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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0100550 | KEH39848.1 | 66.667 | 69 | 23 | 0 | 9 | 77 | 603 | 671 | 6.86e-20 | 93.2 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0100550 | sp|Q8IRW8|TRR_DROME | 54.545 | 44 | 20 | 0 | 34 | 77 | 2388 | 2431 | 3.49e-11 | 60.1 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0100550 | A0A072VEL2 | 66.667 | 69 | 23 | 0 | 9 | 77 | 603 | 671 | 3.28e-20 | 93.2 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0100550 | TR | SET |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0100550 | MtrunA17_Chr1g0149611 | 66.667 | 69 | 23 | 0 | 9 | 77 | 440 | 508 | 8.72e-24 | 92.8 |
| Msa0100550 | MtrunA17_Chr1g0149581 | 55.072 | 69 | 31 | 0 | 9 | 77 | 1598 | 1666 | 1.72e-18 | 77.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 22 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTGCAATTTATTGAATTGC+AGG | 0.310671 | 1_3:+7012822 | None:intergenic |
| CTACACCGATTCCAATATTC+CGG | 0.336164 | 1_3:-7013258 | Msa0100550:CDS |
| AAGGAGGAATCCCGGAATAT+TGG | 0.345198 | 1_3:+7013247 | None:intergenic |
| TGCTATTTCAGATGCATTGA+CGG | 0.383868 | 1_3:-7013197 | Msa0100550:intron |
| CCTGCAATTCAATAAATTGC+AGG | 0.392271 | 1_3:-7012822 | Msa0100550:CDS |
| ATGAGTGGCGGTGGGGATGA+AGG | 0.438746 | 1_3:+7013228 | None:intergenic |
| CTTCTTCTTCACATTTAAAG+TGG | 0.459198 | 1_3:+7012863 | None:intergenic |
| TTTATTGAATTGCAGGAACA+TGG | 0.509510 | 1_3:+7012829 | None:intergenic |
| GCAAAGAGGGACATATTAGC+TGG | 0.519874 | 1_3:-7012907 | Msa0100550:CDS |
| TGGGGATGAAGGAGGAATCC+CGG | 0.531853 | 1_3:+7013239 | None:intergenic |
| GGTTATCTTCTTTGCAAAGA+GGG | 0.541277 | 1_3:-7012920 | Msa0100550:CDS |
| AGTGGCGGTGGGGATGAAGG+AGG | 0.545347 | 1_3:+7013231 | None:intergenic |
| GAATCCCGGAATATTGGAAT+CGG | 0.547638 | 1_3:+7013253 | None:intergenic |
| TACACCGATTCCAATATTCC+GGG | 0.550942 | 1_3:-7013257 | Msa0100550:CDS |
| AGGTGAATGATGAGTGGCGG+TGG | 0.556064 | 1_3:+7013219 | None:intergenic |
| GTCAATGCATCTGAAATAGC+AGG | 0.561079 | 1_3:+7013199 | None:intergenic |
| GGTGAATGATGAGTGGCGGT+GGG | 0.582510 | 1_3:+7013220 | None:intergenic |
| TTATTGAATTGCAGGAACAT+GGG | 0.589124 | 1_3:+7012830 | None:intergenic |
| AGGTTATCTTCTTTGCAAAG+AGG | 0.623337 | 1_3:-7012921 | Msa0100550:CDS |
| GTGAATGATGAGTGGCGGTG+GGG | 0.682408 | 1_3:+7013221 | None:intergenic |
| AGCAGGTGAATGATGAGTGG+CGG | 0.714715 | 1_3:+7013216 | None:intergenic |
| AATAGCAGGTGAATGATGAG+TGG | 0.746575 | 1_3:+7013213 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAACATTTTCAATGATACAA+TGG | - | chr1_3:7012958-7012977 | Msa0100550:intron | 20.0% |
| !! | AGGTCATGTCTAATATTTTA+TGG | + | chr1_3:7013040-7013059 | None:intergenic | 25.0% |
| !!! | AATTGATCAAGTTTTATCTC+AGG | + | chr1_3:7013060-7013079 | None:intergenic | 25.0% |
| GGAATTGAATAGAAGATGAA+AGG | + | chr1_3:7013105-7013124 | None:intergenic | 30.0% | |
| !! | CACTTAGTTTTCTCATATGT+CGG | + | chr1_3:7013126-7013145 | None:intergenic | 30.0% |
