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 |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1173310 | sp|Q9LIC7|PR1F4_ARATH | 50.000 | 132 | 66 | 0 | 1 | 132 | 42 | 173 | 2.16e-41 | 139 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1173310 | A0A072TLG1 | 97.872 | 141 | 3 | 0 | 1 | 141 | 40 | 180 | 4.08e-91 | 271 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0406000 | Msa1173310 | 0.806494 | 8.004360e-50 | -8.615850e-47 |
| Msa0451400 | Msa1173310 | 0.804781 | 1.831859e-49 | -8.615850e-47 |
| Msa1173310 | Msa1307590 | 0.932683 | 5.895552e-95 | -8.615850e-47 |
| Msa1173310 | Msa1406780 | 0.808112 | 3.634093e-50 | -8.615850e-47 |
| Msa1173310 | Msa1421550 | 0.812172 | 4.847252e-51 | -8.615850e-47 |
| Msa1173310 | Msa1431850 | 0.811605 | 6.439153e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1173310 | MtrunA17_Chr8g0341921 | 97.872 | 141 | 3 | 0 | 1 | 141 | 40 | 180 | 7.86e-95 | 271 |
| Msa1173310 | MtrunA17_Chr7g0260751 | 48.120 | 133 | 69 | 0 | 1 | 133 | 44 | 176 | 2.28e-42 | 139 |
| Msa1173310 | MtrunA17_Chr2g0330441 | 48.905 | 137 | 64 | 2 | 2 | 133 | 43 | 178 | 2.50e-40 | 133 |
| Msa1173310 | MtrunA17_Chr2g0330451 | 57.252 | 131 | 56 | 0 | 3 | 133 | 43 | 173 | 5.62e-37 | 124 |
| Msa1173310 | MtrunA17_Chr6g0488551 | 40.876 | 137 | 81 | 0 | 1 | 137 | 42 | 178 | 4.72e-32 | 112 |
| Msa1173310 | MtrunA17_Chr1g0190601 | 45.000 | 140 | 77 | 0 | 2 | 141 | 41 | 180 | 1.70e-28 | 103 |
| Msa1173310 | MtrunA17_Chr1g0184741 | 41.667 | 132 | 77 | 0 | 2 | 133 | 38 | 169 | 2.65e-26 | 97.8 |
| Msa1173310 | MtrunA17_Chr5g0437751 | 38.519 | 135 | 81 | 1 | 1 | 133 | 57 | 191 | 3.23e-26 | 98.2 |
| Msa1173310 | MtrunA17_Chr4g0005191 | 38.060 | 134 | 81 | 1 | 3 | 134 | 67 | 200 | 2.28e-25 | 96.3 |
| Msa1173310 | MtrunA17_Chr1g0187861 | 36.986 | 73 | 44 | 1 | 5 | 75 | 32 | 104 | 1.17e-11 | 59.3 |
| Msa1173310 | MtrunA17_Chr3g0106401 | 36.296 | 135 | 84 | 1 | 1 | 133 | 34 | 168 | 5.64e-11 | 57.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1173310 | AT3G13710.1 | 50.000 | 132 | 66 | 0 | 1 | 132 | 42 | 173 | 2.19e-42 | 139 |
| Msa1173310 | AT3G13720.1 | 52.273 | 132 | 63 | 0 | 1 | 132 | 42 | 173 | 1.59e-41 | 137 |
| Msa1173310 | AT1G55190.1 | 45.390 | 141 | 77 | 0 | 1 | 141 | 42 | 182 | 2.01e-41 | 136 |
| Msa1173310 | AT1G17700.1 | 44.203 | 138 | 77 | 0 | 1 | 138 | 42 | 179 | 1.79e-33 | 116 |
| Msa1173310 | AT1G08770.1 | 40.741 | 135 | 78 | 1 | 1 | 133 | 53 | 187 | 4.07e-31 | 110 |
| Msa1173310 | AT2G38360.1 | 36.296 | 135 | 84 | 1 | 3 | 135 | 62 | 196 | 1.59e-28 | 104 |
