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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0441530 | XP_013459208.1 | 88.636 | 220 | 21 | 1 | 1 | 216 | 1 | 220 | 9.36e-133 | 384 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0441530 | A0A072UTD1 | 88.636 | 220 | 21 | 1 | 1 | 216 | 1 | 220 | 4.47e-133 | 384 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0441530 | TF | C2H2 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0441530 | MtrunA17_Chr3g0079131 | 88.636 | 220 | 21 | 1 | 1 | 216 | 1 | 220 | 8.60e-137 | 384 |
| Msa0441530 | MtrunA17_Chr3g0079061 | 63.761 | 218 | 75 | 2 | 1 | 214 | 1 | 218 | 2.89e-89 | 264 |
| Msa0441530 | MtrunA17_Chr3g0079091 | 62.712 | 177 | 62 | 2 | 1 | 173 | 1 | 177 | 9.02e-64 | 196 |
| Msa0441530 | MtrunA17_Chr4g0018761 | 30.233 | 215 | 123 | 6 | 4 | 213 | 5 | 197 | 3.01e-20 | 85.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGAGAATACACAAGTTAAAT+TGG | 0.302912 | 3_3:+9943185 | Msa0441530:CDS |
| ATACTATAGTGAGAAGAAAA+AGG | 0.312924 | 3_3:+9943287 | Msa0441530:CDS |
| TAAATTGGTGTATAGTGATT+TGG | 0.323391 | 3_3:+9943200 | Msa0441530:CDS |
| TCAGGTGCTTGGTTGTTGAT+TGG | 0.387136 | 3_3:-9942871 | None:intergenic |
| TATCATACCCTTGTAAACTT+TGG | 0.403944 | 3_3:+9943006 | Msa0441530:CDS |
| CTATTATTTGTGTGAATGAA+TGG | 0.435873 | 3_3:+9943247 | Msa0441530:CDS |
| AATAGAGAGAGTTTGATGTT+TGG | 0.448411 | 3_3:-9942911 | None:intergenic |
| GTTGACTCAACTGAGCGTTC+AGG | 0.450422 | 3_3:-9942889 | None:intergenic |
| CAACTGAGCGTTCAGGTGCT+TGG | 0.468315 | 3_3:-9942882 | None:intergenic |
| TATTCTTACCAAAGTTTACA+AGG | 0.477139 | 3_3:-9943014 | None:intergenic |
| CAATGCTTTCCCATTAGAAA+AGG | 0.484168 | 3_3:-9942797 | None:intergenic |
| AAGATCGAAGATTATGCATA+GGG | 0.485747 | 3_3:-9942969 | None:intergenic |
| TGTAGCTGAAGAAAATGAAA+AGG | 0.498469 | 3_3:+9943131 | Msa0441530:CDS |
| TACAGAAGCTGCTGAAACAA+TGG | 0.521106 | 3_3:+9943224 | Msa0441530:CDS |
| ATAATCTTCGATCTTTGAAG+AGG | 0.557615 | 3_3:+9942977 | Msa0441530:CDS |
| AAAGATCGAAGATTATGCAT+AGG | 0.557994 | 3_3:-9942970 | None:intergenic |
| ATTCTTACCAAAGTTTACAA+GGG | 0.625545 | 3_3:-9943013 | None:intergenic |
| TCTAATGGGAAAGCATTGGG+AGG | 0.669450 | 3_3:+9942802 | Msa0441530:CDS |
| GAATGAATGGAAACAAGTTG+AGG | 0.698163 | 3_3:+9943260 | Msa0441530:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | ATTCTTACCAAAGTTTACAA+GGG | - | chr3_3:9943016-9943035 | None:intergenic | 25.0% |
| ! | TATTCTTACCAAAGTTTACA+AGG | - | chr3_3:9943017-9943036 | None:intergenic | 25.0% |
| ! | TGAGAATACACAAGTTAAAT+TGG | + | chr3_3:9943185-9943204 | Msa0441530:CDS | 25.0% |
| ! | TAAATTGGTGTATAGTGATT+TGG | + | chr3_3:9943200-9943219 | Msa0441530:CDS | 25.0% |
| ! | CTATTATTTGTGTGAATGAA+TGG | + | chr3_3:9943247-9943266 | Msa0441530:CDS | 25.0% |
| ! | ATACTATAGTGAGAAGAAAA+AGG | + | chr3_3:9943287-9943306 | Msa0441530:CDS | 25.0% |
| ! | AAGAAAAAGGTTAGTGAAAA+TGG | + | chr3_3:9943300-9943319 | Msa0441530:CDS | 25.0% |
| ! | TGTAACAAGTCCTTTTCTAA+TGG | + | chr3_3:9942787-9942806 | Msa0441530:CDS | 30.0% |
