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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0273660 | XP_013462551.1 | 94.521 | 146 | 8 | 0 | 10 | 155 | 8 | 153 | 6.48e-94 | 283 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0273660 | sp|Q96452|1433C_SOYBN | 75.796 | 157 | 37 | 1 | 6 | 161 | 6 | 162 | 9.15e-81 | 243 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0273660 | I3T8Q5 | 94.521 | 146 | 8 | 0 | 10 | 155 | 8 | 153 | 3.10e-94 | 283 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0193610 | Msa0273660 | 0.972841 | 1.983071e-135 | -8.615850e-47 |
| Msa0273660 | Msa0399300 | 0.801195 | 1.009444e-48 | -8.615850e-47 |
| Msa0273660 | Msa0637540 | 0.804432 | 2.165960e-49 | -8.615850e-47 |
| Msa0273660 | Msa0887990 | 0.821887 | 3.178900e-53 | -8.615850e-47 |
| Msa0273660 | Msa0954810 | 0.816785 | 4.622314e-52 | -8.615850e-47 |
| Msa0273660 | Msa0969450 | 0.814926 | 1.201303e-51 | -8.615850e-47 |
| Msa0273660 | Msa1397610 | 0.802113 | 6.544874e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0273660 | MtrunA17_Chr2g0283791 | 94.521 | 146 | 8 | 0 | 10 | 155 | 8 | 153 | 5.96e-98 | 283 |
| Msa0273660 | MtrunA17_Chr8g0379011 | 75.484 | 155 | 37 | 1 | 6 | 159 | 6 | 160 | 1.22e-81 | 242 |
| Msa0273660 | MtrunA17_Chr2g0325591 | 74.194 | 155 | 39 | 1 | 6 | 159 | 6 | 160 | 2.44e-80 | 239 |
| Msa0273660 | MtrunA17_Chr2g0316011 | 70.861 | 151 | 43 | 1 | 7 | 156 | 8 | 158 | 7.51e-75 | 225 |
| Msa0273660 | MtrunA17_Chr5g0418971 | 68.421 | 152 | 47 | 1 | 6 | 156 | 6 | 157 | 3.03e-70 | 213 |
| Msa0273660 | MtrunA17_Chr5g0426551 | 63.158 | 152 | 53 | 2 | 7 | 155 | 8 | 159 | 4.75e-62 | 192 |
| Msa0273660 | MtrunA17_Chr4g0043141 | 69.697 | 132 | 39 | 1 | 26 | 156 | 1 | 132 | 6.10e-62 | 192 |
| Msa0273660 | MtrunA17_Chr3g0132301 | 62.838 | 148 | 52 | 2 | 11 | 155 | 12 | 159 | 3.77e-60 | 187 |
| Msa0273660 | MtrunA17_Chr3g0133161 | 54.268 | 164 | 71 | 2 | 4 | 163 | 8 | 171 | 1.68e-55 | 176 |
| Msa0273660 | MtrunA17_Chr1g0164601 | 48.667 | 150 | 71 | 3 | 10 | 155 | 14 | 161 | 6.91e-37 | 128 |
| Msa0273660 | MtrunA17_Chr3g0082111 | 47.682 | 151 | 73 | 3 | 10 | 156 | 44 | 192 | 2.53e-35 | 125 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0273660 | AT2G42590.2 | 72.258 | 155 | 42 | 1 | 6 | 159 | 6 | 160 | 2.81e-76 | 229 |
| Msa0273660 | AT2G42590.1 | 72.258 | 155 | 42 | 1 | 6 | 159 | 6 | 160 | 3.02e-76 | 229 |
| Msa0273660 | AT2G42590.3 | 72.258 | 155 | 42 | 1 | 6 | 159 | 6 | 160 | 5.66e-76 | 229 |
| Msa0273660 | AT1G26480.1 | 69.079 | 152 | 46 | 1 | 6 | 156 | 9 | 160 | 9.22e-74 | 223 |
| Msa0273660 | AT1G22300.2 | 73.427 | 143 | 37 | 1 | 11 | 152 | 9 | 151 | 1.65e-70 | 214 |
| Msa0273660 | AT1G22300.1 | 73.427 | 143 | 37 | 1 | 11 | 152 | 9 | 151 | 1.99e-70 | 214 |
