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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1081880 | XP_003626041.2 | 83.333 | 126 | 16 | 2 | 5 | 125 | 308 | 433 | 6.39e-65 | 214 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1081880 | A4PU36 | 83.333 | 126 | 16 | 2 | 5 | 125 | 308 | 433 | 3.05e-65 | 214 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0711830 | Msa1081880 | 0.801378 | 9.261314e-49 | -8.615850e-47 |
| Msa0760130 | Msa1081880 | 0.807785 | 4.266855e-50 | -8.615850e-47 |
| Msa0766630 | Msa1081880 | 0.817420 | 3.328449e-52 | -8.615850e-47 |
| Msa0822650 | Msa1081880 | 0.802672 | 5.019267e-49 | -8.615850e-47 |
| Msa0830510 | Msa1081880 | 0.814203 | 1.735954e-51 | -8.615850e-47 |
| Msa1081880 | Msa1126880 | 0.827652 | 1.389882e-54 | -8.615850e-47 |
| Msa1081880 | Msa1126950 | 0.820336 | 7.239765e-53 | -8.615850e-47 |
| Msa1081880 | Msa1127010 | 0.820834 | 5.563693e-53 | -8.615850e-47 |
| Msa0581160 | Msa1081880 | 0.831247 | 1.859462e-55 | -8.615850e-47 |
| Msa0927290 | Msa1081880 | 0.803507 | 3.373021e-49 | -8.615850e-47 |
| Msa0954910 | Msa1081880 | 0.801262 | 9.784985e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1081880 | MtrunA17_Chr7g0270601 | 83.333 | 126 | 16 | 2 | 5 | 125 | 308 | 433 | 5.87e-69 | 214 |
| Msa1081880 | MtrunA17_Chr7g0271391 | 48.780 | 123 | 58 | 2 | 11 | 128 | 483 | 605 | 1.96e-33 | 123 |
| Msa1081880 | MtrunA17_Chr7g0269191 | 74.359 | 78 | 14 | 2 | 54 | 125 | 1 | 78 | 4.65e-30 | 104 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1081880 | AT3G62200.1 | 44.961 | 129 | 66 | 2 | 3 | 126 | 503 | 631 | 8.24e-32 | 119 |
Find 32 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATATCAAATGTCTCATATT+TGG | 0.127212 | 7_2:+81789854 | None:intergenic |
| TTCAGGAAGATCGGCAATTT+TGG | 0.227607 | 7_2:-81789667 | Msa1081880:CDS |
| AATATGAGACATTTGATATT+AGG | 0.240226 | 7_2:-81789851 | Msa1081880:CDS |
| AATATGAGACATTTGATATT+AGG | 0.240226 | 7_2:-81789933 | Msa1081880:CDS |
| CGTGGTTCCCAGACGCAATC+TGG | 0.270910 | 7_2:-81789719 | Msa1081880:CDS |
| GGGTGATGTACTTAAGATTT+TGG | 0.277803 | 7_2:-81789483 | Msa1081880:CDS |
| ATATCAAATGTCTCATATTT+GGG | 0.356802 | 7_2:+81789855 | None:intergenic |
| ATAATTGATTGCATTCGTTA+TGG | 0.373706 | 7_2:-81789882 | Msa1081880:CDS |
| AAGGTGGTTAAACGAGTCTT+TGG | 0.382873 | 7_2:-81789798 | Msa1081880:CDS |
| ATCCTAACCCAGATTGCGTC+TGG | 0.396295 | 7_2:+81789711 | None:intergenic |
| TTATAATCACAATCAAGAAA+TGG | 0.412831 | 7_2:-81789450 | Msa1081880:CDS |
| TTGTTGCAAATGAGAATCTA+TGG | 0.442211 | 7_2:-81789758 | Msa1081880:CDS |
| GCAATCAATTATATTTCCTT+CGG | 0.464377 | 7_2:+81789893 | None:intergenic |
