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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0443520 | AES69063.1 | 64.167 | 120 | 16 | 1 | 1 | 93 | 1 | 120 | 1.59e-42 | 145 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0443520 | sp|G7J1L1|TF80_MEDTR | 41.379 | 145 | 30 | 2 | 1 | 93 | 125 | 266 | 3.37e-24 | 97.8 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0443520 | G7IZ35 | 64.167 | 120 | 16 | 1 | 1 | 93 | 1 | 120 | 7.59e-43 | 145 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0443520 | TF | GRAS |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0443520 | MtrunA17_Chr3g0085361 | 41.379 | 145 | 30 | 2 | 1 | 93 | 40 | 181 | 5.03e-26 | 99.0 |
| Msa0443520 | MtrunA17_Chr3g0085681 | 41.379 | 145 | 30 | 2 | 1 | 93 | 125 | 266 | 2.48e-25 | 97.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAAGATTTATACATTGGTC+TGG | 0.452210 | 3_3:-14543730 | None:intergenic |
| TTTGTAGAAGATTTATACAT+TGG | 0.488917 | 3_3:-14543735 | None:intergenic |
| GCTGGGAGAATCTCACCAAC+AGG | 0.492404 | 3_3:+14544011 | Msa0443520:CDS |
| GCCACTGATGATGAAACGGC+TGG | 0.498256 | 3_3:+14543993 | Msa0443520:CDS |
| CCTCGCCACTGATGATGAAA+CGG | 0.507447 | 3_3:+14543989 | Msa0443520:CDS |
| CTCTGCAGATTGATAAATGC+CGG | 0.527470 | 3_3:-14544035 | Msa0443530:intron |
| ACAAATTTCAAAGAAAAGTG+AGG | 0.562576 | 3_3:+14543753 | Msa0443520:CDS |
| CCCAGCCGTTTCATCATCAG+TGG | 0.570009 | 3_3:-14543994 | Msa0443530:CDS |
| TGAATCAATGGAATGTGAAA+AGG | 0.574564 | 3_3:+14543675 | None:intergenic |
| GAGAATCTCACCAACAGGAC+CGG | 0.575709 | 3_3:+14544016 | Msa0443520:CDS |
| GTCAGAGGGATTTCGAAAAG+TGG | 0.585911 | 3_3:+14544072 | Msa0443520:CDS |
| TTGATAAATGCCGGTCCTGT+TGG | 0.590041 | 3_3:-14544026 | Msa0443530:CDS |
| CAAATTTCAAAGAAAAGTGA+GGG | 0.592779 | 3_3:+14543754 | Msa0443520:CDS |
| AACAGTACACATAAGTCAGA+GGG | 0.595966 | 3_3:+14544058 | Msa0443520:CDS |
| GAACAGTACACATAAGTCAG+AGG | 0.608684 | 3_3:+14544057 | Msa0443520:CDS |
| CCACTGATGATGAAACGGCT+GGG | 0.611709 | 3_3:+14543994 | Msa0443520:CDS |
| ATCAATGGAATGTGAAAAGG+TGG | 0.639942 | 3_3:+14543678 | None:intergenic |
| CCGTTTCATCATCAGTGGCG+AGG | 0.647184 | 3_3:-14543989 | Msa0443530:CDS |
| ATTTCAAAGAAAAGTGAGGG+AGG | 0.650995 | 3_3:+14543757 | Msa0443520:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTGTAGAAGATTTATACAT+TGG | - | chr3_3:14543738-14543757 | None:intergenic | 20.0% |
| !!! | ATTCTTGTAATTTTCAGATA+GGG | - | chr3_3:14543787-14543806 | None:intergenic | 20.0% |
| !!! | AATTCTTGTAATTTTCAGAT+AGG | - | chr3_3:14543788-14543807 | None:intergenic | 20.0% |
| ! | ACAAATTTCAAAGAAAAGTG+AGG | + | chr3_3:14543753-14543772 | Msa0443520:CDS | 25.0% |
| ! | CAAATTTCAAAGAAAAGTGA+GGG | + | chr3_3:14543754-14543773 | Msa0443520:CDS | 25.0% |