| Msa0273660 | AT1G22300.3 | 73.427 | 143 | 37 | 1 | 11 | 152 | 9 | 151 | 2.09e-70 | 214 |
| Msa0273660 | AT1G34760.2 | 68.421 | 152 | 47 | 1 | 6 | 156 | 4 | 155 | 7.14e-70 | 213 |
| Msa0273660 | AT1G34760.1 | 68.421 | 152 | 47 | 1 | 6 | 156 | 4 | 155 | 8.37e-70 | 213 |
| Msa0273660 | AT3G02520.1 | 62.179 | 156 | 56 | 2 | 3 | 155 | 1 | 156 | 3.60e-62 | 193 |
| Msa0273660 | AT3G02520.2 | 62.179 | 156 | 56 | 2 | 3 | 155 | 1 | 156 | 3.60e-62 | 193 |
| Msa0273660 | AT4G09000.1 | 61.935 | 155 | 56 | 2 | 10 | 161 | 13 | 167 | 8.26e-62 | 192 |
| Msa0273660 | AT1G35160.1 | 60.625 | 160 | 60 | 2 | 7 | 163 | 11 | 170 | 1.04e-61 | 192 |
| Msa0273660 | AT1G35160.2 | 63.333 | 150 | 52 | 2 | 10 | 156 | 14 | 163 | 3.28e-61 | 192 |
| Msa0273660 | AT5G38480.3 | 66.216 | 148 | 47 | 3 | 11 | 155 | 8 | 155 | 4.48e-61 | 190 |
| Msa0273660 | AT5G38480.2 | 66.216 | 148 | 47 | 3 | 11 | 155 | 8 | 155 | 4.48e-61 | 190 |
| Msa0273660 | AT5G38480.1 | 66.216 | 148 | 47 | 3 | 11 | 155 | 8 | 155 | 5.20e-61 | 190 |
| Msa0273660 | AT4G09000.2 | 63.333 | 150 | 52 | 2 | 10 | 156 | 13 | 162 | 5.70e-61 | 192 |
| Msa0273660 | AT1G78300.1 | 60.526 | 152 | 57 | 2 | 7 | 155 | 5 | 156 | 1.36e-59 | 187 |
| Msa0273660 | AT5G10450.1 | 57.143 | 161 | 65 | 2 | 7 | 163 | 7 | 167 | 7.42e-58 | 182 |
| Msa0273660 | AT5G10450.2 | 57.143 | 161 | 65 | 2 | 7 | 163 | 7 | 167 | 8.42e-58 | 182 |
| Msa0273660 | AT5G10450.3 | 59.603 | 151 | 57 | 2 | 10 | 156 | 10 | 160 | 1.20e-57 | 182 |
| Msa0273660 | AT5G10450.4 | 57.595 | 158 | 63 | 2 | 10 | 163 | 10 | 167 | 1.89e-57 | 181 |
| Msa0273660 | AT5G65430.2 | 58.278 | 151 | 59 | 2 | 10 | 156 | 10 | 160 | 4.44e-57 | 180 |
| Msa0273660 | AT5G65430.1 | 58.278 | 151 | 59 | 2 | 10 | 156 | 10 | 160 | 4.87e-57 | 180 |
| Msa0273660 | AT5G65430.3 | 58.278 | 151 | 59 | 2 | 10 | 156 | 10 | 160 | 7.31e-57 | 180 |
| Msa0273660 | AT5G16050.1 | 60.135 | 148 | 56 | 2 | 11 | 155 | 11 | 158 | 1.84e-55 | 176 |
| Msa0273660 | AT5G16050.2 | 60.135 | 148 | 56 | 2 | 11 | 155 | 11 | 158 | 1.84e-55 | 176 |
| Msa0273660 | AT1G78220.1 | 47.712 | 153 | 78 | 1 | 6 | 156 | 4 | 156 | 1.96e-42 | 142 |
| Msa0273660 | AT1G22290.1 | 47.742 | 155 | 69 | 3 | 6 | 155 | 4 | 151 | 2.72e-39 | 133 |
| Msa0273660 | AT1G22290.2 | 47.742 | 155 | 69 | 3 | 6 | 155 | 4 | 151 | 7.19e-39 | 132 |
Find 26 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGGAGCACGTAGGGCTTCT+TGG | 0.262919 | 2_3:+5265388 | Msa0273660:CDS |
| CATCTTATTCCGAATTCTTT+CGG | 0.327500 | 2_3:+5265549 | Msa0273660:CDS |
| TTCGGCTTGTTCAACGAGTT+TGG | 0.330015 | 2_3:-5265187 | None:intergenic |
| AGGCGATTATTATCGTTATC+TGG | 0.341220 | 2_3:+5265709 | Msa0273660:CDS |
| GTTGCTTACAAGAATGTTGT+TGG | 0.372901 | 2_3:+5265369 | Msa0273660:CDS |