| TTGCGTCTGGGAACCACGTA+AGG | 0.473407 | 7_2:+81789724 | None:intergenic |
| TGAGACATTTGATATTAGGA+AGG | 0.482985 | 7_2:-81789847 | Msa1081880:CDS |
| TGAGACATTTGATATTAGGA+AGG | 0.482985 | 7_2:-81789929 | Msa1081880:CDS |
| TCCCAGACGCAATCTGGGTT+AGG | 0.483088 | 7_2:-81789713 | Msa1081880:CDS |
| TGTCTTGAAGAGCTTGTGTT+GGG | 0.501883 | 7_2:-81789503 | Msa1081880:CDS |
| GTGTCTTGAAGAGCTTGTGT+TGG | 0.527052 | 7_2:-81789504 | Msa1081880:CDS |
| GTGGTTCCCAGACGCAATCT+GGG | 0.539558 | 7_2:-81789718 | Msa1081880:CDS |
| GAGACATTTGATATTAGGAA+GGG | 0.542549 | 7_2:-81789846 | Msa1081880:CDS |
| GAGACATTTGATATTAGGAA+GGG | 0.542549 | 7_2:-81789928 | Msa1081880:CDS |
| TCCTAACCCAGATTGCGTCT+GGG | 0.566146 | 7_2:+81789712 | None:intergenic |
| TCAATTATATTTCCTTCGGT+AGG | 0.570779 | 7_2:+81789897 | None:intergenic |
| TGCAATTGAGCAACAGAAGG+TGG | 0.573790 | 7_2:-81789814 | Msa1081880:CDS |
| TGCGTCTGGGAACCACGTAA+GGG | 0.598064 | 7_2:+81789725 | None:intergenic |
| AGGGTTTACATTCCTACCGA+AGG | 0.611499 | 7_2:-81789909 | Msa1081880:CDS |
| ATCTTCCTGAAAATGAAGCA+AGG | 0.618998 | 7_2:+81789679 | None:intergenic |
| TTGTGCAATTGAGCAACAGA+AGG | 0.644017 | 7_2:-81789817 | Msa1081880:CDS |
| GCGTCTGGGAACCACGTAAG+GGG | 0.647796 | 7_2:+81789726 | None:intergenic |
| GGAAGTGTGAACCCCTTACG+TGG | 0.663822 | 7_2:-81789737 | Msa1081880:CDS |
| GGCTGCCATCTAGAATGACA+AGG | 0.705174 | 7_2:+81789421 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AACATATAATAAAAGACAAA+AGG | + | chr7_2:81789798-81789817 | None:intergenic | 15.0% |
| !! | ATATCAAATGTCTCATATTT+GGG | + | chr7_2:81789508-81789527 | None:intergenic | 20.0% |
| !! | AATATCAAATGTCTCATATT+TGG | + | chr7_2:81789509-81789528 | None:intergenic | 20.0% |
| !! | AATATGAGACATTTGATATT+AGG | - | chr7_2:81789509-81789528 | Msa1081880:CDS | 20.0% |
| !! | TTATAATCACAATCAAGAAA+TGG | - | chr7_2:81789910-81789929 | Msa1081880:CDS | 20.0% |
| ! | GCAATCAATTATATTTCCTT+CGG | + | chr7_2:81789470-81789489 | None:intergenic | 25.0% |
| ! | ATAATTGATTGCATTCGTTA+TGG | - | chr7_2:81789478-81789497 | Msa1081880:CDS | 25.0% |
| !!! | TATTGTTTTTCTTAGTTCCT+TGG | - | chr7_2:81789738-81789757 | Msa1081880:CDS | 25.0% |
| TGAGACATTTGATATTAGGA+AGG | - | chr7_2:81789431-81789450 | Msa1081880:CDS | 30.0% | |
| GAGACATTTGATATTAGGAA+GGG | - | chr7_2:81789432-81789451 | Msa1081880:CDS | 30.0% | |
| TCAATTATATTTCCTTCGGT+AGG | + | chr7_2:81789466-81789485 | None:intergenic | 30.0% | |
| TGAGACATTTGATATTAGGA+AGG | - | chr7_2:81789431-81789450 | Msa1081880:CDS | 30.0% | |
| GAGACATTTGATATTAGGAA+GGG | - | chr7_2:81789432-81789451 | Msa1081880:CDS | 30.0% | |
| TTGTTGCAAATGAGAATCTA+TGG | - | chr7_2:81789602-81789621 | Msa1081880:intron | 30.0% | |
