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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1173730 | KEH39621.1 | 95.122 | 246 | 12 | 0 | 1 | 246 | 1 | 246 | 7.29e-174 | 488 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0259710 | Msa1173730 | 0.868774 | 5.083480e-66 | -8.615850e-47 |
| Msa0305510 | Msa1173730 | 0.890230 | 1.188327e-73 | -8.615850e-47 |
| Msa0331910 | Msa1173730 | 0.852429 | 4.642932e-61 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1173730 | MtrunA17_Chr2g0333711 | 95.122 | 246 | 12 | 0 | 1 | 246 | 1 | 246 | 6.70e-178 | 488 |
| Msa1173730 | MtrunA17_Chr7g0237151 | 44.118 | 68 | 38 | 0 | 16 | 83 | 10 | 77 | 1.23e-15 | 75.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 51 sgRNAs with CRISPR-Local
Find 50 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTTTCCTTTGTTGCATTAC+TGG | 0.113620 | 8_1:-4249562 | Msa1173720:intron |
| GAGCATGGTCTTCTGATTAT+TGG | 0.232613 | 8_1:+4249679 | Msa1173730:CDS |
| TAGTCACGCCTCCGTTAAAT+AGG | 0.265222 | 8_1:-4249530 | Msa1173720:intron |
| AGCTTTCGTATTGTGCTTAT+TGG | 0.272521 | 8_1:-4249219 | Msa1173720:CDS |
| TCAGAAGACCATGCTCTCTT+AGG | 0.320245 | 8_1:-4249672 | Msa1173720:intron |
| TCTCTACTTGTTGTATCTTC+AGG | 0.376832 | 8_1:+4249358 | Msa1173730:CDS |
| CACAAAGTTATTTCATTCCT+CGG | 0.395422 | 8_1:-4249724 | Msa1173720:intron |
| GTCATCTTCCTTCGCTGTGC+GGG | 0.407572 | 8_1:-4249328 | Msa1173720:CDS |
| ATACAAAGACCATGCTTCTT+CGG | 0.412757 | 8_1:+4249025 | Msa1173730:CDS |
| CAGGAAGAGGAAGACAGATT+TGG | 0.425332 | 8_1:+4249632 | Msa1173730:CDS |
| CCAAGCATGAGCACCGTGTC+TGG | 0.442539 | 8_1:-4249177 | Msa1173720:CDS |
| CCAGACACGGTGCTCATGCT+TGG | 0.470917 | 8_1:+4249177 | Msa1173730:CDS |
| GCAGGAGAAGGAGAGTTCCT+TGG | 0.474726 | 8_1:-4249255 | Msa1173720:intron |
| GTGATAGCAATACAGCAAAC+AGG | 0.492624 | 8_1:+4249613 | Msa1173730:CDS |
| GTAGATGTTAATGAAACAAA+TGG | 0.498159 | 8_1:+4249477 | Msa1173730:CDS |
| ATGAACCTCAACACGACCAC+CGG | 0.503765 | 8_1:-4249058 | Msa1173720:CDS |
| GATGCGCAACACAGCATCTC+GGG | 0.506782 | 8_1:-4249119 | Msa1173720:CDS |
| AGCACAATACGAAAGCTTCA+AGG | 0.507043 | 8_1:+4249225 | Msa1173730:CDS |
| GCAATACAGCAAACAGGAAG+AGG | 0.507289 | 8_1:+4249619 | Msa1173730:CDS |
| CCGATTGTCATTTCACGAGC+AGG | 0.511520 | 8_1:-4249273 | Msa1173720:intron |
| GTCATTTCACGAGCAGGAGA+AGG | 0.519547 | 8_1:-4249267 | Msa1173720:intron |
