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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0225200 | XP_013465154.1 | 100.000 | 78 | 0 | 0 | 1 | 78 | 1 | 78 | 1.53e-45 | 150 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0225200 | sp|Q1G309|TAX2_ARATH | 73.239 | 71 | 19 | 0 | 8 | 78 | 3 | 73 | 1.58e-24 | 90.1 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0225200 | I3SIC3 | 100.000 | 78 | 0 | 0 | 1 | 78 | 1 | 78 | 7.33e-46 | 150 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0225200 | Msa0262360 | 0.934659 | 2.864647e-96 | -8.615850e-47 |
| Msa0225200 | Msa0300140 | 0.924449 | 6.938951e-90 | -8.615850e-47 |
| Msa0225200 | Msa0481740 | 0.806201 | 9.227707e-50 | -8.615850e-47 |
| Msa0225200 | Msa0481770 | 0.803877 | 2.826066e-49 | -8.615850e-47 |
| Msa0225200 | Msa0816630 | 0.809989 | 1.440453e-50 | -8.615850e-47 |
| Msa0225200 | Msa1080650 | 0.816389 | 5.670312e-52 | -8.615850e-47 |
| Msa0225200 | Msa1126440 | 0.810548 | 1.091174e-50 | -8.615850e-47 |
| Msa0225200 | Msa1157200 | 0.807322 | 5.349993e-50 | -8.615850e-47 |
| Msa0225200 | Msa1401110 | 0.809545 | 1.795033e-50 | -8.615850e-47 |
| Msa0225200 | Msa1453600 | 0.806093 | 9.725954e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0225200 | MtrunA17_Chr2g0324911 | 100.000 | 78 | 0 | 0 | 1 | 78 | 1 | 78 | 1.41e-49 | 150 |
| Msa0225200 | MtrunA17_Chr2g0283451 | 60.811 | 74 | 29 | 0 | 5 | 78 | 7 | 80 | 6.04e-28 | 95.9 |
| Msa0225200 | MtrunA17_Chr4g0040991 | 58.974 | 78 | 31 | 1 | 1 | 78 | 1 | 77 | 5.56e-27 | 93.6 |
| Msa0225200 | MtrunA17_Chr2g0325441 | 53.846 | 78 | 35 | 1 | 1 | 78 | 1 | 77 | 1.35e-25 | 90.1 |
| Msa0225200 | MtrunA17_Chr4g0040491 | 72.727 | 77 | 21 | 0 | 2 | 78 | 3 | 79 | 4.26e-23 | 84.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0225200 | AT2G20562.1 | 73.239 | 71 | 19 | 0 | 8 | 78 | 3 | 73 | 1.60e-25 | 90.1 |
| Msa0225200 | AT2G31090.1 | 59.155 | 71 | 29 | 0 | 8 | 78 | 5 | 75 | 5.04e-21 | 79.0 |
Find 33 sgRNAs with CRISPR-Local
Find 94 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTGCGCTGGATTGGCAAATT+TGG | 0.128393 | 2_1:+75281521 | Msa0225200:CDS |
| CTCTTGTTGGTGCAGTTATC+TGG | 0.152454 | 2_1:+75281041 | Msa0225200:CDS |
| TCTCCACTTCCCCTCGTTCT+TGG | 0.245405 | 2_1:+75280887 | Msa0225200:five_prime_UTR |
| CGAGGGGAAGTGGAGAAGTT+AGG | 0.288412 | 2_1:-75280880 | None:intergenic |
| AGAAAGAAAGAAAGAAAATA+TGG | 0.291970 | 2_1:+75280940 | Msa0225200:exon |
| GAGGGGAAGTGGAGAAGTTA+GGG | 0.336170 | 2_1:-75280879 | None:intergenic |
| TTTCTTTCTATATTCTTCAA+TGG | 0.404934 | 2_1:-75280926 | None:intergenic |
| CAAATTCAAAGAAAACAAAA+AGG | 0.405497 | 2_1:-75281663 | None:intergenic |
| CCATGTTGCATTTGCTGCGC+TGG | 0.414638 | 2_1:+75281507 | Msa0225200:CDS |
| TTGCATTTGCTGCGCTGGAT+TGG | 0.438326 | 2_1:+75281512 | Msa0225200:CDS |
