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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580024773.01.T01 | XP_003611645.1 | 82.824 | 262 | 7 | 1 | 1 | 262 | 1 | 224 | 6.79E-122 | 357 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0080047815.01 | MsG0580024773.01 | 0.809628 | 1.722293e-50 | 1.016427e-47 |
| MsG0080048258.01 | MsG0580024773.01 | 0.813726 | 2.212638e-51 | 1.456296e-48 |
| MsG0180000535.01 | MsG0580024773.01 | 0.828998 | 6.580022e-55 | 6.647319e-52 |
| MsG0180001288.01 | MsG0580024773.01 | 0.802112 | 6.548793e-49 | 3.181278e-46 |
| MsG0180001293.01 | MsG0580024773.01 | 0.827192 | 1.792055e-54 | 1.717755e-51 |
| MsG0180001588.01 | MsG0580024773.01 | 0.834505 | 2.883039e-56 | 3.428510e-53 |
| MsG0180001719.01 | MsG0580024773.01 | 0.807511 | 4.878664e-50 | 2.722542e-47 |
| MsG0180002984.01 | MsG0580024773.01 | 0.801369 | 9.302663e-49 | 4.435002e-46 |
| MsG0180003857.01 | MsG0580024773.01 | 0.826716 | 2.329257e-54 | 2.201703e-51 |
| MsG0180003905.01 | MsG0580024773.01 | 0.829929 | 3.909998e-55 | 4.059438e-52 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580024773.01.T01 | MTR_5g016250 | 82.824 | 262 | 7 | 1 | 1 | 262 | 1 | 224 | 8.23e-126 | 357 |
| MsG0580024773.01.T01 | MTR_4g095280 | 50.746 | 268 | 65 | 9 | 1 | 262 | 1 | 207 | 1.06e-24 | 98.2 |
Find 82 sgRNAs with CRISPR-Local
Find 109 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACAATCAGATGCTTGCAGA+AGG | 0.582391 | 5:+9520267 | MsG0580024773.01.T01:CDS |
| ACCAGCACCTTCACCGGCAT+TGG | 0.543518 | 5:+9519458 | MsG0580024773.01.T01:CDS |
| ACCTCGTCGGCAGCAGATGC+TGG | 0.438564 | 5:-9519543 | None:intergenic |
| ACGACTGGAGGAGATGCAGC+TGG | 0.548388 | 5:-9519234 | None:intergenic |
| ACGGATGGAGTGGTGACGGT+AGG | 0.637861 | 5:-9519069 | None:intergenic |
| ACGGTAGGTGGTGATGTAGT+CGG | 0.583529 | 5:-9519054 | None:intergenic |
| ACGGTGGGAGATGAAGCTGG+TGG | 0.830927 | 5:-9519156 | None:intergenic |
| ACTGCAGGTGTGGAAACTGT+CGG | 0.683265 | 5:-9519357 | None:intergenic |
| ACTGTCGGTGGTGAACTCAC+CGG | 0.632362 | 5:-9519342 | None:intergenic |
| AGAAGCATCGAGACTAGGTC+CGG | 0.440004 | 5:-9519511 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATATTGTTCTTGTAGGCATT+TGG | - | Chr5:9520081-9520100 | None:intergenic | 30.0% | |
| CGAGAACAATTAGTCAAATT+AGG | + | Chr5:9519929-9519948 | MsG0580024773.01.T01:intron | 30.0% | |
| TCAAAGAAGAAGACAAAGAA+AGG | + | Chr5:9519420-9519439 | MsG0580024773.01.T01:CDS | 30.0% | |