| CAACACAGCATCTCGGGTTG+CGG | 0.523737 | 8_1:-4249113 | Msa1173720:CDS |
| CCTGCTCGTGAAATGACAAT+CGG | 0.524302 | 8_1:+4249273 | Msa1173730:CDS |
| CCATCCCGGTGGTCGTGTTG+AGG | 0.534868 | 8_1:+4249053 | Msa1173730:CDS |
| CGTTTGTATTTCAGCAACCA+TGG | 0.536086 | 8_1:+4249142 | Msa1173730:CDS |
| AAACCATGCCATCTTCAAGC+TGG | 0.543658 | 8_1:+4248989 | None:intergenic |
| GTACAAATCCAGCTTGAAGA+TGG | 0.545136 | 8_1:-4248997 | Msa1173720:CDS |
| AGCTTCAAGGTCTTTCTCCA+AGG | 0.548141 | 8_1:+4249238 | Msa1173730:CDS |
| TCGGTAATGCTATCTAGACT+TGG | 0.549981 | 8_1:-4249705 | Msa1173720:intron |
| CTTCTTCGGATTGTCCATCC+CGG | 0.566311 | 8_1:+4249039 | Msa1173730:CDS |
| AAGAGGAAGACAGATTTGGC+AGG | 0.566846 | 8_1:+4249636 | Msa1173730:CDS |
| ATGATCTCAGCTGCAGTCAC+AGG | 0.566923 | 8_1:-4249087 | Msa1173720:CDS |
| CAAGAAATCAGAAACAAGAT+CGG | 0.579060 | 8_1:+4249437 | Msa1173730:CDS |
| CCTCAACACGACCACCGGGA+TGG | 0.580543 | 8_1:-4249053 | Msa1173720:CDS |
| GGATGCGCAACACAGCATCT+CGG | 0.580572 | 8_1:-4249120 | Msa1173720:CDS |
| CACACAATCCCGCACAGCGA+AGG | 0.581547 | 8_1:+4249320 | Msa1173730:CDS |
| TGTCATCTTCCTTCGCTGTG+CGG | 0.586769 | 8_1:-4249329 | Msa1173720:CDS |
| AATCCAGCTTGAAGATGGCA+TGG | 0.595774 | 8_1:-4248992 | Msa1173720:CDS |
| GTTTGTATTTCAGCAACCAT+GGG | 0.600791 | 8_1:+4249143 | Msa1173730:CDS |
| TGAACCTCAACACGACCACC+GGG | 0.601755 | 8_1:-4249057 | Msa1173720:CDS |
| CATGGTTGCTGAAATACAAA+CGG | 0.602757 | 8_1:-4249141 | Msa1173720:CDS |
| GAGGCTCTCCTAAGAGAGCA+TGG | 0.602885 | 8_1:+4249664 | Msa1173730:CDS |
| ATGGACAATCCGAAGAAGCA+TGG | 0.615251 | 8_1:-4249034 | Msa1173720:intron |
| AAATGCCAGTAATGCAACAA+AGG | 0.625053 | 8_1:+4249557 | Msa1173730:CDS |
| TCTGGTTCAACAACTGCCCA+TGG | 0.636749 | 8_1:-4249159 | Msa1173720:CDS |
| GATGTTAATGAAACAAATGG+CGG | 0.643670 | 8_1:+4249480 | Msa1173730:CDS |
| GGCAGTTGTTGAACCAGACA+CGG | 0.650306 | 8_1:+4249164 | Msa1173730:CDS |
| TTTGTGCGCCTATTTAACGG+AGG | 0.669767 | 8_1:+4249522 | Msa1173730:CDS |
| CTTCGGATTGTCCATCCCGG+TGG | 0.692959 | 8_1:+4249042 | Msa1173730:CDS |
| TTGCTGTATTGCTATCACGA+AGG | 0.708204 | 8_1:-4249608 | Msa1173720:intron |
| AAGTCTAGATAGCATTACCG+AGG | 0.716104 | 8_1:+4249707 | Msa1173730:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | GTAGATGTTAATGAAACAAA+TGG | + | chr8_1:4249477-4249496 | Msa1173730:CDS | 25.0% |
