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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0210140 | XP_003610737.1 | 94.186 | 172 | 9 | 1 | 1 | 171 | 19 | 190 | 7.08e-112 | 326 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0210140 | sp|P05332|YP20_BACLI | 32.934 | 167 | 107 | 3 | 3 | 166 | 8 | 172 | 9.54e-17 | 76.6 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0210140 | G7K3P2 | 94.186 | 172 | 9 | 1 | 1 | 171 | 19 | 190 | 3.38e-112 | 326 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0210140 | TR | GNAT |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0210140 | MtrunA17_Chr5g0394621 | 94.186 | 172 | 9 | 1 | 1 | 171 | 19 | 190 | 6.51e-116 | 326 |
| Msa0210140 | MtrunA17_Chr5g0394631 | 79.630 | 162 | 33 | 0 | 1 | 162 | 19 | 180 | 2.95e-88 | 263 |
| Msa0210140 | MtrunA17_Chr5g0394631 | 74.432 | 176 | 38 | 5 | 1 | 171 | 228 | 401 | 1.34e-80 | 244 |
| Msa0210140 | MtrunA17_Chr1g0204951 | 67.665 | 167 | 52 | 1 | 1 | 167 | 21 | 185 | 1.56e-79 | 234 |
| Msa0210140 | MtrunA17_Chr1g0204971 | 64.072 | 167 | 58 | 1 | 1 | 167 | 21 | 185 | 7.92e-75 | 222 |
| Msa0210140 | MtrunA17_Chr7g0273661 | 40.909 | 154 | 88 | 1 | 1 | 154 | 6 | 156 | 1.90e-39 | 131 |
| Msa0210140 | MtrunA17_Chr7g0223351 | 37.952 | 166 | 98 | 3 | 2 | 167 | 7 | 167 | 4.29e-34 | 118 |
| Msa0210140 | MtrunA17_Chr7g0223361 | 37.576 | 165 | 99 | 2 | 2 | 166 | 7 | 167 | 6.98e-34 | 117 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0210140 | AT2G32030.1 | 51.515 | 165 | 73 | 3 | 3 | 166 | 24 | 182 | 2.61e-56 | 175 |
| Msa0210140 | AT2G32020.1 | 50.000 | 166 | 76 | 2 | 3 | 167 | 19 | 178 | 3.30e-52 | 165 |
| Msa0210140 | AT3G22560.1 | 39.053 | 169 | 98 | 2 | 2 | 168 | 6 | 171 | 4.03e-36 | 124 |
Find 43 sgRNAs with CRISPR-Local
Find 46 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATCAAGGTCAGAAAGATTA+AGG | 0.227074 | 2_1:+50069688 | Msa0210130:intron |
| TGTTGGGTCTCAAAGAGTTT+TGG | 0.282550 | 2_1:-50069325 | Msa0210140:CDS |
| ATGTTCTAGGCTATAAATAT+TGG | 0.289347 | 2_1:-50069449 | Msa0210140:CDS |
| TGTTCTAGGCTATAAATATT+GGG | 0.307390 | 2_1:-50069448 | Msa0210140:CDS |
| GCAGAACTTGGCTATGTTCT+AGG | 0.310077 | 2_1:-50069462 | Msa0210140:CDS |
| GCTATAAATATTGGGGTAAA+GGG | 0.313408 | 2_1:-50069440 | Msa0210140:CDS |
| TAAGGGGTCGGAGTGTGATT+TGG | 0.336127 | 2_1:+50069706 | Msa0210130:intron |
| AAGGGGTCGGAGTGTGATTT+GGG | 0.387621 | 2_1:+50069707 | Msa0210130:intron |