| TAACAAGTAATAAAGCTCCA+AGG | + | chr7_2:81789758-81789777 | None:intergenic | 30.0% | |
| ! | CAATTCCTTGCTTCATTTTC+AGG | - | chr7_2:81789676-81789695 | Msa1081880:CDS | 35.0% |
| ATCTTCCTGAAAATGAAGCA+AGG | + | chr7_2:81789684-81789703 | None:intergenic | 35.0% | |
| !! | TGCTTCATTTTCAGGAAGAT+CGG | - | chr7_2:81789684-81789703 | Msa1081880:CDS | 35.0% |
| ! | GGGTGATGTACTTAAGATTT+TGG | - | chr7_2:81789877-81789896 | Msa1081880:CDS | 35.0% |
| TTGTGCAATTGAGCAACAGA+AGG | - | chr7_2:81789543-81789562 | Msa1081880:intron | 40.0% | |
| AAGGTGGTTAAACGAGTCTT+TGG | - | chr7_2:81789562-81789581 | Msa1081880:intron | 40.0% | |
| ! | TTCAGGAAGATCGGCAATTT+TGG | - | chr7_2:81789693-81789712 | Msa1081880:CDS | 40.0% |
| !! | CAATTTTGGCGTCTTGTAAC+AGG | - | chr7_2:81789707-81789726 | Msa1081880:CDS | 40.0% |
| TGTCTTGAAGAGCTTGTGTT+GGG | - | chr7_2:81789857-81789876 | Msa1081880:CDS | 40.0% | |
| AGGGTTTACATTCCTACCGA+AGG | - | chr7_2:81789451-81789470 | Msa1081880:CDS | 45.0% | |
| TGCAATTGAGCAACAGAAGG+TGG | - | chr7_2:81789546-81789565 | Msa1081880:intron | 45.0% | |
| GTGTCTTGAAGAGCTTGTGT+TGG | - | chr7_2:81789856-81789875 | Msa1081880:CDS | 45.0% | |
| TCCTAACCCAGATTGCGTCT+GGG | + | chr7_2:81789651-81789670 | None:intergenic | 50.0% | |
| ATCCTAACCCAGATTGCGTC+TGG | + | chr7_2:81789652-81789671 | None:intergenic | 50.0% | |
| ! | GGAAGTGTGAACCCCTTACG+TGG | - | chr7_2:81789623-81789642 | Msa1081880:intron | 55.0% |
| TGCGTCTGGGAACCACGTAA+GGG | + | chr7_2:81789638-81789657 | None:intergenic | 55.0% | |
| TTGCGTCTGGGAACCACGTA+AGG | + | chr7_2:81789639-81789658 | None:intergenic | 55.0% | |
| GTGGTTCCCAGACGCAATCT+GGG | - | chr7_2:81789642-81789661 | Msa1081880:intron | 55.0% | |
| TCCCAGACGCAATCTGGGTT+AGG | - | chr7_2:81789647-81789666 | Msa1081880:intron | 55.0% | |
| GCGTCTGGGAACCACGTAAG+GGG | + | chr7_2:81789637-81789656 | None:intergenic | 60.0% | |
| CGTGGTTCCCAGACGCAATC+TGG | - | chr7_2:81789641-81789660 | Msa1081880:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 81789430 | 81789952 | 81789430 | ID=Msa1081880;Name=Msa1081880 |
| chr7_2 | mRNA | 81789430 | 81789952 | 81789430 | ID=Msa1081880-mRNA-1;Parent=Msa1081880;Name=Msa1081880-mRNA-1;_AED=0.22;_eAED=0.30;_QI=0|0|0|1|1|1|2|0|141 |
| chr7_2 | exon | 81789654 | 81789952 | 81789654 | ID=Msa1081880-mRNA-1:exon:21080;Parent=Msa1081880-mRNA-1 |
| chr7_2 | exon | 81789430 | 81789556 | 81789430 | ID=Msa1081880-mRNA-1:exon:21079;Parent=Msa1081880-mRNA-1 |
| chr7_2 | CDS | 81789654 | 81789952 | 81789654 | ID=Msa1081880-mRNA-1:cds;Parent=Msa1081880-mRNA-1 |
| chr7_2 | CDS | 81789430 | 81789556 | 81789430 | ID=Msa1081880-mRNA-1:cds;Parent=Msa1081880-mRNA-1 |
| Gene Sequence |
| Protein sequence |
