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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0280011027.01.T01 | XP_015935625.1 | 52.055 | 146 | 47 | 4 | 1 | 123 | 1 | 146 | 1.47E-35 | 129 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0280011027.01.T01 | A0A834X4Z8 | 51.007 | 149 | 44 | 4 | 1 | 123 | 1 | 146 | 4.63e-37 | 132 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0080048065.01 | MsG0280011027.01 | 0.814637 | 1.392161e-51 | 9.391789e-49 |
| MsG0080048307.01 | MsG0280011027.01 | 0.870531 | 1.359689e-66 | 5.307102e-63 |
| MsG0080048773.01 | MsG0280011027.01 | 0.822434 | 2.373936e-53 | 1.986855e-50 |
| MsG0080048878.01 | MsG0280011027.01 | 0.819783 | 9.688901e-53 | 7.528344e-50 |
| MsG0080049002.01 | MsG0280011027.01 | 0.826743 | 2.294623e-54 | 2.170643e-51 |
| MsG0080049068.01 | MsG0280011027.01 | 0.844570 | 6.967891e-59 | 1.129672e-55 |
| MsG0180000114.01 | MsG0280011027.01 | 0.813912 | 2.012440e-51 | 1.331177e-48 |
| MsG0180000218.01 | MsG0280011027.01 | -0.878859 | 1.996212e-69 | 1.058589e-65 |
| MsG0180000292.01 | MsG0280011027.01 | 0.800748 | 1.246248e-48 | 5.848503e-46 |
| MsG0180000354.01 | MsG0280011027.01 | 0.820458 | 6.786525e-53 | 5.373044e-50 |
PPI
| Gene1 | Gene2 | Type |
|---|---|---|
| MsG0280011027.01 | MsG0480020151.01 | PPI |
| MsG0280011027.01 | MsG0480020151.01 | PPI |
| MsG0280011027.01 | MsG0280010661.01 | PPI |
| MsG0280011027.01 | MsG0480020151.01 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0280011027.01.T01 | MTR_2g096920 | 60.959 | 146 | 34 | 4 | 1 | 123 | 1 | 146 | 3.50e-39 | 129 |
| MsG0280011027.01.T01 | MTR_2g096920 | 100.000 | 38 | 0 | 0 | 1 | 38 | 1 | 38 | 2.55e-21 | 82.4 |
| MsG0280011027.01.T01 | MTR_2g096900 | 51.020 | 147 | 47 | 4 | 1 | 123 | 1 | 146 | 8.40e-18 | 74.3 |
Find 42 sgRNAs with CRISPR-Local
Find 135 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGACAAAGGGAACAGAG+TGG | 0.756072 | 2:+78577583 | None:intergenic |
| AAAGCAATCCTGTCATGCAT+AGG | 0.599403 | 2:+78579520 | None:intergenic |
| AACCATCAACAGCTAGATTA+AGG | 0.310083 | 2:+78579296 | None:intergenic |
| AAGATTATCTCTCATTAACA+AGG | 0.665959 | 2:+78578084 | None:intergenic |
| AATGTAGTATCTAGCTAGCA+AGG | 0.542893 | 2:+78579455 | None:intergenic |
| AGTTAACAGTATGAGTGTTA+GGG | 0.463335 | 2:+78579432 | None:intergenic |
| ATGATCGGAGGTGCGGTGAC+AGG | 0.380411 | 2:-78577539 | MsG0280011027.01.T01:CDS |
| ATGCCTTGGAGCAGAATTTC+CGG | 0.262488 | 2:-78579370 | MsG0280011027.01.T01:CDS |
| ATGTAGTATCTAGCTAGCAA+GGG | 0.602513 | 2:+78579456 | None:intergenic |
