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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0250790 | XP_003610737.1 | 94.737 | 190 | 10 | 0 | 1 | 190 | 1 | 190 | 4.76e-128 | 368 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0250790 | sp|P05332|YP20_BACLI | 30.588 | 170 | 107 | 3 | 21 | 184 | 8 | 172 | 1.67e-15 | 73.9 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0250790 | G7K3P2 | 94.737 | 190 | 10 | 0 | 1 | 190 | 1 | 190 | 2.27e-128 | 368 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0250790 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0250790 | MtrunA17_Chr5g0394621 | 94.737 | 190 | 10 | 0 | 1 | 190 | 1 | 190 | 4.38e-132 | 368 |
| Msa0250790 | MtrunA17_Chr5g0394631 | 78.333 | 180 | 39 | 0 | 1 | 180 | 1 | 180 | 1.26e-97 | 288 |
| Msa0250790 | MtrunA17_Chr5g0394631 | 71.649 | 194 | 45 | 5 | 1 | 190 | 214 | 401 | 4.92e-86 | 259 |
| Msa0250790 | MtrunA17_Chr1g0204951 | 63.021 | 192 | 67 | 2 | 1 | 190 | 1 | 190 | 1.43e-83 | 245 |
| Msa0250790 | MtrunA17_Chr1g0204971 | 59.375 | 192 | 74 | 2 | 1 | 190 | 1 | 190 | 1.25e-78 | 233 |
| Msa0250790 | MtrunA17_Chr7g0273661 | 41.401 | 157 | 89 | 1 | 16 | 172 | 3 | 156 | 5.79e-42 | 138 |
| Msa0250790 | MtrunA17_Chr7g0223361 | 39.766 | 171 | 99 | 2 | 17 | 187 | 4 | 170 | 1.27e-36 | 125 |
| Msa0250790 | MtrunA17_Chr7g0223351 | 40.476 | 168 | 95 | 3 | 20 | 187 | 7 | 169 | 2.83e-36 | 124 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0250790 | AT2G32030.1 | 48.925 | 186 | 80 | 4 | 3 | 187 | 14 | 185 | 6.29e-60 | 185 |
| Msa0250790 | AT2G32020.1 | 47.541 | 183 | 81 | 3 | 6 | 187 | 12 | 180 | 4.32e-53 | 168 |
| Msa0250790 | AT3G22560.1 | 38.150 | 173 | 102 | 2 | 17 | 187 | 3 | 172 | 6.25e-36 | 124 |
Find 45 sgRNAs with CRISPR-Local
Find 50 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATCAAGGTCAGAAAGATTA+AGG | 0.227074 | 2_2:-39897137 | None:intergenic |
| CTCTTCTTTGTCAGGTGGTT+TGG | 0.235580 | 2_2:-39897082 | None:intergenic |
| GCAAAACTTGGCTATGTTAT+AGG | 0.259617 | 2_2:+39897363 | Msa0250790:CDS |
| TGTTGGGTCTCAAAGAGTTT+TGG | 0.282550 | 2_2:+39897500 | Msa0250790:CDS |
| ATGTTATAGGCTCTAAATAT+TGG | 0.285284 | 2_2:+39897376 | Msa0250790:CDS |
| TGTTATAGGCTCTAAATATT+GGG | 0.300530 | 2_2:+39897377 | Msa0250790:CDS |
| TAAGGGGTCGGAGTGTGATT+TGG | 0.307480 | 2_2:-39897119 | None:intergenic |
| AAGGGGTCGGAGTGTGATTT+GGG | 0.320072 | 2_2:-39897118 | None:intergenic |
| GCTCTAAATATTGGGGTAAA+GGG | 0.333149 | 2_2:+39897385 | Msa0250790:CDS |
| TCAATTCTCTCTTCTTTGTC+AGG | 0.364228 | 2_2:-39897090 | None:intergenic |
