+CGG | + | chr1_3:2214420-2214439 | None:intergenic | 30.0% | |
| ATGGAAGAAATGAGATCATT+AGG | - | chr1_3:2214434-2214453 | Msa0096500:CDS | 30.0% | |
| GAGAACAATATCAAATGGAA+TGG | - | chr1_3:2214456-2214475 | Msa0096500:CDS | 30.0% | |
| ATTTGGTTACATCAACTTTG+TGG | - | chr1_3:2214492-2214511 | Msa0096500:CDS | 30.0% | |
| ! | GAATCATGGAATTTTCAACT+TGG | - | chr1_3:2214584-2214603 | Msa0096500:CDS | 30.0% |
| AAGACTTCTAAATATGGCTG+AGG | - | chr1_3:2213782-2213801 | Msa0096500:CDS | 35.0% | |
| ! | ATCATTTTCTCCAACCCTTT+TGG | - | chr1_3:2214106-2214125 | Msa0096500:CDS | 35.0% |
| ! | AAATTTTCAGCCAAAAGGGT+TGG | + | chr1_3:2214119-2214138 | None:intergenic | 35.0% |
| !! | TCCTAAAGTTTGATTTGGGA+GGG | + | chr1_3:2214150-2214169 | None:intergenic | 35.0% |
| !! | ATCCTAAAGTTTGATTTGGG+AGG | + | chr1_3:2214151-2214170 | None:intergenic | 35.0% |
| TCATTTGGTAGAGAAAGTGA+AGG | + | chr1_3:2214284-2214303 | None:intergenic | 35.0% | |
| GAAGGAACTTCATGATCATT+TGG | + | chr1_3:2214299-2214318 | None:intergenic | 35.0% | |
| TTCAATGGTATCAACCTCTA+AGG | + | chr1_3:2214354-2214373 | None:intergenic | 35.0% | |
| !! | AGGTTGATACCATTGAATCA+AGG | - | chr1_3:2214357-2214376 | Msa0096500:CDS | 35.0% |
| ! | GGTTGATACCATTGAATCAA+GGG | - | chr1_3:2214358-2214377 | Msa0096500:CDS | 35.0% |
| AGTTGTAACCCTTGATTCAA+TGG | + | chr1_3:2214369-2214388 | None:intergenic | 35.0% | |
| TGAATCAAGGGTTACAACTA+AGG | - | chr1_3:2214370-2214389 | Msa0096500:CDS | 35.0% | |
| TGATGCATATACAACACAAG+AGG | - | chr1_3:2214541-2214560 | Msa0096500:CDS | 35.0% | |
| CATGTCATGTCTTTGAATCA+TGG | - | chr1_3:2214570-2214589 | Msa0096500:CDS | 35.0% | |
| AAGACTTCTAAATATGGCTG+AGG | - | chr1_3:2213782-2213801 | Msa0096500:CDS | 35.0% | |
| ! | ATCATTTTCTCCAACCCTTT+TGG | - | chr1_3:2214106-2214125 | Msa0096500:CDS | 35.0% |
| ! | AAATTTTCAGCCAAAAGGGT+TGG | + | chr1_3:2214119-2214138 | None:intergenic | 35.0% |
| !! | TCCTAAAGTTTGATTTGGGA+GGG | + | chr1_3:2214150-2214169 | None:intergenic | 35.0% |
| !! | ATCCTAAAGTTTGATTTGGG+AGG | + | chr1_3:2214151-2214170 | None:intergenic | 35.0% |
| TCATTTGGTAGAGAAAGTGA+AGG | + | chr1_3:2214284-2214303 | None:intergenic | 35.0% | |
| GAAGGAACTTCATGATCATT+TGG | + | chr1_3:2214299-2214318 | None:intergenic | 35.0% | |
| TTCAATGGTATCAACCTCTA+AGG | + | chr1_3:2214354-2214373 | None:intergenic | 35.0% | |
| !! | AGGTTGATACCATTGAATCA+AGG | - | chr1_3:2214357-2214376 | Msa0096500:CDS | 35.0% |
| ! | GGTTGATACCATTGAATCAA+GGG | - | chr1_3:2214358-2214377 | Msa0096500:CDS | 35.0% |
