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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0874360 | RHN50232.1 | 94.253 | 87 | 5 | 0 | 23 | 109 | 56 | 142 | 2.87e-53 | 173 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0874360 | A0A396HA82 | 94.253 | 87 | 5 | 0 | 23 | 109 | 56 | 142 | 1.37e-53 | 173 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0874360 | Msa0874570 | 0.845768 | 3.305102e-59 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0874360 | MtrunA17_Chr6g0455241 | 94.253 | 87 | 5 | 0 | 23 | 109 | 56 | 142 | 2.64e-57 | 173 |
| Msa0874360 | MtrunA17_Chr6g0455271 | 89.691 | 97 | 9 | 1 | 4 | 100 | 2 | 97 | 7.92e-48 | 149 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 22 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTTGCTTGCCTTCTCAAAA+TGG | 0.248342 | 6_1:-10176741 | Msa0874360:CDS |
| TCATGCAGCAAGAATGCTTT+TGG | 0.265450 | 6_1:-10176844 | Msa0874360:CDS |
| AACAACTTCATTGAAGATAA+AGG | 0.290088 | 6_1:-10176931 | Msa0874360:CDS |
| ATTGGATCAATAAGATAATA+AGG | 0.313764 | 6_1:+10176967 | None:intergenic |
| TTGTTGTGCTTAGATGTAAT+TGG | 0.369952 | 6_1:+10176949 | None:intergenic |
| ACAACTTCATTGAAGATAAA+GGG | 0.370236 | 6_1:-10176930 | Msa0874360:CDS |
| TTGTCTGACCAACAATGATT+TGG | 0.371509 | 6_1:-10176892 | Msa0874360:CDS |
| TTCTGATTCCAAATCATTGT+TGG | 0.372110 | 6_1:+10176884 | None:intergenic |
| GTTAAGTGTCCTTATGTTCA+AGG | 0.391508 | 6_1:-10176771 | Msa0874360:CDS |
| TAAGTACCACACCTATTGTT+AGG | 0.400080 | 6_1:+10176711 | None:intergenic |
| CAAACACAAACTGGTAGAAC+TGG | 0.449515 | 6_1:-10176813 | Msa0874360:CDS |
| GTACGATAGCCTTGAACATA+AGG | 0.451229 | 6_1:+10176762 | None:intergenic |
| GATTTGAGTCAAACACAAAC+TGG | 0.464256 | 6_1:-10176822 | Msa0874360:CDS |
| ATGGAGGTGGACCTAACAAT+AGG | 0.486497 | 6_1:-10176722 | Msa0874360:CDS |
| TTGCCTTCTCAAAATGGAGG+TGG | 0.550109 | 6_1:-10176735 | Msa0874360:CDS |
| ACCAATGAAGAAAATGAACA+AGG | 0.616365 | 6_1:-10177006 | None:intergenic |
| TGCTTGCCTTCTCAAAATGG+AGG | 0.620754 | 6_1:-10176738 | Msa0874360:CDS |
| CCAATGAAGAAAATGAACAA+GGG | 0.641459 | 6_1:-10177005 | Msa0874360:CDS |
| GGTAGAACTGGTAACAACAA+TGG | 0.669601 | 6_1:-10176801 | Msa0874360:CDS |
| GATAAAGGGTTGTACCTCAG+AGG | 0.671194 | 6_1:-10176916 | Msa0874360:CDS |
| GGTGGACCTAACAATAGGTG+TGG | 0.694293 | 6_1:-10176717 | Msa0874360:CDS |
| GTTGGTCAGACAATCCTCTG+AGG | 0.753529 | 6_1:+10176902 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTGGATCAATAAGATAATA+AGG | + | chr6_1:10176733-10176752 | None:intergenic | 20.0% |
| !! | ATTGGATCAATAAGATAATA+AGG | + | chr6_1:10176733-10176752 | None:intergenic | 20.0% |
| ! | AACAACTTCATTGAAGATAA+AGG | - | chr6_1:10176766-10176785 | Msa0874360:CDS | 25.0% |
| ! | ACAACTTCATTGAAGATAAA+GGG | - | chr6_1:10176767-10176786 | Msa0874360:CDS | 25.0% |
| ! | AACAACTTCATTGAAGATAA+AGG | - | chr6_1:10176766-10176785 | Msa0874360:CDS | 25.0% |
| ! | ACAACTTCATTGAAGATAAA+GGG | - | chr6_1:10176767-10176786 | Msa0874360:CDS | 25.0% |
| TTGTTGTGCTTAGATGTAAT+TGG | + | chr6_1:10176751-10176770 | None:intergenic | 30.0% | |
| TTCTGATTCCAAATCATTGT+TGG | + | chr6_1:10176816-10176835 | None:intergenic | 30.0% | |
| TTGTTGTGCTTAGATGTAAT+TGG | + | chr6_1:10176751-10176770 | None:intergenic | 30.0% | |
| TTCTGATTCCAAATCATTGT+TGG | + | chr6_1:10176816-10176835 | None:intergenic | 30.0% | |
