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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0576230 | KEH21431.1 | 76.250 | 80 | 19 | 0 | 3 | 82 | 2 | 81 | 6.07e-36 | 136 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0576230 | A0A072TW96 | 76.250 | 80 | 19 | 0 | 3 | 82 | 2 | 81 | 2.90e-36 | 136 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0453350 | Msa0576230 | 0.812739 | 3.644019e-51 | -8.615850e-47 |
| Msa0307830 | Msa0576230 | -0.803109 | 4.077656e-49 | -8.615850e-47 |
| Msa0317510 | Msa0576230 | 0.802076 | 6.659314e-49 | -8.615850e-47 |
| Msa0576230 | Msa0923330 | 0.803220 | 3.868481e-49 | -8.615850e-47 |
| Msa0576230 | Msa1204530 | 0.801337 | 9.441094e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0576230 | MtrunA17_Chr8g0393131 | 76.250 | 80 | 19 | 0 | 3 | 82 | 2 | 81 | 7.43e-40 | 136 |
| 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 22 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTGTTTCATCAATCACTCTA+AGG | 0.355891 | 4_1:+80297269 | None:intergenic |
| CCGTGCCATTAGTGAACTTT+GGG | 0.370191 | 4_1:+80297305 | None:intergenic |
| TCCGTGCCATTAGTGAACTT+TGG | 0.391027 | 4_1:+80297304 | None:intergenic |
| AGAAAACAGCATTTACTTCC+TGG | 0.404273 | 4_1:+80297060 | None:intergenic |
| ATTGCTGTTGTTATTGAAGC+TGG | 0.413842 | 4_1:-80297331 | Msa0576230:CDS |
| GAGGAATGGGAGGAAGGAAA+AGG | 0.446369 | 4_1:-80297426 | None:intergenic |
| AGCCTTCCACATGTTTCTCC+TGG | 0.470522 | 4_1:-80297199 | Msa0576230:intron |
| TGACTACGCGTTACTTCGAT+TGG | 0.475837 | 4_1:-80297392 | Msa0576230:CDS |
| GGTCTCCCAAAGTTCACTAA+TGG | 0.489256 | 4_1:-80297310 | Msa0576230:CDS |
| GAGGAAGGAAAAGGAAAAGT+AGG | 0.504312 | 4_1:-80297417 | Msa0576230:CDS |
| AGTTAACAGAGATAGATGTT+TGG | 0.517110 | 4_1:+80297242 | None:intergenic |
| CCCAAAGTTCACTAATGGCA+CGG | 0.581844 | 4_1:-80297305 | Msa0576230:CDS |
| GCAGGTAAGAAGACATGACC+AGG | 0.604151 | 4_1:-80297078 | Msa0576230:intron |
| CACCAGGAGAAACATGTGGA+AGG | 0.643881 | 4_1:+80297197 | None:intergenic |
| ATATCACCAGGAGAAACATG+TGG | 0.669575 | 4_1:+80297193 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TCTACTTTTGCATTATATAA+AGG | - | chr4_1:80297373-80297392 | Msa0576230:CDS | 20.0% |
| !!! | CTACTTTTGCATTATATAAA+GGG | - | chr4_1:80297374-80297393 | Msa0576230:CDS | 20.0% |
| ! | TATTGTTGAAGAAAAGGAAA+AGG | + | chr4_1:80297281-80297300 | None:intergenic | 25.0% |
| ! | GAATGATATTGTTGAAGAAA+AGG | + | chr4_1:80297287-80297306 | None:intergenic | 25.0% |
| !! | ATTCTTTTTCTCTATTTTGC+AGG | - | chr4_1:80297303-80297322 | Msa0576230:CDS | 25.0% |
| AGTTAACAGAGATAGATGTT+TGG | + | chr4_1:80297160-80297179 | None:intergenic | 30.0% | |
| AAAAGCTAAGAACATACGTA+CGG | + | chr4_1:80297252-80297271 | None:intergenic | 30.0% | |
| TGAAGAAAAGGAAAAGGAAA+AGG | + | chr4_1:80297275-80297294 | None:intergenic | 30.0% | |
| ! | ATTGCTGTTGTTATTGAAGC+TGG | - | chr4_1:80297068-80297087 | Msa0576230:exon | 35.0% |
| GTGTTTCATCAATCACTCTA+AGG | + | chr4_1:80297133-80297152 | None:intergenic | 35.0% | |
| AGAAAACAGCATTTACTTCC+TGG | + | chr4_1:80297342-80297361 | None:intergenic | 35.0% | |
| GAGGAAGGAAAAGGAAAAGT+AGG | - | chr4_1:80296982-80297001 | Msa0576230:three_prime_UTR | 40.0% | |
| ATATCACCAGGAGAAACATG+TGG | + | chr4_1:80297209-80297228 | None:intergenic | 40.0% | |
| CGAAGAAGAATGATATCACC+AGG | + | chr4_1:80297221-80297240 | None:intergenic | 40.0% | |
| TGACTACGCGTTACTTCGAT+TGG | - | chr4_1:80297007-80297026 | Msa0576230:three_prime_UTR | 45.0% | |
| GGTCTCCCAAAGTTCACTAA+TGG | - | chr4_1:80297089-80297108 | Msa0576230:intron | 45.0% | |
| ! | CCGTGCCATTAGTGAACTTT+GGG | + | chr4_1:80297097-80297116 | None:intergenic | 45.0% |
| CCCAAAGTTCACTAATGGCA+CGG | - | chr4_1:80297094-80297113 | Msa0576230:intron | 45.0% | |
| ! | TCCGTGCCATTAGTGAACTT+TGG | + | chr4_1:80297098-80297117 | None:intergenic | 45.0% |
| AGCCTTCCACATGTTTCTCC+TGG | - | chr4_1:80297200-80297219 | Msa0576230:CDS | 50.0% | |
| CACCAGGAGAAACATGTGGA+AGG | + | chr4_1:80297205-80297224 | None:intergenic | 50.0% | |
| GCAGGTAAGAAGACATGACC+AGG | - | chr4_1:80297321-80297340 | Msa0576230:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 80296978 | 80297443 | 80296978 | ID=Msa0576230;Name=Msa0576230 |
| chr4_1 | mRNA | 80296978 | 80297443 | 80296978 | ID=Msa0576230-mRNA-1;Parent=Msa0576230;Name=Msa0576230-mRNA-1;_AED=0.24;_eAED=0.75;_QI=0|0|0.5|1|0|0.5|2|105|85 |
| chr4_1 | exon | 80296978 | 80297096 | 80296978 | ID=Msa0576230-mRNA-1:exon:28732;Parent=Msa0576230-mRNA-1 |
| chr4_1 | exon | 80297200 | 80297443 | 80297200 | ID=Msa0576230-mRNA-1:exon:28731;Parent=Msa0576230-mRNA-1 |
| chr4_1 | CDS | 80297200 | 80297443 | 80297200 | ID=Msa0576230-mRNA-1:cds;Parent=Msa0576230-mRNA-1 |
| chr4_1 | CDS | 80297083 | 80297096 | 80297083 | ID=Msa0576230-mRNA-1:cds;Parent=Msa0576230-mRNA-1 |
| chr4_1 | three_prime_UTR | 80296978 | 80297082 | 80296978 | ID=Msa0576230-mRNA-1:three_prime_utr;Parent=Msa0576230-mRNA-1 |
| Gene Sequence |
| Protein sequence |