| Msa1173310 | AT5G01640.1 | 36.496 | 137 | 85 | 1 | 1 | 135 | 60 | 196 | 7.93e-27 | 100 |
| Msa1173310 | AT5G07110.1 | 39.259 | 135 | 80 | 1 | 3 | 135 | 52 | 186 | 1.18e-25 | 97.1 |
| Msa1173310 | AT2G40380.1 | 35.556 | 135 | 85 | 1 | 3 | 135 | 54 | 188 | 2.06e-25 | 96.3 |
| Msa1173310 | AT1G04260.1 | 28.788 | 132 | 94 | 0 | 3 | 134 | 28 | 159 | 1.18e-22 | 88.6 |
| Msa1173310 | AT3G56110.3 | 32.847 | 137 | 90 | 1 | 1 | 135 | 50 | 186 | 4.61e-22 | 87.4 |
| Msa1173310 | AT3G56110.1 | 32.847 | 137 | 90 | 1 | 1 | 135 | 50 | 186 | 4.61e-22 | 87.4 |
| Msa1173310 | AT3G56110.2 | 32.847 | 137 | 90 | 1 | 1 | 135 | 50 | 186 | 4.61e-22 | 87.4 |
| Msa1173310 | AT3G56110.4 | 32.847 | 137 | 90 | 1 | 1 | 135 | 50 | 186 | 4.61e-22 | 87.4 |
| Msa1173310 | AT5G56230.1 | 34.884 | 129 | 79 | 2 | 12 | 135 | 48 | 176 | 5.86e-22 | 86.7 |
| Msa1173310 | AT5G05380.1 | 34.752 | 141 | 90 | 1 | 3 | 141 | 55 | 195 | 2.88e-21 | 85.9 |
| Msa1173310 | AT4G29658.2 | 34.615 | 130 | 83 | 1 | 9 | 136 | 48 | 177 | 4.58e-21 | 84.7 |
| Msa1173310 | AT5G05380.3 | 34.752 | 141 | 90 | 1 | 3 | 141 | 106 | 246 | 9.33e-21 | 85.5 |
| Msa1173310 | AT5G05380.4 | 34.752 | 141 | 90 | 1 | 3 | 141 | 98 | 238 | 1.02e-20 | 85.1 |
| Msa1173310 | AT5G05380.2 | 34.752 | 141 | 90 | 1 | 3 | 141 | 122 | 262 | 1.19e-20 | 85.5 |
| Msa1173310 | AT1G55640.1 | 28.571 | 133 | 95 | 0 | 6 | 138 | 49 | 181 | 2.20e-19 | 80.1 |
| Msa1173310 | AT4G29658.1 | 36.364 | 110 | 68 | 1 | 27 | 134 | 3 | 112 | 2.57e-18 | 75.9 |
| Msa1173310 | AT4G00005.1 | 34.653 | 101 | 64 | 1 | 17 | 115 | 1 | 101 | 8.40e-13 | 61.2 |
Find 31 sgRNAs with CRISPR-Local
Find 37 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGGTGGCACATGGTGTGTTT+AGG | 0.371034 | 8_1:+3703886 | Msa1173310:CDS |
| GAGAGTAAGGATGCCATAAA+AGG | 0.391453 | 8_1:-3703668 | None:intergenic |
| GACACAGGATTTGTTCTTTG+AGG | 0.425389 | 8_1:+3703911 | Msa1173310:CDS |
| CTTCCGCATGAACTACACTA+TGG | 0.443749 | 8_1:+3703620 | Msa1173310:CDS |
| GGAAAACCATGTTCGATATC+CGG | 0.464592 | 8_1:+3703535 | None:intergenic |
| ACGAAAACAATGAGAGAGTA+AGG | 0.467760 | 8_1:-3703681 | None:intergenic |
| TACTGTTAATATTGTTGTTG+CGG | 0.469310 | 8_1:+3703842 | Msa1173310:CDS |
| TCGAATTGTGGTTGTTATCA+TGG | 0.479422 | 8_1:+3703782 | Msa1173310:CDS |
| CGAACTCGGGATATTGCTTC+CGG | 0.497967 | 8_1:-3703582 | None:intergenic |
| CTACTTTCTTCGTGATCAGC+CGG | 0.512744 | 8_1:+3703731 | Msa1173310:CDS |
| TATTGCTTCCGGTACACCGG+TGG | 0.522580 | 8_1:-3703571 | None:intergenic |
| ATTGTTGTTGTGGTGGCACA+TGG | 0.532243 | 8_1:+3703876 | Msa1173310:CDS |
