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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0327280 | XP_003610737.1 | 94.186 | 172 | 9 | 1 | 1 | 171 | 19 | 190 | 9.00e-113 | 328 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0327280 | sp|P05332|YP20_BACLI | 32.941 | 170 | 103 | 3 | 3 | 166 | 8 | 172 | 2.12e-17 | 78.2 |
| 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 |
|---|---|---|
| Msa0327280 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0327280 | MtrunA17_Chr5g0394621 | 94.186 | 172 | 9 | 1 | 1 | 171 | 19 | 190 | 8.28e-117 | 328 |
| Msa0327280 | MtrunA17_Chr5g0394631 | 79.630 | 162 | 33 | 0 | 1 | 162 | 19 | 180 | 4.31e-89 | 266 |
| Msa0327280 | MtrunA17_Chr5g0394631 | 74.432 | 176 | 38 | 5 | 1 | 171 | 228 | 401 | 2.12e-81 | 246 |
| Msa0327280 | MtrunA17_Chr1g0204951 | 68.263 | 167 | 51 | 1 | 1 | 167 | 21 | 185 | 4.85e-81 | 238 |
| Msa0327280 | MtrunA17_Chr1g0204971 | 64.671 | 167 | 57 | 1 | 1 | 167 | 21 | 185 | 3.25e-76 | 226 |
| Msa0327280 | MtrunA17_Chr7g0273661 | 40.909 | 154 | 88 | 1 | 1 | 154 | 6 | 156 | 1.46e-39 | 131 |
| Msa0327280 | MtrunA17_Chr7g0223351 | 39.157 | 166 | 96 | 3 | 2 | 167 | 7 | 167 | 7.10e-37 | 125 |
| Msa0327280 | MtrunA17_Chr7g0223361 | 38.182 | 165 | 98 | 2 | 2 | 166 | 7 | 167 | 6.27e-36 | 123 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0327280 | AT2G32030.1 | 52.410 | 166 | 72 | 3 | 3 | 167 | 24 | 183 | 6.83e-58 | 179 |
| Msa0327280 | AT2G32020.1 | 51.205 | 166 | 74 | 2 | 3 | 167 | 19 | 178 | 1.06e-54 | 171 |
| Msa0327280 | AT3G22560.1 | 38.462 | 169 | 99 | 2 | 2 | 168 | 6 | 171 | 3.39e-36 | 124 |
Find 45 sgRNAs with CRISPR-Local
Find 48 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATCAAGGTCAGAAAGATTA+AGG | 0.227074 | 2_4:-38983013 | Msa0327260:intron |
| TGTTGGGTCTCAAAGAGTTT+TGG | 0.282550 | 2_4:+38983376 | Msa0327280:CDS |
| ATGTTCTAGGCTATAAATAT+TGG | 0.289347 | 2_4:+38983252 | Msa0327280:CDS |
| TGTTCTAGGCTATAAATATT+GGG | 0.307390 | 2_4:+38983253 | Msa0327280:CDS |
| GCAGAACTTGGCTATGTTCT+AGG | 0.310077 | 2_4:+38983239 | Msa0327280:CDS |
| GCTATAAATATTGGGGTAAA+GGG | 0.313408 | 2_4:+38983261 | Msa0327280:CDS |
| TAAGGGGTCGGAGTGTGATT+TGG | 0.336127 | 2_4:-38982995 | Msa0327260:intron |
| AAGGGGTCGGAGTGTGATTT+GGG | 0.387621 | 2_4:-38982994 | Msa0327260:intron |
| ATTCTGTGAGTTGTCTTACT+TGG | 0.388223 | 2_4:+38983322 | Msa0327280:CDS |
| CCAAACAATTGAATTATAGT+TGG | 0.393357 | 2_4:-38983496 | Msa0327260:intron |