| ! | GTAACAAGTCCTTTTCTAAT+GGG | + | chr3_3:9942788-9942807 | Msa0441530:CDS | 30.0% |
| !!! | TTTTCTAATGGGAAAGCATT+GGG | + | chr3_3:9942799-9942818 | Msa0441530:CDS | 30.0% |
| !! | TGTTGATTGGAGATTTTAGA+GGG | - | chr3_3:9942861-9942880 | None:intergenic | 30.0% |
| !! | TTGTTGATTGGAGATTTTAG+AGG | - | chr3_3:9942862-9942881 | None:intergenic | 30.0% |
| AATAGAGAGAGTTTGATGTT+TGG | - | chr3_3:9942914-9942933 | None:intergenic | 30.0% | |
| !! | TTTTGGATTGGAAATTGATG+AGG | - | chr3_3:9942947-9942966 | None:intergenic | 30.0% |
| !!! | AGATTATGCATAGGGTTTTT+TGG | - | chr3_3:9942964-9942983 | None:intergenic | 30.0% |
| AAGATCGAAGATTATGCATA+GGG | - | chr3_3:9942972-9942991 | None:intergenic | 30.0% | |
| AAAGATCGAAGATTATGCAT+AGG | - | chr3_3:9942973-9942992 | None:intergenic | 30.0% | |
| ! | ATAATCTTCGATCTTTGAAG+AGG | + | chr3_3:9942977-9942996 | Msa0441530:CDS | 30.0% |
| TATCATACCCTTGTAAACTT+TGG | + | chr3_3:9943006-9943025 | Msa0441530:CDS | 30.0% | |
| TGTAGCTGAAGAAAATGAAA+AGG | + | chr3_3:9943131-9943150 | Msa0441530:CDS | 30.0% | |
| CAATGCTTTCCCATTAGAAA+AGG | - | chr3_3:9942800-9942819 | None:intergenic | 35.0% | |
| !! | CTTTTCTAATGGGAAAGCAT+TGG | + | chr3_3:9942798-9942817 | Msa0441530:CDS | 35.0% |
| ! | TAGCTAAGTGAGTTTTCATG+TGG | - | chr3_3:9942828-9942847 | None:intergenic | 35.0% |
| !! | ATTGGAGATTTTAGAGGGAT+TGG | - | chr3_3:9942856-9942875 | None:intergenic | 35.0% |
| !!! | ATGCATAGGGTTTTTTGGAT+TGG | - | chr3_3:9942959-9942978 | None:intergenic | 35.0% |
| ! | TCTTTTCCAAAAAACCCAAC+TGG | + | chr3_3:9943048-9943067 | Msa0441530:CDS | 35.0% |
| ! | CTTTTTCCAGTTGGGTTTTT+TGG | - | chr3_3:9943057-9943076 | None:intergenic | 35.0% |
| ! | GTTTCGATCTTTTTCCAGTT+GGG | - | chr3_3:9943065-9943084 | None:intergenic | 35.0% |
| GAATGAATGGAAACAAGTTG+AGG | + | chr3_3:9943260-9943279 | Msa0441530:CDS | 35.0% | |
| ! | CGTTTCGATCTTTTTCCAGT+TGG | - | chr3_3:9943066-9943085 | None:intergenic | 40.0% |
| ACTGGAAAAAGATCGAAACG+CGG | + | chr3_3:9943066-9943085 | Msa0441530:CDS | 40.0% | |
| TACAGAAGCTGCTGAAACAA+TGG | + | chr3_3:9943224-9943243 | Msa0441530:CDS | 40.0% | |
| !! | TCTAATGGGAAAGCATTGGG+AGG | + | chr3_3:9942802-9942821 | Msa0441530:CDS | 45.0% |
| TCAGGTGCTTGGTTGTTGAT+TGG | - | chr3_3:9942874-9942893 | None:intergenic | 45.0% | |
| ! | GTTGACTCAACTGAGCGTTC+AGG | - | chr3_3:9942892-9942911 | None:intergenic | 50.0% |
| CAACTGAGCGTTCAGGTGCT+TGG | - | chr3_3:9942885-9942904 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 9942757 | 9943407 | 9942757 | ID=Msa0441530;Name=Msa0441530 |
| chr3_3 | mRNA | 9942757 | 9943407 | 9942757 | ID=Msa0441530-mRNA-1;Parent=Msa0441530;Name=Msa0441530-mRNA-1;_AED=0.10;_eAED=0.10;_QI=0|-1|0|1|-1|1|1|0|216 |
| chr3_3 | exon | 9942757 | 9943407 | 9942757 | ID=Msa0441530-mRNA-1:exon:2091;Parent=Msa0441530-mRNA-1 |
| chr3_3 | CDS | 9942757 | 9943407 | 9942757 | ID=Msa0441530-mRNA-1:cds;Parent=Msa0441530-mRNA-1 |
| Gene Sequence |
| Protein sequence |