| ATGTTCGATATCCGGTCACT+AGG | 0.539035 | 8_1:+3703543 | Msa1173310:CDS |
| AGGTATCCCCACCGGTGTAC+CGG | 0.543272 | 8_1:+3703563 | Msa1173310:CDS |
| ATTGCTTCCGGTACACCGGT+GGG | 0.558731 | 8_1:-3703570 | None:intergenic |
| TAGTGTTGCCATTGTTGTTG+TGG | 0.561272 | 8_1:+3703866 | Msa1173310:CDS |
| TGTTGCCATTGTTGTTGTGG+TGG | 0.564562 | 8_1:+3703869 | Msa1173310:CDS |
| ATGAGATGTTGACACGAACT+CGG | 0.565181 | 8_1:-3703596 | None:intergenic |
| TATCATGGCGTTTGTTACAG+TGG | 0.580134 | 8_1:+3703797 | Msa1173310:CDS |
| AGCCGACCCCATAAAATCAC+CGG | 0.580520 | 8_1:-3703750 | None:intergenic |
| GCTTGTTGATGATCGAATTG+TGG | 0.583908 | 8_1:+3703770 | Msa1173310:CDS |
| TGAGATGTTGACACGAACTC+GGG | 0.591425 | 8_1:-3703595 | None:intergenic |
| TCGTTATCCTCATGGCGGCG+TGG | 0.601265 | 8_1:+3703700 | Msa1173310:CDS |
| GGATATTGCTTCCGGTACAC+CGG | 0.614401 | 8_1:-3703574 | None:intergenic |
| ATGTGCCACCACAACAACAA+TGG | 0.628584 | 8_1:-3703874 | None:intergenic |
| TCACCATAGTGTAGTTCATG+CGG | 0.655733 | 8_1:-3703623 | None:intergenic |
| TGGTGTGTTTAGGAAGACAC+AGG | 0.663016 | 8_1:+3703896 | Msa1173310:CDS |
| AGAACAACCACGCCGCCATG+AGG | 0.675722 | 8_1:-3703707 | None:intergenic |
| TAGTGACCGGATATCGAACA+TGG | 0.686812 | 8_1:-3703541 | None:intergenic |
| CGGTCACTAGGTATCCCCAC+CGG | 0.689635 | 8_1:+3703555 | Msa1173310:CDS |
| TTGCTTCCGGTACACCGGTG+GGG | 0.696070 | 8_1:-3703569 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTGTTTCTAAGCCTTTTA+TGG | + | chr8_1:3703655-3703674 | Msa1173310:CDS | 25.0% |
| !! | TACTGTTAATATTGTTGTTG+CGG | + | chr8_1:3703842-3703861 | Msa1173310:CDS | 25.0% |
| ACGAAAACAATGAGAGAGTA+AGG | - | chr8_1:3703684-3703703 | None:intergenic | 35.0% | |
| ! | CATTGTTTTCGTTATCCTCA+TGG | + | chr8_1:3703692-3703711 | Msa1173310:CDS | 35.0% |
| TCGAATTGTGGTTGTTATCA+TGG | + | chr8_1:3703782-3703801 | Msa1173310:CDS | 35.0% | |
| ATGAGATGTTGACACGAACT+CGG | - | chr8_1:3703599-3703618 | None:intergenic | 40.0% | |
| TCACCATAGTGTAGTTCATG+CGG | - | chr8_1:3703626-3703645 | None:intergenic | 40.0% | |
| GAGAGTAAGGATGCCATAAA+AGG | - | chr8_1:3703671-3703690 | None:intergenic | 40.0% | |
| ! | TGTTTTCGTTATCCTCATGG+CGG | + | chr8_1:3703695-3703714 | Msa1173310:CDS | 40.0% |
| ! | TGATCAGCCGGTGATTTTAT+GGG | + | chr8_1:3703743-3703762 | Msa1173310:CDS | 40.0% |
| !! | GCTTGTTGATGATCGAATTG+TGG | + | chr8_1:3703770-3703789 | Msa1173310:CDS | 40.0% |
| ! | TATCATGGCGTTTGTTACAG+TGG | + | chr8_1:3703797-3703816 | Msa1173310:CDS | 40.0% |
| ! | TAGTGTTGCCATTGTTGTTG+TGG | + | chr8_1:3703866-3703885 | Msa1173310:CDS | 40.0% |
