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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0289260 | MCH84716.1 | 50.935 | 214 | 53 | 7 | 1 | 169 | 185 | 391 | 4.24e-46 | 168 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0289250 | Msa0289260 | 0.821672 | 3.565809e-53 | -8.615850e-47 |
| Msa0289260 | Msa0289330 | 0.845032 | 5.228312e-59 | -8.615850e-47 |
| Msa0289260 | Msa0327120 | 0.968884 | 2.572284e-129 | -8.615850e-47 |
| Msa0289260 | Msa1410100 | 0.805527 | 1.278907e-49 | -8.615850e-47 |
| Msa0289260 | Msa1410110 | 0.994494 | 1.034216e-207 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0289260 | MtrunA17_Chr1g0160961 | 49.065 | 214 | 57 | 7 | 1 | 169 | 1108 | 1314 | 1.01e-45 | 159 |
| Msa0289260 | MtrunA17_Chr5g0419891 | 48.598 | 214 | 58 | 7 | 1 | 169 | 984 | 1190 | 4.89e-45 | 157 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 32 sgRNAs with CRISPR-Local
Find 47 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGATTCTATCATCTCATTTC+AGG | 0.217727 | 2_3:-35468132 | Msa0289260:CDS |
| GTTGTCAATTCCTTGAAAAC+TGG | 0.305092 | 2_3:+35467795 | None:intergenic |
| TTGGACAGGACCTGGGGATA+TGG | 0.313019 | 2_3:-35468304 | Msa0289260:CDS |
| GGCAACTTCAAGCAAATTAG+TGG | 0.357784 | 2_3:+35467858 | None:intergenic |
| CATCTCATTTCAGGAGTAGA+TGG | 0.362782 | 2_3:-35468123 | Msa0289260:CDS |
| AAGACAACATGCACTTTACT+AGG | 0.368570 | 2_3:-35468153 | Msa0289260:CDS |
| AGGCCACTCTGATGCGCATT+TGG | 0.371819 | 2_3:-35468045 | Msa0289260:CDS |
| AACAAAGAAAAGTCCACATT+TGG | 0.394798 | 2_3:+35467837 | None:intergenic |
| TTCATATTGCTGCCACCTAC+AGG | 0.401617 | 2_3:+35468177 | None:intergenic |
| ACACTGCCTTGGACAGGACC+TGG | 0.477027 | 2_3:-35468312 | Msa0289260:CDS |
| GTCAATGATGCATGCTGAAT+AGG | 0.489388 | 2_3:+35467763 | None:intergenic |
| CACTGCCTTGGACAGGACCT+GGG | 0.509070 | 2_3:-35468311 | Msa0289260:CDS |
| GCATTTGGATACGATATATG+AGG | 0.530559 | 2_3:-35468030 | Msa0289260:CDS |
| GCAGCGGATTAACACTGCCT+TGG | 0.543231 | 2_3:-35468323 | Msa0289260:CDS |
| GAGTAGATGGTTGTCTGTAA+AGG | 0.545061 | 2_3:-35468110 | Msa0289260:CDS |
| CAAGCTGGTCCTCTAAAAGT+TGG | 0.547141 | 2_3:-35467895 | Msa0289260:CDS |
| GGATTAACACTGCCTTGGAC+AGG | 0.550002 | 2_3:-35468318 | Msa0289260:CDS |
| TTGCTTGAAGTTGCCAAATG+TGG | 0.554295 | 2_3:-35467850 | Msa0289260:CDS |
| GCAACTTCAAGCAAATTAGT+GGG | 0.566368 | 2_3:+35467859 | None:intergenic |
| GGCAGTGTTAATCCGCTGCA+TGG | 0.594322 | 2_3:+35468327 | None:intergenic |
| ATATCCCCAGGTCCTGTCCA+AGG | 0.597750 | 2_3:+35468306 | None:intergenic |
| GTAAAATCTAAAGCCGTGGA+TGG | 0.599176 | 2_3:-35468088 | Msa0289260:CDS |
| GATGCATGCTGAATAGGAGA+AGG | 0.600149 | 2_3:+35467769 | None:intergenic |
| TTTCACTATACCAAGCAAGC+TGG | 0.602071 | 2_3:-35467910 | Msa0289260:CDS |