| CCAAACAATTGAATTATAGT+TGG | 0.393357 | 2_1:+50069205 | Msa0210130:intron |
| ATATAGCTACCAAGTTTCTA+TGG | 0.402105 | 2_1:-50069572 | Msa0210140:CDS |
| GTCGGAGTGTGATTTGGGTC+AGG | 0.419399 | 2_1:+50069712 | Msa0210130:intron |
| GGCTATAAATATTGGGGTAA+AGG | 0.427948 | 2_1:-50069441 | Msa0210140:CDS |
| GTTGATGCCATCATCCTTGC+TGG | 0.429573 | 2_1:+50069605 | Msa0210130:intron |
| ATTCTGTGAGTTGTCTTACT+TGG | 0.446468 | 2_1:-50069379 | Msa0210140:CDS |
| AGTGGCCAAGTTCTGCTCTT+GGG | 0.462852 | 2_1:-50069637 | Msa0210140:CDS |
| AAGTGGCCAAGTTCTGCTCT+TGG | 0.474319 | 2_1:-50069638 | Msa0210140:CDS |
| AGGAAATATTTGTTCATGAA+AGG | 0.480337 | 2_1:-50069270 | Msa0210140:CDS |
| AGGAACAAATGTGCAGAACT+TGG | 0.481600 | 2_1:-50069474 | Msa0210140:CDS |
| GTGAGTTGTCTTACTTGGAA+AGG | 0.487957 | 2_1:-50069374 | Msa0210140:CDS |
| GCTTGAAGCTTTAGTTGATG+TGG | 0.488968 | 2_1:-50069352 | Msa0210140:CDS |
| TTCTGACCTTGATGATCTCA+TGG | 0.490514 | 2_1:-50069679 | Msa0210140:CDS |
| ATCAAGGTCAGAAAGATTAA+GGG | 0.492658 | 2_1:+50069689 | Msa0210130:intron |
| TAGTTGATGTGGAAAATGTT+GGG | 0.494202 | 2_1:-50069341 | Msa0210140:CDS |
| TGCTTTGCACCATAGAAACT+TGG | 0.496119 | 2_1:+50069563 | Msa0210130:intron |
| TTGTTCCTTGATTTATCACC+AGG | 0.502130 | 2_1:+50069489 | Msa0210130:intron |
| GTTCACCTGGTGATAAATCA+AGG | 0.507986 | 2_1:-50069494 | Msa0210140:CDS |
| TTAGTTGATGTGGAAAATGT+TGG | 0.523001 | 2_1:-50069342 | Msa0210140:CDS |
| ACCTTGATGATCTCATGGTA+TGG | 0.538119 | 2_1:-50069674 | Msa0210140:CDS |
| TCTCTATCCTCAAGTTCACC+TGG | 0.545696 | 2_1:-50069507 | Msa0210140:CDS |
| TGTTGTGAAACAAGAGGTTA+AGG | 0.553508 | 2_1:-50069406 | Msa0210140:CDS |
| CTCTACACCAGCAAGGATGA+TGG | 0.559987 | 2_1:-50069612 | Msa0210140:CDS |
| GAGTTCCCAAGAGCAGAACT+TGG | 0.571214 | 2_1:+50069632 | Msa0210130:intron |
| CTATAAATATTGGGGTAAAG+GGG | 0.577289 | 2_1:-50069439 | Msa0210140:CDS |
| TTTATCACCAGGTGAACTTG+AGG | 0.579933 | 2_1:+50069500 | Msa0210130:intron |
| TCGGAGTGTGATTTGGGTCA+GGG | 0.584659 | 2_1:+50069713 | Msa0210130:intron |
| GGTCAGAAAGATTAAGGGGT+CGG | 0.585362 | 2_1:+50069694 | Msa0210130:intron |
| GTTCTAGGCTATAAATATTG+GGG | 0.598552 | 2_1:-50069447 | Msa0210140:CDS |
| CTCTTGTTTCACAACACACG+TGG | 0.611497 | 2_1:+50069413 | Msa0210130:intron |
| TCCATACCATGAGATCATCA+AGG | 0.632686 | 2_1:+50069673 | Msa0210130:intron |
| TCAAGGTCAGAAAGATTAAG+GGG | 0.633672 | 2_1:+50069690 | Msa0210130:intron |
| TTGGAGATCAGTAAGAACAC+TGG | 0.646655 | 2_1:+50069224 | Msa0210130:intron |
