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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0342590 | XP_024633071.1 | 94.505 | 91 | 5 | 0 | 1 | 91 | 1 | 91 | 2.37e-56 | 179 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0342590 | I3SV61 | 94.505 | 91 | 5 | 0 | 1 | 91 | 1 | 91 | 1.13e-56 | 179 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0220170 | Msa0342590 | 0.850778 | 1.362304e-60 | -8.615850e-47 |
| Msa0227790 | Msa0342590 | 0.837061 | 6.491658e-57 | -8.615850e-47 |
| Msa0261460 | Msa0342590 | 0.844219 | 8.655219e-59 | -8.615850e-47 |
| Msa0261480 | Msa0342590 | 0.848687 | 5.228997e-60 | -8.615850e-47 |
| Msa0299100 | Msa0342590 | 0.938206 | 9.871370e-99 | -8.615850e-47 |
| Msa0311900 | Msa0342590 | 0.806083 | 9.771714e-50 | -8.615850e-47 |
| Msa0342590 | Msa0511380 | 0.815187 | 1.050988e-51 | -8.615850e-47 |
| Msa0342590 | Msa1026970 | 0.856522 | 3.039638e-62 | -8.615850e-47 |
| Msa0342590 | Msa1111900 | 0.845864 | 3.112920e-59 | -8.615850e-47 |
| Msa0342590 | Msa1133760 | 0.846365 | 2.273438e-59 | -8.615850e-47 |
| Msa0342590 | Msa1154310 | 0.837992 | 3.745818e-57 | -8.615850e-47 |
| Msa0342590 | Msa1406910 | 0.943382 | 1.330903e-102 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0342590 | MtrunA17_Chr2g0323571 | 94.505 | 91 | 5 | 0 | 1 | 91 | 1 | 91 | 2.18e-60 | 179 |
| Msa0342590 | MtrunA17_Chr2g0323671 | 93.407 | 91 | 6 | 0 | 1 | 91 | 1 | 91 | 6.52e-60 | 177 |
| Msa0342590 | MtrunA17_Chr2g0323631 | 92.308 | 91 | 7 | 0 | 1 | 91 | 1 | 91 | 1.09e-59 | 177 |
| Msa0342590 | MtrunA17_Chr4g0022611 | 74.118 | 85 | 19 | 2 | 9 | 91 | 6 | 89 | 1.78e-37 | 120 |
| Msa0342590 | MtrunA17_Chr2g0323701 | 67.442 | 86 | 23 | 3 | 9 | 91 | 6 | 89 | 8.62e-35 | 114 |
| Msa0342590 | MtrunA17_Chr2g0323721 | 63.953 | 86 | 26 | 3 | 9 | 91 | 6 | 89 | 2.38e-32 | 108 |
| Msa0342590 | MtrunA17_Chr2g0323661 | 66.667 | 81 | 21 | 3 | 11 | 91 | 10 | 84 | 1.10e-31 | 106 |
| Msa0342590 | MtrunA17_Chr2g0323611 | 66.667 | 81 | 21 | 3 | 11 | 91 | 10 | 84 | 1.48e-31 | 105 |
| Msa0342590 | MtrunA17_Chr2g0323601 | 61.957 | 92 | 29 | 3 | 5 | 91 | 2 | 92 | 4.41e-31 | 104 |
| Msa0342590 | MtrunA17_Chr2g0323651 | 60.440 | 91 | 31 | 2 | 5 | 91 | 2 | 91 | 4.09e-30 | 102 |
| Msa0342590 | MtrunA17_Chr2g0323711 | 60.440 | 91 | 31 | 2 | 5 | 91 | 2 | 91 | 4.09e-30 | 102 |
| Msa0342590 | MtrunA17_Chr2g0323681 | 57.292 | 96 | 31 | 2 | 5 | 91 | 2 | 96 | 2.11e-28 | 98.2 |