| TTAACTGCAATAACCCAATT+TGG | + | Chr5:9520045-9520064 | MsG0580024773.01.T01:intron | 30.0% | |
| TTGCAGTTAAATTTGCATTC+AGG | - | Chr5:9520035-9520054 | None:intergenic | 30.0% | |
| TTTGTGCATGTTTGATATCA+CGG | + | Chr5:9519600-9519619 | MsG0580024773.01.T01:intron | 30.0% | |
| TGGACTTCCAAAACCAAATT+GGG | - | Chr5:9520061-9520080 | None:intergenic | 35.0% | |
| TTGGACTTCCAAAACCAAAT+TGG | - | Chr5:9520062-9520081 | None:intergenic | 35.0% | |
| AACAATCAGATGCTTGCAGA+AGG | + | Chr5:9520267-9520286 | MsG0580024773.01.T01:CDS | 40.0% | |
| GTGATAGGATCATTGGCATT+GGG | + | Chr5:9520289-9520308 | MsG0580024773.01.T01:CDS | 40.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr5 | gene | 9518973 | 9520339 | 9518973 | ID=MsG0580024773.01;Name=MsG0580024773.01 |
| Chr5 | mRNA | 9518973 | 9520339 | 9518973 | ID=MsG0580024773.01.T01;Parent=MsG0580024773.01;Name=MsG0580024773.01.T01;_AED=0.27;_eAED=0.34;_QI=0|0|0|1|0|0|2|0|262 |
| Chr5 | exon | 9518973 | 9519608 | 9518973 | ID=MsG0580024773.01.T01:exon:26473;Parent=MsG0580024773.01.T01 |
| Chr5 | exon | 9520187 | 9520339 | 9520187 | ID=MsG0580024773.01.T01:exon:26474;Parent=MsG0580024773.01.T01 |
| Chr5 | CDS | 9518973 | 9519608 | 9518973 | ID=MsG0580024773.01.T01:cds;Parent=MsG0580024773.01.T01 |
| Chr5 | CDS | 9520187 | 9520339 | 9520187 | ID=MsG0580024773.01.T01:cds;Parent=MsG0580024773.01.T01 |
| Gene Sequence |
>MsG0580024773.01.T01 ATGGATCGTAAAAACGTTCTCTCACTCGCATTGATCTGCATTGTCTTCGCCGGCGTCGGAGGTCAATCTCCGTCGTCAGCTCCGACTACATCACCACCTACCGTCACCACTCCATCCGTTGCTCCCGTCGCAGCACCTACCAAACCAAAATCACCCGCTCCAGTCGCTTCTCCAAAATCATCACCACCAGCTTCATCTCCCACCGTTGCAACTGTAACCCCAGCAGTGTCTCCTGCTGCTCCAGTTCCGGTAGCTAAATCTCCAGCTGCATCTCCTCCAGTCGTTGCTCCAGTGAGTTCACCACCAAAACCAGCTCCAGTGAGTTCACCACCAGCATCAGTTCCAGTGAGTTCTCCACCAACACCAGTTCCGGTGAGTTCACCACCGACAGTTTCCACACCTGCAGTAACACCAAGCGCTGAGGTTCCCGCTGCAGCTCCAAGCAAATCAAAGAAGAAGACAAAGAAAGGTAAGAAACACAGTGCACCAGCACCTTCACCGGCATTGGAAGGACCTCCAGCACCACCGGTTGGTGCTCCCGGACCTAGTCTCGATGCTTCTTCTCCCGGTCCAGCATCTGCTGCCGACGAGGTACATTCATGTCTCCTCTTTGCGTTTTTATTTTATTTTGTGCATATTGCCAATAGCAATATGAGAAACAAAATAATTGAGTCAATACTGAGATCTGAATTTTCTGTATTACAGAGTGGAGCAGAAACAATCAGATGCTTGCAGAAGGTGATAGGATCATTGGCATTGGGCTTGGCTAGCCTTGTTTTTATGTTCTAG |
| Protein sequence |
>MsG0580024773.01.T01 MDRKNVLSLALICIVFAGVGGQSPSSAPTTSPPTVTTPSVAPVAAPTKPKSPAPVASPKSSPPASSPTVATVTPAVSPAAPVPVAKSPAASPPVVAPVSSPPKPAPVSSPPASVPVSSPPTPVPVSSPPTVSTPAVTPSAEVPAAAPSKSKKKTKKGKKHSAPAPSPALEGPPAPPVGAPGPSLDASSPGPASAADEVHSCLLFAFLFYFVHIANSNMRNKIIESILRSEFSVLQSGAETIRCLQKVIGSLALGLASLVFMF* |
