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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0737340 | PNY16581.1 | 76.596 | 188 | 44 | 0 | 1 | 188 | 1 | 188 | 5.89e-102 | 310 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0737340 | A0A2K3PMS8 | 76.596 | 188 | 44 | 0 | 1 | 188 | 1 | 188 | 2.81e-102 | 310 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0084440 | Msa0737340 | 0.813349 | 2.677609e-51 | -8.615850e-47 |
| Msa0737340 | Msa0840350 | 0.818744 | 1.670293e-52 | -8.615850e-47 |
| Msa0737340 | Msa0870340 | 0.811178 | 7.972648e-51 | -8.615850e-47 |
| Msa0737340 | Msa0888120 | 0.808170 | 3.531914e-50 | -8.615850e-47 |
| Msa0737340 | Msa0905880 | 0.815973 | 7.025210e-52 | -8.615850e-47 |
| Msa0737340 | Msa0942260 | 0.815692 | 8.117545e-52 | -8.615850e-47 |
| Msa0737340 | Msa1012290 | 0.824265 | 8.861973e-54 | -8.615850e-47 |
| Msa0737340 | Msa1268600 | 0.829460 | 5.084808e-55 | -8.615850e-47 |
| Msa0213670 | Msa0737340 | 0.811841 | 5.720794e-51 | -8.615850e-47 |
| Msa0392140 | Msa0737340 | 0.836614 | 8.441394e-57 | -8.615850e-47 |
| Msa0393590 | Msa0737340 | 0.849595 | 2.922693e-60 | -8.615850e-47 |
| Msa0248130 | Msa0737340 | 0.849224 | 3.709955e-60 | -8.615850e-47 |
| Msa0319860 | Msa0737340 | 0.830486 | 2.858719e-55 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0737340 | MtrunA17_Chr6g0471591 | 78.082 | 73 | 16 | 0 | 116 | 188 | 1 | 73 | 1.68e-35 | 120 |
| Msa0737340 | MtrunA17_Chr1g0162531 | 28.495 | 186 | 131 | 2 | 1 | 185 | 1 | 185 | 2.10e-27 | 106 |
| Msa0737340 | MtrunA17_Chr2g0306291 | 27.333 | 150 | 104 | 2 | 29 | 175 | 322 | 469 | 6.93e-20 | 86.7 |
| Msa0737340 | MtrunA17_Chr8g0353411 | 25.828 | 151 | 107 | 2 | 35 | 182 | 88 | 236 | 2.82e-16 | 75.9 |
| Msa0737340 | MtrunA17_Chr5g0434491 | 28.302 | 106 | 71 | 2 | 75 | 177 | 1 | 104 | 6.84e-12 | 62.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 46 sgRNAs with CRISPR-Local
Find 55 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCATCTGACCTTAACTTTAA+AGG | 0.198569 | 5_1:+54517011 | None:intergenic |
| TTCCTCTCTTCAGGGGTTTC+CGG | 0.203198 | 5_1:+54516883 | None:intergenic |
| AGATGCATTCAAGCGAGTTT+TGG | 0.276158 | 5_1:-54517052 | Msa0737340:CDS |
| TAACCACAGTTCCTCTCTTC+AGG | 0.288185 | 5_1:+54516874 | None:intergenic |
| TTGAAGATTCTTCCATTGAA+TGG | 0.359124 | 5_1:+54517266 | None:intergenic |
| TCTTTGTAGTGAAACGAAAT+AGG | 0.364987 | 5_1:+54517174 | None:intergenic |
| ACGATCTGCCTTTAAAGTTA+AGG | 0.368619 | 5_1:-54517019 | Msa0737340:CDS |
| GAAGATGAAGGAGTGGAGGC+AGG | 0.405340 | 5_1:-54517356 | Msa0737340:CDS |
| ACTCTCTTGTGGGGAAGCTC+TGG | 0.420459 | 5_1:-54517298 | Msa0737340:CDS |
| GTGGTCCTCAAGCGCCTATC+TGG | 0.420940 | 5_1:-54517098 | Msa0737340:CDS |