| Msa0342590 | MtrunA17_Chr2g0318611 | 54.651 | 86 | 36 | 1 | 5 | 90 | 2 | 84 | 2.09e-26 | 92.8 |
| Msa0342590 | MtrunA17_Chr2g0318641 | 54.444 | 90 | 34 | 3 | 2 | 90 | 32 | 115 | 3.26e-26 | 93.6 |
| Msa0342590 | MtrunA17_Chr2g0318601 | 52.326 | 86 | 38 | 1 | 5 | 90 | 2 | 84 | 1.05e-25 | 91.3 |
| Msa0342590 | MtrunA17_Chr2g0323551 | 56.818 | 88 | 34 | 4 | 6 | 91 | 3 | 88 | 1.85e-23 | 85.5 |
| Msa0342590 | MtrunA17_Chr2g0318591 | 46.512 | 86 | 43 | 2 | 5 | 90 | 2 | 84 | 4.85e-17 | 69.3 |
| Msa0342590 | MtrunA17_Chr2g0281091 | 47.297 | 74 | 33 | 3 | 21 | 91 | 19 | 89 | 1.62e-11 | 55.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0342590 | AT4G10265.1 | 67.778 | 90 | 21 | 2 | 1 | 90 | 1 | 82 | 4.18e-37 | 120 |
| Msa0342590 | AT4G10270.1 | 66.292 | 89 | 28 | 1 | 5 | 91 | 2 | 90 | 6.95e-36 | 117 |
Find 23 sgRNAs with CRISPR-Local
Find 22 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTTCTTTCTACCAAATTTA+AGG | 0.083061 | 3_1:-498055 | Msa0342590:CDS |
| CTTCTTCTCATCCTTAAATT+TGG | 0.217937 | 3_1:+498044 | None:intergenic |
| CAAGGACTCCTCTGCTTGTT+TGG | 0.238006 | 3_1:+498020 | None:intergenic |
| CTATGTACAAATTAATCAAT+TGG | 0.386618 | 3_1:+497966 | None:intergenic |
| TGTTATGTATTTAAGCTGCT+GGG | 0.439197 | 3_1:-497992 | Msa0342590:CDS |
| CTGTTATGTATTTAAGCTGC+TGG | 0.447401 | 3_1:-497993 | Msa0342590:CDS |
| GGCTGCAAGTGTTGGAGTTG+TGG | 0.471925 | 3_1:-498196 | Msa0342590:CDS |
| CAACAGCAACAAGCAAAGCC+TGG | 0.483623 | 3_1:-498224 | Msa0342590:CDS |
| TATGTACAAATTAATCAATT+GGG | 0.486617 | 3_1:+497967 | None:intergenic |
| CAAATTTAAGGATGAGAAGA+AGG | 0.489333 | 3_1:-498043 | Msa0342590:CDS |
| TGGATGGTGGCTGCAAGTGT+TGG | 0.520041 | 3_1:-498204 | Msa0342590:CDS |
| AACACTTGCAGCCACCATCC+AGG | 0.526165 | 3_1:+498206 | None:intergenic |
| CTTGAGAAATTGATCTAACA+CGG | 0.546721 | 3_1:+498100 | None:intergenic |
| AGCAACAAGCAAAGCCTGGA+TGG | 0.571199 | 3_1:-498220 | Msa0342590:CDS |
| GTTATGTATTTAAGCTGCTG+GGG | 0.572155 | 3_1:-497991 | Msa0342590:CDS |
| TGCAAGTGTTGGAGTTGTGG+AGG | 0.587512 | 3_1:-498193 | Msa0342590:CDS |
| TAAATACATAACAGTCCTCA+AGG | 0.598210 | 3_1:+498002 | None:intergenic |
| AAGATCAAGCAGGTATCTGT+AGG | 0.606026 | 3_1:-498164 | Msa0342590:CDS |
| GAAGAAGGCCAAACAAGCAG+AGG | 0.609690 | 3_1:-498028 | Msa0342590:CDS |
| ATCAAGCAGGTATCTGTAGG+TGG | 0.613271 | 3_1:-498161 | Msa0342590:CDS |
| AACAAGCAGAGGAGTCCTTG+AGG | 0.628944 | 3_1:-498017 | Msa0342590:CDS |
| GAGGCTTTGAAAGATCAAGC+AGG | 0.651632 | 3_1:-498174 | Msa0342590:CDS |