| TCAGTCCTTGAAAGCGTATC+AGG | 0.396344 | 2_3:+5265772 | Msa0273660:CDS |
| TTAGATTCACCGAAAGAATT+CGG | 0.397268 | 2_3:-5265558 | None:intergenic |
| AGGTATTCTACACAATTGTC+GGG | 0.427507 | 2_3:+5265792 | Msa0273660:CDS |
| GAATACCTGATACGCTTTCA+AGG | 0.429206 | 2_3:-5265777 | None:intergenic |
| GATGTTACCTTCGTAGCGTT+CGG | 0.457439 | 2_3:-5265205 | None:intergenic |
| CAGGTATTCTACACAATTGT+CGG | 0.461798 | 2_3:+5265791 | Msa0273660:CDS |
| GAGAGGTGATGAGAGGAAAG+AGG | 0.504520 | 2_3:+5265742 | Msa0273660:CDS |
| GAATGTTGTTGGAGCACGTA+GGG | 0.515655 | 2_3:+5265380 | Msa0273660:CDS |
| TTAAATTAACAGTTGAAGAG+AGG | 0.529451 | 2_3:+5265334 | Msa0273660:CDS |
| AGCAGCGAGAAGAAGCGAAA+GGG | 0.529966 | 2_3:+5265430 | Msa0273660:CDS |
| GGCTTGTTCAACGAGTTTGG+CGG | 0.540164 | 2_3:-5265184 | None:intergenic |
| GAGCACGTAGGGCTTCTTGG+AGG | 0.551251 | 2_3:+5265391 | Msa0273660:CDS |
| GGAGTGATGTGAATGTCAAT+CGG | 0.556097 | 2_3:+5265451 | Msa0273660:CDS |
| TGTGAATGTCAATCGGATCA+AGG | 0.557006 | 2_3:+5265458 | Msa0273660:CDS |
| AGTTTAAGAGAGGTGATGAG+AGG | 0.558158 | 2_3:+5265735 | Msa0273660:CDS |
| GAACAAGCCGAACGCTACGA+AGG | 0.606924 | 2_3:+5265198 | Msa0273660:CDS |
| GATGAGAGGAAAGAGGCTGT+TGG | 0.628504 | 2_3:+5265749 | Msa0273660:CDS |
| GAGCAGCGAGAAGAAGCGAA+AGG | 0.628936 | 2_3:+5265429 | Msa0273660:CDS |
| TATCTGGCTGAGTTTAAGAG+AGG | 0.647977 | 2_3:+5265725 | Msa0273660:CDS |
| GGTATTCTACACAATTGTCG+GGG | 0.680828 | 2_3:+5265793 | Msa0273660:CDS |
| AGAATGTTGTTGGAGCACGT+AGG | 0.773880 | 2_3:+5265379 | Msa0273660:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TGATTTGTTTCTTTTAGAAA+TGG | + | chr2_3:5265278-5265297 | Msa0273660:intron | 20.0% |
| !!! | CAAAATGTAGGTTTATTTTT+TGG | + | chr2_3:5265593-5265612 | Msa0273660:intron | 20.0% |
| ! | TTAAATTAACAGTTGAAGAG+AGG | + | chr2_3:5265334-5265353 | Msa0273660:CDS | 25.0% |
| ! | CTATCAGAAAAAAGTTGAAT+CGG | + | chr2_3:5265482-5265501 | Msa0273660:CDS | 25.0% |
| ! | TGTGTTCTATTACAAAATGT+AGG | + | chr2_3:5265581-5265600 | Msa0273660:intron | 25.0% |
| CATCTTATTCCGAATTCTTT+CGG | + | chr2_3:5265549-5265568 | Msa0273660:CDS | 30.0% | |
| TTAGATTCACCGAAAGAATT+CGG | - | chr2_3:5265561-5265580 | None:intergenic | 30.0% | |
| GTTGCTTACAAGAATGTTGT+TGG | + | chr2_3:5265369-5265388 | Msa0273660:CDS | 35.0% | |
| GAAAAAAGTTGAATCGGAGT+TGG | + | chr2_3:5265488-5265507 | Msa0273660:CDS | 35.0% | |
| ! | TTTTTGCTCGCGATGAAATT+TGG | + | chr2_3:5265642-5265661 | Msa0273660:intron | 35.0% |
| TTCGTGTTTGATTGTGATGT+AGG | + | chr2_3:5265684-5265703 | Msa0273660:intron | 35.0% | |
| GTTTGATTGTGATGTAGGAA+AGG | + | chr2_3:5265689-5265708 | Msa0273660:intron | 35.0% | |
| AGGCGATTATTATCGTTATC+TGG | + | chr2_3:5265709-5265728 | Msa0273660:CDS | 35.0% | |