| GCAGGTGATATTGAGAGCTT+TGG | 0.432149 | 5_1:-54517338 | Msa0737340:CDS |
| TGAAGATTCTTCCATTGAAT+GGG | 0.436770 | 5_1:+54517267 | None:intergenic |
| AACCACAGTTCCTCTCTTCA+GGG | 0.449926 | 5_1:+54516875 | None:intergenic |
| AGATGTCCTTGGGAAGTTTG+TGG | 0.452872 | 5_1:-54516970 | Msa0737340:CDS |
| AGATGAACAACCTTCTGATC+TGG | 0.457443 | 5_1:-54517075 | Msa0737340:CDS |
| AAGAAGCTTGGAGATGTCCT+TGG | 0.470062 | 5_1:-54516981 | Msa0737340:CDS |
| GATGCTATGGCGAAGAAGCT+TGG | 0.478573 | 5_1:-54516993 | Msa0737340:CDS |
| AACAAGTTATCACTCAAGCT+TGG | 0.480563 | 5_1:-54517244 | Msa0737340:CDS |
| AGACTCACATATTCTTGCCT+TGG | 0.494623 | 5_1:+54516847 | None:intergenic |
| TAGTGAAACGAAATAGGAAA+AGG | 0.495889 | 5_1:+54517180 | None:intergenic |
| AGCAAAGAAGGAAACAGATT+GGG | 0.496215 | 5_1:-54516939 | Msa0737340:CDS |
| AAAGTTAAGGTCAGATGCTA+TGG | 0.499655 | 5_1:-54517006 | Msa0737340:CDS |
| TCAGATCCTGAACCTCTACC+TGG | 0.503681 | 5_1:+54517210 | None:intergenic |
| TATTTCGATCCATGGATAGC+TGG | 0.504499 | 5_1:-54517406 | None:intergenic |
| CAGCAAAGAAGGAAACAGAT+TGG | 0.507861 | 5_1:-54516940 | Msa0737340:CDS |
| TGGACAGAAAACCCATTCAA+TGG | 0.510387 | 5_1:-54517278 | Msa0737340:CDS |
| AGAAGCTTGGAGATGTCCTT+GGG | 0.516483 | 5_1:-54516980 | Msa0737340:CDS |
| TTAAAGTTATGATTGATCTC+CGG | 0.524010 | 5_1:-54516902 | Msa0737340:CDS |
| AGAAGAAGATGAAGGAGTGG+AGG | 0.525542 | 5_1:-54517360 | Msa0737340:CDS |
| GGAAGAAGAAGATGAAGGAG+TGG | 0.535339 | 5_1:-54517363 | Msa0737340:CDS |
| ACAAAGGAAGAAGAAGATGA+AGG | 0.551281 | 5_1:-54517368 | Msa0737340:CDS |
| ATTTCGTTTCACTACAAAGA+GGG | 0.555762 | 5_1:-54517171 | Msa0737340:CDS |
| AAGTTATCACTCAAGCTTGG+AGG | 0.556435 | 5_1:-54517241 | Msa0737340:CDS |
| ATGTTTCGATCAAAACTCCA+TGG | 0.557145 | 5_1:+54517122 | None:intergenic |
| GTGGAGGTAGACAGCAAAGA+AGG | 0.559187 | 5_1:-54516951 | Msa0737340:CDS |
| ACCACAGTTCCTCTCTTCAG+GGG | 0.561823 | 5_1:+54516876 | None:intergenic |
| GAATGCATCTCCAGATCAGA+AGG | 0.578400 | 5_1:+54517065 | None:intergenic |
| CATCTCCAGATAGGCGCTTG+AGG | 0.582859 | 5_1:+54517093 | None:intergenic |
| AAGGTTGTTCATCTCCAGAT+AGG | 0.583022 | 5_1:+54517084 | None:intergenic |
| CTCCGGAAACCCCTGAAGAG+AGG | 0.601483 | 5_1:-54516885 | Msa0737340:CDS |
| CTACCTCCACAAACTTCCCA+AGG | 0.627202 | 5_1:+54516964 | None:intergenic |
| TGTTTCGATCAAAACTCCAT+GGG | 0.634962 | 5_1:+54517123 | None:intergenic |
| TATTTCGTTTCACTACAAAG+AGG | 0.646110 | 5_1:-54517172 | Msa0737340:CDS |
| TGTCCTTGGGAAGTTTGTGG+AGG | 0.655223 | 5_1:-54516967 | Msa0737340:CDS |
| GGAACTGTGGTTAAGTACCA+AGG | 0.672098 | 5_1:-54516864 | Msa0737340:CDS |
