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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0087920 | XP_013469780.1 | 93.684 | 190 | 12 | 0 | 2 | 191 | 1 | 190 | 3.18e-124 | 358 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0087920 | sp|P05332|YP20_BACLI | 34.503 | 171 | 103 | 3 | 24 | 188 | 8 | 175 | 2.06e-23 | 94.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0087920 | A0A072VQW9 | 93.684 | 190 | 12 | 0 | 2 | 191 | 1 | 190 | 1.52e-124 | 358 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0087920 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0087920 | MtrunA17_Chr1g0204951 | 93.684 | 190 | 12 | 0 | 2 | 191 | 1 | 190 | 2.92e-128 | 358 |
| Msa0087920 | MtrunA17_Chr1g0204971 | 84.737 | 190 | 29 | 0 | 2 | 191 | 1 | 190 | 3.47e-119 | 335 |
| Msa0087920 | MtrunA17_Chr5g0394621 | 64.062 | 192 | 65 | 2 | 2 | 191 | 1 | 190 | 1.64e-86 | 253 |
| Msa0087920 | MtrunA17_Chr5g0394631 | 62.842 | 183 | 64 | 2 | 2 | 182 | 1 | 181 | 1.06e-76 | 235 |
| Msa0087920 | MtrunA17_Chr5g0394631 | 57.868 | 197 | 69 | 6 | 1 | 191 | 213 | 401 | 1.67e-69 | 216 |
| Msa0087920 | MtrunA17_Chr7g0273661 | 48.077 | 156 | 76 | 2 | 20 | 173 | 4 | 156 | 1.58e-44 | 145 |
| Msa0087920 | MtrunA17_Chr7g0223351 | 43.373 | 166 | 91 | 3 | 23 | 188 | 7 | 169 | 2.25e-39 | 132 |
| Msa0087920 | MtrunA17_Chr7g0223361 | 40.351 | 171 | 100 | 2 | 18 | 188 | 2 | 170 | 4.34e-38 | 129 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0087920 | AT2G32020.1 | 53.892 | 167 | 72 | 3 | 23 | 188 | 18 | 180 | 6.08e-59 | 182 |
| Msa0087920 | AT2G32030.1 | 48.936 | 188 | 90 | 4 | 2 | 188 | 3 | 185 | 3.00e-58 | 181 |
| Msa0087920 | AT3G22560.1 | 41.954 | 174 | 94 | 3 | 19 | 188 | 2 | 172 | 2.37e-38 | 130 |
Find 36 sgRNAs with CRISPR-Local
Find 45 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCGTATTCTTTGTTTGTATA+AGG | 0.200876 | 1_2:+68948976 | None:intergenic |
| CTCTTCTTTAGCATCTGATT+TGG | 0.255230 | 1_2:+68949113 | None:intergenic |
| TGCTATGAGCTCCAAGTATT+GGG | 0.261207 | 1_2:-68948818 | Msa0087920:CDS |
| TTCAGATCTTGATGATGTTT+TGG | 0.285412 | 1_2:-68949043 | Msa0087920:CDS |
| GAGATTTGCTTGCTATGTTT+TGG | 0.329625 | 1_2:+68948941 | None:intergenic |
| TAATGGGTCGAAGAGATATT+TGG | 0.336769 | 1_2:+68949070 | None:intergenic |
| ATCAAGATCTGAAAGACTAA+TGG | 0.348689 | 1_2:+68949053 | None:intergenic |
| TTTAGCATCTGATTTGGAAT+AGG | 0.367598 | 1_2:+68949119 | None:intergenic |
| AATACCTTTGCCCCAATACT+TGG | 0.403153 | 1_2:+68948807 | None:intergenic |
| TGCCTTCGCGATCGAGCAAT+CGG | 0.411073 | 1_2:-68948901 | Msa0087920:CDS |
| CAGAGGGTGTTGGAGAAGGC+TGG | 0.411839 | 1_2:-68948685 | Msa0087920:CDS |
| ACATAGCAAGCAAATCTCTA+TGG | 0.412043 | 1_2:-68948936 | Msa0087920:CDS |
| CAGAAAATATCTGTTAATCA+AGG | 0.427611 | 1_2:-68948641 | Msa0087920:CDS |
| AGGAACAAATCTGCTGAACT+TGG | 0.442081 | 1_2:-68948844 | Msa0087920:CDS |
| ATGCTATGAGCTCCAAGTAT+TGG | 0.448265 | 1_2:-68948819 | Msa0087920:CDS |
| CTTGAGCTTCAAGCCGCTCC+AGG | 0.458231 | 1_2:+68948731 | None:intergenic |