| ATTGCAGTAGATGCCATTAC+AGG | 0.382089 | 2:-78577476 | MsG0280011027.01.T01:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ACACATAACCTTTCAATTCA+AGG | - | Chr2:78578733-78578752 | MsG0280011027.01.T01:intron | 30.0% | |
| ACTCTTTCTGACAATATGAA+AGG | + | Chr2:78577812-78577831 | None:intergenic | 30.0% | |
| AGTTAACAGTATGAGTGTTA+GGG | + | Chr2:78577523-78577542 | None:intergenic | 30.0% | |
| ATGTTTGGAAATGAATTTGC+TGG | - | Chr2:78579250-78579269 | MsG0280011027.01.T01:intron | 30.0% | |
| ATTTAGTCCCTTGAATTGAA+AGG | + | Chr2:78578744-78578763 | None:intergenic | 30.0% | |
| CACATAACCTTTCAATTCAA+GGG | - | Chr2:78578734-78578753 | MsG0280011027.01.T01:intron | 30.0% | |
| GTATATGTTGGAACAGAATA+CGG | - | Chr2:78579036-78579055 | MsG0280011027.01.T01:intron | 30.0% | |
| TAGTTAACAGTATGAGTGTT+AGG | + | Chr2:78577524-78577543 | None:intergenic | 30.0% | |
| TATATGTTGGAACAGAATAC+GGG | - | Chr2:78579037-78579056 | MsG0280011027.01.T01:intron | 30.0% | |
| TATTTATCAAAGTCTGAACG+CGG | + | Chr2:78578413-78578432 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr2 | gene | 78577430 | 78579544 | 78577430 | ID=MsG0280011027.01;Name=MsG0280011027.01 |
| Chr2 | mRNA | 78577430 | 78579544 | 78577430 | ID=MsG0280011027.01.T01;Parent=MsG0280011027.01;Name=MsG0280011027.01.T01;_AED=0.50;_eAED=0.58;_QI=152|0|0.33|1|1|1|3|0|123 |
| Chr2 | exon | 78577430 | 78577607 | 78577430 | ID=MsG0280011027.01.T01:exon:17282;Parent=MsG0280011027.01.T01 |
| Chr2 | exon | 78578043 | 78578122 | 78578043 | ID=MsG0280011027.01.T01:exon:17281;Parent=MsG0280011027.01.T01 |
| Chr2 | exon | 78579279 | 78579544 | 78579279 | ID=MsG0280011027.01.T01:exon:17280;Parent=MsG0280011027.01.T01 |
| Chr2 | five_prime_UTR | 78579393 | 78579544 | 78579393 | ID=MsG0280011027.01.T01:five_prime_utr;Parent=MsG0280011027.01.T01 |
| Chr2 | CDS | 78579279 | 78579392 | 78579279 | ID=MsG0280011027.01.T01:cds;Parent=MsG0280011027.01.T01 |
| Chr2 | CDS | 78578043 | 78578122 | 78578043 | ID=MsG0280011027.01.T01:cds;Parent=MsG0280011027.01.T01 |
| Chr2 | CDS | 78577430 | 78577607 | 78577430 | ID=MsG0280011027.01.T01:cds;Parent=MsG0280011027.01.T01 |
| Gene Sequence |
>MsG0280011027.01.T01 ATGCCTTGGAGCAGAATTTCCGGGTCAGTGTCTTCTCCACAGGTGGATGTGGTCATAGACATGGGAAATCCTTTCCTTAATCTAGCTGTTGATGGTTTCTTGAAGATTGGAACTCACAATATGTTTTGTTCCTTGTTAATGAGAGATAATCTTGTTGCAGCTGAAGAAGATGTGCAAGGAAGGTGCATACTGGGGACCACTCTGTTCCCTTTGTCTTTTGATGTACTGCAGAAGAATGCCATGATCGGAGGTGCGGTGACAGGGGCTCTAGTATCTGCAGCCAGCAACAACAAAAAAGACAAGATTGCAGTAGATGCCATTACAGGGGCTGCAATTGCCACTGCTGCAGAATTCATAAACCACTTTACCTGA |
| Protein sequence |
>MsG0280011027.01.T01 MPWSRISGSVSSPQVDVVIDMGNPFLNLAVDGFLKIGTHNMFCSLLMRDNLVAAEEDVQGRCILGTTLFPLSFDVLQKNAMIGGAVTGALVSAASNNKKDKIAVDAITGAAIATAAEFINHFT* |