| ACCCCTGAAGAGAGGAACTG+TGG | 0.674753 | 5_1:-54516877 | Msa0737340:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TTAAAGTTATGATTGATCTC+CGG | - | chr5_1:54517344-54517363 | Msa0737340:CDS | 25.0% |
| ! | ATTTTTGCTAACTCTCTTGT+GGG | - | chr5_1:54516938-54516957 | Msa0737340:CDS | 30.0% |
| TGAAGATTCTTCCATTGAAT+GGG | + | chr5_1:54516982-54517001 | None:intergenic | 30.0% | |
| TTGAAGATTCTTCCATTGAA+TGG | + | chr5_1:54516983-54517002 | None:intergenic | 30.0% | |
| TAGTGAAACGAAATAGGAAA+AGG | + | chr5_1:54517069-54517088 | None:intergenic | 30.0% | |
| TCTTTGTAGTGAAACGAAAT+AGG | + | chr5_1:54517075-54517094 | None:intergenic | 30.0% | |
| TATTTCGTTTCACTACAAAG+AGG | - | chr5_1:54517074-54517093 | Msa0737340:CDS | 30.0% | |
| ATTTCGTTTCACTACAAAGA+GGG | - | chr5_1:54517075-54517094 | Msa0737340:CDS | 30.0% | |
| GAAAAAAGTGGATCTCACAA+AGG | - | chr5_1:54516862-54516881 | Msa0737340:CDS | 35.0% | |
| ACAAAGGAAGAAGAAGATGA+AGG | - | chr5_1:54516878-54516897 | Msa0737340:CDS | 35.0% | |
| ! | CATTTTTGCTAACTCTCTTG+TGG | - | chr5_1:54516937-54516956 | Msa0737340:CDS | 35.0% |
| ! | TTTTTGCTAACTCTCTTGTG+GGG | - | chr5_1:54516939-54516958 | Msa0737340:CDS | 35.0% |
| AACAAGTTATCACTCAAGCT+TGG | - | chr5_1:54517002-54517021 | Msa0737340:CDS | 35.0% | |
| ! | GCTGATACAGTGTTGAAAAA+TGG | - | chr5_1:54517100-54517119 | Msa0737340:CDS | 35.0% |
| TGTTTCGATCAAAACTCCAT+GGG | + | chr5_1:54517126-54517145 | None:intergenic | 35.0% | |
| ATGTTTCGATCAAAACTCCA+TGG | + | chr5_1:54517127-54517146 | None:intergenic | 35.0% | |
| !! | GAGTTTTGATCGAAACATTG+TGG | - | chr5_1:54517129-54517148 | Msa0737340:CDS | 35.0% |
| !! | ACGATCTGCCTTTAAAGTTA+AGG | - | chr5_1:54517227-54517246 | Msa0737340:CDS | 35.0% |
| GCATCTGACCTTAACTTTAA+AGG | + | chr5_1:54517238-54517257 | None:intergenic | 35.0% | |
| AAAGTTAAGGTCAGATGCTA+TGG | - | chr5_1:54517240-54517259 | Msa0737340:CDS | 35.0% | |
| AGCAAAGAAGGAAACAGATT+GGG | - | chr5_1:54517307-54517326 | Msa0737340:CDS | 35.0% | |
| TGGACAGAAAACCCATTCAA+TGG | - | chr5_1:54516968-54516987 | Msa0737340:CDS | 40.0% | |
| AAGTTATCACTCAAGCTTGG+AGG | - | chr5_1:54517005-54517024 | Msa0737340:CDS | 40.0% | |
| AAAAAACCAGGTAGAGGTTC+AGG | - | chr5_1:54517030-54517049 | Msa0737340:CDS | 40.0% | |
| AAGGTTGTTCATCTCCAGAT+AGG | + | chr5_1:54517165-54517184 | None:intergenic | 40.0% | |
| AGATGAACAACCTTCTGATC+TGG | - | chr5_1:54517171-54517190 | Msa0737340:CDS | 40.0% | |
| ! | AGATGCATTCAAGCGAGTTT+TGG | - | chr5_1:54517194-54517213 | Msa0737340:CDS | 40.0% |
| ! | GATGCATTCAAGCGAGTTTT+GGG | - | chr5_1:54517195-54517214 | Msa0737340:CDS | 40.0% |
| CAGCAAAGAAGGAAACAGAT+TGG | - | chr5_1:54517306-54517325 | Msa0737340:CDS | 40.0% | |
| GGAAGAAGAAGATGAAGGAG+TGG | - | chr5_1:54516883-54516902 | Msa0737340:CDS | 45.0% | |