| AGTTGTAACCCTTGATTCAA+TGG | + | chr1_3:2214369-2214388 | None:intergenic | 35.0% | |
| TGAATCAAGGGTTACAACTA+AGG | - | chr1_3:2214370-2214389 | Msa0096500:CDS | 35.0% | |
| TGATGCATATACAACACAAG+AGG | - | chr1_3:2214541-2214560 | Msa0096500:CDS | 35.0% | |
| CATGTCATGTCTTTGAATCA+TGG | - | chr1_3:2214570-2214589 | Msa0096500:CDS | 35.0% | |
| AGCTGCTCTATGAAACTTCA+AGG | + | chr1_3:2213829-2213848 | None:intergenic | 40.0% | |
| AGCTATGAAACAAGCTAGTG+AGG | - | chr1_3:2213845-2213864 | Msa0096500:CDS | 40.0% | |
| AAGTGTGGAAGTGAAAGTGA+AGG | + | chr1_3:2214065-2214084 | None:intergenic | 40.0% | |
| ACCCTCCCAAATCAAACTTT+AGG | - | chr1_3:2214146-2214165 | Msa0096500:CDS | 40.0% | |
| GTTACAACTAAGGTCGATGA+AGG | - | chr1_3:2214380-2214399 | Msa0096500:CDS | 40.0% | |
| AGCCGTGGATGATAAACTTA+TGG | - | chr1_3:2214415-2214434 | Msa0096500:CDS | 40.0% | |
| AGCTGCTCTATGAAACTTCA+AGG | + | chr1_3:2213829-2213848 | None:intergenic | 40.0% | |
| AGCTATGAAACAAGCTAGTG+AGG | - | chr1_3:2213845-2213864 | Msa0096500:CDS | 40.0% | |
| AAGTGTGGAAGTGAAAGTGA+AGG | + | chr1_3:2214065-2214084 | None:intergenic | 40.0% | |
| ACCCTCCCAAATCAAACTTT+AGG | - | chr1_3:2214146-2214165 | Msa0096500:CDS | 40.0% | |
| GTTACAACTAAGGTCGATGA+AGG | - | chr1_3:2214380-2214399 | Msa0096500:CDS | 40.0% | |
| AGCCGTGGATGATAAACTTA+TGG | - | chr1_3:2214415-2214434 | Msa0096500:CDS | 40.0% | |
| CACTTCCACACTTTCACACA+TGG | - | chr1_3:2214072-2214091 | Msa0096500:CDS | 45.0% | |
| ATAGGCCATGTGTGAAAGTG+TGG | + | chr1_3:2214080-2214099 | None:intergenic | 45.0% | |
| ! | TGAAGAAGGTGTGACCTTAG+AGG | - | chr1_3:2214337-2214356 | Msa0096500:CDS | 45.0% |
| CACTTCCACACTTTCACACA+TGG | - | chr1_3:2214072-2214091 | Msa0096500:CDS | 45.0% | |
| ATAGGCCATGTGTGAAAGTG+TGG | + | chr1_3:2214080-2214099 | None:intergenic | 45.0% | |
| ! | TGAAGAAGGTGTGACCTTAG+AGG | - | chr1_3:2214337-2214356 | Msa0096500:CDS | 45.0% |
| AGGAGAATGTCATTCAGCCG+TGG | - | chr1_3:2214400-2214419 | Msa0096500:CDS | 50.0% | |
| AGGAGAATGTCATTCAGCCG+TGG | - | chr1_3:2214400-2214419 | Msa0096500:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 2213711 | 2214610 | 2213711 | ID=Msa0096500;Name=Msa0096500 |
| chr1_3 | mRNA | 2213711 | 2214610 | 2213711 | ID=Msa0096500-mRNA-1;Parent=Msa0096500;Name=Msa0096500-mRNA-1;_AED=0.07;_eAED=0.07;_QI=0|-1|0|1|-1|1|1|0|299 |
| chr1_3 | exon | 2213711 | 2214610 | 2213711 | ID=Msa0096500-mRNA-1:exon:529;Parent=Msa0096500-mRNA-1 |
| chr1_3 | CDS | 2213711 | 2214610 | 2213711 | ID=Msa0096500-mRNA-1:cds;Parent=Msa0096500-mRNA-1 |
| Gene Sequence |
| Protein sequence |
