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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0531630 | XP_013442539.1 | 93.168 | 161 | 11 | 0 | 1 | 161 | 45 | 205 | 1.50e-107 | 315 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0531630 | A0A072TG65 | 93.168 | 161 | 11 | 0 | 1 | 161 | 45 | 205 | 7.18e-108 | 315 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0048200 | Msa0531630 | 0.842465 | 2.542915e-58 | -8.615850e-47 |
| Msa0219190 | Msa0531630 | 0.809880 | 1.520143e-50 | -8.615850e-47 |
| Msa0531630 | Msa0588340 | 0.825327 | 4.980012e-54 | -8.615850e-47 |
| Msa0531630 | Msa0666210 | 0.829990 | 3.778185e-55 | -8.615850e-47 |
| Msa0531630 | Msa0680150 | 0.821149 | 4.706735e-53 | -8.615850e-47 |
| Msa0531630 | Msa0905550 | 0.828848 | 7.155114e-55 | -8.615850e-47 |
| Msa0531630 | Msa0937550 | 0.821247 | 4.469833e-53 | -8.615850e-47 |
| Msa0531630 | Msa0974750 | 0.816713 | 4.799768e-52 | -8.615850e-47 |
| Msa0531630 | Msa1041530 | 0.825426 | 4.718119e-54 | -8.615850e-47 |
| Msa0531630 | Msa1081570 | 0.818543 | 1.855914e-52 | -8.615850e-47 |
| Msa0531630 | Msa1127140 | 0.820660 | 6.100706e-53 | -8.615850e-47 |
| Msa0531630 | Msa1166400 | 0.808654 | 2.784712e-50 | -8.615850e-47 |
| Msa0531630 | Msa1420060 | 0.818991 | 1.468435e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0531630 | MtrunA17_Chr4g0004611 | 93.168 | 161 | 11 | 0 | 1 | 161 | 45 | 205 | 1.38e-111 | 315 |
| Msa0531630 | MtrunA17_Chr2g0331751 | 48.193 | 166 | 68 | 5 | 2 | 158 | 47 | 203 | 4.68e-40 | 134 |
| Msa0531630 | MtrunA17_Chr8g0390541 | 38.202 | 89 | 47 | 2 | 65 | 145 | 103 | 191 | 2.55e-15 | 70.1 |
| Msa0531630 | MtrunA17_Chr6g0485651 | 31.193 | 109 | 59 | 3 | 44 | 136 | 60 | 168 | 2.45e-13 | 64.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0531630 | AT1G15260.1 | 39.423 | 104 | 60 | 1 | 58 | 158 | 75 | 178 | 5.45e-18 | 77.0 |
| Msa0531630 | AT3G16070.1 | 46.377 | 69 | 36 | 1 | 67 | 135 | 83 | 150 | 2.24e-15 | 69.3 |
Find 25 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAATTCACAAAACATGAATA+AGG | 0.296971 | 4_1:-5759553 | Msa0531630:CDS |
| CTTGCAGTATCTTCCATTGC+AGG | 0.306986 | 4_1:+5759669 | None:intergenic |
| CCTTCATAAGTGCTTCTTTG+TGG | 0.310981 | 4_1:+5759612 | None:intergenic |
| GCTTCTTTGTGGACTTTGTT+TGG | 0.335982 | 4_1:+5759623 | None:intergenic |
| CATAGAACTCATTGTAGAAT+TGG | 0.346345 | 4_1:+5759745 | None:intergenic |
| AGCACAGAAGATGAAGAAAT+TGG | 0.353260 | 4_1:-5759517 | Msa0531630:CDS |
| GATGAAGAAATTGGATATGA+TGG | 0.381301 | 4_1:-5759508 | Msa0531630:CDS |
| ACGATCACAACTGAGGAAAA+AGG | 0.381662 | 4_1:-5759583 | Msa0531630:CDS |
| CAGAGGGCTGTGGAAGAGTC+AGG | 0.415158 | 4_1:+5759367 | None:intergenic |
| CTCAGCACAATGAAGATGTT+TGG | 0.428580 | 4_1:-5759705 | Msa0531630:CDS |
| TCCGGTTTATTTAGATATTG+TGG | 0.429248 | 4_1:-5759418 | Msa0531630:CDS |
| AACTGGACCAAGTCTTTCCT+TGG | 0.434890 | 4_1:+5759329 | None:intergenic |
| CTATTCTCGCCTTAAAAGTC+CGG | 0.438812 | 4_1:-5759436 | Msa0531630:CDS |
| TCCACAATATCTAAATAAAC+CGG | 0.450069 | 4_1:+5759417 | None:intergenic |
| AAATTGGATATGATGGAATC+AGG | 0.453910 | 4_1:-5759501 | Msa0531630:CDS |
| TTGAAGCTGGCAGAGGGCTG+TGG | 0.468785 | 4_1:+5759357 | None:intergenic |
| AATTCACAAAACATGAATAA+GGG | 0.481457 | 4_1:-5759552 | Msa0531630:CDS |
| TTTATTTAGATATTGTGGAC+AGG | 0.515044 | 4_1:-5759413 | Msa0531630:CDS |
| ACAATGAAGATGTTTGGTAA+AGG | 0.547940 | 4_1:-5759699 | Msa0531630:CDS |
| CCACAAAGAAGCACTTATGA+AGG | 0.551698 | 4_1:-5759612 | Msa0531630:CDS |
| AAAAGATCCAAGGAAAGACT+TGG | 0.563595 | 4_1:-5759336 | Msa0531630:CDS |