| ATCAAAGCCAAGAGAGCAAA+AGG | 0.457758 | 2_1:-75281013 | None:intergenic |
| GTAAATATCGTAAACTATGA+AGG | 0.463185 | 2_1:-75281620 | None:intergenic |
| TTCCAGTTCGTGTTCTTAAG+TGG | 0.471610 | 2_1:+75281562 | Msa0225200:CDS |
| AACCACTTAAGAACACGAAC+TGG | 0.473947 | 2_1:-75281564 | None:intergenic |
| TGGATTGGCAAATTTGGCTG+TGG | 0.481790 | 2_1:+75281527 | Msa0225200:CDS |
| GGTTGTGAATGCAGGCCATT+GGG | 0.491219 | 2_1:+75280974 | Msa0225200:CDS |
| TGACCAAGAACGAGGGGAAG+TGG | 0.494668 | 2_1:-75280890 | None:intergenic |
| GAAAATATGGCAGATGATGA+AGG | 0.507098 | 2_1:+75280953 | Msa0225200:exon |
| TAAATATCGTAAACTATGAA+GGG | 0.517114 | 2_1:-75281619 | None:intergenic |
| ATGATGAAGGTTGTGAATGC+AGG | 0.535019 | 2_1:+75280966 | Msa0225200:CDS |
| AATCAAAATATATAGACAAA+CGG | 0.544954 | 2_1:-75281728 | None:intergenic |
| GGATTGGCAAATTTGGCTGT+GGG | 0.548115 | 2_1:+75281528 | Msa0225200:CDS |
| CCAGCGCAGCAAATGCAACA+TGG | 0.552638 | 2_1:-75281507 | None:intergenic |
| TTATTTGTATCATGATTCAT+CGG | 0.553612 | 2_1:+75281687 | Msa0225200:three_prime_UTR |
| AGGTTGTGAATGCAGGCCAT+TGG | 0.583286 | 2_1:+75280973 | Msa0225200:CDS |
| CAGCGCAGCAAATGCAACAT+GGG | 0.600667 | 2_1:-75281506 | None:intergenic |
| AGGGGAAGTGGAGAAGTTAG+GGG | 0.612620 | 2_1:-75280878 | None:intergenic |
| AGGGGTCTTCATCTCTAACA+AGG | 0.633868 | 2_1:-75281600 | None:intergenic |
| AAATATCGTAAACTATGAAG+GGG | 0.645560 | 2_1:-75281618 | None:intergenic |
| GGGGAAGTGGAGAAGTTAGG+GGG | 0.647330 | 2_1:-75280877 | None:intergenic |
| TGTGAACGTGACCAAGAACG+AGG | 0.653521 | 2_1:-75280898 | None:intergenic |
| GTGAACGTGACCAAGAACGA+GGG | 0.665471 | 2_1:-75280897 | None:intergenic |
| TGAACGTGACCAAGAACGAG+GGG | 0.695224 | 2_1:-75280896 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATATGATTTCATAAAATAAC+AGG | - | chr2_1:75281245-75281264 | None:intergenic | 15.0% |
| !!! | TTTATTATGTTTTGGTTTTT+TGG | + | chr2_1:75281430-75281449 | Msa0225200:intron | 15.0% |
| !! | AATCAAAATATATAGACAAA+CGG | - | chr2_1:75281731-75281750 | None:intergenic | 15.0% |
| !! | ATATGATTTCATAAAATAAC+AGG | - | chr2_1:75281245-75281264 | None:intergenic | 15.0% |
| !!! | TTTATTATGTTTTGGTTTTT+TGG | + | chr2_1:75281430-75281449 | Msa0225200:intron | 15.0% |
| !! | AATCAAAATATATAGACAAA+CGG | - | chr2_1:75281731-75281750 | None:intergenic | 15.0% |
| !! | TTTCTTTCTATATTCTTCAA+TGG | - | chr2_1:75280929-75280948 | None:intergenic | 20.0% |
| !! | AGAAAGAAAGAAAGAAAATA+TGG | + | chr2_1:75280940-75280959 | Msa0225200:exon | 20.0% |
| !! | AAAGATAAAACTTGATATCT+AGG | + | chr2_1:75281312-75281331 | Msa0225200:intron | 20.0% |
| !! | AAGATAAAACTTGATATCTA+GGG | + | chr2_1:75281313-75281332 | Msa0225200:intron | 20.0% |
| !! | TAAATATCGTAAACTATGAA+GGG | - | chr2_1:75281622-75281641 | None:intergenic | 20.0% |
