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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1459190 | XP_013462645.1 | 95.455 | 132 | 1 | 1 | 1 | 132 | 1 | 127 | 1.01e-84 | 253 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1459190 | A0A072VET2 | 95.455 | 132 | 1 | 1 | 1 | 132 | 1 | 127 | 4.84e-85 | 253 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0077370 | Msa1459190 | 0.838517 | 2.744108e-57 | -8.615850e-47 |
| Msa0086190 | Msa1459190 | 0.816471 | 5.435816e-52 | -8.615850e-47 |
| Msa1370810 | Msa1459190 | 0.801605 | 8.322431e-49 | -8.615850e-47 |
| Msa0708600 | Msa1459190 | 0.819594 | 1.070269e-52 | -8.615850e-47 |
| Msa0713060 | Msa1459190 | 0.802500 | 5.446357e-49 | -8.615850e-47 |
| Msa0132430 | Msa1459190 | 0.801130 | 1.040837e-48 | -8.615850e-47 |
| Msa0174100 | Msa1459190 | 0.822943 | 1.807195e-53 | -8.615850e-47 |
| Msa1252810 | Msa1459190 | 0.805109 | 1.564633e-49 | -8.615850e-47 |
| Msa0366770 | Msa1459190 | 0.808712 | 2.707053e-50 | -8.615850e-47 |
| Msa0528990 | Msa1459190 | 0.805715 | 1.167476e-49 | -8.615850e-47 |
| Msa0529000 | Msa1459190 | 0.839900 | 1.201199e-57 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1459190 | MtrunA17_Chr2g0285141 | 95.455 | 132 | 1 | 1 | 1 | 132 | 1 | 127 | 9.32e-89 | 253 |
| Msa1459190 | MtrunA17_Chr2g0288501 | 50.602 | 83 | 33 | 3 | 57 | 131 | 74 | 156 | 2.48e-16 | 70.9 |
| Msa1459190 | MtrunA17_Chr3g0099101 | 61.224 | 49 | 17 | 1 | 85 | 131 | 150 | 198 | 1.06e-12 | 62.0 |
| Msa1459190 | MtrunA17_Chr2g0326661 | 40.816 | 98 | 44 | 4 | 43 | 129 | 60 | 154 | 9.97e-12 | 58.9 |
| Msa1459190 | MtrunA17_Chr7g0266691 | 56.250 | 48 | 19 | 1 | 86 | 131 | 170 | 217 | 7.13e-11 | 57.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1459190 | AT1G29640.1 | 40.000 | 145 | 69 | 6 | 1 | 132 | 1 | 140 | 6.87e-25 | 92.8 |
| Msa1459190 | AT2G34340.1 | 39.860 | 143 | 68 | 5 | 1 | 132 | 1 | 136 | 1.40e-23 | 89.4 |
| Msa1459190 | AT5G45630.1 | 34.532 | 139 | 59 | 4 | 1 | 132 | 1 | 114 | 8.12e-20 | 79.0 |
| Msa1459190 | AT4G21970.1 | 46.667 | 90 | 29 | 3 | 57 | 131 | 60 | 145 | 2.17e-18 | 76.6 |
| Msa1459190 | AT4G18980.1 | 42.222 | 135 | 46 | 7 | 1 | 132 | 1 | 106 | 6.08e-18 | 73.9 |
| Msa1459190 | AT4G04630.1 | 64.000 | 50 | 16 | 1 | 84 | 131 | 119 | 168 | 5.58e-15 | 67.8 |
| Msa1459190 | AT3G15040.1 | 56.863 | 51 | 20 | 1 | 83 | 131 | 193 | 243 | 9.54e-12 | 60.5 |
Find 46 sgRNAs with CRISPR-Local
Find 50 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGGTTAGGAATTCGATTCTT+AGG | 0.266852 | tig0040143:+13361 | Msa1459190:CDS |
| CAGCTTCAGATTGATGAATC+TGG | 0.295768 | tig0040143:-13050 | Msa1459190:intergenic |
| CTAGCCTCCGCGCCATAATC+AGG | 0.322627 | tig0040143:-13272 | Msa1459190:intergenic |
| GAAGGGATTTGAGCAGGGTT+AGG | 0.370718 | tig0040143:+13346 | Msa1459190:CDS |