| TCAAGATCTGAAAGACTAAT+GGG | 0.460408 | 1_2:+68949054 | None:intergenic |
| TTCTCAGAGGGTGTTGGAGA+AGG | 0.470170 | 1_2:-68948689 | Msa0087920:CDS |
| GCTTCAAGCCGCTCCAGGTA+TGG | 0.487071 | 1_2:+68948736 | None:intergenic |
| CCTTATACAAACAAAGAATA+CGG | 0.500115 | 1_2:-68948976 | Msa0087920:CDS |
| AGGTTCCCAAGTGCAATACT+TGG | 0.527166 | 1_2:+68948996 | None:intergenic |
| AGCTCCAAGTATTGGGGCAA+AGG | 0.537498 | 1_2:-68948811 | Msa0087920:CDS |
| TAGAAAATGTGGCTTCTCAG+AGG | 0.540854 | 1_2:-68948702 | Msa0087920:CDS |
| ATTTAAAGAGTTTCCATACC+TGG | 0.542410 | 1_2:-68948749 | Msa0087920:CDS |
| GCCTTCGCGATCGAGCAATC+GGG | 0.544699 | 1_2:-68948900 | Msa0087920:CDS |
| TGTGGCTTCTCAGAGGGTGT+TGG | 0.549890 | 1_2:-68948695 | Msa0087920:CDS |
| AGAAAATATCTGTTAATCAA+GGG | 0.554840 | 1_2:-68948640 | Msa0087920:CDS |
| TCAAGTTGATGTAGAAAATG+TGG | 0.572167 | 1_2:-68948713 | Msa0087920:CDS |
| AAGAGTTTCCATACCTGGAG+CGG | 0.585589 | 1_2:-68948744 | Msa0087920:CDS |
| CACACTTGTTGTCAAACAAG+TGG | 0.596019 | 1_2:-68948782 | Msa0087920:CDS |
| AAGTGGCCAAGTATTGCACT+TGG | 0.601796 | 1_2:-68949002 | Msa0087920:CDS |
| AGAAAATGTGGCTTCTCAGA+GGG | 0.613906 | 1_2:-68948701 | Msa0087920:CDS |
| CACTTGTTTGACAACAAGTG+TGG | 0.622968 | 1_2:+68948783 | None:intergenic |
| ACCCGATTGCTCGATCGCGA+AGG | 0.639229 | 1_2:+68948899 | None:intergenic |
| GCTATGAGCTCCAAGTATTG+GGG | 0.656803 | 1_2:-68948817 | Msa0087920:CDS |
| AGTGGCCAAGTATTGCACTT+GGG | 0.670287 | 1_2:-68949001 | Msa0087920:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AGAAAATATCTGTTAATCAA+GGG | - | chr1_2:68949083-68949102 | Msa0087920:CDS | 20.0% |
| ! | CCTTATACAAACAAAGAATA+CGG | - | chr1_2:68948747-68948766 | Msa0087920:CDS | 25.0% |
| !!! | TATCGATTTCTTTTTGTGTT+CGG | - | chr1_2:68948848-68948867 | Msa0087920:CDS | 25.0% |
| ! | CAGAAAATATCTGTTAATCA+AGG | - | chr1_2:68949082-68949101 | Msa0087920:CDS | 25.0% |
| !! | TTTAGCATCTGATTTGGAAT+AGG | + | chr1_2:68948607-68948626 | None:intergenic | 30.0% |
| TCAAGATCTGAAAGACTAAT+GGG | + | chr1_2:68948672-68948691 | None:intergenic | 30.0% | |
| ATCAAGATCTGAAAGACTAA+TGG | + | chr1_2:68948673-68948692 | None:intergenic | 30.0% | |
| !!! | TTCAGATCTTGATGATGTTT+TGG | - | chr1_2:68948680-68948699 | Msa0087920:CDS | 30.0% |
| ! | CCGTATTCTTTGTTTGTATA+AGG | + | chr1_2:68948750-68948769 | None:intergenic | 30.0% |
| ATTTAAAGAGTTTCCATACC+TGG | - | chr1_2:68948974-68948993 | Msa0087920:CDS | 30.0% | |
| !! | TCAAGTTGATGTAGAAAATG+TGG | - | chr1_2:68949010-68949029 | Msa0087920:CDS | 30.0% |
| CAAGGGAAAAAATAGAGATA+TGG | - | chr1_2:68949100-68949119 | Msa0087920:CDS | 30.0% | |
| CTCTTCTTTAGCATCTGATT+TGG | + | chr1_2:68948613-68948632 | None:intergenic | 35.0% | |
| ! | TAATGGGTCGAAGAGATATT+TGG | + | chr1_2:68948656-68948675 | None:intergenic | 35.0% |
| !!! | ATCTTGATGATGTTTTGGTG+TGG | - | chr1_2:68948685-68948704 | Msa0087920:CDS | 35.0% |
| !!! | GAGATTTGCTTGCTATGTTT+TGG | + | chr1_2:68948785-68948804 | None:intergenic | 35.0% |
| ACATAGCAAGCAAATCTCTA+TGG | - | chr1_2:68948787-68948806 | Msa0087920:CDS | 35.0% | |