| !! | CAAATTCAAAGAAAACAAAA+AGG | - | chr2_1:75281666-75281685 | None:intergenic | 20.0% |
| !! | TTATTTGTATCATGATTCAT+CGG | + | chr2_1:75281687-75281706 | Msa0225200:three_prime_UTR | 20.0% |
| !! | TTTCTTTCTATATTCTTCAA+TGG | - | chr2_1:75280929-75280948 | None:intergenic | 20.0% |
| !! | AGAAAGAAAGAAAGAAAATA+TGG | + | chr2_1:75280940-75280959 | Msa0225200:exon | 20.0% |
| !! | AAAGATAAAACTTGATATCT+AGG | + | chr2_1:75281312-75281331 | Msa0225200:intron | 20.0% |
| !! | AAGATAAAACTTGATATCTA+GGG | + | chr2_1:75281313-75281332 | Msa0225200:intron | 20.0% |
| !! | TAAATATCGTAAACTATGAA+GGG | - | chr2_1:75281622-75281641 | None:intergenic | 20.0% |
| !! | CAAATTCAAAGAAAACAAAA+AGG | - | chr2_1:75281666-75281685 | None:intergenic | 20.0% |
| !! | TTATTTGTATCATGATTCAT+CGG | + | chr2_1:75281687-75281706 | Msa0225200:three_prime_UTR | 20.0% |
| ! | AAATATCGTAAACTATGAAG+GGG | - | chr2_1:75281621-75281640 | None:intergenic | 25.0% |
| ! | GTAAATATCGTAAACTATGA+AGG | - | chr2_1:75281623-75281642 | None:intergenic | 25.0% |
| ! | AAATATCGTAAACTATGAAG+GGG | - | chr2_1:75281621-75281640 | None:intergenic | 25.0% |
| ! | GTAAATATCGTAAACTATGA+AGG | - | chr2_1:75281623-75281642 | None:intergenic | 25.0% |
| !! | GCTTTGATTTTATCTCTTGT+TGG | + | chr2_1:75281028-75281047 | Msa0225200:CDS | 30.0% |
| !! | GCTTTGATTTTATCTCTTGT+TGG | + | chr2_1:75281028-75281047 | Msa0225200:CDS | 30.0% |
| GAAAATATGGCAGATGATGA+AGG | + | chr2_1:75280953-75280972 | Msa0225200:exon | 35.0% | |
| AATCCAAGCAAAAAACCCAA+TGG | - | chr2_1:75280992-75281011 | None:intergenic | 35.0% | |
| ! | GTGCAGTTATCTGGATTTTT+GGG | + | chr2_1:75281050-75281069 | Msa0225200:CDS | 35.0% |
| GAAAATATGGCAGATGATGA+AGG | + | chr2_1:75280953-75280972 | Msa0225200:exon | 35.0% | |
| AATCCAAGCAAAAAACCCAA+TGG | - | chr2_1:75280992-75281011 | None:intergenic | 35.0% | |
| ! | GTGCAGTTATCTGGATTTTT+GGG | + | chr2_1:75281050-75281069 | Msa0225200:CDS | 35.0% |
| ATGATGAAGGTTGTGAATGC+AGG | + | chr2_1:75280966-75280985 | Msa0225200:CDS | 40.0% | |
| ! | TGGATTACCTTTTGCTCTCT+TGG | + | chr2_1:75281006-75281025 | Msa0225200:CDS | 40.0% |
| ATCAAAGCCAAGAGAGCAAA+AGG | - | chr2_1:75281016-75281035 | None:intergenic | 40.0% | |
| ! | GGTGCAGTTATCTGGATTTT+TGG | + | chr2_1:75281049-75281068 | Msa0225200:CDS | 40.0% |
| TTCCAGTTCGTGTTCTTAAG+TGG | + | chr2_1:75281562-75281581 | Msa0225200:CDS | 40.0% | |
| AACCACTTAAGAACACGAAC+TGG | - | chr2_1:75281567-75281586 | None:intergenic | 40.0% | |
| ATGATGAAGGTTGTGAATGC+AGG | + | chr2_1:75280966-75280985 | Msa0225200:CDS | 40.0% | |
| ! | TGGATTACCTTTTGCTCTCT+TGG | + | chr2_1:75281006-75281025 | Msa0225200:CDS | 40.0% |
| ATCAAAGCCAAGAGAGCAAA+AGG | - | chr2_1:75281016-75281035 | None:intergenic | 40.0% | |
| ! | GGTGCAGTTATCTGGATTTT+TGG | + | chr2_1:75281049-75281068 | Msa0225200:CDS | 40.0% |