| AACAAGCAAAGCCTGGATGG+TGG | 0.651830 | 3_1:-498217 | Msa0342590:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTTCTTTCTACCAAATTTA+AGG | - | chr3_1:498160-498179 | Msa0342590:CDS | 20.0% |
| ! | TTGATCTAACACGGTTTTTA+AGG | + | chr3_1:498109-498128 | None:intergenic | 30.0% |
| CTTGAGAAATTGATCTAACA+CGG | + | chr3_1:498118-498137 | None:intergenic | 30.0% | |
| CTTCTTCTCATCCTTAAATT+TGG | + | chr3_1:498174-498193 | None:intergenic | 30.0% | |
| CAAATTTAAGGATGAGAAGA+AGG | - | chr3_1:498172-498191 | Msa0342590:CDS | 30.0% | |
| TAAATACATAACAGTCCTCA+AGG | + | chr3_1:498216-498235 | None:intergenic | 30.0% | |
| TGTTATGTATTTAAGCTGCT+GGG | - | chr3_1:498223-498242 | Msa0342590:CDS | 30.0% | |
| CTGTTATGTATTTAAGCTGC+TGG | - | chr3_1:498222-498241 | Msa0342590:CDS | 35.0% | |
| GTTATGTATTTAAGCTGCTG+GGG | - | chr3_1:498224-498243 | Msa0342590:CDS | 35.0% | |
| AAGATCAAGCAGGTATCTGT+AGG | - | chr3_1:498051-498070 | Msa0342590:CDS | 40.0% | |
| !! | GAGGCTTTGAAAGATCAAGC+AGG | - | chr3_1:498041-498060 | Msa0342590:CDS | 45.0% |
| ATCAAGCAGGTATCTGTAGG+TGG | - | chr3_1:498054-498073 | Msa0342590:CDS | 45.0% | |
| CAACAGCAACAAGCAAAGCC+TGG | - | chr3_1:497991-498010 | Msa0342590:CDS | 50.0% | |
| AGCAACAAGCAAAGCCTGGA+TGG | - | chr3_1:497995-498014 | Msa0342590:CDS | 50.0% | |
| AACAAGCAAAGCCTGGATGG+TGG | - | chr3_1:497998-498017 | Msa0342590:CDS | 50.0% | |
| !! | TGCAAGTGTTGGAGTTGTGG+AGG | - | chr3_1:498022-498041 | Msa0342590:CDS | 50.0% |
| GAAGAAGGCCAAACAAGCAG+AGG | - | chr3_1:498187-498206 | Msa0342590:CDS | 50.0% | |
| CAAGGACTCCTCTGCTTGTT+TGG | + | chr3_1:498198-498217 | None:intergenic | 50.0% | |
| AACAAGCAGAGGAGTCCTTG+AGG | - | chr3_1:498198-498217 | Msa0342590:CDS | 50.0% | |
| AACACTTGCAGCCACCATCC+AGG | + | chr3_1:498012-498031 | None:intergenic | 55.0% | |
| ! | TGGATGGTGGCTGCAAGTGT+TGG | - | chr3_1:498011-498030 | Msa0342590:CDS | 55.0% |
| !! | GGCTGCAAGTGTTGGAGTTG+TGG | - | chr3_1:498019-498038 | Msa0342590:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 497981 | 498256 | 497981 | ID=Msa0342590;Name=Msa0342590 |
| chr3_1 | mRNA | 497981 | 498256 | 497981 | ID=Msa0342590-mRNA-1;Parent=Msa0342590;Name=Msa0342590-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|91 |
| chr3_1 | exon | 497981 | 498256 | 497981 | ID=Msa0342590-mRNA-1:exon:72;Parent=Msa0342590-mRNA-1 |
| chr3_1 | CDS | 497981 | 498256 | 497981 | ID=Msa0342590-mRNA-1:cds;Parent=Msa0342590-mRNA-1 |
| Gene Sequence |
| Protein sequence |