| CAAGAAATCAGAAACAAGAT+CGG | + | chr8_1:4249437-4249456 | Msa1173730:CDS | 30.0% | |
| GATGTTAATGAAACAAATGG+CGG | + | chr8_1:4249480-4249499 | Msa1173730:CDS | 30.0% | |
| !!! | TTTTTTGTGCGCCTATTTAA+CGG | + | chr8_1:4249519-4249538 | Msa1173730:CDS | 30.0% |
| ATACAAAGACCATGCTTCTT+CGG | + | chr8_1:4249025-4249044 | Msa1173730:CDS | 35.0% | |
| CATGGTTGCTGAAATACAAA+CGG | - | chr8_1:4249144-4249163 | Msa1173720:CDS | 35.0% | |
| GTTTGTATTTCAGCAACCAT+GGG | + | chr8_1:4249143-4249162 | Msa1173730:CDS | 35.0% | |
| AGCTTTCGTATTGTGCTTAT+TGG | - | chr8_1:4249222-4249241 | Msa1173720:CDS | 35.0% | |
| !! | TCTCTACTTGTTGTATCTTC+AGG | + | chr8_1:4249358-4249377 | Msa1173730:CDS | 35.0% |
| AAATGCCAGTAATGCAACAA+AGG | + | chr8_1:4249557-4249576 | Msa1173730:CDS | 35.0% | |
| TGTTTCCTTTGTTGCATTAC+TGG | - | chr8_1:4249565-4249584 | Msa1173720:intron | 35.0% | |
| GTACAAATCCAGCTTGAAGA+TGG | - | chr8_1:4249000-4249019 | Msa1173720:intron | 40.0% | |
| CGTTTGTATTTCAGCAACCA+TGG | + | chr8_1:4249142-4249161 | Msa1173730:CDS | 40.0% | |
| AGCACAATACGAAAGCTTCA+AGG | + | chr8_1:4249225-4249244 | Msa1173730:CDS | 40.0% | |
| TTGCTGTATTGCTATCACGA+AGG | - | chr8_1:4249611-4249630 | Msa1173720:intron | 40.0% | |
| GTGATAGCAATACAGCAAAC+AGG | + | chr8_1:4249613-4249632 | Msa1173730:CDS | 40.0% | |
| ACAGATTTGGCAGGAAAAAG+AGG | + | chr8_1:4249645-4249664 | Msa1173730:CDS | 40.0% | |
| GAGCATGGTCTTCTGATTAT+TGG | + | chr8_1:4249679-4249698 | Msa1173730:CDS | 40.0% | |
| TCGGTAATGCTATCTAGACT+TGG | - | chr8_1:4249708-4249727 | Msa1173720:intron | 40.0% | |
| AAGTCTAGATAGCATTACCG+AGG | + | chr8_1:4249707-4249726 | Msa1173730:CDS | 40.0% | |
| ATGGACAATCCGAAGAAGCA+TGG | - | chr8_1:4249037-4249056 | Msa1173720:CDS | 45.0% | |
| AGCTTCAAGGTCTTTCTCCA+AGG | + | chr8_1:4249238-4249257 | Msa1173730:CDS | 45.0% | |
| CCTGCTCGTGAAATGACAAT+CGG | + | chr8_1:4249273-4249292 | Msa1173730:CDS | 45.0% | |
| TTTGTGCGCCTATTTAACGG+AGG | + | chr8_1:4249522-4249541 | Msa1173730:CDS | 45.0% | |
| TAGTCACGCCTCCGTTAAAT+AGG | - | chr8_1:4249533-4249552 | Msa1173720:intron | 45.0% | |
| GCAATACAGCAAACAGGAAG+AGG | + | chr8_1:4249619-4249638 | Msa1173730:CDS | 45.0% | |
| CAGGAAGAGGAAGACAGATT+TGG | + | chr8_1:4249632-4249651 | Msa1173730:CDS | 45.0% | |
| AAGAGGAAGACAGATTTGGC+AGG | + | chr8_1:4249636-4249655 | Msa1173730:CDS | 45.0% | |
| TCAGAAGACCATGCTCTCTT+AGG | - | chr8_1:4249675-4249694 | Msa1173720:intron | 45.0% | |
