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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0607590 | XP_039687084.1 | 85.246 | 122 | 18 | 0 | 1 | 122 | 1 | 122 | 4.37e-71 | 218 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|---|---|
| Msa0607590 | TF | B3 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0607590 | MtrunA17_Chr2g0281511 | 85.246 | 122 | 18 | 0 | 1 | 122 | 1 | 122 | 4.02e-75 | 218 |
| Msa0607590 | MtrunA17_Chr2g0309121 | 81.967 | 122 | 21 | 1 | 1 | 122 | 1 | 121 | 7.39e-70 | 205 |
| Msa0607590 | MtrunA17_Chr3g0081891 | 84.810 | 79 | 12 | 0 | 1 | 79 | 1 | 79 | 7.79e-45 | 140 |
| Msa0607590 | MtrunA17_Chr7g0276661 | 35.115 | 131 | 65 | 4 | 7 | 119 | 38 | 166 | 3.86e-21 | 83.2 |
| Msa0607590 | MtrunA17_Chr0c01g0489371 | 41.758 | 91 | 51 | 1 | 22 | 110 | 224 | 314 | 2.78e-17 | 75.9 |
| Msa0607590 | MtrunA17_Chr8g0356961 | 40.449 | 89 | 51 | 1 | 24 | 110 | 77 | 165 | 1.10e-16 | 71.6 |
| Msa0607590 | MtrunA17_Chr8g0372431 | 29.897 | 97 | 68 | 0 | 24 | 120 | 6 | 102 | 1.25e-16 | 69.7 |
| Msa0607590 | MtrunA17_Chr6g0485871 | 33.721 | 86 | 56 | 1 | 24 | 108 | 214 | 299 | 8.65e-13 | 63.2 |
| Msa0607590 | MtrunA17_Chr8g0356951 | 37.363 | 91 | 53 | 2 | 24 | 110 | 217 | 307 | 1.21e-12 | 62.8 |
| Msa0607590 | MtrunA17_Chr5g0434641 | 34.066 | 91 | 58 | 1 | 22 | 110 | 208 | 298 | 1.61e-12 | 62.4 |
| Msa0607590 | MtrunA17_Chr7g0228081 | 31.250 | 80 | 55 | 0 | 41 | 120 | 13 | 92 | 4.05e-12 | 57.8 |
| Msa0607590 | MtrunA17_Chr5g0430431 | 42.623 | 61 | 35 | 0 | 56 | 116 | 194 | 254 | 8.33e-12 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 23 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAATGTTACTGCTTCTATTT+TGG | 0.123735 | 4_2:+54523732 | Msa0607590:CDS |
| AAAATTCCGATGTTCATTAT+TGG | 0.199581 | 4_2:+54523704 | Msa0607590:CDS |
| GAAGTCAATGGTGCTGAATT+AGG | 0.200131 | 4_2:+54523673 | Msa0607590:CDS |
| TACCAGTTTCTTCATCAAAA+AGG | 0.252196 | 4_2:-54523923 | None:intergenic |
| TGTATGCTACCGTCGTTAAC+TGG | 0.297739 | 4_2:+54524090 | Msa0607590:CDS |
| CCTCGACGTGTTGCCGAGAA+TGG | 0.307864 | 4_2:+54523873 | Msa0607590:CDS |
| CGGTCAATAATCCTCCTAAT+AGG | 0.355854 | 4_2:+54524066 | Msa0607590:CDS |
| TTTGGATGGAAACAATGTTT+TGG | 0.356448 | 4_2:+54523750 | Msa0607590:CDS |
| AAGTCAATGGTGCTGAATTA+GGG | 0.416476 | 4_2:+54523674 | Msa0607590:CDS |
| ACGGTAGCATACATCCTATT+AGG | 0.440754 | 4_2:-54524080 | None:intergenic |
| ATTGGTATACAAACCATTCT+CGG | 0.470714 | 4_2:-54523886 | None:intergenic |
| GTATGCTACCGTCGTTAACT+GGG | 0.522932 | 4_2:+54524091 | Msa0607590:CDS |
| GCATGGATCAGAAATACATA+GGG | 0.559318 | 4_2:+54523982 | Msa0607590:CDS |
| AGCATGGATCAGAAATACAT+AGG | 0.564126 | 4_2:+54523981 | Msa0607590:CDS |
| CTTGAAAAGTGCCTAAAAGT+TGG | 0.570138 | 4_2:+54524026 | Msa0607590:CDS |
| AGAAATACATAGGGAGAGGA+TGG | 0.573439 | 4_2:+54523991 | Msa0607590:CDS |
| GATCAGAAATACATAGGGAG+AGG | 0.587262 | 4_2:+54523987 | Msa0607590:CDS |
| TCACACTGCGTCAAGAAGCA+TGG | 0.587686 | 4_2:+54523965 | Msa0607590:CDS |
| CCATTCTCGGCAACACGTCG+AGG | 0.599354 | 4_2:-54523873 | None:intergenic |
| GAGATTGGAGTTGAAGTCAA+TGG | 0.619642 | 4_2:+54523661 | Msa0607590:CDS |
| GTAGCATACATCCTATTAGG+AGG | 0.633251 | 4_2:-54524077 | None:intergenic |
| ATACTTCCAATAATGAACAT+CGG | 0.646998 | 4_2:-54523710 | None:intergenic |