| TTGGGAACTCTACACCAGCA+AGG | 0.679749 | 2_1:-50069619 | Msa0210140:CDS |
| CACGTGTGTTGTGAAACAAG+AGG | 0.741960 | 2_1:-50069412 | Msa0210140:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATGTTCTAGGCTATAAATAT+TGG | - | chr2_1:50069480-50069499 | Msa0210140:CDS | 25.0% |
| !! | TGTTCTAGGCTATAAATATT+GGG | - | chr2_1:50069481-50069500 | Msa0210140:CDS | 25.0% |
| ! | AGGAAATATTTGTTCATGAA+AGG | - | chr2_1:50069659-50069678 | Msa0210140:CDS | 25.0% |
| ATCAAGGTCAGAAAGATTAA+GGG | + | chr2_1:50069243-50069262 | Msa0210130:intron | 30.0% | |
| ATATAGCTACCAAGTTTCTA+TGG | - | chr2_1:50069357-50069376 | Msa0210140:CDS | 30.0% | |
| ! | GTTCTAGGCTATAAATATTG+GGG | - | chr2_1:50069482-50069501 | Msa0210140:CDS | 30.0% |
| GCTATAAATATTGGGGTAAA+GGG | - | chr2_1:50069489-50069508 | Msa0210140:CDS | 30.0% | |
| CTATAAATATTGGGGTAAAG+GGG | - | chr2_1:50069490-50069509 | Msa0210140:CDS | 30.0% | |
| ! | TTAGTTGATGTGGAAAATGT+TGG | - | chr2_1:50069587-50069606 | Msa0210140:CDS | 30.0% |
| ! | TAGTTGATGTGGAAAATGTT+GGG | - | chr2_1:50069588-50069607 | Msa0210140:CDS | 30.0% |
| TCAAGGTCAGAAAGATTAAG+GGG | + | chr2_1:50069242-50069261 | Msa0210130:intron | 35.0% | |
| CATCAAGGTCAGAAAGATTA+AGG | + | chr2_1:50069244-50069263 | Msa0210130:intron | 35.0% | |
| ATGGACAACTGATGAAAAAG+TGG | - | chr2_1:50069274-50069293 | Msa0210140:CDS | 35.0% | |
| TTGTTCCTTGATTTATCACC+AGG | + | chr2_1:50069443-50069462 | Msa0210130:intron | 35.0% | |
| GGCTATAAATATTGGGGTAA+AGG | - | chr2_1:50069488-50069507 | Msa0210140:CDS | 35.0% | |
| TGTTGTGAAACAAGAGGTTA+AGG | - | chr2_1:50069523-50069542 | Msa0210140:CDS | 35.0% | |
| ATTCTGTGAGTTGTCTTACT+TGG | - | chr2_1:50069550-50069569 | Msa0210140:CDS | 35.0% | |
| ! | AAAGCTGGTTTCCAAAAAGA+GGG | - | chr2_1:50069629-50069648 | Msa0210140:CDS | 35.0% |
| ! | TTCTGACCTTGATGATCTCA+TGG | - | chr2_1:50069250-50069269 | Msa0210140:CDS | 40.0% |
| ! | ACCTTGATGATCTCATGGTA+TGG | - | chr2_1:50069255-50069274 | Msa0210140:CDS | 40.0% |
| TCCATACCATGAGATCATCA+AGG | + | chr2_1:50069259-50069278 | Msa0210130:intron | 40.0% | |
| TGCTTTGCACCATAGAAACT+TGG | + | chr2_1:50069369-50069388 | Msa0210130:intron | 40.0% | |
| TTTATCACCAGGTGAACTTG+AGG | + | chr2_1:50069432-50069451 | Msa0210130:intron | 40.0% | |
| GTTCACCTGGTGATAAATCA+AGG | - | chr2_1:50069435-50069454 | Msa0210140:CDS | 40.0% | |
| AGGAACAAATGTGCAGAACT+TGG | - | chr2_1:50069455-50069474 | Msa0210140:CDS | 40.0% | |