| GGTGCCGCCGCACCTGATTA+TGG | 0.386353 | tig0040143:+13260 | Msa1459190:CDS |
| TGAAGGGAAGGGATTTGAGC+AGG | 0.444324 | tig0040143:+13340 | Msa1459190:CDS |
| ATTATGGCGCGGAGGCTAGC+TGG | 0.455420 | tig0040143:+13276 | Msa1459190:CDS |
| ATATTTCACCGGAGGGGTAA+TGG | 0.465755 | tig0040143:+13207 | Msa1459190:CDS |
| AATTCGATTCTTAGGATGAC+TGG | 0.471954 | tig0040143:+13369 | Msa1459190:CDS |
| CCATGTGTTCTGGGCATGGA+AGG | 0.480561 | tig0040143:+13313 | Msa1459190:CDS |
| TGGGCATGGAAGGACTTTGA+AGG | 0.498075 | tig0040143:+13323 | Msa1459190:CDS |
| GGTGCTGCTGAAGCTGAAGA+AGG | 0.521781 | tig0040143:+13083 | Msa1459190:CDS |
| CTATGAGGAGGACGAGGATG+AGG | 0.526881 | tig0040143:+13230 | Msa1459190:CDS |
| CCGGAGGGGTAATGGCTATG+AGG | 0.530842 | tig0040143:+13215 | Msa1459190:CDS |
| GGACGAGGATGAGGAGGAGA+TGG | 0.533776 | tig0040143:+13239 | Msa1459190:CDS |
| CCTCATAGCCATTACCCCTC+CGG | 0.534896 | tig0040143:-13215 | Msa1459190:intergenic |
| CCCTCTGAGGGGATATTCAT+CGG | 0.539053 | tig0040143:-13183 | Msa1459190:intergenic |
| CCTTCCATGCCCAGAACACA+TGG | 0.539401 | tig0040143:-13313 | Msa1459190:intergenic |
| TGGAAGGACTTTGAAGGGAA+GGG | 0.555164 | tig0040143:+13329 | Msa1459190:CDS |
| CAACAACAACAAGAAGAAGA+TGG | 0.556088 | tig0040143:+13149 | Msa1459190:CDS |
| CCTCAGAGGGGATATTTCAC+CGG | 0.559919 | tig0040143:+13196 | Msa1459190:CDS |
| TGAGGAGTTTCTTGAATCCG+AGG | 0.568990 | tig0040143:+13014 | Msa1459190:CDS |
| ATCTGAAGCTGAAGACAAGA+AGG | 0.569372 | tig0040143:+13062 | Msa1459190:CDS |
| GGGCATGGAAGGACTTTGAA+GGG | 0.570682 | tig0040143:+13324 | Msa1459190:CDS |
| TGAGGGGATATTCATCGGCA+TGG | 0.573297 | tig0040143:-13178 | Msa1459190:intergenic |
| ATGGAAGGACTTTGAAGGGA+AGG | 0.573855 | tig0040143:+13328 | Msa1459190:CDS |
| CGGTGAAATATCCCCTCTGA+GGG | 0.581904 | tig0040143:-13195 | Msa1459190:intergenic |
| CCGATGAATATCCCCTCAGA+GGG | 0.585354 | tig0040143:+13183 | Msa1459190:CDS |
| GAAGGGAAGGGATTTGAGCA+GGG | 0.588262 | tig0040143:+13341 | Msa1459190:CDS |
| TAATGGCTATGAGGAGGACG+AGG | 0.588381 | tig0040143:+13224 | Msa1459190:CDS |
| TAACTTCACCAACATGTCTG+AGG | 0.596960 | tig0040143:+12996 | None:intergenic |
| TGAGGAGGACGAGGATGAGG+AGG | 0.598626 | tig0040143:+13233 | Msa1459190:CDS |
| CGCGCCATAATCAGGTGCGG+CGG | 0.605054 | tig0040143:-13264 | Msa1459190:intergenic |
| CGCCGCACCTGATTATGGCG+CGG | 0.605485 | tig0040143:+13265 | Msa1459190:CDS |
| GCTGCTGAAGCTGAAGAAGG+AGG | 0.612278 | tig0040143:+13086 | Msa1459190:CDS |
| CTCCGCGCCATAATCAGGTG+CGG | 0.621040 | tig0040143:-13267 | Msa1459190:intergenic |
| CCGGTGAAATATCCCCTCTG+AGG | 0.632955 | tig0040143:-13196 | Msa1459190:intergenic |
| AGAGGGGATATTTCACCGGA+GGG | 0.643919 | tig0040143:+13200 | Msa1459190:CDS |
| CAGAGGGGATATTTCACCGG+AGG | 0.645698 | tig0040143:+13199 | Msa1459190:CDS |