| ATGGAAGATACTGCAAGAAG+TGG | 0.578425 | 4_1:-5759663 | Msa0531630:CDS |
| TGCCAGCTTCAAAAGATCCA+AGG | 0.579056 | 4_1:-5759346 | Msa0531630:CDS |
| TAAAGGAAAAGAGCCTGCAA+TGG | 0.618557 | 4_1:-5759682 | Msa0531630:CDS |
| GTAGCGTACGATCACAACTG+AGG | 0.731543 | 4_1:-5759590 | Msa0531630:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATTCACAAAACATGAATAA+GGG | - | chr4_1:5759533-5759552 | Msa0531630:CDS | 20.0% |
| ! | GAATTCACAAAACATGAATA+AGG | - | chr4_1:5759532-5759551 | Msa0531630:CDS | 25.0% |
| ! | TCCACAATATCTAAATAAAC+CGG | + | chr4_1:5759671-5759690 | None:intergenic | 25.0% |
| ! | TTTATTTAGATATTGTGGAC+AGG | - | chr4_1:5759672-5759691 | Msa0531630:CDS | 25.0% |
| !! | TATCTTTTATGTAACTGAAC+TGG | + | chr4_1:5759776-5759795 | None:intergenic | 25.0% |
| CATAGAACTCATTGTAGAAT+TGG | + | chr4_1:5759343-5759362 | None:intergenic | 30.0% | |
| ACAATGAAGATGTTTGGTAA+AGG | - | chr4_1:5759386-5759405 | Msa0531630:CDS | 30.0% | |
| GATGAAGAAATTGGATATGA+TGG | - | chr4_1:5759577-5759596 | Msa0531630:CDS | 30.0% | |
| ! | AAATTGGATATGATGGAATC+AGG | - | chr4_1:5759584-5759603 | Msa0531630:CDS | 30.0% |
| ! | CTAAATAAACCGGACTTTTA+AGG | + | chr4_1:5759661-5759680 | None:intergenic | 30.0% |
| TCCGGTTTATTTAGATATTG+TGG | - | chr4_1:5759667-5759686 | Msa0531630:CDS | 30.0% | |
| AGCACAGAAGATGAAGAAAT+TGG | - | chr4_1:5759568-5759587 | Msa0531630:CDS | 35.0% | |
| AAAAGATCCAAGGAAAGACT+TGG | - | chr4_1:5759749-5759768 | Msa0531630:CDS | 35.0% | |
| CTCAGCACAATGAAGATGTT+TGG | - | chr4_1:5759380-5759399 | Msa0531630:CDS | 40.0% | |
| TAAAGGAAAAGAGCCTGCAA+TGG | - | chr4_1:5759403-5759422 | Msa0531630:CDS | 40.0% | |
| ATGGAAGATACTGCAAGAAG+TGG | - | chr4_1:5759422-5759441 | Msa0531630:CDS | 40.0% | |
| GCTTCTTTGTGGACTTTGTT+TGG | + | chr4_1:5759465-5759484 | None:intergenic | 40.0% | |
| CCTTCATAAGTGCTTCTTTG+TGG | + | chr4_1:5759476-5759495 | None:intergenic | 40.0% | |
| !! | CCACAAAGAAGCACTTATGA+AGG | - | chr4_1:5759473-5759492 | Msa0531630:CDS | 40.0% |
| ACGATCACAACTGAGGAAAA+AGG | - | chr4_1:5759502-5759521 | Msa0531630:CDS | 40.0% | |
| ATCACAACTGAGGAAAAAGG+AGG | - | chr4_1:5759505-5759524 | Msa0531630:CDS | 40.0% | |
| CTATTCTCGCCTTAAAAGTC+CGG | - | chr4_1:5759649-5759668 | Msa0531630:CDS | 40.0% | |
| !!! | TTCCTTGGATCTTTTGAAGC+TGG | + | chr4_1:5759744-5759763 | None:intergenic | 40.0% |
| CTTGCAGTATCTTCCATTGC+AGG | + | chr4_1:5759419-5759438 | None:intergenic | 45.0% | |
| !!! | GATCTTTTGAAGCTGGCAGA+GGG | + | chr4_1:5759737-5759756 | None:intergenic | 45.0% |
| TGCCAGCTTCAAAAGATCCA+AGG | - | chr4_1:5759739-5759758 | Msa0531630:CDS | 45.0% | |
| AACTGGACCAAGTCTTTCCT+TGG | + | chr4_1:5759759-5759778 | None:intergenic | 45.0% | |
| GTAGCGTACGATCACAACTG+AGG | - | chr4_1:5759495-5759514 | Msa0531630:CDS | 50.0% | |
| !!! | GGATCTTTTGAAGCTGGCAG+AGG | + | chr4_1:5759738-5759757 | None:intergenic | 50.0% |
| CAGAGGGCTGTGGAAGAGTC+AGG | + | chr4_1:5759721-5759740 | None:intergenic | 60.0% | |
| TTGAAGCTGGCAGAGGGCTG+TGG | + | chr4_1:5759731-5759750 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 5759311 | 5759796 | 5759311 | ID=Msa0531630;Name=Msa0531630 |
| chr4_1 | mRNA | 5759311 | 5759796 | 5759311 | ID=Msa0531630-mRNA-1;Parent=Msa0531630;Name=Msa0531630-mRNA-1;_AED=0.30;_eAED=0.30;_QI=0|-1|0|1|-1|1|1|0|161 |
| chr4_1 | exon | 5759311 | 5759796 | 5759311 | ID=Msa0531630-mRNA-1:exon:1909;Parent=Msa0531630-mRNA-1 |
| chr4_1 | CDS | 5759311 | 5759796 | 5759311 | ID=Msa0531630-mRNA-1:cds;Parent=Msa0531630-mRNA-1 |
| Gene Sequence |
| Protein sequence |