| AGAAGAAGATGAAGGAGTGG+AGG | - | chr5_1:54516886-54516905 | Msa0737340:CDS | 45.0% | |
| GCAGGTGATATTGAGAGCTT+TGG | - | chr5_1:54516908-54516927 | Msa0737340:CDS | 45.0% | |
| AGCTTGGAGGCTAAAAAACC+AGG | - | chr5_1:54517018-54517037 | Msa0737340:CDS | 45.0% | |
| GAGGCTAAAAAACCAGGTAG+AGG | - | chr5_1:54517024-54517043 | Msa0737340:CDS | 45.0% | |
| ! | CAGTGTTGAAAAATGGCCCA+TGG | - | chr5_1:54517107-54517126 | Msa0737340:CDS | 45.0% |
| GAATGCATCTCCAGATCAGA+AGG | + | chr5_1:54517184-54517203 | None:intergenic | 45.0% | |
| AAGAAGCTTGGAGATGTCCT+TGG | - | chr5_1:54517265-54517284 | Msa0737340:CDS | 45.0% | |
| AGAAGCTTGGAGATGTCCTT+GGG | - | chr5_1:54517266-54517285 | Msa0737340:CDS | 45.0% | |
| AGATGTCCTTGGGAAGTTTG+TGG | - | chr5_1:54517276-54517295 | Msa0737340:CDS | 45.0% | |
| AACCACAGTTCCTCTCTTCA+GGG | + | chr5_1:54517374-54517393 | None:intergenic | 45.0% | |
| TAACCACAGTTCCTCTCTTC+AGG | + | chr5_1:54517375-54517394 | None:intergenic | 45.0% | |
| GGAACTGTGGTTAAGTACCA+AGG | - | chr5_1:54517382-54517401 | Msa0737340:CDS | 45.0% | |
| TCAGATCCTGAACCTCTACC+TGG | + | chr5_1:54517039-54517058 | None:intergenic | 50.0% | |
| GATGCTATGGCGAAGAAGCT+TGG | - | chr5_1:54517253-54517272 | Msa0737340:CDS | 50.0% | |
| TGTCCTTGGGAAGTTTGTGG+AGG | - | chr5_1:54517279-54517298 | Msa0737340:CDS | 50.0% | |
| CTACCTCCACAAACTTCCCA+AGG | + | chr5_1:54517285-54517304 | None:intergenic | 50.0% | |
| GTGGAGGTAGACAGCAAAGA+AGG | - | chr5_1:54517295-54517314 | Msa0737340:CDS | 50.0% | |
| TTCCTCTCTTCAGGGGTTTC+CGG | + | chr5_1:54517366-54517385 | None:intergenic | 50.0% | |
| ACCACAGTTCCTCTCTTCAG+GGG | + | chr5_1:54517373-54517392 | None:intergenic | 50.0% | |
| GAAGATGAAGGAGTGGAGGC+AGG | - | chr5_1:54516890-54516909 | Msa0737340:CDS | 55.0% | |
| ACTCTCTTGTGGGGAAGCTC+TGG | - | chr5_1:54516948-54516967 | Msa0737340:CDS | 55.0% | |
| CATCTCCAGATAGGCGCTTG+AGG | + | chr5_1:54517156-54517175 | None:intergenic | 55.0% | |
| ACCCCTGAAGAGAGGAACTG+TGG | - | chr5_1:54517369-54517388 | Msa0737340:CDS | 55.0% | |
| GTGGTCCTCAAGCGCCTATC+TGG | - | chr5_1:54517148-54517167 | Msa0737340:CDS | 60.0% | |
| CTCCGGAAACCCCTGAAGAG+AGG | - | chr5_1:54517361-54517380 | Msa0737340:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_1 | gene | 54516851 | 54517417 | 54516851 | ID=Msa0737340;Name=Msa0737340 |
| chr5_1 | mRNA | 54516851 | 54517417 | 54516851 | ID=Msa0737340-mRNA-1;Parent=Msa0737340;Name=Msa0737340-mRNA-1;_AED=0.42;_eAED=0.76;_QI=0|-1|0|1|-1|1|1|0|188 |
| chr5_1 | exon | 54516851 | 54517417 | 54516851 | ID=Msa0737340-mRNA-1:exon:15305;Parent=Msa0737340-mRNA-1 |
| chr5_1 | CDS | 54516851 | 54517417 | 54516851 | ID=Msa0737340-mRNA-1:cds;Parent=Msa0737340-mRNA-1 |
| Gene Sequence |
| Protein sequence |
