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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0627760 | XP_013454667.1 | 95.349 | 86 | 2 | 1 | 1 | 84 | 1 | 86 | 1.17e-49 | 161 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0627760 | A0A072UHU7 | 95.349 | 86 | 2 | 1 | 1 | 84 | 1 | 86 | 5.58e-50 | 161 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0587540 | Msa0627760 | 0.800786 | 1.223937e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0627760 | MtrunA17_Chr4g0003591 | 95.349 | 86 | 2 | 1 | 1 | 84 | 1 | 86 | 1.07e-53 | 161 |
| Msa0627760 | MtrunA17_Chr2g0332831 | 56.250 | 96 | 28 | 4 | 1 | 83 | 1 | 95 | 1.95e-25 | 90.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 14 sgRNAs with CRISPR-Local
Find 16 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTTGGTGATTGTGGCTTGA+TGG | 0.212503 | 4_3:-8195854 | None:intergenic |
| GTTTGATCTCTTCCTTTCCT+TGG | 0.347061 | 4_3:-8195871 | None:intergenic |
| CTTCCTTTCCTTGGTGATTG+TGG | 0.377051 | 4_3:-8195862 | None:intergenic |
| ATTATGAGAAAATGCTTGCT+AGG | 0.453535 | 4_3:+8196056 | Msa0627760:CDS |
| TTATGAGAAAATGCTTGCTA+GGG | 0.510063 | 4_3:+8196057 | Msa0627760:CDS |
| CTGCCTAAAATTCTTAATGA+AGG | 0.513078 | 4_3:-8195999 | None:intergenic |
| GCATTGATATCTTCTTCACT+TGG | 0.515090 | 4_3:-8195965 | None:intergenic |
| GGCAGCAGCTTATGCTTCAG+AGG | 0.527016 | 4_3:+8196017 | Msa0627760:CDS |
| TTGCAAATAGCTCTTTCTCA+TGG | 0.538159 | 4_3:-8195831 | None:intergenic |
| AGAAAATGCTTGCTAGGGGA+CGG | 0.603069 | 4_3:+8196062 | Msa0627760:CDS |
| ATCAAACAAGAAAGCTAGAG+AGG | 0.612578 | 4_3:+8195939 | Msa0627760:CDS |
| AAGCCACAATCACCAAGGAA+AGG | 0.625445 | 4_3:+8195859 | Msa0627760:CDS |
| TATGAGAAAATGCTTGCTAG+GGG | 0.668349 | 4_3:+8196058 | Msa0627760:CDS |
| CCATCAAGCCACAATCACCA+AGG | 0.709521 | 4_3:+8195854 | Msa0627760:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATGCCTTCATTAAGAATTTT+AGG | + | chr4_3:8195996-8196015 | Msa0627760:CDS | 25.0% |
| !! | CATTTTCTCATAATTCTCAA+TGG | - | chr4_3:8196050-8196069 | None:intergenic | 25.0% |
| CTGCCTAAAATTCTTAATGA+AGG | - | chr4_3:8196002-8196021 | None:intergenic | 30.0% | |
| ATTATGAGAAAATGCTTGCT+AGG | + | chr4_3:8196056-8196075 | Msa0627760:CDS | 30.0% | |
| ! | TTATGAGAAAATGCTTGCTA+GGG | + | chr4_3:8196057-8196076 | Msa0627760:CDS | 30.0% |
| ATCAAACAAGAAAGCTAGAG+AGG | + | chr4_3:8195939-8195958 | Msa0627760:CDS | 35.0% | |
| ! | GCATTGATATCTTCTTCACT+TGG | - | chr4_3:8195968-8195987 | None:intergenic | 35.0% |
| ! | TATGAGAAAATGCTTGCTAG+GGG | + | chr4_3:8196058-8196077 | Msa0627760:CDS | 35.0% |
| GTTTGATCTCTTCCTTTCCT+TGG | - | chr4_3:8195874-8195893 | None:intergenic | 40.0% | |
| AAGCCACAATCACCAAGGAA+AGG | + | chr4_3:8195859-8195878 | Msa0627760:CDS | 45.0% | |
| ! | CTTCCTTTCCTTGGTGATTG+TGG | - | chr4_3:8195865-8195884 | None:intergenic | 45.0% |
| ! | AGAAAATGCTTGCTAGGGGA+CGG | + | chr4_3:8196062-8196081 | Msa0627760:CDS | 45.0% |
| ! | CCTTGGTGATTGTGGCTTGA+TGG | - | chr4_3:8195857-8195876 | None:intergenic | 50.0% |
| CCATCAAGCCACAATCACCA+AGG | + | chr4_3:8195854-8195873 | Msa0627760:CDS | 50.0% | |
| GGCAGCAGCTTATGCTTCAG+AGG | + | chr4_3:8196017-8196036 | Msa0627760:CDS | 55.0% | |
| ATCGTCGTCGTCGTCGCATG+AGG | + | chr4_3:8195898-8195917 | Msa0627760:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 8195833 | 8196087 | 8195833 | ID=Msa0627760;Name=Msa0627760 |
| chr4_3 | mRNA | 8195833 | 8196087 | 8195833 | ID=Msa0627760-mRNA-1;Parent=Msa0627760;Name=Msa0627760-mRNA-1;_AED=0.05;_eAED=0.05;_QI=0|-1|0|1|-1|1|1|0|84 |
| chr4_3 | exon | 8195833 | 8196087 | 8195833 | ID=Msa0627760-mRNA-1:exon:2357;Parent=Msa0627760-mRNA-1 |
| chr4_3 | CDS | 8195833 | 8196087 | 8195833 | ID=Msa0627760-mRNA-1:cds;Parent=Msa0627760-mRNA-1 |
| Gene Sequence |
| Protein sequence |