| ! | TCATGAAAAGAAAGATGTAT+TGG | + | chr3_3:14543807-14543826 | Msa0443520:intron | 25.0% |
| ! | AACTTTGGATTAATCTGTAA+AGG | - | chr3_3:14543880-14543899 | Msa0443530:three_prime_UTR | 25.0% |
| !!! | ATTTTTGAGTTTGCTAACTT+TGG | - | chr3_3:14543895-14543914 | Msa0443530:three_prime_UTR | 25.0% |
| AGAAGATTTATACATTGGTC+TGG | - | chr3_3:14543733-14543752 | None:intergenic | 30.0% | |
| TTGTCAAACGAAAACTCATT+TGG | - | chr3_3:14543834-14543853 | None:intergenic | 30.0% | |
| ! | AATGAGTTTTCGTTTGACAA+TGG | + | chr3_3:14543834-14543853 | Msa0443520:intron | 30.0% |
| ATTTCAAAGAAAAGTGAGGG+AGG | + | chr3_3:14543757-14543776 | Msa0443520:CDS | 35.0% | |
| ! | CTTGTAATTTTCAGATAGGG+TGG | - | chr3_3:14543784-14543803 | None:intergenic | 35.0% |
| AACAGTACACATAAGTCAGA+GGG | + | chr3_3:14544058-14544077 | Msa0443520:CDS | 35.0% | |
| TTTCGTTTGACAATGGAACC+AGG | + | chr3_3:14543841-14543860 | Msa0443520:intron | 40.0% | |
| TTCGTTTGACAATGGAACCA+GGG | + | chr3_3:14543842-14543861 | Msa0443520:intron | 40.0% | |
| AAAGGAAAATGCAAGTTCCC+TGG | - | chr3_3:14543862-14543881 | None:intergenic | 40.0% | |
| CTCTGCAGATTGATAAATGC+CGG | - | chr3_3:14544038-14544057 | Msa0443530:intron | 40.0% | |
| GAACAGTACACATAAGTCAG+AGG | + | chr3_3:14544057-14544076 | Msa0443520:CDS | 40.0% | |
| TTGATAAATGCCGGTCCTGT+TGG | - | chr3_3:14544029-14544048 | Msa0443530:CDS | 45.0% | |
| GTCAGAGGGATTTCGAAAAG+TGG | + | chr3_3:14544072-14544091 | Msa0443520:CDS | 45.0% | |
| ! | CCTCGCCACTGATGATGAAA+CGG | + | chr3_3:14543989-14544008 | Msa0443520:CDS | 50.0% |
| ! | CCACTGATGATGAAACGGCT+GGG | + | chr3_3:14543994-14544013 | Msa0443520:CDS | 50.0% |
| GAGAATCTCACCAACAGGAC+CGG | + | chr3_3:14544016-14544035 | Msa0443520:CDS | 50.0% | |
| CCGTTTCATCATCAGTGGCG+AGG | - | chr3_3:14543992-14544011 | Msa0443530:CDS | 55.0% | |
| ! | GCCACTGATGATGAAACGGC+TGG | + | chr3_3:14543993-14544012 | Msa0443520:CDS | 55.0% |
| CCCAGCCGTTTCATCATCAG+TGG | - | chr3_3:14543997-14544016 | Msa0443530:CDS | 55.0% | |
| GCTGGGAGAATCTCACCAAC+AGG | + | chr3_3:14544011-14544030 | Msa0443520:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 14543682 | 14544154 | 14543682 | ID=Msa0443520;Name=Msa0443520 |
| chr3_3 | mRNA | 14543682 | 14544154 | 14543682 | ID=Msa0443520-mRNA-1;Parent=Msa0443520;Name=Msa0443520-mRNA-1;_AED=0.35;_eAED=0.35;_QI=0|0|0|1|0|0.5|2|0|105 |
| chr3_3 | exon | 14543682 | 14543822 | 14543682 | ID=Msa0443520-mRNA-1:exon:3208;Parent=Msa0443520-mRNA-1 |
| chr3_3 | exon | 14543978 | 14544154 | 14543978 | ID=Msa0443520-mRNA-1:exon:3209;Parent=Msa0443520-mRNA-1 |
| chr3_3 | CDS | 14543682 | 14543822 | 14543682 | ID=Msa0443520-mRNA-1:cds;Parent=Msa0443520-mRNA-1 |
| chr3_3 | CDS | 14543978 | 14544154 | 14543978 | ID=Msa0443520-mRNA-1:cds;Parent=Msa0443520-mRNA-1 |
| Gene Sequence |
| Protein sequence |