| GTGGACAAGTGATGAAAAAG+TGG | - | chr1_2:68948704-68948723 | Msa0087920:CDS | 40.0% | |
| ! | TTTTGTGTTCGGATAGATGC+AGG | - | chr1_2:68948859-68948878 | Msa0087920:CDS | 40.0% |
| AGGAACAAATCTGCTGAACT+TGG | - | chr1_2:68948879-68948898 | Msa0087920:CDS | 40.0% | |
| ATGCTATGAGCTCCAAGTAT+TGG | - | chr1_2:68948904-68948923 | Msa0087920:CDS | 40.0% | |
| TGCTATGAGCTCCAAGTATT+GGG | - | chr1_2:68948905-68948924 | Msa0087920:CDS | 40.0% | |
| AATACCTTTGCCCCAATACT+TGG | + | chr1_2:68948919-68948938 | None:intergenic | 40.0% | |
| CACTTGTTTGACAACAAGTG+TGG | + | chr1_2:68948943-68948962 | None:intergenic | 40.0% | |
| !! | CACACTTGTTGTCAAACAAG+TGG | - | chr1_2:68948941-68948960 | Msa0087920:CDS | 40.0% |
| TAGAAAATGTGGCTTCTCAG+AGG | - | chr1_2:68949021-68949040 | Msa0087920:CDS | 40.0% | |
| AGAAAATGTGGCTTCTCAGA+GGG | - | chr1_2:68949022-68949041 | Msa0087920:CDS | 40.0% | |
| ! | AAGTGGCCAAGTATTGCACT+TGG | - | chr1_2:68948721-68948740 | Msa0087920:CDS | 45.0% |
| ! | AGTGGCCAAGTATTGCACTT+GGG | - | chr1_2:68948722-68948741 | Msa0087920:CDS | 45.0% |
| AGGTTCCCAAGTGCAATACT+TGG | + | chr1_2:68948730-68948749 | None:intergenic | 45.0% | |
| ! | GCTATGAGCTCCAAGTATTG+GGG | - | chr1_2:68948906-68948925 | Msa0087920:CDS | 45.0% |
| AAGAGTTTCCATACCTGGAG+CGG | - | chr1_2:68948979-68948998 | Msa0087920:CDS | 45.0% | |
| !!! | TGGAGAAGGCTGGTTTTCAA+AGG | - | chr1_2:68949048-68949067 | Msa0087920:CDS | 45.0% |
| !!! | GGAGAAGGCTGGTTTTCAAA+GGG | - | chr1_2:68949049-68949068 | Msa0087920:CDS | 45.0% |
| !!! | AAGGCTGGTTTTCAAAGGGA+GGG | - | chr1_2:68949053-68949072 | Msa0087920:CDS | 45.0% |
| !! | AGCTCCAAGTATTGGGGCAA+AGG | - | chr1_2:68948912-68948931 | Msa0087920:CDS | 50.0% |
| !! | TTCTCAGAGGGTGTTGGAGA+AGG | - | chr1_2:68949034-68949053 | Msa0087920:CDS | 50.0% |
| !!! | GAAGGCTGGTTTTCAAAGGG+AGG | - | chr1_2:68949052-68949071 | Msa0087920:CDS | 50.0% |
| TGCCTTCGCGATCGAGCAAT+CGG | - | chr1_2:68948822-68948841 | Msa0087920:CDS | 55.0% | |
| ! | TGTGGCTTCTCAGAGGGTGT+TGG | - | chr1_2:68949028-68949047 | Msa0087920:CDS | 55.0% |
| GCCTTCGCGATCGAGCAATC+GGG | - | chr1_2:68948823-68948842 | Msa0087920:CDS | 60.0% | |
| ACCCGATTGCTCGATCGCGA+AGG | + | chr1_2:68948827-68948846 | None:intergenic | 60.0% | |
| GCTTCAAGCCGCTCCAGGTA+TGG | + | chr1_2:68948990-68949009 | None:intergenic | 60.0% | |
| CTTGAGCTTCAAGCCGCTCC+AGG | + | chr1_2:68948995-68949014 | None:intergenic | 60.0% | |
| !! | CAGAGGGTGTTGGAGAAGGC+TGG | - | chr1_2:68949038-68949057 | Msa0087920:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 68948585 | 68949160 | 68948585 | ID=Msa0087920;Name=Msa0087920 |
| chr1_2 | mRNA | 68948585 | 68949160 | 68948585 | ID=Msa0087920-mRNA-1;Parent=Msa0087920;Name=Msa0087920-mRNA-1;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|191 |
| chr1_2 | exon | 68948585 | 68949160 | 68948585 | ID=Msa0087920-mRNA-1:exon:23648;Parent=Msa0087920-mRNA-1 |
| chr1_2 | CDS | 68948585 | 68949160 | 68948585 | ID=Msa0087920-mRNA-1:cds;Parent=Msa0087920-mRNA-1 |
| Gene Sequence |
| Protein sequence |