| TAATCAGTCCCAGTTAACGA+CGG | 0.733495 | 4_2:-54524099 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAAATTCCGATGTTCATTAT+TGG | + | chr4_2:54523704-54523723 | Msa0607590:CDS | 25.0% |
| ! | ATACTTCCAATAATGAACAT+CGG | - | chr4_2:54523713-54523732 | None:intergenic | 25.0% |
| !! | TAATGTTACTGCTTCTATTT+TGG | + | chr4_2:54523732-54523751 | Msa0607590:CDS | 25.0% |
| !! | AAGGAGAATTTTAGATTGAT+TGG | - | chr4_2:54523907-54523926 | None:intergenic | 25.0% |
| ! | TTTGGATGGAAACAATGTTT+TGG | + | chr4_2:54523750-54523769 | Msa0607590:CDS | 30.0% |
| ATTGGTATACAAACCATTCT+CGG | - | chr4_2:54523889-54523908 | None:intergenic | 30.0% | |
| TACCAGTTTCTTCATCAAAA+AGG | - | chr4_2:54523926-54523945 | None:intergenic | 30.0% | |
| ! | AAACAACATCACCAACTTTT+AGG | - | chr4_2:54524040-54524059 | None:intergenic | 30.0% |
| ! | AAGTCAATGGTGCTGAATTA+GGG | + | chr4_2:54523674-54523693 | Msa0607590:CDS | 35.0% |
| !! | GTTACTGCTTCTATTTTGGA+TGG | + | chr4_2:54523736-54523755 | Msa0607590:CDS | 35.0% |
| !!! | GGAAACAATGTTTTGGTTAG+TGG | + | chr4_2:54523757-54523776 | Msa0607590:intron | 35.0% |
| ! | CTCCTTTTTGATGAAGAAAC+TGG | + | chr4_2:54523921-54523940 | Msa0607590:CDS | 35.0% |
| AGCATGGATCAGAAATACAT+AGG | + | chr4_2:54523981-54524000 | Msa0607590:CDS | 35.0% | |
| GCATGGATCAGAAATACATA+GGG | + | chr4_2:54523982-54524001 | Msa0607590:CDS | 35.0% | |
| !! | CTTGAAAAGTGCCTAAAAGT+TGG | + | chr4_2:54524026-54524045 | Msa0607590:CDS | 35.0% |
| !!! | TGGTGATGTTGTTTTGTTCA+CGG | + | chr4_2:54524046-54524065 | Msa0607590:CDS | 35.0% |
| GAGATTGGAGTTGAAGTCAA+TGG | + | chr4_2:54523661-54523680 | Msa0607590:CDS | 40.0% | |
| ! | GAAGTCAATGGTGCTGAATT+AGG | + | chr4_2:54523673-54523692 | Msa0607590:CDS | 40.0% |
| GATCAGAAATACATAGGGAG+AGG | + | chr4_2:54523987-54524006 | Msa0607590:CDS | 40.0% | |
| AGAAATACATAGGGAGAGGA+TGG | + | chr4_2:54523991-54524010 | Msa0607590:CDS | 40.0% | |
| CGGTCAATAATCCTCCTAAT+AGG | + | chr4_2:54524066-54524085 | Msa0607590:CDS | 40.0% | |
| GTAGCATACATCCTATTAGG+AGG | - | chr4_2:54524080-54524099 | None:intergenic | 40.0% | |
| ACGGTAGCATACATCCTATT+AGG | - | chr4_2:54524083-54524102 | None:intergenic | 40.0% | |
| TGTATGCTACCGTCGTTAAC+TGG | + | chr4_2:54524090-54524109 | Msa0607590:CDS | 45.0% | |
| GTATGCTACCGTCGTTAACT+GGG | + | chr4_2:54524091-54524110 | Msa0607590:CDS | 45.0% | |
| TCACACTGCGTCAAGAAGCA+TGG | + | chr4_2:54523965-54523984 | Msa0607590:CDS | 50.0% | |
| CCATTCTCGGCAACACGTCG+AGG | - | chr4_2:54523876-54523895 | None:intergenic | 60.0% | |
| CCTCGACGTGTTGCCGAGAA+TGG | + | chr4_2:54523873-54523892 | Msa0607590:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 54523655 | 54524118 | 54523655 | ID=Msa0607590;Name=Msa0607590 |
| chr4_2 | mRNA | 54523655 | 54524118 | 54523655 | ID=Msa0607590-mRNA-1;Parent=Msa0607590;Name=Msa0607590-mRNA-1;_AED=0.06;_eAED=0.06;_QI=0|0|0|1|1|1|2|0|122 |
| chr4_2 | exon | 54523655 | 54523771 | 54523655 | ID=Msa0607590-mRNA-1:exon:13670;Parent=Msa0607590-mRNA-1 |
| chr4_2 | exon | 54523867 | 54524118 | 54523867 | ID=Msa0607590-mRNA-1:exon:13671;Parent=Msa0607590-mRNA-1 |
| chr4_2 | CDS | 54523655 | 54523771 | 54523655 | ID=Msa0607590-mRNA-1:cds;Parent=Msa0607590-mRNA-1 |
| chr4_2 | CDS | 54523867 | 54524118 | 54523867 | ID=Msa0607590-mRNA-1:cds;Parent=Msa0607590-mRNA-1 |
| Gene Sequence |
| Protein sequence |
