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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0271170 | RHN74665.1 | 90.411 | 73 | 6 | 1 | 1 | 72 | 22 | 94 | 1.08e-37 | 130 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0271170 | A0A396JDZ7 | 90.411 | 73 | 6 | 1 | 1 | 72 | 22 | 94 | 5.17e-38 | 130 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0271170 | Msa0940400 | 0.801131 | 1.040787e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0271170 | MtrunA17_Chr2g0312821 | 90.411 | 73 | 6 | 1 | 1 | 72 | 22 | 94 | 9.96e-42 | 130 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 15 sgRNAs with CRISPR-Local
Find 17 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAAGAAGAGAATAATGATTT+TGG | 0.265199 | 2_3:+2468189 | Msa0271170:CDS |
| TGCAATTTGCTTCAACTTGT+TGG | 0.295796 | 2_3:-2468082 | None:intergenic |
| ATTATTCTCTTCTTCAACAA+TGG | 0.469861 | 2_3:-2468181 | None:intergenic |
| GATTCCAATGAAGAAAATGT+TGG | 0.544907 | 2_3:+2468155 | Msa0271170:CDS |
| CGAGGTTTGTGTCCGTGACA+AGG | 0.548743 | 2_3:+2468133 | Msa0271170:CDS |
| TTCCTCTAGAAGCACTCTAT+CGG | 0.558882 | 2_3:+2468254 | Msa0271170:CDS |
| CTTCATTGGAATCCTTGTCA+CGG | 0.575356 | 2_3:-2468145 | None:intergenic |
| AAACCTCGGTGGAGCAACCT+CGG | 0.583075 | 2_3:-2468118 | None:intergenic |
| CTCCGATAGAGTGCTTCTAG+AGG | 0.621305 | 2_3:-2468256 | None:intergenic |
| CTTGTCACGGACACAAACCT+CGG | 0.670005 | 2_3:-2468132 | None:intergenic |
| GTCACGGACACAAACCTCGG+TGG | 0.681486 | 2_3:-2468129 | None:intergenic |
| TGCAAAATTAATCACCACCG+AGG | 0.685905 | 2_3:+2468101 | Msa0271170:CDS |
| CTAGAAGCACTCTATCGGAG+AGG | 0.693977 | 2_3:+2468259 | Msa0271170:CDS |
| CCTCGGTGGAGCAACCTCGG+TGG | 0.722128 | 2_3:-2468115 | None:intergenic |
| CCACCGAGGTTGCTCCACCG+AGG | 0.725317 | 2_3:+2468115 | Msa0271170:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTCATTATTAACAACTTG+TGG | + | chr2_3:2468225-2468244 | Msa0271170:CDS | 20.0% |
| ! | ATTATTCTCTTCTTCAACAA+TGG | - | chr2_3:2468184-2468203 | None:intergenic | 25.0% |
| !! | GAAGAAGAGAATAATGATTT+TGG | + | chr2_3:2468189-2468208 | Msa0271170:CDS | 25.0% |
| GATTCCAATGAAGAAAATGT+TGG | + | chr2_3:2468155-2468174 | Msa0271170:CDS | 30.0% | |
| ! | GTATCCAACATTTTCTTCAT+TGG | - | chr2_3:2468162-2468181 | None:intergenic | 30.0% |
| ! | TGCAATTTGCTTCAACTTGT+TGG | - | chr2_3:2468085-2468104 | None:intergenic | 35.0% |
| TGCAAAATTAATCACCACCG+AGG | + | chr2_3:2468101-2468120 | Msa0271170:CDS | 40.0% | |
| CTTCATTGGAATCCTTGTCA+CGG | - | chr2_3:2468148-2468167 | None:intergenic | 40.0% | |
| !! | TTCCTCTAGAAGCACTCTAT+CGG | + | chr2_3:2468254-2468273 | Msa0271170:CDS | 40.0% |
| CTTGTCACGGACACAAACCT+CGG | - | chr2_3:2468135-2468154 | None:intergenic | 50.0% | |
| ! | CTCCGATAGAGTGCTTCTAG+AGG | - | chr2_3:2468259-2468278 | None:intergenic | 50.0% |
| !! | CTAGAAGCACTCTATCGGAG+AGG | + | chr2_3:2468259-2468278 | Msa0271170:CDS | 50.0% |
| AAACCTCGGTGGAGCAACCT+CGG | - | chr2_3:2468121-2468140 | None:intergenic | 55.0% | |
| CGAGGTTTGTGTCCGTGACA+AGG | + | chr2_3:2468133-2468152 | Msa0271170:CDS | 55.0% | |
| GTCACGGACACAAACCTCGG+TGG | - | chr2_3:2468132-2468151 | None:intergenic | 60.0% | |
| CCTCGGTGGAGCAACCTCGG+TGG | - | chr2_3:2468118-2468137 | None:intergenic | 70.0% | |
| CCACCGAGGTTGCTCCACCG+AGG | + | chr2_3:2468115-2468134 | Msa0271170:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 2468078 | 2468296 | 2468078 | ID=Msa0271170;Name=Msa0271170 |
| chr2_3 | mRNA | 2468078 | 2468296 | 2468078 | ID=Msa0271170-mRNA-1;Parent=Msa0271170;Name=Msa0271170-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|-1|0|1|-1|1|1|0|72 |
| chr2_3 | exon | 2468078 | 2468296 | 2468078 | ID=Msa0271170-mRNA-1:exon:1194;Parent=Msa0271170-mRNA-1 |
| chr2_3 | CDS | 2468078 | 2468296 | 2468078 | ID=Msa0271170-mRNA-1:cds;Parent=Msa0271170-mRNA-1 |
| Gene Sequence |
| Protein sequence |