| ATATAGCTACCAAGTTTCTA+TGG | 0.402105 | 2_4:+38983129 | Msa0327280:CDS |
| TGCATCAATGATCGTGCAAT+TGG | 0.403589 | 2_4:+38983164 | Msa0327280:CDS |
| GTCGGAGTGTGATTTGGGTC+AGG | 0.419399 | 2_4:-38982989 | Msa0327260:intron |
| GGCTATAAATATTGGGGTAA+AGG | 0.427948 | 2_4:+38983260 | Msa0327280:CDS |
| GTTGATGCCATCATCCTTGC+TGG | 0.429573 | 2_4:-38983096 | Msa0327260:intron |
| AGTGGCCAAGTTCTGCTCTT+GGG | 0.462852 | 2_4:+38983064 | Msa0327280:CDS |
| AAGTGGCCAAGTTCTGCTCT+TGG | 0.474319 | 2_4:+38983063 | Msa0327280:CDS |
| AGGAAATATTTGTTCATGAA+AGG | 0.480337 | 2_4:+38983431 | Msa0327280:CDS |
| AGGAACAAATGTGCAGAACT+TGG | 0.481600 | 2_4:+38983227 | Msa0327280:CDS |
| GTGAGTTGTCTTACTTGGAA+AGG | 0.487957 | 2_4:+38983327 | Msa0327280:CDS |
| GCTTGAAGCTTTAGTTGATG+TGG | 0.488968 | 2_4:+38983349 | Msa0327280:CDS |
| TTCTGACCTTGATGATCTCA+TGG | 0.490514 | 2_4:+38983022 | Msa0327280:CDS |
| ATCAAGGTCAGAAAGATTAA+GGG | 0.492658 | 2_4:-38983012 | Msa0327260:intron |
| TAGTTGATGTGGAAAATGTT+GGG | 0.494202 | 2_4:+38983360 | Msa0327280:CDS |
| TGCTTTGCACCATAGAAACT+TGG | 0.496119 | 2_4:-38983138 | Msa0327260:intron |
| TTGTTCCTTGATTTATCACC+AGG | 0.502130 | 2_4:-38983212 | Msa0327260:intron |
| GTTCACCTGGTGATAAATCA+AGG | 0.507986 | 2_4:+38983207 | Msa0327280:CDS |
| TTTCTATCCTCAAGTTCACC+TGG | 0.514865 | 2_4:+38983194 | Msa0327280:CDS |
| TTAGTTGATGTGGAAAATGT+TGG | 0.523001 | 2_4:+38983359 | Msa0327280:CDS |
| TGTTGTGAAACAAGTGGTTA+AGG | 0.537006 | 2_4:+38983295 | Msa0327280:CDS |
| ACCTTGATGATCTCATGGTA+TGG | 0.538119 | 2_4:+38983027 | Msa0327280:CDS |
| CTCTACACCAGCAAGGATGA+TGG | 0.559987 | 2_4:+38983089 | Msa0327280:CDS |
| GCATCAATGATCGTGCAATT+GGG | 0.567462 | 2_4:+38983165 | Msa0327280:CDS |
| GAGTTCCCAAGAGCAGAACT+TGG | 0.571214 | 2_4:-38983069 | Msa0327260:intron |
| CTATAAATATTGGGGTAAAG+GGG | 0.577289 | 2_4:+38983262 | Msa0327280:CDS |
| TTTATCACCAGGTGAACTTG+AGG | 0.579933 | 2_4:-38983201 | Msa0327260:intron |
| TCGGAGTGTGATTTGGGTCA+GGG | 0.584659 | 2_4:-38982988 | Msa0327260:intron |
| GGTCAGAAAGATTAAGGGGT+CGG | 0.585362 | 2_4:-38983007 | Msa0327260:intron |
| CACTTGTTTCACAACACACG+TGG | 0.596860 | 2_4:-38983288 | Msa0327260:intron |
| GTTCTAGGCTATAAATATTG+GGG | 0.598552 | 2_4:+38983254 | Msa0327280:CDS |
| TCCATACCATGAGATCATCA+AGG | 0.632686 | 2_4:-38983028 | Msa0327260:intron |
| TCAAGGTCAGAAAGATTAAG+GGG | 0.633672 | 2_4:-38983011 | Msa0327260:intron |
| TTGGAGATCAGTAAGAACAC+TGG | 0.646655 | 2_4:-38983477 | Msa0327260:intron |