| ATATAGCTACTAAGTTTCTA+TGG | 0.387531 | 2_2:+39897253 | Msa0250790:CDS |
| CCAAACAATTGAATTATAGT+TGG | 0.393357 | 2_2:-39897623 | None:intergenic |
| TGCATCAATGATCGTGCAAT+TGG | 0.403589 | 2_2:+39897288 | Msa0250790:CDS |
| GGCTCTAAATATTGGGGTAA+AGG | 0.425059 | 2_2:+39897384 | Msa0250790:CDS |
| ATTCTGTGAGTTGTCTTACT+TGG | 0.446468 | 2_2:+39897446 | Msa0250790:CDS |
| GTTGATGCCATCATCCTTGC+TGG | 0.459050 | 2_2:-39897220 | None:intergenic |
| AGTGGCCAAGTTCTGCTCTT+GGG | 0.462852 | 2_2:+39897188 | Msa0250790:CDS |
| AGGAACAAATGTGCAAAACT+TGG | 0.472702 | 2_2:+39897351 | Msa0250790:CDS |
| AAGTGGCCAAGTTCTGCTCT+TGG | 0.474319 | 2_2:+39897187 | Msa0250790:CDS |
| AGGAAATATTTGTTCATGAA+AGG | 0.480337 | 2_2:+39897555 | Msa0250790:CDS |
| GTGAGTTGTCTTACTTGGAA+AGG | 0.487957 | 2_2:+39897451 | Msa0250790:CDS |
| GCTTGAAGCTTTAGTTGATG+TGG | 0.488968 | 2_2:+39897473 | Msa0250790:CDS |
| TTCTGACCTTGATGATCTCA+TGG | 0.490514 | 2_2:+39897146 | Msa0250790:CDS |
| ATCAAGGTCAGAAAGATTAA+GGG | 0.492658 | 2_2:-39897136 | None:intergenic |
| TAGTTGATGTGGAAAATGTT+GGG | 0.494202 | 2_2:+39897484 | Msa0250790:CDS |
| TTGTTCCTTGATTTATCACC+AGG | 0.494694 | 2_2:-39897336 | None:intergenic |
| ATTCTCTCTTCTTTGTCAGG+TGG | 0.506895 | 2_2:-39897087 | None:intergenic |
| TTAGTTGATGTGGAAAATGT+TGG | 0.523001 | 2_2:+39897483 | Msa0250790:CDS |
| GTACACCTGGTGATAAATCA+AGG | 0.531188 | 2_2:+39897331 | Msa0250790:CDS |
| ACCTTGATGATCTCATGGTA+TGG | 0.538119 | 2_2:+39897151 | Msa0250790:CDS |
| TGTTGTGAAACAAGTGGTTA+AGG | 0.545474 | 2_2:+39897419 | Msa0250790:CDS |
| CTCTACGCCAGCAAGGATGA+TGG | 0.563263 | 2_2:+39897213 | Msa0250790:CDS |
| CTCTAAATATTGGGGTAAAG+GGG | 0.564900 | 2_2:+39897386 | Msa0250790:CDS |
| GCATCAATGATCGTGCAATT+GGG | 0.567462 | 2_2:+39897289 | Msa0250790:CDS |
| TTTATCACCAGGTGTACTTG+AGG | 0.570748 | 2_2:-39897325 | None:intergenic |
| GAGTTCCCAAGAGCAGAACT+TGG | 0.571214 | 2_2:-39897193 | None:intergenic |
| GGTCAGAAAGATTAAGGGGT+CGG | 0.585362 | 2_2:-39897131 | None:intergenic |
| TCTCTATCCTCAAGTACACC+TGG | 0.591619 | 2_2:+39897318 | Msa0250790:CDS |
| CACTTGTTTCACAACACACG+TGG | 0.596860 | 2_2:-39897412 | None:intergenic |
| GTTATAGGCTCTAAATATTG+GGG | 0.598552 | 2_2:+39897378 | Msa0250790:CDS |
| TCCATACCATGAGATCATCA+AGG | 0.632686 | 2_2:-39897152 | None:intergenic |
| GAGATCAGTAAAGAGAACAC+TGG | 0.633341 | 2_2:-39897601 | None:intergenic |
| TCAAGGTCAGAAAGATTAAG+GGG | 0.633672 | 2_2:-39897135 | None:intergenic |
| TTGGGAACTCTACGCCAGCA+AGG | 0.634354 | 2_2:+39897206 | Msa0250790:CDS |