| CTTCTTCTTCACATTTAAAG+TGG | + | chr1_3:7013221-7013240 | None:intergenic | 30.0% | |
| TTATTGAATTGCAGGAACAT+GGG | + | chr1_3:7013254-7013273 | None:intergenic | 30.0% | |
| TTTATTGAATTGCAGGAACA+TGG | + | chr1_3:7013255-7013274 | None:intergenic | 30.0% | |
| !! | TGCTATTTCAGATGCATTGA+CGG | - | chr1_3:7012884-7012903 | Msa0100550:CDS | 35.0% |
| TGAGAAAACTAAGTGTCAAC+CGG | - | chr1_3:7013131-7013150 | Msa0100550:intron | 35.0% | |
| AAGAAGATAACCTGCAAAAC+CGG | + | chr1_3:7013153-7013172 | None:intergenic | 35.0% | |
| AGGTTATCTTCTTTGCAAAG+AGG | - | chr1_3:7013160-7013179 | Msa0100550:intron | 35.0% | |
| GGTTATCTTCTTTGCAAAGA+GGG | - | chr1_3:7013161-7013180 | Msa0100550:intron | 35.0% | |
| CCTGCAATTTATTGAATTGC+AGG | + | chr1_3:7013262-7013281 | None:intergenic | 35.0% | |
| CCTGCAATTCAATAAATTGC+AGG | - | chr1_3:7013259-7013278 | Msa0100550:CDS | 35.0% | |
| !! | CTACACCGATTCCAATATTC+CGG | - | chr1_3:7012823-7012842 | Msa0100550:CDS | 40.0% |
| !! | TACACCGATTCCAATATTCC+GGG | - | chr1_3:7012824-7012843 | Msa0100550:CDS | 40.0% |
| GAATCCCGGAATATTGGAAT+CGG | + | chr1_3:7012831-7012850 | None:intergenic | 40.0% | |
| AATAGCAGGTGAATGATGAG+TGG | + | chr1_3:7012871-7012890 | None:intergenic | 40.0% | |
| ! | GTCAATGCATCTGAAATAGC+AGG | + | chr1_3:7012885-7012904 | None:intergenic | 40.0% |
| AAAGGTGAATGCAGAAATGC+AGG | + | chr1_3:7013087-7013106 | None:intergenic | 40.0% | |
| AAGGAGGAATCCCGGAATAT+TGG | + | chr1_3:7012837-7012856 | None:intergenic | 45.0% | |
| !! | TAAGTGTCAACCGGTTTTGC+AGG | - | chr1_3:7013140-7013159 | Msa0100550:intron | 45.0% |
| GCAAAGAGGGACATATTAGC+TGG | - | chr1_3:7013174-7013193 | Msa0100550:intron | 45.0% | |
| AGCAGGTGAATGATGAGTGG+CGG | + | chr1_3:7012868-7012887 | None:intergenic | 50.0% | |
| TGGGGATGAAGGAGGAATCC+CGG | + | chr1_3:7012845-7012864 | None:intergenic | 55.0% | |
| GTGAATGATGAGTGGCGGTG+GGG | + | chr1_3:7012863-7012882 | None:intergenic | 55.0% | |
| GGTGAATGATGAGTGGCGGT+GGG | + | chr1_3:7012864-7012883 | None:intergenic | 55.0% | |
| AGGTGAATGATGAGTGGCGG+TGG | + | chr1_3:7012865-7012884 | None:intergenic | 55.0% | |
| ATGAGTGGCGGTGGGGATGA+AGG | + | chr1_3:7012856-7012875 | None:intergenic | 60.0% | |
| AGTGGCGGTGGGGATGAAGG+AGG | + | chr1_3:7012853-7012872 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 7012807 | 7013296 | 7012807 | ID=Msa0100550;Name=Msa0100550 |
| chr1_3 | mRNA | 7012807 | 7013296 | 7012807 | ID=Msa0100550-mRNA-1;Parent=Msa0100550;Name=Msa0100550-mRNA-1;_AED=0.71;_eAED=0.71;_QI=0|0|0|0.5|1|1|2|0|77 |
| chr1_3 | exon | 7013198 | 7013296 | 7013198 | ID=Msa0100550-mRNA-1:exon:2758;Parent=Msa0100550-mRNA-1 |
| chr1_3 | exon | 7012807 | 7012941 | 7012807 | ID=Msa0100550-mRNA-1:exon:2757;Parent=Msa0100550-mRNA-1 |
| chr1_3 | CDS | 7013198 | 7013296 | 7013198 | ID=Msa0100550-mRNA-1:cds;Parent=Msa0100550-mRNA-1 |
| chr1_3 | CDS | 7012807 | 7012941 | 7012807 | ID=Msa0100550-mRNA-1:cds;Parent=Msa0100550-mRNA-1 |
| Gene Sequence |
| Protein sequence |
