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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0231730 | AES63355.1 | 90.435 | 115 | 10 | 1 | 1 | 114 | 1 | 115 | 2.98e-67 | 208 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0231730 | G7IL67 | 90.435 | 115 | 10 | 1 | 1 | 114 | 1 | 115 | 1.42e-67 | 208 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0231730 | Msa1335230 | 0.808798 | 2.594271e-50 | -8.615850e-47 |
| Msa0231730 | Msa1423820 | 0.806153 | 9.445192e-50 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0231730 | MtrunA17_Chr2g0278461 | 90.435 | 115 | 10 | 1 | 1 | 114 | 1 | 115 | 2.74e-71 | 208 |
| 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 25 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTGACCTAATTCTCATTAA+AGG | 0.176232 | 2_2:+4012977 | None:intergenic |
| ACCTCCCTTTAATGAGAATT+AGG | 0.311240 | 2_2:-4012982 | None:intergenic |
| TGCTATTACTAAGTTCTATT+AGG | 0.322038 | 2_2:+4013228 | None:intergenic |
| GTGACCTAATTCTCATTAAA+GGG | 0.385524 | 2_2:+4012978 | None:intergenic |
| ATCGAAGACGCAACAGAGTA+AGG | 0.392483 | 2_2:-4013150 | Msa0231730:CDS |
| CGCTGCATCAATTTCCGTTA+GGG | 0.412692 | 2_2:+4013256 | None:intergenic |
| AAGGGAGGTAAAATAACTAT+AGG | 0.423320 | 2_2:+4012996 | None:intergenic |
| TCGCTGCATCAATTTCCGTT+AGG | 0.435545 | 2_2:+4013255 | None:intergenic |
| GGTTAAGGAGGAAGAATAAG+AGG | 0.436235 | 2_2:-4013055 | Msa0231730:CDS |
| TAGTAATAGCACAGCCTACT+TGG | 0.455809 | 2_2:-4013216 | Msa0231730:CDS |
| CGCTGTTGCTGCTATTGCTA+TGG | 0.460075 | 2_2:+4013183 | None:intergenic |
| AAATTGAAGATGAACGGTTA+AGG | 0.495387 | 2_2:-4013070 | Msa0231730:CDS |
| CACATCCTCAACTGAATCTG+TGG | 0.495772 | 2_2:+4013100 | None:intergenic |
| ACTGAATCTGTGGGTGATGA+TGG | 0.517018 | 2_2:+4013110 | None:intergenic |
| AGATTCAGTTGAGGATGTGT+TGG | 0.537928 | 2_2:-4013096 | Msa0231730:CDS |
| TTGAAGATGAACGGTTAAGG+AGG | 0.572304 | 2_2:-4013067 | Msa0231730:CDS |
| TCGAAGACGCAACAGAGTAA+GGG | 0.573379 | 2_2:-4013149 | Msa0231730:CDS |
| TGGCAGAAATTGAAGATGAA+CGG | 0.589413 | 2_2:-4013076 | Msa0231730:CDS |
| CAATAGCAGCAACAGCGTCA+CGG | 0.606320 | 2_2:-4013177 | Msa0231730:CDS |
| TATGTTGAAGAAGTGTATAG+AGG | 0.618180 | 2_2:-4013026 | Msa0231730:CDS |
| ACATCCTCAACTGAATCTGT+GGG | 0.636514 | 2_2:+4013101 | None:intergenic |
| ACCTAATTCTCATTAAAGGG+AGG | 0.645761 | 2_2:+4012981 | None:intergenic |
| ATCACCCACAGATTCAGTTG+AGG | 0.662122 | 2_2:-4013105 | Msa0231730:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAACCATACTTTTTCTTCTT+GGG | + | chr2_2:4013007-4013026 | None:intergenic | 25.0% |
