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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0489000 | XP_013459208.1 | 86.335 | 161 | 18 | 1 | 1 | 157 | 1 | 161 | 4.77e-85 | 261 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0489000 | A0A072UTD1 | 86.335 | 161 | 18 | 1 | 1 | 157 | 1 | 161 | 2.28e-85 | 261 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0489000 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0489000 | MtrunA17_Chr3g0079131 | 86.335 | 161 | 18 | 1 | 1 | 157 | 1 | 161 | 4.39e-89 | 261 |
| Msa0489000 | MtrunA17_Chr3g0079061 | 62.500 | 160 | 56 | 2 | 1 | 156 | 1 | 160 | 6.89e-57 | 179 |
| Msa0489000 | MtrunA17_Chr3g0079091 | 64.375 | 160 | 53 | 2 | 1 | 156 | 1 | 160 | 8.18e-57 | 175 |
| Msa0489000 | MtrunA17_Chr4g0018761 | 42.857 | 119 | 63 | 3 | 3 | 120 | 4 | 118 | 4.52e-20 | 83.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 16 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGGTCATAGACAATTTAATT+TGG | 0.248485 | 3_4:+9156122 | Msa0489000:CDS |
| TGAGAATACACAAGTTAAAT+TGG | 0.302912 | 3_4:+9156221 | Msa0489000:CDS |
| TAAATTGGTGTATAGTGATT+TGG | 0.323391 | 3_4:+9156236 | Msa0489000:CDS |
| TCACGTGCTTGGTTGTTGAT+TGG | 0.399497 | 3_4:-9155907 | None:intergenic |
| TATCATACCCTTGTAAACTT+TGG | 0.406116 | 3_4:+9156042 | Msa0489000:CDS |
| AATAGAGAGAGTTTGATGTT+TGG | 0.448411 | 3_4:-9155947 | None:intergenic |
| TATTCTTACCAAAGTTTACA+AGG | 0.477139 | 3_4:-9156050 | None:intergenic |
| CAATGCTTTCCCATTAGAAA+AGG | 0.484168 | 3_4:-9155833 | None:intergenic |
| AAGATCGAAGATTATGCATA+GGG | 0.485747 | 3_4:-9156005 | None:intergenic |
| CAACTGAGTGTTCACGTGCT+TGG | 0.533072 | 3_4:-9155918 | None:intergenic |
| ATAATCTTCGATCTTTGAAG+AGG | 0.557615 | 3_4:+9156013 | Msa0489000:CDS |
| AAAGATCGAAGATTATGCAT+AGG | 0.557994 | 3_4:-9156006 | None:intergenic |
| AGAGAATACAATATTTAATG+TGG | 0.616169 | 3_4:+9156149 | Msa0489000:CDS |
| TGTGGCTGAAGAAAATGAAG+AGG | 0.616323 | 3_4:+9156167 | Msa0489000:CDS |
| ATTCTTACCAAAGTTTACAA+GGG | 0.625545 | 3_4:-9156049 | None:intergenic |
| TCTAATGGGAAAGCATTGGG+AGG | 0.669450 | 3_4:+9155838 | Msa0489000:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AGAGAATACAATATTTAATG+TGG | + | chr3_4:9156149-9156168 | Msa0489000:CDS | 20.0% |
| ! | ATTCTTACCAAAGTTTACAA+GGG | - | chr3_4:9156052-9156071 | None:intergenic | 25.0% |
| ! | TATTCTTACCAAAGTTTACA+AGG | - | chr3_4:9156053-9156072 | None:intergenic | 25.0% |
| ! | TGAGAATACACAAGTTAAAT+TGG | + | chr3_4:9156221-9156240 | Msa0489000:CDS | 25.0% |
| ! | TAAATTGGTGTATAGTGATT+TGG | + | chr3_4:9156236-9156255 | Msa0489000:CDS | 25.0% |
| ! | TGTAACAAGTCCTTTTCTAA+TGG | + | chr3_4:9155823-9155842 | Msa0489000:CDS | 30.0% |