| TTCCAGTTCGTGTTCTTAAG+TGG | + | chr2_1:75281562-75281581 | Msa0225200:CDS | 40.0% | |
| AACCACTTAAGAACACGAAC+TGG | - | chr2_1:75281567-75281586 | None:intergenic | 40.0% | |
| !!! | AGGCCATTGGGTTTTTTGCT+TGG | + | chr2_1:75280986-75281005 | Msa0225200:CDS | 45.0% |
| CTCTTGTTGGTGCAGTTATC+TGG | + | chr2_1:75281041-75281060 | Msa0225200:CDS | 45.0% | |
| TGCGCATCAACTACTTTCAC+CGG | + | chr2_1:75281356-75281375 | Msa0225200:intron | 45.0% | |
| !! | TGGATTGGCAAATTTGGCTG+TGG | + | chr2_1:75281527-75281546 | Msa0225200:CDS | 45.0% |
| ! | GGATTGGCAAATTTGGCTGT+GGG | + | chr2_1:75281528-75281547 | Msa0225200:CDS | 45.0% |
| AGGGGTCTTCATCTCTAACA+AGG | - | chr2_1:75281603-75281622 | None:intergenic | 45.0% | |
| !!! | AGGCCATTGGGTTTTTTGCT+TGG | + | chr2_1:75280986-75281005 | Msa0225200:CDS | 45.0% |
| CTCTTGTTGGTGCAGTTATC+TGG | + | chr2_1:75281041-75281060 | Msa0225200:CDS | 45.0% | |
| TGCGCATCAACTACTTTCAC+CGG | + | chr2_1:75281356-75281375 | Msa0225200:intron | 45.0% | |
| !! | TGGATTGGCAAATTTGGCTG+TGG | + | chr2_1:75281527-75281546 | Msa0225200:CDS | 45.0% |
| ! | GGATTGGCAAATTTGGCTGT+GGG | + | chr2_1:75281528-75281547 | Msa0225200:CDS | 45.0% |
| AGGGGTCTTCATCTCTAACA+AGG | - | chr2_1:75281603-75281622 | None:intergenic | 45.0% | |
| !!! | TATTTTATTTTATTATGTTT+TGG | + | chr2_1:75281422-75281441 | Msa0225200:intron | 5.0% |
| !!! | TATTTTATTTTATTATGTTT+TGG | + | chr2_1:75281422-75281441 | Msa0225200:intron | 5.0% |
| AGGGGAAGTGGAGAAGTTAG+GGG | - | chr2_1:75280881-75280900 | None:intergenic | 50.0% | |
| GAGGGGAAGTGGAGAAGTTA+GGG | - | chr2_1:75280882-75280901 | None:intergenic | 50.0% | |
| TGAACGTGACCAAGAACGAG+GGG | - | chr2_1:75280899-75280918 | None:intergenic | 50.0% | |
| GTGAACGTGACCAAGAACGA+GGG | - | chr2_1:75280900-75280919 | None:intergenic | 50.0% | |
| TGTGAACGTGACCAAGAACG+AGG | - | chr2_1:75280901-75280920 | None:intergenic | 50.0% | |
| AGGTTGTGAATGCAGGCCAT+TGG | + | chr2_1:75280973-75280992 | Msa0225200:CDS | 50.0% | |
| GGTTGTGAATGCAGGCCATT+GGG | + | chr2_1:75280974-75280993 | Msa0225200:CDS | 50.0% | |
| CAGCGCAGCAAATGCAACAT+GGG | - | chr2_1:75281509-75281528 | None:intergenic | 50.0% | |
| ! | TTGCATTTGCTGCGCTGGAT+TGG | + | chr2_1:75281512-75281531 | Msa0225200:CDS | 50.0% |
| !! | CTGCGCTGGATTGGCAAATT+TGG | + | chr2_1:75281521-75281540 | Msa0225200:CDS | 50.0% |
| AGGGGAAGTGGAGAAGTTAG+GGG | - | chr2_1:75280881-75280900 | None:intergenic | 50.0% | |
| GAGGGGAAGTGGAGAAGTTA+GGG | - | chr2_1:75280882-75280901 | None:intergenic | 50.0% | |
| TGAACGTGACCAAGAACGAG+GGG | - | chr2_1:75280899-75280918 | None:intergenic | 50.0% | |
| GTGAACGTGACCAAGAACGA+GGG | - | chr2_1:75280900-75280919 | None:intergenic | 50.0% | |
| TGTGAACGTGACCAAGAACG+AGG | - | chr2_1:75280901-75280920 | None:intergenic | 50.0% | |
| AGGTTGTGAATGCAGGCCAT+TGG | + | chr2_1:75280973-75280992 | Msa0225200:CDS | 50.0% | |