| TCTATAGCAACCATATCCCC+AGG | 0.613424 | 2_3:+35468294 | None:intergenic |
| AAAGGTAAAATCTAAAGCCG+TGG | 0.614741 | 2_3:-35468092 | Msa0289260:CDS |
| GGTTGCTATAGAGCAAACAT+TGG | 0.621396 | 2_3:-35468283 | Msa0289260:CDS |
| AAAAGAACTAATGCCATCCA+CGG | 0.628505 | 2_3:+35468075 | None:intergenic |
| ACTGCCTTGGACAGGACCTG+GGG | 0.640697 | 2_3:-35468310 | Msa0289260:CDS |
| TACTTCAAAATAGAGAGACA+TGG | 0.684859 | 2_3:+35468250 | None:intergenic |
| AAACAACCTTCACCATGCAG+CGG | 0.695848 | 2_3:-35468339 | None:intergenic |
| TATCCAAATGCGCATCAGAG+TGG | 0.708943 | 2_3:+35468042 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTTTGTATACAAAGTTCA+AGG | + | chr2_3:35467860-35467879 | None:intergenic | 20.0% |
| !!! | CATTAGTTCTTTTAGCATTA+AGG | - | chr2_3:35468019-35468038 | Msa0289260:intron | 25.0% |
| ! | AGAAGTCTTCAATAATAGAA+TGG | - | chr2_3:35468097-35468116 | Msa0289260:CDS | 25.0% |
| ! | GAAGTCTTCAATAATAGAAT+GGG | - | chr2_3:35468098-35468117 | Msa0289260:CDS | 25.0% |
| TACTTCAAAATAGAGAGACA+TGG | + | chr2_3:35467837-35467856 | None:intergenic | 30.0% | |
| AAAAATTTCTCCGTAACAAG+AGG | - | chr2_3:35467874-35467893 | Msa0289260:CDS | 30.0% | |
| !!! | CTTTTTTACTCCTCTTGTTA+CGG | + | chr2_3:35467887-35467906 | None:intergenic | 30.0% |
| AACAAAGAAAAGTCCACATT+TGG | + | chr2_3:35468250-35468269 | None:intergenic | 30.0% | |
| !!! | TGTGGACTTTTCTTTGTTTT+TGG | - | chr2_3:35468252-35468271 | Msa0289260:CDS | 30.0% |
| AAGACAACATGCACTTTACT+AGG | - | chr2_3:35467931-35467950 | Msa0289260:intron | 35.0% | |
| GGATTCTATCATCTCATTTC+AGG | - | chr2_3:35467952-35467971 | Msa0289260:intron | 35.0% | |
| ! | AAAGGTAAAATCTAAAGCCG+TGG | - | chr2_3:35467992-35468011 | Msa0289260:intron | 35.0% |
| AAAAGAACTAATGCCATCCA+CGG | + | chr2_3:35468012-35468031 | None:intergenic | 35.0% | |
| GCATTTGGATACGATATATG+AGG | - | chr2_3:35468054-35468073 | Msa0289260:CDS | 35.0% | |
| AAACTGAACCAAGGAAAAAG+TGG | + | chr2_3:35468149-35468168 | None:intergenic | 35.0% | |
| GAAATGTTGAAACTGAACCA+AGG | + | chr2_3:35468158-35468177 | None:intergenic | 35.0% | |
| ! | TCTACACTACCAACTTTTAG+AGG | + | chr2_3:35468201-35468220 | None:intergenic | 35.0% |
| GCAACTTCAAGCAAATTAGT+GGG | + | chr2_3:35468228-35468247 | None:intergenic | 35.0% | |
| ! | GAAAGAATGTCCAGTTTTCA+AGG | - | chr2_3:35468279-35468298 | Msa0289260:CDS | 35.0% |
| GTTGTCAATTCCTTGAAAAC+TGG | + | chr2_3:35468292-35468311 | None:intergenic | 35.0% | |
| GGTTGCTATAGAGCAAACAT+TGG | - | chr2_3:35467801-35467820 | Msa0289260:CDS | 40.0% | |
| AGAGGAGTAAAAAAGCCTGT+AGG | - | chr2_3:35467892-35467911 | Msa0289260:CDS | 40.0% | |
| CATCTCATTTCAGGAGTAGA+TGG | - | chr2_3:35467961-35467980 | Msa0289260:intron | 40.0% | |
| GAGTAGATGGTTGTCTGTAA+AGG | - | chr2_3:35467974-35467993 | Msa0289260:intron | 40.0% | |