| ! | GTAACAAGTCCTTTTCTAAT+GGG | + | chr3_4:9155824-9155843 | Msa0489000:CDS | 30.0% |
| !!! | TTTTCTAATGGGAAAGCATT+GGG | + | chr3_4:9155835-9155854 | Msa0489000:CDS | 30.0% |
| !! | TGTTGATTGGAGATTTTAGA+GGG | - | chr3_4:9155897-9155916 | None:intergenic | 30.0% |
| !! | TTGTTGATTGGAGATTTTAG+AGG | - | chr3_4:9155898-9155917 | None:intergenic | 30.0% |
| AATAGAGAGAGTTTGATGTT+TGG | - | chr3_4:9155950-9155969 | None:intergenic | 30.0% | |
| !! | TTTTGGATTGGAAATTGATG+AGG | - | chr3_4:9155983-9156002 | None:intergenic | 30.0% |
| !!! | AGATTATGCATAGGGTTTTT+TGG | - | chr3_4:9156000-9156019 | None:intergenic | 30.0% |
| AAGATCGAAGATTATGCATA+GGG | - | chr3_4:9156008-9156027 | None:intergenic | 30.0% | |
| AAAGATCGAAGATTATGCAT+AGG | - | chr3_4:9156009-9156028 | None:intergenic | 30.0% | |
| ! | ATAATCTTCGATCTTTGAAG+AGG | + | chr3_4:9156013-9156032 | Msa0489000:CDS | 30.0% |
| TATCATACCCTTGTAAACTT+TGG | + | chr3_4:9156042-9156061 | Msa0489000:CDS | 30.0% | |
| CGGTCATAGACAATTTAATT+TGG | + | chr3_4:9156122-9156141 | Msa0489000:CDS | 30.0% | |
| CAATGCTTTCCCATTAGAAA+AGG | - | chr3_4:9155836-9155855 | None:intergenic | 35.0% | |
| !! | CTTTTCTAATGGGAAAGCAT+TGG | + | chr3_4:9155834-9155853 | Msa0489000:CDS | 35.0% |
| ! | TAGCTAAGTGAGTTTTCATG+TGG | - | chr3_4:9155864-9155883 | None:intergenic | 35.0% |
| !!! | ATGCATAGGGTTTTTTGGAT+TGG | - | chr3_4:9155995-9156014 | None:intergenic | 35.0% |
| ! | TCTTTTCCAAAAAACCCAAC+TGG | + | chr3_4:9156084-9156103 | Msa0489000:CDS | 35.0% |
| ! | CTTTTTCCAGTTGGGTTTTT+TGG | - | chr3_4:9156093-9156112 | None:intergenic | 35.0% |
| ! | GTTTCGATCTTTTTCCAGTT+GGG | - | chr3_4:9156101-9156120 | None:intergenic | 35.0% |
| ! | CGTTTCGATCTTTTTCCAGT+TGG | - | chr3_4:9156102-9156121 | None:intergenic | 40.0% |
| ACTGGAAAAAGATCGAAACG+CGG | + | chr3_4:9156102-9156121 | Msa0489000:CDS | 40.0% | |
| TGTGGCTGAAGAAAATGAAG+AGG | + | chr3_4:9156167-9156186 | Msa0489000:CDS | 40.0% | |
| !! | TCTAATGGGAAAGCATTGGG+AGG | + | chr3_4:9155838-9155857 | Msa0489000:CDS | 45.0% |
| TCACGTGCTTGGTTGTTGAT+TGG | - | chr3_4:9155910-9155929 | None:intergenic | 45.0% | |
| CAACTGAGTGTTCACGTGCT+TGG | - | chr3_4:9155921-9155940 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 9155793 | 9156266 | 9155793 | ID=Msa0489000;Name=Msa0489000 |
| chr3_4 | mRNA | 9155793 | 9156266 | 9155793 | ID=Msa0489000-mRNA-1;Parent=Msa0489000;Name=Msa0489000-mRNA-1;_AED=0.21;_eAED=0.21;_QI=0|-1|0|1|-1|1|1|0|157 |
| chr3_4 | exon | 9155793 | 9156266 | 9155793 | ID=Msa0489000-mRNA-1:exon:3009;Parent=Msa0489000-mRNA-1 |
| chr3_4 | CDS | 9155793 | 9156266 | 9155793 | ID=Msa0489000-mRNA-1:cds;Parent=Msa0489000-mRNA-1 |
| Gene Sequence |
| Protein sequence |