| TTGGGAACTCTACACCAGCA+AGG | 0.679749 | 2_4:+38983082 | Msa0327280:CDS |
| CACGTGTGTTGTGAAACAAG+TGG | 0.736637 | 2_4:+38983289 | Msa0327280:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATGTTCTAGGCTATAAATAT+TGG | + | chr2_4:38983252-38983271 | Msa0327280:CDS | 25.0% |
| !! | TGTTCTAGGCTATAAATATT+GGG | + | chr2_4:38983253-38983272 | Msa0327280:CDS | 25.0% |
| ! | AGGAAATATTTGTTCATGAA+AGG | + | chr2_4:38983431-38983450 | Msa0327280:CDS | 25.0% |
| ATCAAGGTCAGAAAGATTAA+GGG | - | chr2_4:38983015-38983034 | Msa0327260:intron | 30.0% | |
| ATATAGCTACCAAGTTTCTA+TGG | + | chr2_4:38983129-38983148 | Msa0327280:CDS | 30.0% | |
| ! | GTTCTAGGCTATAAATATTG+GGG | + | chr2_4:38983254-38983273 | Msa0327280:CDS | 30.0% |
| GCTATAAATATTGGGGTAAA+GGG | + | chr2_4:38983261-38983280 | Msa0327280:CDS | 30.0% | |
| CTATAAATATTGGGGTAAAG+GGG | + | chr2_4:38983262-38983281 | Msa0327280:CDS | 30.0% | |
| ! | TTAGTTGATGTGGAAAATGT+TGG | + | chr2_4:38983359-38983378 | Msa0327280:CDS | 30.0% |
| ! | TAGTTGATGTGGAAAATGTT+GGG | + | chr2_4:38983360-38983379 | Msa0327280:CDS | 30.0% |
| TCAAGGTCAGAAAGATTAAG+GGG | - | chr2_4:38983014-38983033 | Msa0327260:intron | 35.0% | |
| CATCAAGGTCAGAAAGATTA+AGG | - | chr2_4:38983016-38983035 | Msa0327260:intron | 35.0% | |
| ATGGACAACTGATGAAAAAG+TGG | + | chr2_4:38983046-38983065 | Msa0327280:CDS | 35.0% | |
| TTGTTCCTTGATTTATCACC+AGG | - | chr2_4:38983215-38983234 | Msa0327260:intron | 35.0% | |
| GGCTATAAATATTGGGGTAA+AGG | + | chr2_4:38983260-38983279 | Msa0327280:CDS | 35.0% | |
| TGTTGTGAAACAAGTGGTTA+AGG | + | chr2_4:38983295-38983314 | Msa0327280:CDS | 35.0% | |
| ATTCTGTGAGTTGTCTTACT+TGG | + | chr2_4:38983322-38983341 | Msa0327280:CDS | 35.0% | |
| ! | AAAGCTGGTTTCCAAAAAGA+GGG | + | chr2_4:38983401-38983420 | Msa0327280:CDS | 35.0% |
| ! | TTCTGACCTTGATGATCTCA+TGG | + | chr2_4:38983022-38983041 | Msa0327280:CDS | 40.0% |
| ! | ACCTTGATGATCTCATGGTA+TGG | + | chr2_4:38983027-38983046 | Msa0327280:CDS | 40.0% |
| TCCATACCATGAGATCATCA+AGG | - | chr2_4:38983031-38983050 | Msa0327260:intron | 40.0% | |
| TGCTTTGCACCATAGAAACT+TGG | - | chr2_4:38983141-38983160 | Msa0327260:intron | 40.0% | |
| TGCATCAATGATCGTGCAAT+TGG | + | chr2_4:38983164-38983183 | Msa0327280:CDS | 40.0% | |
| GCATCAATGATCGTGCAATT+GGG | + | chr2_4:38983165-38983184 | Msa0327280:CDS | 40.0% | |
| TTTCTATCCTCAAGTTCACC+TGG | + | chr2_4:38983194-38983213 | Msa0327280:CDS | 40.0% | |
| TTTATCACCAGGTGAACTTG+AGG | - | chr2_4:38983204-38983223 | Msa0327260:intron | 40.0% | |
