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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0435630 | RHN71189.1 | 85.333 | 75 | 3 | 1 | 4 | 78 | 218 | 284 | 1.05e-34 | 129 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0435630 | sp|Q8RWL6|STY17_ARATH | 62.500 | 72 | 19 | 1 | 4 | 75 | 485 | 548 | 5.36e-23 | 94.0 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0435630 | A0A396IZK9 | 85.333 | 75 | 3 | 1 | 4 | 78 | 218 | 284 | 5.03e-35 | 129 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0435630 | MtrunA17_Chr3g0143531 | 85.333 | 75 | 3 | 1 | 4 | 78 | 218 | 284 | 9.69e-39 | 129 |
| Msa0435630 | MtrunA17_Chr5g0406251 | 62.500 | 72 | 19 | 1 | 4 | 75 | 488 | 551 | 1.19e-23 | 92.4 |
| Msa0435630 | MtrunA17_Chr1g0211611 | 59.722 | 72 | 21 | 1 | 4 | 75 | 494 | 557 | 4.62e-22 | 88.2 |
| Msa0435630 | MtrunA17_Chr1g0157221 | 66.667 | 48 | 16 | 0 | 28 | 75 | 1 | 48 | 4.36e-19 | 73.6 |
| Msa0435630 | MtrunA17_Chr1g0202101 | 49.180 | 61 | 22 | 1 | 4 | 64 | 476 | 527 | 1.74e-16 | 72.0 |
| Msa0435630 | MtrunA17_Chr5g0431191 | 42.424 | 66 | 30 | 1 | 5 | 70 | 528 | 585 | 3.29e-11 | 57.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0435630 | AT4G35780.1 | 62.500 | 72 | 19 | 1 | 4 | 75 | 485 | 548 | 5.44e-24 | 94.0 |
| Msa0435630 | AT4G38470.2 | 55.405 | 74 | 25 | 1 | 4 | 77 | 483 | 548 | 2.57e-20 | 83.6 |
| Msa0435630 | AT4G38470.1 | 56.522 | 69 | 22 | 1 | 4 | 72 | 483 | 543 | 3.35e-19 | 80.5 |
| Msa0435630 | AT2G17700.1 | 56.944 | 72 | 23 | 1 | 4 | 75 | 479 | 542 | 8.67e-19 | 79.0 |
Find 25 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGGATAAACTGCAGGGTTTA+AGG | 0.196994 | 3_2:-88921379 | Msa0435630:CDS |
| TAATAATTTAGATGAGATTT+GGG | 0.271093 | 3_2:-88921400 | Msa0435630:intron |
| TTAATAATTTAGATGAGATT+TGG | 0.280828 | 3_2:-88921401 | Msa0435630:intron |
| CTCCAACTGCTGCTTGCAAT+GGG | 0.342980 | 3_2:+88921570 | None:intergenic |
| TGAAGCAATTCCACCAACTT+TGG | 0.393759 | 3_2:+88921332 | None:intergenic |
| CATTTCCAAGATGGTATGTC+AGG | 0.423494 | 3_2:-88921243 | Msa0435630:CDS |
| TGGAATTGCTTCAGTGGTGC+TGG | 0.481656 | 3_2:-88921322 | Msa0435630:CDS |
| ACTCCAACTGCTGCTTGCAA+TGG | 0.486807 | 3_2:+88921569 | None:intergenic |
| TTTGCTGCACATTTCCAAGA+TGG | 0.493607 | 3_2:-88921252 | Msa0435630:CDS |
| AACTTTGGATGAGAATGCCT+TGG | 0.497289 | 3_2:+88921347 | None:intergenic |
| GAGATTTGGGGATAAACTGC+AGG | 0.499495 | 3_2:-88921387 | Msa0435630:CDS |
| TCCCCATTGCAAGCAGCAGT+TGG | 0.515055 | 3_2:-88921572 | Msa0435630:CDS |
| AAGGCATTCTCATCCAAAGT+TGG | 0.527975 | 3_2:-88921345 | Msa0435630:CDS |
| ACGGCCCTGACATACCATCT+TGG | 0.569063 | 3_2:+88921238 | None:intergenic |
| AATGGGGACAAATGCTCGTA+AGG | 0.570905 | 3_2:+88921587 | None:intergenic |
| AGCAGTTGGAGTGGTCCAGA+AGG | 0.577052 | 3_2:-88921558 | Msa0435630:intron |