| CGCACCTGATTATGGCGCGG+AGG | 0.650193 | tig0040143:+13268 | Msa1459190:CDS |
| GCCGATGAATATCCCCTCAG+AGG | 0.662649 | tig0040143:+13182 | Msa1459190:CDS |
| GAGGGGTAATGGCTATGAGG+AGG | 0.676604 | tig0040143:+13218 | Msa1459190:CDS |
| ACAACAAGAAGAAGATGGTG+AGG | 0.679378 | tig0040143:+13154 | Msa1459190:CDS |
| GAGGGGATATTTCACCGGAG+GGG | 0.727432 | tig0040143:+13201 | Msa1459190:CDS |
| CGATGAATATCCCCTCAGAG+GGG | 0.754143 | tig0040143:+13184 | Msa1459190:CDS |
| GGTGAAATATCCCCTCTGAG+GGG | 0.755545 | tig0040143:-13194 | Msa1459180:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CTGGTTGAAAAAAAGAACCT+CGG | - | tig0040143:13034-13053 | Msa1459190:intergenic | 35.0% | |
| CAACAACAACAAGAAGAAGA+TGG | + | tig0040143:13149-13168 | Msa1459190:CDS | 35.0% | |
| ! | ATGACATTTTCCATGTGTTC+TGG | + | tig0040143:13303-13322 | Msa1459190:CDS | 35.0% |
| ! | TGACATTTTCCATGTGTTCT+GGG | + | tig0040143:13304-13323 | Msa1459190:CDS | 35.0% |
| AATTCGATTCTTAGGATGAC+TGG | + | tig0040143:13369-13388 | Msa1459190:CDS | 35.0% | |
| !!! | TAGGATGACTGGTTTTATTG+AGG | + | tig0040143:13380-13399 | Msa1459190:CDS | 35.0% |
| CAGCTTCAGATTGATGAATC+TGG | - | tig0040143:13053-13072 | Msa1459190:intergenic | 40.0% | |
| ! | ATCTGAAGCTGAAGACAAGA+AGG | + | tig0040143:13062-13081 | Msa1459190:CDS | 40.0% |
| ACAACAAGAAGAAGATGGTG+AGG | + | tig0040143:13154-13173 | Msa1459190:CDS | 40.0% | |
| GGGTTAGGAATTCGATTCTT+AGG | + | tig0040143:13361-13380 | Msa1459190:CDS | 40.0% | |
| TGAGGAGTTTCTTGAATCCG+AGG | + | tig0040143:13014-13033 | Msa1459190:CDS | 45.0% | |
| ATATTTCACCGGAGGGGTAA+TGG | + | tig0040143:13207-13226 | Msa1459190:CDS | 45.0% | |
| !! | TTTTCCATGTGTTCTGGGCA+TGG | + | tig0040143:13309-13328 | Msa1459190:CDS | 45.0% |
| ! | ATGGAAGGACTTTGAAGGGA+AGG | + | tig0040143:13328-13347 | Msa1459190:CDS | 45.0% |
| ! | TGGAAGGACTTTGAAGGGAA+GGG | + | tig0040143:13329-13348 | Msa1459190:CDS | 45.0% |
| TGAGGGGATATTCATCGGCA+TGG | - | tig0040143:13181-13200 | Msa1459190:intergenic | 50.0% | |
| ! | CCCTCTGAGGGGATATTCAT+CGG | - | tig0040143:13186-13205 | Msa1459190:intergenic | 50.0% |
| CCGATGAATATCCCCTCAGA+GGG | + | tig0040143:13183-13202 | Msa1459190:CDS | 50.0% | |
| CGATGAATATCCCCTCAGAG+GGG | + | tig0040143:13184-13203 | Msa1459190:CDS | 50.0% | |
| GGTGAAATATCCCCTCTGAG+GGG | - | tig0040143:13197-13216 | Msa1459190:intergenic | 50.0% | |
| CGGTGAAATATCCCCTCTGA+GGG | - | tig0040143:13198-13217 | Msa1459190:intergenic | 50.0% | |
| CCTCAGAGGGGATATTTCAC+CGG | + | tig0040143:13196-13215 | Msa1459190:CDS | 50.0% | |
| AGAGGGGATATTTCACCGGA+GGG | + | tig0040143:13200-13219 | Msa1459190:CDS | 50.0% | |
| TAATGGCTATGAGGAGGACG+AGG | + | tig0040143:13224-13243 | Msa1459190:CDS | 50.0% | |