| CTTCTTCGGATTGTCCATCC+CGG | + | chr8_1:4249039-4249058 | Msa1173730:CDS | 50.0% | |
| ATGAACCTCAACACGACCAC+CGG | - | chr8_1:4249061-4249080 | Msa1173720:CDS | 50.0% | |
| ATGATCTCAGCTGCAGTCAC+AGG | - | chr8_1:4249090-4249109 | Msa1173720:CDS | 50.0% | |
| ! | TCTGGTTCAACAACTGCCCA+TGG | - | chr8_1:4249162-4249181 | Msa1173720:CDS | 50.0% |
| GGCAGTTGTTGAACCAGACA+CGG | + | chr8_1:4249164-4249183 | Msa1173730:CDS | 50.0% | |
| GTCATTTCACGAGCAGGAGA+AGG | - | chr8_1:4249270-4249289 | Msa1173720:intron | 50.0% | |
| ! | CCGATTGTCATTTCACGAGC+AGG | - | chr8_1:4249276-4249295 | Msa1173720:intron | 50.0% |
| TGTCATCTTCCTTCGCTGTG+CGG | - | chr8_1:4249332-4249351 | Msa1173720:CDS | 50.0% | |
| TGAACCTCAACACGACCACC+GGG | - | chr8_1:4249060-4249079 | Msa1173720:CDS | 55.0% | |
| ! | CAACACAGCATCTCGGGTTG+CGG | - | chr8_1:4249116-4249135 | Msa1173720:CDS | 55.0% |
| GATGCGCAACACAGCATCTC+GGG | - | chr8_1:4249122-4249141 | Msa1173720:CDS | 55.0% | |
| GGATGCGCAACACAGCATCT+CGG | - | chr8_1:4249123-4249142 | Msa1173720:CDS | 55.0% | |
| GCAGGAGAAGGAGAGTTCCT+TGG | - | chr8_1:4249258-4249277 | Msa1173720:intron | 55.0% | |
| GTCATCTTCCTTCGCTGTGC+GGG | - | chr8_1:4249331-4249350 | Msa1173720:CDS | 55.0% | |
| GAGGCTCTCCTAAGAGAGCA+TGG | + | chr8_1:4249664-4249683 | Msa1173730:CDS | 55.0% | |
| CTTCGGATTGTCCATCCCGG+TGG | + | chr8_1:4249042-4249061 | Msa1173730:CDS | 60.0% | |
| ! | CCAAGCATGAGCACCGTGTC+TGG | - | chr8_1:4249180-4249199 | Msa1173720:CDS | 60.0% |
| CCAGACACGGTGCTCATGCT+TGG | + | chr8_1:4249177-4249196 | Msa1173730:CDS | 60.0% | |
| CACACAATCCCGCACAGCGA+AGG | + | chr8_1:4249320-4249339 | Msa1173730:CDS | 60.0% | |
| CCTCAACACGACCACCGGGA+TGG | - | chr8_1:4249056-4249075 | Msa1173720:CDS | 65.0% | |
| CCATCCCGGTGGTCGTGTTG+AGG | + | chr8_1:4249053-4249072 | Msa1173730:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 4248994 | 4249734 | 4248994 | ID=Msa1173730;Name=Msa1173730 |
| chr8_1 | mRNA | 4248994 | 4249734 | 4248994 | ID=Msa1173730-mRNA-1;Parent=Msa1173730;Name=Msa1173730-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|246 |
| chr8_1 | exon | 4248994 | 4249734 | 4248994 | ID=Msa1173730-mRNA-1:exon:1490;Parent=Msa1173730-mRNA-1 |
| chr8_1 | CDS | 4248994 | 4249734 | 4248994 | ID=Msa1173730-mRNA-1:cds;Parent=Msa1173730-mRNA-1 |
| Gene Sequence |
| Protein sequence |