| GGTTGTGAATGCAGGCCATT+GGG | + | chr2_1:75280974-75280993 | Msa0225200:CDS | 50.0% | |
| CAGCGCAGCAAATGCAACAT+GGG | - | chr2_1:75281509-75281528 | None:intergenic | 50.0% | |
| ! | TTGCATTTGCTGCGCTGGAT+TGG | + | chr2_1:75281512-75281531 | Msa0225200:CDS | 50.0% |
| !! | CTGCGCTGGATTGGCAAATT+TGG | + | chr2_1:75281521-75281540 | Msa0225200:CDS | 50.0% |
| GGGGAAGTGGAGAAGTTAGG+GGG | - | chr2_1:75280880-75280899 | None:intergenic | 55.0% | |
| CGAGGGGAAGTGGAGAAGTT+AGG | - | chr2_1:75280883-75280902 | None:intergenic | 55.0% | |
| TCTCCACTTCCCCTCGTTCT+TGG | + | chr2_1:75280887-75280906 | Msa0225200:five_prime_UTR | 55.0% | |
| TGACCAAGAACGAGGGGAAG+TGG | - | chr2_1:75280893-75280912 | None:intergenic | 55.0% | |
| ACTACTTTCACCGGACGCAG+CGG | + | chr2_1:75281365-75281384 | Msa0225200:intron | 55.0% | |
| CCAGCGCAGCAAATGCAACA+TGG | - | chr2_1:75281510-75281529 | None:intergenic | 55.0% | |
| ! | CCATGTTGCATTTGCTGCGC+TGG | + | chr2_1:75281507-75281526 | Msa0225200:CDS | 55.0% |
| GGGGAAGTGGAGAAGTTAGG+GGG | - | chr2_1:75280880-75280899 | None:intergenic | 55.0% | |
| CGAGGGGAAGTGGAGAAGTT+AGG | - | chr2_1:75280883-75280902 | None:intergenic | 55.0% | |
| TCTCCACTTCCCCTCGTTCT+TGG | + | chr2_1:75280887-75280906 | Msa0225200:five_prime_UTR | 55.0% | |
| TGACCAAGAACGAGGGGAAG+TGG | - | chr2_1:75280893-75280912 | None:intergenic | 55.0% | |
| ACTACTTTCACCGGACGCAG+CGG | + | chr2_1:75281365-75281384 | Msa0225200:intron | 55.0% | |
| CCAGCGCAGCAAATGCAACA+TGG | - | chr2_1:75281510-75281529 | None:intergenic | 55.0% | |
| ! | CCATGTTGCATTTGCTGCGC+TGG | + | chr2_1:75281507-75281526 | Msa0225200:CDS | 55.0% |
| ! | TGACTAAGCACCGCTGCGTC+CGG | - | chr2_1:75281378-75281397 | None:intergenic | 60.0% |
| ! | TGACTAAGCACCGCTGCGTC+CGG | - | chr2_1:75281378-75281397 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 75280815 | 75281754 | 75280815 | ID=Msa0225200;Name=Msa0225200 |
| chr2_1 | mRNA | 75280815 | 75281754 | 75280815 | ID=Msa0225200-mRNA-1;Parent=Msa0225200;Name=Msa0225200-mRNA-1;_AED=0.01;_eAED=0.01;_QI=144|1|1|1|1|1|2|146|78 |
| chr2_1 | exon | 75280815 | 75281071 | 75280815 | ID=Msa0225200-mRNA-1:exon:22464;Parent=Msa0225200-mRNA-1 |
| chr2_1 | exon | 75281485 | 75281754 | 75281485 | ID=Msa0225200-mRNA-1:exon:22465;Parent=Msa0225200-mRNA-1 |
| chr2_1 | five_prime_UTR | 75280815 | 75280958 | 75280815 | ID=Msa0225200-mRNA-1:five_prime_utr;Parent=Msa0225200-mRNA-1 |
| chr2_1 | CDS | 75280959 | 75281071 | 75280959 | ID=Msa0225200-mRNA-1:cds;Parent=Msa0225200-mRNA-1 |
| chr2_1 | CDS | 75281485 | 75281608 | 75281485 | ID=Msa0225200-mRNA-1:cds;Parent=Msa0225200-mRNA-1 |
| chr2_1 | three_prime_UTR | 75281609 | 75281754 | 75281609 | ID=Msa0225200-mRNA-1:three_prime_utr;Parent=Msa0225200-mRNA-1 |
| Gene Sequence |
| Protein sequence |