| TAAACTCAACTCAATGCCAC+TGG | 0.587402 | 3_2:-88921892 | None:intergenic |
| AGTTGGTGGAATTGCTTCAG+TGG | 0.599443 | 3_2:-88921328 | Msa0435630:CDS |
| GCATTCTCATCCAAAGTTGG+TGG | 0.603530 | 3_2:-88921342 | Msa0435630:CDS |
| AATAATTTAGATGAGATTTG+GGG | 0.608444 | 3_2:-88921399 | Msa0435630:intron |
| AGATTTGGGGATAAACTGCA+GGG | 0.621668 | 3_2:-88921386 | Msa0435630:CDS |
| ATTGCAAGCAGCAGTTGGAG+TGG | 0.624383 | 3_2:-88921567 | Msa0435630:CDS |
| ATTCATCATCTCATCAGGAA+CGG | 0.637361 | 3_2:+88921219 | None:intergenic |
| ATTTCCAAGATGGTATGTCA+GGG | 0.656747 | 3_2:-88921242 | Msa0435630:CDS |
| TCCAACTGCTGCTTGCAATG+GGG | 0.669499 | 3_2:+88921571 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATAATAATATTTTTGTTGTT+TGG | + | chr3_2:88921691-88921710 | None:intergenic | 10.0% |
| !! | TTAATAATTTAGATGAGATT+TGG | - | chr3_2:88921710-88921729 | Msa0435630:intron | 15.0% |
| !! | TAATAATTTAGATGAGATTT+GGG | - | chr3_2:88921711-88921730 | Msa0435630:intron | 15.0% |
| !! | AATGAGTAAAATATAAACCT+TGG | - | chr3_2:88921291-88921310 | Msa0435630:CDS | 20.0% |
| !!! | TTGTTTCATTGATTTAAAAC+TGG | - | chr3_2:88921344-88921363 | Msa0435630:CDS | 20.0% |
| !!! | TTTTTGTTCAGTTACAATTA+TGG | - | chr3_2:88921450-88921469 | Msa0435630:intron | 20.0% |
| !! | GAATGAAGTAAAGTATATAT+TGG | - | chr3_2:88921619-88921638 | Msa0435630:intron | 20.0% |
| !! | AATAATTTAGATGAGATTTG+GGG | - | chr3_2:88921712-88921731 | Msa0435630:intron | 20.0% |
| !!! | TCCAAAATTTCTGAAAAATT+GGG | + | chr3_2:88921836-88921855 | None:intergenic | 20.0% |
| !!! | TTCCAAAATTTCTGAAAAAT+TGG | + | chr3_2:88921837-88921856 | None:intergenic | 20.0% |
| ! | ATAGTAAATTCGAAAGTCTA+TGG | - | chr3_2:88921653-88921672 | Msa0435630:intron | 25.0% |
| !!! | ACCCAATTTTTCAGAAATTT+TGG | - | chr3_2:88921832-88921851 | Msa0435630:intron | 25.0% |
| GGCTACATTAATTCAGATAT+AGG | - | chr3_2:88921265-88921284 | Msa0435630:CDS | 30.0% | |
| TAGAGAAAGAGTAAAGACTA+AGG | - | chr3_2:88921316-88921335 | Msa0435630:CDS | 30.0% | |
| GCAGAATTTGACAATAAAAG+AGG | - | chr3_2:88921398-88921417 | Msa0435630:intron | 30.0% | |
| AGATTACTTCCAGACAATGT+TGG | - | chr3_2:88921244-88921263 | Msa0435630:CDS | 35.0% | |
| TTAATGTAGCCAACATTGTC+TGG | + | chr3_2:88921256-88921275 | None:intergenic | 35.0% | |
| TTTACTCTTTCTCTACACCA+AGG | + | chr3_2:88921311-88921330 | None:intergenic | 35.0% | |
| ! | GTTTAAGGCCAAAAATTCCA+AGG | - | chr3_2:88921747-88921766 | Msa0435630:intron | 35.0% |
| ! | TGAGAATGCCTTGGAATTTT+TGG | + | chr3_2:88921758-88921777 | None:intergenic | 35.0% |
| GAAAAATTGGGTCTCAAAGA+TGG | + | chr3_2:88921824-88921843 | None:intergenic | 35.0% | |
| ATTTCCAAGATGGTATGTCA+GGG | - | chr3_2:88921869-88921888 | Msa0435630:intron | 35.0% | |
| TCTGGAAGTAATCTAACCAG+TGG | + | chr3_2:88921238-88921257 | None:intergenic | 40.0% | |