| CACGTGTGTTGTGAAACAAG+TGG | 0.736637 | 2_2:+39897413 | Msa0250790:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | ATATAGCTACTAAGTTTCTA+TGG | + | chr2_2:39897253-39897272 | Msa0250790:CDS | 25.0% |
| !!! | ATGTTATAGGCTCTAAATAT+TGG | + | chr2_2:39897376-39897395 | Msa0250790:CDS | 25.0% |
| !!! | TGTTATAGGCTCTAAATATT+GGG | + | chr2_2:39897377-39897396 | Msa0250790:CDS | 25.0% |
| ! | AGGAAATATTTGTTCATGAA+AGG | + | chr2_2:39897555-39897574 | Msa0250790:CDS | 25.0% |
| ATCAAGGTCAGAAAGATTAA+GGG | - | chr2_2:39897139-39897158 | None:intergenic | 30.0% | |
| !! | GTTATAGGCTCTAAATATTG+GGG | + | chr2_2:39897378-39897397 | Msa0250790:CDS | 30.0% |
| ! | TTAGTTGATGTGGAAAATGT+TGG | + | chr2_2:39897483-39897502 | Msa0250790:CDS | 30.0% |
| ! | TAGTTGATGTGGAAAATGTT+GGG | + | chr2_2:39897484-39897503 | Msa0250790:CDS | 30.0% |
| TCAATTCTCTCTTCTTTGTC+AGG | - | chr2_2:39897093-39897112 | None:intergenic | 35.0% | |
| TCAAGGTCAGAAAGATTAAG+GGG | - | chr2_2:39897138-39897157 | None:intergenic | 35.0% | |
| CATCAAGGTCAGAAAGATTA+AGG | - | chr2_2:39897140-39897159 | None:intergenic | 35.0% | |
| ATGGACAACTGATGAAAAAG+TGG | + | chr2_2:39897170-39897189 | Msa0250790:CDS | 35.0% | |
| TTGTTCCTTGATTTATCACC+AGG | - | chr2_2:39897339-39897358 | None:intergenic | 35.0% | |
| AGGAACAAATGTGCAAAACT+TGG | + | chr2_2:39897351-39897370 | Msa0250790:CDS | 35.0% | |
| GCAAAACTTGGCTATGTTAT+AGG | + | chr2_2:39897363-39897382 | Msa0250790:CDS | 35.0% | |
| ! | GCTCTAAATATTGGGGTAAA+GGG | + | chr2_2:39897385-39897404 | Msa0250790:CDS | 35.0% |
| CTCTAAATATTGGGGTAAAG+GGG | + | chr2_2:39897386-39897405 | Msa0250790:CDS | 35.0% | |
| TGTTGTGAAACAAGTGGTTA+AGG | + | chr2_2:39897419-39897438 | Msa0250790:CDS | 35.0% | |
| ATTCTGTGAGTTGTCTTACT+TGG | + | chr2_2:39897446-39897465 | Msa0250790:CDS | 35.0% | |
| ! | AAAGCTGGTTTCCAAAAAGA+GGG | + | chr2_2:39897525-39897544 | Msa0250790:CDS | 35.0% |
| ATTCTCTCTTCTTTGTCAGG+TGG | - | chr2_2:39897090-39897109 | None:intergenic | 40.0% | |
| ! | TTCTGACCTTGATGATCTCA+TGG | + | chr2_2:39897146-39897165 | Msa0250790:CDS | 40.0% |
| ! | ACCTTGATGATCTCATGGTA+TGG | + | chr2_2:39897151-39897170 | Msa0250790:CDS | 40.0% |
| TCCATACCATGAGATCATCA+AGG | - | chr2_2:39897155-39897174 | None:intergenic | 40.0% | |
| TGCATCAATGATCGTGCAAT+TGG | + | chr2_2:39897288-39897307 | Msa0250790:CDS | 40.0% | |
| GCATCAATGATCGTGCAATT+GGG | + | chr2_2:39897289-39897308 | Msa0250790:CDS | 40.0% | |
| TTTATCACCAGGTGTACTTG+AGG | - | chr2_2:39897328-39897347 | None:intergenic | 40.0% | |