| ! | GACACAGGATTTGTTCTTTG+AGG | + | chr8_1:3703911-3703930 | Msa1173310:CDS | 40.0% |
| ATGTTCGATATCCGGTCACT+AGG | + | chr8_1:3703543-3703562 | Msa1173310:CDS | 45.0% | |
| TGAGATGTTGACACGAACTC+GGG | - | chr8_1:3703598-3703617 | None:intergenic | 45.0% | |
| CTTCCGCATGAACTACACTA+TGG | + | chr8_1:3703620-3703639 | Msa1173310:CDS | 45.0% | |
| CTACTTTCTTCGTGATCAGC+CGG | + | chr8_1:3703731-3703750 | Msa1173310:CDS | 45.0% | |
| ! | GTGATCAGCCGGTGATTTTA+TGG | + | chr8_1:3703742-3703761 | Msa1173310:CDS | 45.0% |
| ! | GATCAGCCGGTGATTTTATG+GGG | + | chr8_1:3703744-3703763 | Msa1173310:CDS | 45.0% |
| ! | TGTTGCCATTGTTGTTGTGG+TGG | + | chr8_1:3703869-3703888 | Msa1173310:CDS | 45.0% |
| ATGTGCCACCACAACAACAA+TGG | - | chr8_1:3703877-3703896 | None:intergenic | 45.0% | |
| ! | ATTGTTGTTGTGGTGGCACA+TGG | + | chr8_1:3703876-3703895 | Msa1173310:CDS | 45.0% |
| TGGTGTGTTTAGGAAGACAC+AGG | + | chr8_1:3703896-3703915 | Msa1173310:CDS | 45.0% | |
| GGATATTGCTTCCGGTACAC+CGG | - | chr8_1:3703577-3703596 | None:intergenic | 50.0% | |
| CGAACTCGGGATATTGCTTC+CGG | - | chr8_1:3703585-3703604 | None:intergenic | 50.0% | |
| ! | AGCCGGTGATTTTATGGGGT+CGG | + | chr8_1:3703748-3703767 | Msa1173310:CDS | 50.0% |
| AGCCGACCCCATAAAATCAC+CGG | - | chr8_1:3703753-3703772 | None:intergenic | 50.0% | |
| TGGTGGCACATGGTGTGTTT+AGG | + | chr8_1:3703886-3703905 | Msa1173310:CDS | 50.0% | |
| ATTGCTTCCGGTACACCGGT+GGG | - | chr8_1:3703573-3703592 | None:intergenic | 55.0% | |
| TATTGCTTCCGGTACACCGG+TGG | - | chr8_1:3703574-3703593 | None:intergenic | 55.0% | |
| CGGTGGGGATACCTAGTGAC+CGG | - | chr8_1:3703557-3703576 | None:intergenic | 60.0% | |
| CGGTCACTAGGTATCCCCAC+CGG | + | chr8_1:3703555-3703574 | Msa1173310:CDS | 60.0% | |
| AGGTATCCCCACCGGTGTAC+CGG | + | chr8_1:3703563-3703582 | Msa1173310:CDS | 60.0% | |
| TTGCTTCCGGTACACCGGTG+GGG | - | chr8_1:3703572-3703591 | None:intergenic | 60.0% | |
| TCGTTATCCTCATGGCGGCG+TGG | + | chr8_1:3703700-3703719 | Msa1173310:CDS | 60.0% | |
| AGAACAACCACGCCGCCATG+AGG | - | chr8_1:3703710-3703729 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 3703543 | 3703968 | 3703543 | ID=Msa1173310;Name=Msa1173310 |
| chr8_1 | mRNA | 3703543 | 3703968 | 3703543 | ID=Msa1173310-mRNA-1;Parent=Msa1173310;Name=Msa1173310-mRNA-1;_AED=0.11;_eAED=0.11;_QI=0|-1|0|1|-1|1|1|0|141 |
| chr8_1 | exon | 3703543 | 3703968 | 3703543 | ID=Msa1173310-mRNA-1:exon:1278;Parent=Msa1173310-mRNA-1 |
| chr8_1 | CDS | 3703543 | 3703968 | 3703543 | ID=Msa1173310-mRNA-1:cds;Parent=Msa1173310-mRNA-1 |
| Gene Sequence |
| Protein sequence |