| GTGAGTTGTCTTACTTGGAA+AGG | - | chr2_1:50069555-50069574 | Msa0210140:CDS | 40.0% | |
| ! | GCTTGAAGCTTTAGTTGATG+TGG | - | chr2_1:50069577-50069596 | Msa0210140:CDS | 40.0% |
| ! | TGTTGGGTCTCAAAGAGTTT+TGG | - | chr2_1:50069604-50069623 | Msa0210140:CDS | 40.0% |
| !!! | CAAAGAGTTTTGGAGAAAGC+TGG | - | chr2_1:50069614-50069633 | Msa0210140:CDS | 40.0% |
| ! | GAAAGCTGGTTTCCAAAAAG+AGG | - | chr2_1:50069628-50069647 | Msa0210140:CDS | 40.0% |
| TCCAAAAAGAGGGAGTTCTA+AGG | - | chr2_1:50069639-50069658 | Msa0210140:CDS | 40.0% | |
| ! | TCCTTAGAACTCCCTCTTTT+TGG | + | chr2_1:50069643-50069662 | Msa0210130:intron | 40.0% |
| TTGGAGATCAGTAAGAACAC+TGG | + | chr2_1:50069708-50069727 | Msa0210130:intron | 40.0% | |
| GGTCAGAAAGATTAAGGGGT+CGG | + | chr2_1:50069238-50069257 | Msa0210130:intron | 45.0% | |
| TCTCTATCCTCAAGTTCACC+TGG | - | chr2_1:50069422-50069441 | Msa0210140:CDS | 45.0% | |
| GCAGAACTTGGCTATGTTCT+AGG | - | chr2_1:50069467-50069486 | Msa0210140:CDS | 45.0% | |
| ! | CTCTTGTTTCACAACACACG+TGG | + | chr2_1:50069519-50069538 | Msa0210130:intron | 45.0% |
| CACGTGTGTTGTGAAACAAG+AGG | - | chr2_1:50069517-50069536 | Msa0210140:CDS | 45.0% | |
| AAGGGGTCGGAGTGTGATTT+GGG | + | chr2_1:50069225-50069244 | Msa0210130:intron | 50.0% | |
| TAAGGGGTCGGAGTGTGATT+TGG | + | chr2_1:50069226-50069245 | Msa0210130:intron | 50.0% | |
| AAGTGGCCAAGTTCTGCTCT+TGG | - | chr2_1:50069291-50069310 | Msa0210140:CDS | 50.0% | |
| AGTGGCCAAGTTCTGCTCTT+GGG | - | chr2_1:50069292-50069311 | Msa0210140:CDS | 50.0% | |
| GAGTTCCCAAGAGCAGAACT+TGG | + | chr2_1:50069300-50069319 | Msa0210130:intron | 50.0% | |
| TTGGGAACTCTACACCAGCA+AGG | - | chr2_1:50069310-50069329 | Msa0210140:CDS | 50.0% | |
| CTCTACACCAGCAAGGATGA+TGG | - | chr2_1:50069317-50069336 | Msa0210140:CDS | 50.0% | |
| GTTGATGCCATCATCCTTGC+TGG | + | chr2_1:50069327-50069346 | Msa0210130:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 50069218 | 50069733 | 50069218 | ID=Msa0210140;Name=Msa0210140 |
| chr2_1 | mRNA | 50069218 | 50069733 | 50069218 | ID=Msa0210140-mRNA-1;Parent=Msa0210140;Name=Msa0210140-mRNA-1;_AED=0.27;_eAED=0.27;_QI=0|-1|0|1|-1|1|1|0|171 |
| chr2_1 | exon | 50069218 | 50069733 | 50069218 | ID=Msa0210140-mRNA-1:exon:13835;Parent=Msa0210140-mRNA-1 |
| chr2_1 | CDS | 50069218 | 50069733 | 50069218 | ID=Msa0210140-mRNA-1:cds;Parent=Msa0210140-mRNA-1 |
| Gene Sequence |
| Protein sequence |