| CAGGTATTCTACACAATTGT+CGG | + | chr2_3:5265791-5265810 | Msa0273660:CDS | 35.0% | |
| AGGTATTCTACACAATTGTC+GGG | + | chr2_3:5265792-5265811 | Msa0273660:CDS | 35.0% | |
| GGAGTGATGTGAATGTCAAT+CGG | + | chr2_3:5265451-5265470 | Msa0273660:CDS | 40.0% | |
| TGTGAATGTCAATCGGATCA+AGG | + | chr2_3:5265458-5265477 | Msa0273660:CDS | 40.0% | |
| TATCTGGCTGAGTTTAAGAG+AGG | + | chr2_3:5265725-5265744 | Msa0273660:CDS | 40.0% | |
| AGTTTAAGAGAGGTGATGAG+AGG | + | chr2_3:5265735-5265754 | Msa0273660:CDS | 40.0% | |
| GAATACCTGATACGCTTTCA+AGG | - | chr2_3:5265780-5265799 | None:intergenic | 40.0% | |
| GGTATTCTACACAATTGTCG+GGG | + | chr2_3:5265793-5265812 | Msa0273660:CDS | 40.0% | |
| ! | TTCGGCTTGTTCAACGAGTT+TGG | - | chr2_3:5265190-5265209 | None:intergenic | 45.0% |
| GATGTTACCTTCGTAGCGTT+CGG | - | chr2_3:5265208-5265227 | None:intergenic | 45.0% | |
| AGAATGTTGTTGGAGCACGT+AGG | + | chr2_3:5265379-5265398 | Msa0273660:CDS | 45.0% | |
| GAATGTTGTTGGAGCACGTA+GGG | + | chr2_3:5265380-5265399 | Msa0273660:CDS | 45.0% | |
| ! | TCAGTCCTTGAAAGCGTATC+AGG | + | chr2_3:5265772-5265791 | Msa0273660:CDS | 45.0% |
| ! | GGCTTGTTCAACGAGTTTGG+CGG | - | chr2_3:5265187-5265206 | None:intergenic | 50.0% |
| AGCAGCGAGAAGAAGCGAAA+GGG | + | chr2_3:5265430-5265449 | Msa0273660:CDS | 50.0% | |
| GAGAGGTGATGAGAGGAAAG+AGG | + | chr2_3:5265742-5265761 | Msa0273660:CDS | 50.0% | |
| GATGAGAGGAAAGAGGCTGT+TGG | + | chr2_3:5265749-5265768 | Msa0273660:CDS | 50.0% | |
| GAACAAGCCGAACGCTACGA+AGG | + | chr2_3:5265198-5265217 | Msa0273660:CDS | 55.0% | |
| TTGGAGCACGTAGGGCTTCT+TGG | + | chr2_3:5265388-5265407 | Msa0273660:CDS | 55.0% | |
| GAGCAGCGAGAAGAAGCGAA+AGG | + | chr2_3:5265429-5265448 | Msa0273660:CDS | 55.0% | |
| GAGCACGTAGGGCTTCTTGG+AGG | + | chr2_3:5265391-5265410 | Msa0273660:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 5265147 | 5265877 | 5265147 | ID=Msa0273660;Name=Msa0273660 |
| chr2_3 | mRNA | 5265147 | 5265877 | 5265147 | ID=Msa0273660-mRNA-1;Parent=Msa0273660;Name=Msa0273660-mRNA-1;_AED=0.14;_eAED=0.14;_QI=0|0|0|1|1|0.66|3|0|182 |
| chr2_3 | exon | 5265147 | 5265219 | 5265147 | ID=Msa0273660-mRNA-1:exon:2530;Parent=Msa0273660-mRNA-1 |
| chr2_3 | exon | 5265295 | 5265598 | 5265295 | ID=Msa0273660-mRNA-1:exon:2531;Parent=Msa0273660-mRNA-1 |
| chr2_3 | exon | 5265706 | 5265877 | 5265706 | ID=Msa0273660-mRNA-1:exon:2532;Parent=Msa0273660-mRNA-1 |
| chr2_3 | CDS | 5265147 | 5265219 | 5265147 | ID=Msa0273660-mRNA-1:cds;Parent=Msa0273660-mRNA-1 |
| chr2_3 | CDS | 5265295 | 5265598 | 5265295 | ID=Msa0273660-mRNA-1:cds;Parent=Msa0273660-mRNA-1 |
| chr2_3 | CDS | 5265706 | 5265877 | 5265706 | ID=Msa0273660-mRNA-1:cds;Parent=Msa0273660-mRNA-1 |
| Gene Sequence |
| Protein sequence |