| ! | GTAAAATCTAAAGCCGTGGA+TGG | - | chr2_3:35467996-35468015 | Msa0289260:intron | 40.0% |
| TTTCACTATACCAAGCAAGC+TGG | - | chr2_3:35468174-35468193 | Msa0289260:CDS | 40.0% | |
| GGCAACTTCAAGCAAATTAG+TGG | + | chr2_3:35468229-35468248 | None:intergenic | 40.0% | |
| TTGCTTGAAGTTGCCAAATG+TGG | - | chr2_3:35468234-35468253 | Msa0289260:CDS | 40.0% | |
| GTCAATGATGCATGCTGAAT+AGG | + | chr2_3:35468324-35468343 | None:intergenic | 40.0% | |
| TCTATAGCAACCATATCCCC+AGG | + | chr2_3:35467793-35467812 | None:intergenic | 45.0% | |
| GGAGTAAAAAAGCCTGTAGG+TGG | - | chr2_3:35467895-35467914 | Msa0289260:CDS | 45.0% | |
| TTCATATTGCTGCCACCTAC+AGG | + | chr2_3:35467910-35467929 | None:intergenic | 45.0% | |
| TATCCAAATGCGCATCAGAG+TGG | + | chr2_3:35468045-35468064 | None:intergenic | 45.0% | |
| !! | AGGAAAAAGTGGACTGGAAG+TGG | + | chr2_3:35468138-35468157 | None:intergenic | 45.0% |
| !!! | CTTCCAGTCCACTTTTTCCT+TGG | - | chr2_3:35468138-35468157 | Msa0289260:CDS | 45.0% |
| GAACCAAGGAAAAAGTGGAC+TGG | + | chr2_3:35468144-35468163 | None:intergenic | 45.0% | |
| !! | TTTTAGAGGACCAGCTTGCT+TGG | + | chr2_3:35468187-35468206 | None:intergenic | 45.0% |
| ! | CAAGCTGGTCCTCTAAAAGT+TGG | - | chr2_3:35468189-35468208 | Msa0289260:CDS | 45.0% |
| GATGCATGCTGAATAGGAGA+AGG | + | chr2_3:35468318-35468337 | None:intergenic | 45.0% | |
| GGATTAACACTGCCTTGGAC+AGG | - | chr2_3:35467766-35467785 | Msa0289260:CDS | 50.0% | |
| !! | GCAGCGGATTAACACTGCCT+TGG | - | chr2_3:35467761-35467780 | Msa0289260:CDS | 55.0% |
| ATATCCCCAGGTCCTGTCCA+AGG | + | chr2_3:35467781-35467800 | None:intergenic | 55.0% | |
| TTGGACAGGACCTGGGGATA+TGG | - | chr2_3:35467780-35467799 | Msa0289260:CDS | 55.0% | |
| AGGCCACTCTGATGCGCATT+TGG | - | chr2_3:35468039-35468058 | Msa0289260:CDS | 55.0% | |
| ACACTGCCTTGGACAGGACC+TGG | - | chr2_3:35467772-35467791 | Msa0289260:CDS | 60.0% | |
| CACTGCCTTGGACAGGACCT+GGG | - | chr2_3:35467773-35467792 | Msa0289260:CDS | 60.0% | |
| ACTGCCTTGGACAGGACCTG+GGG | - | chr2_3:35467774-35467793 | Msa0289260:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 35467759 | 35468347 | 35467759 | ID=Msa0289260;Name=Msa0289260 |
| chr2_3 | mRNA | 35467759 | 35468347 | 35467759 | ID=Msa0289260-mRNA-1;Parent=Msa0289260;Name=Msa0289260-mRNA-1;_AED=0.45;_eAED=0.50;_QI=0|0|0|1|1|1|2|0|169 |
| chr2_3 | exon | 35468020 | 35468347 | 35468020 | ID=Msa0289260-mRNA-1:exon:11473;Parent=Msa0289260-mRNA-1 |
| chr2_3 | exon | 35467759 | 35467940 | 35467759 | ID=Msa0289260-mRNA-1:exon:11472;Parent=Msa0289260-mRNA-1 |
| chr2_3 | CDS | 35468020 | 35468347 | 35468020 | ID=Msa0289260-mRNA-1:cds;Parent=Msa0289260-mRNA-1 |
| chr2_3 | CDS | 35467759 | 35467940 | 35467759 | ID=Msa0289260-mRNA-1:cds;Parent=Msa0289260-mRNA-1 |
| Gene Sequence |
| Protein sequence |