| TGGGCATGGAAGGACTTTGA+AGG | + | tig0040143:13323-13342 | Msa1459190:CDS | 50.0% | |
| GGGCATGGAAGGACTTTGAA+GGG | + | tig0040143:13324-13343 | Msa1459190:CDS | 50.0% | |
| TGAAGGGAAGGGATTTGAGC+AGG | + | tig0040143:13340-13359 | Msa1459190:CDS | 50.0% | |
| GAAGGGAAGGGATTTGAGCA+GGG | + | tig0040143:13341-13360 | Msa1459190:CDS | 50.0% | |
| GAAGGGATTTGAGCAGGGTT+AGG | + | tig0040143:13346-13365 | Msa1459190:CDS | 50.0% | |
| !! | GGTGCTGCTGAAGCTGAAGA+AGG | + | tig0040143:13083-13102 | Msa1459190:CDS | 55.0% |
| GCTGCTGAAGCTGAAGAAGG+AGG | + | tig0040143:13086-13105 | Msa1459190:CDS | 55.0% | |
| GCCGATGAATATCCCCTCAG+AGG | + | tig0040143:13182-13201 | Msa1459190:CDS | 55.0% | |
| CCGGTGAAATATCCCCTCTG+AGG | - | tig0040143:13199-13218 | Msa1459190:intergenic | 55.0% | |
| CAGAGGGGATATTTCACCGG+AGG | + | tig0040143:13199-13218 | Msa1459190:CDS | 55.0% | |
| GAGGGGATATTTCACCGGAG+GGG | + | tig0040143:13201-13220 | Msa1459190:CDS | 55.0% | |
| CCTCATAGCCATTACCCCTC+CGG | - | tig0040143:13218-13237 | Msa1459190:intergenic | 55.0% | |
| ! | GAGGGGTAATGGCTATGAGG+AGG | + | tig0040143:13218-13237 | Msa1459190:CDS | 55.0% |
| CTATGAGGAGGACGAGGATG+AGG | + | tig0040143:13230-13249 | Msa1459190:CDS | 55.0% | |
| CCTTCCATGCCCAGAACACA+TGG | - | tig0040143:13316-13335 | Msa1459190:intergenic | 55.0% | |
| ! | CCATGTGTTCTGGGCATGGA+AGG | + | tig0040143:13313-13332 | Msa1459190:CDS | 55.0% |
| ! | CCGGAGGGGTAATGGCTATG+AGG | + | tig0040143:13215-13234 | Msa1459190:CDS | 60.0% |
| TGAGGAGGACGAGGATGAGG+AGG | + | tig0040143:13233-13252 | Msa1459190:CDS | 60.0% | |
| GGACGAGGATGAGGAGGAGA+TGG | + | tig0040143:13239-13258 | Msa1459190:CDS | 60.0% | |
| CTCCGCGCCATAATCAGGTG+CGG | - | tig0040143:13270-13289 | Msa1459190:intergenic | 60.0% | |
| CTAGCCTCCGCGCCATAATC+AGG | - | tig0040143:13275-13294 | Msa1459190:intergenic | 60.0% | |
| ATTATGGCGCGGAGGCTAGC+TGG | + | tig0040143:13276-13295 | Msa1459190:CDS | 60.0% | |
| ! | GGTGCCGCCGCACCTGATTA+TGG | + | tig0040143:13260-13279 | Msa1459190:CDS | 65.0% |
| CGCGCCATAATCAGGTGCGG+CGG | - | tig0040143:13267-13286 | Msa1459190:intergenic | 65.0% | |
| CGCCGCACCTGATTATGGCG+CGG | + | tig0040143:13265-13284 | Msa1459190:CDS | 65.0% | |
| CGCACCTGATTATGGCGCGG+AGG | + | tig0040143:13268-13287 | Msa1459190:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0040143 | gene | 13009 | 13407 | 13009 | ID=Msa1459190;Name=Msa1459190 |
| tig0040143 | mRNA | 13009 | 13407 | 13009 | ID=Msa1459190-mRNA-1;Parent=Msa1459190;Name=Msa1459190-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|132 |
| tig0040143 | exon | 13009 | 13407 | 13009 | ID=Msa1459190-mRNA-1:exon:22162;Parent=Msa1459190-mRNA-1 |
| tig0040143 | CDS | 13009 | 13407 | 13009 | ID=Msa1459190-mRNA-1:cds;Parent=Msa1459190-mRNA-1 |
| Gene Sequence |
| Protein sequence |