| GTTCACCTGGTGATAAATCA+AGG | + | chr2_4:38983207-38983226 | Msa0327280:CDS | 40.0% | |
| AGGAACAAATGTGCAGAACT+TGG | + | chr2_4:38983227-38983246 | Msa0327280:CDS | 40.0% | |
| GTGAGTTGTCTTACTTGGAA+AGG | + | chr2_4:38983327-38983346 | Msa0327280:CDS | 40.0% | |
| ! | GCTTGAAGCTTTAGTTGATG+TGG | + | chr2_4:38983349-38983368 | Msa0327280:CDS | 40.0% |
| ! | TGTTGGGTCTCAAAGAGTTT+TGG | + | chr2_4:38983376-38983395 | Msa0327280:CDS | 40.0% |
| !!! | CAAAGAGTTTTGGAGAAAGC+TGG | + | chr2_4:38983386-38983405 | Msa0327280:CDS | 40.0% |
| ! | GAAAGCTGGTTTCCAAAAAG+AGG | + | chr2_4:38983400-38983419 | Msa0327280:CDS | 40.0% |
| TCCAAAAAGAGGGAGTTCTA+AGG | + | chr2_4:38983411-38983430 | Msa0327280:CDS | 40.0% | |
| ! | TCCTTAGAACTCCCTCTTTT+TGG | - | chr2_4:38983415-38983434 | Msa0327260:intron | 40.0% |
| TTGGAGATCAGTAAGAACAC+TGG | - | chr2_4:38983480-38983499 | Msa0327260:intron | 40.0% | |
| GGTCAGAAAGATTAAGGGGT+CGG | - | chr2_4:38983010-38983029 | Msa0327260:intron | 45.0% | |
| GCAGAACTTGGCTATGTTCT+AGG | + | chr2_4:38983239-38983258 | Msa0327280:CDS | 45.0% | |
| CACTTGTTTCACAACACACG+TGG | - | chr2_4:38983291-38983310 | Msa0327260:intron | 45.0% | |
| CACGTGTGTTGTGAAACAAG+TGG | + | chr2_4:38983289-38983308 | Msa0327280:CDS | 45.0% | |
| AAGGGGTCGGAGTGTGATTT+GGG | - | chr2_4:38982997-38983016 | Msa0327260:intron | 50.0% | |
| TAAGGGGTCGGAGTGTGATT+TGG | - | chr2_4:38982998-38983017 | Msa0327260:intron | 50.0% | |
| AAGTGGCCAAGTTCTGCTCT+TGG | + | chr2_4:38983063-38983082 | Msa0327280:CDS | 50.0% | |
| AGTGGCCAAGTTCTGCTCTT+GGG | + | chr2_4:38983064-38983083 | Msa0327280:CDS | 50.0% | |
| GAGTTCCCAAGAGCAGAACT+TGG | - | chr2_4:38983072-38983091 | Msa0327260:intron | 50.0% | |
| TTGGGAACTCTACACCAGCA+AGG | + | chr2_4:38983082-38983101 | Msa0327280:CDS | 50.0% | |
| CTCTACACCAGCAAGGATGA+TGG | + | chr2_4:38983089-38983108 | Msa0327280:CDS | 50.0% | |
| GTTGATGCCATCATCCTTGC+TGG | - | chr2_4:38983099-38983118 | Msa0327260:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 38982990 | 38983505 | 38982990 | ID=Msa0327280;Name=Msa0327280 |
| chr2_4 | mRNA | 38982990 | 38983505 | 38982990 | ID=Msa0327280-mRNA-1;Parent=Msa0327280;Name=Msa0327280-mRNA-1;_AED=0.27;_eAED=0.27;_QI=0|-1|0|1|-1|1|1|0|171 |
| chr2_4 | exon | 38982990 | 38983505 | 38982990 | ID=Msa0327280-mRNA-1:exon:11638;Parent=Msa0327280-mRNA-1 |
| chr2_4 | CDS | 38982990 | 38983505 | 38982990 | ID=Msa0327280-mRNA-1:cds;Parent=Msa0327280-mRNA-1 |
| Gene Sequence |
| Protein sequence |