| !!! | AAAACCATACTTTTTCTTCT+TGG | + | chr2_2:4013008-4013027 | None:intergenic | 25.0% |
| ! | TGCTATTACTAAGTTCTATT+AGG | + | chr2_2:4013063-4013082 | None:intergenic | 25.0% |
| !!! | AACCATACTTTTTCTTCTTG+GGG | + | chr2_2:4013006-4013025 | None:intergenic | 30.0% |
| AAATTGAAGATGAACGGTTA+AGG | - | chr2_2:4013218-4013237 | Msa0231730:CDS | 30.0% | |
| ! | TATGTTGAAGAAGTGTATAG+AGG | - | chr2_2:4013262-4013281 | Msa0231730:CDS | 30.0% |
| AAGGGAGGTAAAATAACTAT+AGG | + | chr2_2:4013295-4013314 | None:intergenic | 30.0% | |
| AACCCCAAGAAGAAAAAGTA+TGG | - | chr2_2:4013001-4013020 | Msa0231730:CDS | 35.0% | |
| !!! | GTATGGTTTTTTCTCCCTAA+CGG | - | chr2_2:4013018-4013037 | Msa0231730:CDS | 35.0% |
| ! | ATGGCAATTTTCATCCAAGT+AGG | + | chr2_2:4013089-4013108 | None:intergenic | 35.0% |
| TGGCAGAAATTGAAGATGAA+CGG | - | chr2_2:4013212-4013231 | Msa0231730:CDS | 35.0% | |
| TAGTAATAGCACAGCCTACT+TGG | - | chr2_2:4013072-4013091 | Msa0231730:CDS | 40.0% | |
| ACATCCTCAACTGAATCTGT+GGG | + | chr2_2:4013190-4013209 | None:intergenic | 40.0% | |
| AGATTCAGTTGAGGATGTGT+TGG | - | chr2_2:4013192-4013211 | Msa0231730:CDS | 40.0% | |
| TTGAAGATGAACGGTTAAGG+AGG | - | chr2_2:4013221-4013240 | Msa0231730:CDS | 40.0% | |
| GGTTAAGGAGGAAGAATAAG+AGG | - | chr2_2:4013233-4013252 | Msa0231730:CDS | 40.0% | |
| CGCTGCATCAATTTCCGTTA+GGG | + | chr2_2:4013035-4013054 | None:intergenic | 45.0% | |
| TCGCTGCATCAATTTCCGTT+AGG | + | chr2_2:4013036-4013055 | None:intergenic | 45.0% | |
| ATCGAAGACGCAACAGAGTA+AGG | - | chr2_2:4013138-4013157 | Msa0231730:CDS | 45.0% | |
| TCGAAGACGCAACAGAGTAA+GGG | - | chr2_2:4013139-4013158 | Msa0231730:CDS | 45.0% | |
| ACTGAATCTGTGGGTGATGA+TGG | + | chr2_2:4013181-4013200 | None:intergenic | 45.0% | |
| ATCACCCACAGATTCAGTTG+AGG | - | chr2_2:4013183-4013202 | Msa0231730:CDS | 45.0% | |
| CACATCCTCAACTGAATCTG+TGG | + | chr2_2:4013191-4013210 | None:intergenic | 45.0% | |
| CGCTGTTGCTGCTATTGCTA+TGG | + | chr2_2:4013108-4013127 | None:intergenic | 50.0% | |
| CAATAGCAGCAACAGCGTCA+CGG | - | chr2_2:4013111-4013130 | Msa0231730:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 4012983 | 4013327 | 4012983 | ID=Msa0231730;Name=Msa0231730 |
| chr2_2 | mRNA | 4012983 | 4013327 | 4012983 | ID=Msa0231730-mRNA-1;Parent=Msa0231730;Name=Msa0231730-mRNA-1;_AED=0.26;_eAED=0.26;_QI=0|-1|0|1|-1|1|1|0|114 |
| chr2_2 | exon | 4012983 | 4013327 | 4012983 | ID=Msa0231730-mRNA-1:exon:1667;Parent=Msa0231730-mRNA-1 |
| chr2_2 | CDS | 4012983 | 4013327 | 4012983 | ID=Msa0231730-mRNA-1:cds;Parent=Msa0231730-mRNA-1 |
| Gene Sequence |
| Protein sequence |