| TTGTCTGACCAACAATGATT+TGG | - | chr6_1:10176805-10176824 | Msa0874360:CDS | 35.0% | |
| GATTTGAGTCAAACACAAAC+TGG | - | chr6_1:10176875-10176894 | Msa0874360:CDS | 35.0% | |
| GTTAAGTGTCCTTATGTTCA+AGG | - | chr6_1:10176926-10176945 | Msa0874360:CDS | 35.0% | |
| TAAGTACCACACCTATTGTT+AGG | + | chr6_1:10176989-10177008 | None:intergenic | 35.0% | |
| TTGTCTGACCAACAATGATT+TGG | - | chr6_1:10176805-10176824 | Msa0874360:CDS | 35.0% | |
| GATTTGAGTCAAACACAAAC+TGG | - | chr6_1:10176875-10176894 | Msa0874360:CDS | 35.0% | |
| GTTAAGTGTCCTTATGTTCA+AGG | - | chr6_1:10176926-10176945 | Msa0874360:CDS | 35.0% | |
| TAAGTACCACACCTATTGTT+AGG | + | chr6_1:10176989-10177008 | None:intergenic | 35.0% | |
| ! | TCATGCAGCAAGAATGCTTT+TGG | - | chr6_1:10176853-10176872 | Msa0874360:CDS | 40.0% |
| CAAACACAAACTGGTAGAAC+TGG | - | chr6_1:10176884-10176903 | Msa0874360:CDS | 40.0% | |
| GGTAGAACTGGTAACAACAA+TGG | - | chr6_1:10176896-10176915 | Msa0874360:CDS | 40.0% | |
| ! | GTACGATAGCCTTGAACATA+AGG | + | chr6_1:10176938-10176957 | None:intergenic | 40.0% |
| ACTTGCTTGCCTTCTCAAAA+TGG | - | chr6_1:10176956-10176975 | Msa0874360:CDS | 40.0% | |
| ! | TCATGCAGCAAGAATGCTTT+TGG | - | chr6_1:10176853-10176872 | Msa0874360:CDS | 40.0% |
| CAAACACAAACTGGTAGAAC+TGG | - | chr6_1:10176884-10176903 | Msa0874360:CDS | 40.0% | |
| GGTAGAACTGGTAACAACAA+TGG | - | chr6_1:10176896-10176915 | Msa0874360:CDS | 40.0% | |
| ! | GTACGATAGCCTTGAACATA+AGG | + | chr6_1:10176938-10176957 | None:intergenic | 40.0% |
| ACTTGCTTGCCTTCTCAAAA+TGG | - | chr6_1:10176956-10176975 | Msa0874360:CDS | 40.0% | |
| GATAAAGGGTTGTACCTCAG+AGG | - | chr6_1:10176781-10176800 | Msa0874360:CDS | 45.0% | |
| TGCTTGCCTTCTCAAAATGG+AGG | - | chr6_1:10176959-10176978 | Msa0874360:CDS | 45.0% | |
| TTGCCTTCTCAAAATGGAGG+TGG | - | chr6_1:10176962-10176981 | Msa0874360:CDS | 45.0% | |
| ATGGAGGTGGACCTAACAAT+AGG | - | chr6_1:10176975-10176994 | Msa0874360:CDS | 45.0% | |
| GATAAAGGGTTGTACCTCAG+AGG | - | chr6_1:10176781-10176800 | Msa0874360:CDS | 45.0% | |
| TGCTTGCCTTCTCAAAATGG+AGG | - | chr6_1:10176959-10176978 | Msa0874360:CDS | 45.0% | |
| TTGCCTTCTCAAAATGGAGG+TGG | - | chr6_1:10176962-10176981 | Msa0874360:CDS | 45.0% | |
| ATGGAGGTGGACCTAACAAT+AGG | - | chr6_1:10176975-10176994 | Msa0874360:CDS | 45.0% | |
| GTTGGTCAGACAATCCTCTG+AGG | + | chr6_1:10176798-10176817 | None:intergenic | 50.0% | |
| !! | GGTCCACCTCCATTTTGAGA+AGG | + | chr6_1:10176968-10176987 | None:intergenic | 50.0% |
| GGTGGACCTAACAATAGGTG+TGG | - | chr6_1:10176980-10176999 | Msa0874360:CDS | 50.0% | |
| GTTGGTCAGACAATCCTCTG+AGG | + | chr6_1:10176798-10176817 | None:intergenic | 50.0% | |
| !! | GGTCCACCTCCATTTTGAGA+AGG | + | chr6_1:10176968-10176987 | None:intergenic | 50.0% |
| GGTGGACCTAACAATAGGTG+TGG | - | chr6_1:10176980-10176999 | Msa0874360:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_1 | gene | 10176695 | 10177024 | 10176695 | ID=Msa0874360;Name=Msa0874360 |
| chr6_1 | mRNA | 10176695 | 10177024 | 10176695 | ID=Msa0874360-mRNA-1;Parent=Msa0874360;Name=Msa0874360-mRNA-1;_AED=0.22;_eAED=0.22;_QI=0|-1|0|1|-1|1|1|0|109 |
| chr6_1 | exon | 10176695 | 10177024 | 10176695 | ID=Msa0874360-mRNA-1:exon:3101;Parent=Msa0874360-mRNA-1 |
| chr6_1 | CDS | 10176695 | 10177024 | 10176695 | ID=Msa0874360-mRNA-1:cds;Parent=Msa0874360-mRNA-1 |
| Gene Sequence |
| Protein sequence |
