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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1110200 | XP_039690688.1 | 86.885 | 61 | 8 | 0 | 43 | 103 | 58 | 118 | 8.20e-25 | 108 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1110200 | A0A2Z6PUD4 | 68.852 | 61 | 19 | 0 | 43 | 103 | 58 | 118 | 1.51e-19 | 92.4 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1110200 | TF | FAR1 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1110200 | MtrunA17_Chr1g0176351 | 79.070 | 43 | 9 | 0 | 1 | 43 | 20 | 62 | 1.18e-17 | 74.3 |
| Msa1110200 | MtrunA17_Chr8g0389491 | 73.171 | 41 | 11 | 0 | 1 | 41 | 82 | 122 | 7.06e-16 | 69.7 |
| Msa1110200 | MtrunA17_Chr4g0024031 | 67.347 | 49 | 12 | 3 | 5 | 49 | 24 | 72 | 1.11e-12 | 62.4 |
| Msa1110200 | MtrunA17_Chr2g0328241 | 65.306 | 49 | 13 | 3 | 5 | 49 | 24 | 72 | 1.77e-12 | 62.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 11 sgRNAs with CRISPR-Local
Find 20 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACACGAGTTACCTATTATTT+TGG | 0.195483 | 7_3:-54812200 | None:intergenic |
| AGACATGCTTCCAAAATAAT+AGG | 0.268372 | 7_3:+54812190 | Msa1110200:CDS |
| TCTTGCTTCACAATTTGTTA+TGG | 0.340020 | 7_3:-54812513 | None:intergenic |
| GAATGTGGATGGAAAATTAA+TGG | 0.354697 | 7_3:+54812547 | Msa1110200:CDS |
| TTTGTTATGGTCTCTAGTCT+TGG | 0.429006 | 7_3:-54812500 | None:intergenic |
| ACAAATTGTGAAGCAAGATT+AGG | 0.443040 | 7_3:+54812518 | Msa1110200:CDS |
| TTAGGACTTAAGAATGTGGA+TGG | 0.548535 | 7_3:+54812536 | Msa1110200:CDS |
| ATGTCTCAAAAGGTCGGTCA+AGG | 0.571507 | 7_3:-54812173 | None:intergenic |
| GGAAGCATGTCTCAAAAGGT+CGG | 0.599696 | 7_3:-54812179 | None:intergenic |
| TTTCTAGCAAATGTAACTCG+AGG | 0.606419 | 7_3:-54812595 | None:intergenic |
| AAGATTAGGACTTAAGAATG+TGG | 0.659295 | 7_3:+54812532 | Msa1110200:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTGATAATGTATGTTCAA+AGG | + | chr7_3:54812355-54812374 | Msa1110200:intron | 20.0% |
| !! | TTATCAATATTAACATTAGG+TGG | - | chr7_3:54812411-54812430 | None:intergenic | 20.0% |
| !! | GACTTATCAATATTAACATT+AGG | - | chr7_3:54812414-54812433 | None:intergenic | 20.0% |
| AGACATGCTTCCAAAATAAT+AGG | + | chr7_3:54812190-54812209 | Msa1110200:CDS | 30.0% | |
| ! | ACACGAGTTACCTATTATTT+TGG | - | chr7_3:54812203-54812222 | None:intergenic | 30.0% |
| !! | TCTTGCTTCACAATTTGTTA+TGG | - | chr7_3:54812516-54812535 | None:intergenic | 30.0% |
| ACAAATTGTGAAGCAAGATT+AGG | + | chr7_3:54812518-54812537 | Msa1110200:CDS | 30.0% | |
| AAGATTAGGACTTAAGAATG+TGG | + | chr7_3:54812532-54812551 | Msa1110200:CDS | 30.0% | |
| GAATGTGGATGGAAAATTAA+TGG | + | chr7_3:54812547-54812566 | Msa1110200:CDS | 30.0% | |
| ! | ATTAATGGTGCTTGATTTTG+TGG | + | chr7_3:54812562-54812581 | Msa1110200:CDS | 30.0% |
| !! | TTTTGGAAGCATGTCTCAAA+AGG | - | chr7_3:54812186-54812205 | None:intergenic | 35.0% |
| ATTGATAAGTCACCTGTTGT+CGG | + | chr7_3:54812423-54812442 | Msa1110200:intron | 35.0% | |
| ! | TTCTTTTCAATACCGACAAC+AGG | - | chr7_3:54812438-54812457 | None:intergenic | 35.0% |
| ! | TGTTGTCGGTATTGAAAAGA+AGG | + | chr7_3:54812437-54812456 | Msa1110200:intron | 35.0% |
| ! | TTTGTTATGGTCTCTAGTCT+TGG | - | chr7_3:54812503-54812522 | None:intergenic | 35.0% |
| TTAGGACTTAAGAATGTGGA+TGG | + | chr7_3:54812536-54812555 | Msa1110200:CDS | 35.0% | |
| ! | TTTCTAGCAAATGTAACTCG+AGG | - | chr7_3:54812598-54812617 | None:intergenic | 35.0% |
| ! | AATGGTGCTTGATTTTGTGG+AGG | + | chr7_3:54812565-54812584 | Msa1110200:CDS | 40.0% |
| ATGTCTCAAAAGGTCGGTCA+AGG | - | chr7_3:54812176-54812195 | None:intergenic | 45.0% | |
| ! | GGAAGCATGTCTCAAAAGGT+CGG | - | chr7_3:54812182-54812201 | None:intergenic | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 54812085 | 54812640 | 54812085 | ID=Msa1110200;Name=Msa1110200 |
| chr7_3 | mRNA | 54812085 | 54812640 | 54812085 | ID=Msa1110200-mRNA-1;Parent=Msa1110200;Name=Msa1110200-mRNA-1;_AED=0.28;_eAED=0.28;_QI=0|0|0|1|0|0|2|0|103 |
| chr7_3 | exon | 54812085 | 54812211 | 54812085 | ID=Msa1110200-mRNA-1:exon:11557;Parent=Msa1110200-mRNA-1 |
| chr7_3 | exon | 54812459 | 54812640 | 54812459 | ID=Msa1110200-mRNA-1:exon:11558;Parent=Msa1110200-mRNA-1 |
| chr7_3 | CDS | 54812085 | 54812211 | 54812085 | ID=Msa1110200-mRNA-1:cds;Parent=Msa1110200-mRNA-1 |
| chr7_3 | CDS | 54812459 | 54812640 | 54812459 | ID=Msa1110200-mRNA-1:cds;Parent=Msa1110200-mRNA-1 |
| Gene Sequence |
| Protein sequence |
