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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0467860 | MCI33390.1 | 83.051 | 59 | 10 | 0 | 1 | 59 | 27 | 85 | 1.12e-26 | 102 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0467860 | sp|Q4VYC8|NSP1_MEDTR | 82.540 | 63 | 7 | 2 | 1 | 60 | 492 | 553 | 1.31e-25 | 100 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0467860 | A0A392RC75 | 83.051 | 59 | 10 | 0 | 1 | 59 | 27 | 85 | 5.33e-27 | 102 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0467860 | TF | GRAS |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0467860 | MtrunA17_Chr8g0344101 | 82.540 | 63 | 7 | 2 | 1 | 60 | 544 | 605 | 1.35e-26 | 99.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0467860 | AT3G13840.1 | 55.357 | 56 | 24 | 1 | 1 | 56 | 454 | 508 | 9.00e-14 | 63.9 |
Find 17 sgRNAs with CRISPR-Local
Find 15 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACCTGTTTCTTTGTTGAAAC+TGG | 0.256543 | 3_3:+69329015 | Msa0467860:CDS |
| TGAGGATGTATGATAATAAT+TGG | 0.276293 | 3_3:+69328936 | Msa0467860:CDS |
| AGAAGATAACAGTACAAGTA+TGG | 0.296127 | 3_3:+69328973 | Msa0467860:CDS |
| GGGTTTGCAGGGGAAGTCTT+TGG | 0.331788 | 3_3:+69328881 | Msa0467860:CDS |
| TCCAGTTTCAACAAAGAAAC+AGG | 0.371221 | 3_3:-69329016 | None:intergenic |
| ATGAAAGAAGCAGGGTTTGC+AGG | 0.378552 | 3_3:+69328869 | Msa0467860:CDS |
| TTTGGAGAAGATGCAATTGA+TGG | 0.443078 | 3_3:+69328899 | Msa0467860:CDS |
| ACAGTACAAGTATGGGACTA+TGG | 0.445901 | 3_3:+69328981 | Msa0467860:CDS |
| TGTGGAAGAATGAAAGAAGC+AGG | 0.479878 | 3_3:+69328860 | None:intergenic |
| TGAAAGAAGCAGGGTTTGCA+GGG | 0.503859 | 3_3:+69328870 | Msa0467860:CDS |
| GAGGATGTATGATAATAATT+GGG | 0.513135 | 3_3:+69328937 | Msa0467860:CDS |
| TAATAATTGGGAGATGAAAG+TGG | 0.541152 | 3_3:+69328949 | Msa0467860:CDS |
| GAAGATAACAGTACAAGTAT+GGG | 0.566917 | 3_3:+69328974 | Msa0467860:CDS |
| ATGGACGTCGAGCTTTGTTG+AGG | 0.632927 | 3_3:+69328918 | Msa0467860:CDS |
| GTGGAAGAATGAAAGAAGCA+GGG | 0.634215 | 3_3:+69328861 | None:intergenic |
| GTACAAGTATGGGACTATGG+TGG | 0.679622 | 3_3:+69328984 | Msa0467860:CDS |
| GAAAGAAGCAGGGTTTGCAG+GGG | 0.689170 | 3_3:+69328871 | Msa0467860:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TGAGGATGTATGATAATAAT+TGG | + | chr3_3:69328936-69328955 | Msa0467860:CDS | 25.0% |
| ! | GAGGATGTATGATAATAATT+GGG | + | chr3_3:69328937-69328956 | Msa0467860:CDS | 25.0% |
| TAATAATTGGGAGATGAAAG+TGG | + | chr3_3:69328949-69328968 | Msa0467860:CDS | 30.0% | |
| AGAAGATAACAGTACAAGTA+TGG | + | chr3_3:69328973-69328992 | Msa0467860:CDS | 30.0% | |
| GAAGATAACAGTACAAGTAT+GGG | + | chr3_3:69328974-69328993 | Msa0467860:CDS | 30.0% | |
| TTTGGAGAAGATGCAATTGA+TGG | + | chr3_3:69328899-69328918 | Msa0467860:CDS | 35.0% | |
| ! | ACCTGTTTCTTTGTTGAAAC+TGG | + | chr3_3:69329015-69329034 | Msa0467860:CDS | 35.0% |
| TCCAGTTTCAACAAAGAAAC+AGG | - | chr3_3:69329019-69329038 | None:intergenic | 35.0% | |
| ACAGTACAAGTATGGGACTA+TGG | + | chr3_3:69328981-69329000 | Msa0467860:CDS | 40.0% | |
| ATGAAAGAAGCAGGGTTTGC+AGG | + | chr3_3:69328869-69328888 | Msa0467860:CDS | 45.0% | |
| TGAAAGAAGCAGGGTTTGCA+GGG | + | chr3_3:69328870-69328889 | Msa0467860:CDS | 45.0% | |
| GTACAAGTATGGGACTATGG+TGG | + | chr3_3:69328984-69329003 | Msa0467860:CDS | 45.0% | |
| GAAAGAAGCAGGGTTTGCAG+GGG | + | chr3_3:69328871-69328890 | Msa0467860:CDS | 50.0% | |
| !! | ATGGACGTCGAGCTTTGTTG+AGG | + | chr3_3:69328918-69328937 | Msa0467860:CDS | 50.0% |
| GGGTTTGCAGGGGAAGTCTT+TGG | + | chr3_3:69328881-69328900 | Msa0467860:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 69328869 | 69329051 | 69328869 | ID=Msa0467860;Name=Msa0467860 |
| chr3_3 | mRNA | 69328869 | 69329051 | 69328869 | ID=Msa0467860-mRNA-1;Parent=Msa0467860;Name=Msa0467860-mRNA-1;_AED=0.19;_eAED=0.59;_QI=0|-1|0|1|-1|1|1|0|60 |
| chr3_3 | exon | 69328869 | 69329051 | 69328869 | ID=Msa0467860-mRNA-1:exon:16403;Parent=Msa0467860-mRNA-1 |
| chr3_3 | CDS | 69328869 | 69329051 | 69328869 | ID=Msa0467860-mRNA-1:cds;Parent=Msa0467860-mRNA-1 |
| Gene Sequence |
| Protein sequence |