| ! | GCTAGTGAAAGTATACCTTC+TGG | + | chr3_2:88921571-88921590 | None:intergenic | 40.0% |
| AGATTTGGGGATAAACTGCA+GGG | - | chr3_2:88921725-88921744 | Msa0435630:intron | 40.0% | |
| AACTTTGGATGAGAATGCCT+TGG | + | chr3_2:88921767-88921786 | None:intergenic | 40.0% | |
| ! | AAGGCATTCTCATCCAAAGT+TGG | - | chr3_2:88921766-88921785 | Msa0435630:intron | 40.0% |
| TGAAGCAATTCCACCAACTT+TGG | + | chr3_2:88921782-88921801 | None:intergenic | 40.0% | |
| TTTGCTGCACATTTCCAAGA+TGG | - | chr3_2:88921859-88921878 | Msa0435630:intron | 40.0% | |
| CATTTCCAAGATGGTATGTC+AGG | - | chr3_2:88921868-88921887 | Msa0435630:intron | 40.0% | |
| AATGGGGACAAATGCTCGTA+AGG | + | chr3_2:88921527-88921546 | None:intergenic | 45.0% | |
| GAGATTTGGGGATAAACTGC+AGG | - | chr3_2:88921724-88921743 | Msa0435630:intron | 45.0% | |
| GGGATAAACTGCAGGGTTTA+AGG | - | chr3_2:88921732-88921751 | Msa0435630:intron | 45.0% | |
| GCATTCTCATCCAAAGTTGG+TGG | - | chr3_2:88921769-88921788 | Msa0435630:intron | 45.0% | |
| !! | AGTTGGTGGAATTGCTTCAG+TGG | - | chr3_2:88921783-88921802 | Msa0435630:intron | 45.0% |
| ! | TCCAACTGCTGCTTGCAATG+GGG | + | chr3_2:88921543-88921562 | None:intergenic | 50.0% |
| ! | CTCCAACTGCTGCTTGCAAT+GGG | + | chr3_2:88921544-88921563 | None:intergenic | 50.0% |
| ! | ACTCCAACTGCTGCTTGCAA+TGG | + | chr3_2:88921545-88921564 | None:intergenic | 50.0% |
| ATTGCAAGCAGCAGTTGGAG+TGG | - | chr3_2:88921544-88921563 | Msa0435630:intron | 50.0% | |
| TGGAATTGCTTCAGTGGTGC+TGG | - | chr3_2:88921789-88921808 | Msa0435630:intron | 50.0% | |
| TCCCCATTGCAAGCAGCAGT+TGG | - | chr3_2:88921539-88921558 | Msa0435630:intron | 55.0% | |
| AGCAGTTGGAGTGGTCCAGA+AGG | - | chr3_2:88921553-88921572 | Msa0435630:intron | 55.0% | |
| ACGGCCCTGACATACCATCT+TGG | + | chr3_2:88921876-88921895 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 88921232 | 88921901 | 88921232 | ID=Msa0435630;Name=Msa0435630 |
| chr3_2 | mRNA | 88921232 | 88921901 | 88921232 | ID=Msa0435630-mRNA-1;Parent=Msa0435630;Name=Msa0435630-mRNA-1;_AED=0.65;_eAED=0.65;_QI=0|0|0|0.33|0.5|0.66|3|0|80 |
| chr3_2 | exon | 88921893 | 88921901 | 88921893 | ID=Msa0435630-mRNA-1:exon:26274;Parent=Msa0435630-mRNA-1 |
| chr3_2 | exon | 88921559 | 88921612 | 88921559 | ID=Msa0435630-mRNA-1:exon:26273;Parent=Msa0435630-mRNA-1 |
| chr3_2 | exon | 88921232 | 88921411 | 88921232 | ID=Msa0435630-mRNA-1:exon:26272;Parent=Msa0435630-mRNA-1 |
| chr3_2 | CDS | 88921893 | 88921901 | 88921893 | ID=Msa0435630-mRNA-1:cds;Parent=Msa0435630-mRNA-1 |
| chr3_2 | CDS | 88921559 | 88921612 | 88921559 | ID=Msa0435630-mRNA-1:cds;Parent=Msa0435630-mRNA-1 |
| chr3_2 | CDS | 88921232 | 88921411 | 88921232 | ID=Msa0435630-mRNA-1:cds;Parent=Msa0435630-mRNA-1 |
| Gene Sequence |
| Protein sequence |