| GTACACCTGGTGATAAATCA+AGG | + | chr2_2:39897331-39897350 | Msa0250790:CDS | 40.0% | |
| !! | GGCTCTAAATATTGGGGTAA+AGG | + | chr2_2:39897384-39897403 | Msa0250790:CDS | 40.0% |
| GTGAGTTGTCTTACTTGGAA+AGG | + | chr2_2:39897451-39897470 | Msa0250790:CDS | 40.0% | |
| ! | GCTTGAAGCTTTAGTTGATG+TGG | + | chr2_2:39897473-39897492 | Msa0250790:CDS | 40.0% |
| ! | TGTTGGGTCTCAAAGAGTTT+TGG | + | chr2_2:39897500-39897519 | Msa0250790:CDS | 40.0% |
| !!! | CAAAGAGTTTTGGAGAAAGC+TGG | + | chr2_2:39897510-39897529 | Msa0250790:CDS | 40.0% |
| ! | GAAAGCTGGTTTCCAAAAAG+AGG | + | chr2_2:39897524-39897543 | Msa0250790:CDS | 40.0% |
| TCCAAAAAGAGGGAGTTCTA+AGG | + | chr2_2:39897535-39897554 | Msa0250790:CDS | 40.0% | |
| ! | TCCTTAGAACTCCCTCTTTT+TGG | - | chr2_2:39897539-39897558 | None:intergenic | 40.0% |
| GAGATCAGTAAAGAGAACAC+TGG | - | chr2_2:39897604-39897623 | None:intergenic | 40.0% | |
| CTCTTCTTTGTCAGGTGGTT+TGG | - | chr2_2:39897085-39897104 | None:intergenic | 45.0% | |
| GGTCAGAAAGATTAAGGGGT+CGG | - | chr2_2:39897134-39897153 | None:intergenic | 45.0% | |
| TCTCTATCCTCAAGTACACC+TGG | + | chr2_2:39897318-39897337 | Msa0250790:CDS | 45.0% | |
| CACTTGTTTCACAACACACG+TGG | - | chr2_2:39897415-39897434 | None:intergenic | 45.0% | |
| CACGTGTGTTGTGAAACAAG+TGG | + | chr2_2:39897413-39897432 | Msa0250790:CDS | 45.0% | |
| AAGGGGTCGGAGTGTGATTT+GGG | - | chr2_2:39897121-39897140 | None:intergenic | 50.0% | |
| TAAGGGGTCGGAGTGTGATT+TGG | - | chr2_2:39897122-39897141 | None:intergenic | 50.0% | |
| AAGTGGCCAAGTTCTGCTCT+TGG | + | chr2_2:39897187-39897206 | Msa0250790:CDS | 50.0% | |
| AGTGGCCAAGTTCTGCTCTT+GGG | + | chr2_2:39897188-39897207 | Msa0250790:CDS | 50.0% | |
| GAGTTCCCAAGAGCAGAACT+TGG | - | chr2_2:39897196-39897215 | None:intergenic | 50.0% | |
| GTTGATGCCATCATCCTTGC+TGG | - | chr2_2:39897223-39897242 | None:intergenic | 50.0% | |
| TTGGGAACTCTACGCCAGCA+AGG | + | chr2_2:39897206-39897225 | Msa0250790:CDS | 55.0% | |
| CTCTACGCCAGCAAGGATGA+TGG | + | chr2_2:39897213-39897232 | Msa0250790:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 39897060 | 39897632 | 39897060 | ID=Msa0250790;Name=Msa0250790 |
| chr2_2 | mRNA | 39897060 | 39897632 | 39897060 | ID=Msa0250790-mRNA-1;Parent=Msa0250790;Name=Msa0250790-mRNA-1;_AED=0.29;_eAED=0.29;_QI=0|-1|0|1|-1|1|1|0|190 |
| chr2_2 | exon | 39897060 | 39897632 | 39897060 | ID=Msa0250790-mRNA-1:exon:12348;Parent=Msa0250790-mRNA-1 |
| chr2_2 | CDS | 39897060 | 39897632 | 39897060 | ID=Msa0250790-mRNA-1:cds;Parent=Msa0250790-mRNA-1 |
| Gene Sequence |
| Protein sequence |
