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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0512780 | KEH35169.1 | 80.347 | 173 | 10 | 3 | 1 | 149 | 1 | 173 | 1.76e-87 | 263 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0512780 | A0A072UZD5 | 80.347 | 173 | 10 | 3 | 1 | 149 | 1 | 173 | 8.42e-88 | 263 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0512780 | TR | Others |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0512780 | MtrunA17_Chr3g0120121 | 86.885 | 122 | 7 | 2 | 37 | 149 | 1 | 122 | 9.90e-69 | 203 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 21 sgRNAs with CRISPR-Local
Find 108 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAAAGCAAAATTTCCATTT+AGG | 0.111591 | 3_4:+62705561 | Msa0512780:CDS |
| GCAAAGCTAGATTTCAAAAT+TGG | 0.182403 | 3_4:+62705964 | Msa0512780:CDS |
| GAAGTGGAAATTACCCTAAA+TGG | 0.188466 | 3_4:-62705575 | None:intergenic |
| GAAAGCAAAATTTCCATTTA+GGG | 0.224342 | 3_4:+62705562 | Msa0512780:CDS |
| GATGAAACGAAATTGTTGTT+TGG | 0.350812 | 3_4:+62705993 | Msa0512780:CDS |
| TGCAGGCTAGAGCGATAATA+TGG | 0.383290 | 3_4:+62706512 | Msa0512780:intron |
| ATGGTTGGCAAGTCAAGAAA+TGG | 0.426643 | 3_4:+62706531 | Msa0512780:CDS |
| CAAGAAATGGAAGGAAAGAA+TGG | 0.466725 | 3_4:+62706544 | Msa0512780:CDS |
| ATGCACTAGGTTGCATTGAA+AGG | 0.491779 | 3_4:-62706597 | None:intergenic |
| TGCACTAGGTTGCATTGAAA+GGG | 0.509370 | 3_4:-62706596 | None:intergenic |
| ACACCACAGATTTGACGAAA+AGG | 0.545745 | 3_4:+62706184 | Msa0512780:CDS |
| TGCATTGAAAGGGATAGTGT+TGG | 0.550068 | 3_4:-62706586 | None:intergenic |
| GGCTAGAGCGATAATATGGT+TGG | 0.554001 | 3_4:+62706516 | Msa0512780:intron |
| TCCTTGAGAAGAGAAAGAAA+AGG | 0.554506 | 3_4:+62706671 | Msa0512780:CDS |
| TTACAAATGCATGCCTCACA+TGG | 0.582863 | 3_4:+62706619 | Msa0512780:CDS |
| CTTGTTGCAAATCCTCGCAA+TGG | 0.611244 | 3_4:+62706161 | Msa0512780:CDS |
| AATCTGTGGTGTCCATTGCG+AGG | 0.627615 | 3_4:-62706173 | None:intergenic |
| GCATGCATTTGTAATGCACT+AGG | 0.632578 | 3_4:-62706610 | None:intergenic |
| AAGACATCATGCATTGAGTG+TGG | 0.651335 | 3_4:+62705530 | Msa0512780:CDS |
| TTGGCAAGTCAAGAAATGGA+AGG | 0.668042 | 3_4:+62706535 | Msa0512780:CDS |
| CTTTATGGAAAAGCCATGTG+AGG | 0.679093 | 3_4:-62706632 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATGAAAAAATAAGTATATTA+TGG | - | chr3_4:62706465-62706484 | None:intergenic | 10.0% |
| !! | ATAAATCTTAATATAAACTT+TGG | + | chr3_4:62706488-62706507 | Msa0512780:intron | 10.0% |
| !! | ATGAAAAAATAAGTATATTA+TGG | - | chr3_4:62706465-62706484 | None:intergenic | 10.0% |
| !! | ATAAATCTTAATATAAACTT+TGG | + | chr3_4:62706488-62706507 | Msa0512780:intron | 10.0% |
| !!! | TCTTGGAAATTTTTTTTTGT+AGG | + | chr3_4:62706111-62706130 | Msa0512780:intron | 20.0% |
| !!! | TCTTGGAAATTTTTTTTTGT+AGG | + | chr3_4:62706111-62706130 | Msa0512780:intron | 20.0% |
| ! | AGAAAGCAAAATTTCCATTT+AGG | + | chr3_4:62705561-62705580 | Msa0512780:CDS | 25.0% |
| ! | GAAAGCAAAATTTCCATTTA+GGG | + | chr3_4:62705562-62705581 | Msa0512780:CDS | 25.0% |
| ! | ATTTCAAGGGTGATATATAT+AGG | - | chr3_4:62705793-62705812 | None:intergenic | 25.0% |
| !!! | TATGCTTTTTGTTAAACTCT+TGG | + | chr3_4:62706094-62706113 | Msa0512780:intron | 25.0% |
| !! | AAATTTTCTTCCACAAAACA+AGG | - | chr3_4:62706263-62706282 | None:intergenic | 25.0% |
| !!! | TTGTTTTGTGGAAGAAAATT+TGG | + | chr3_4:62706262-62706281 | Msa0512780:intron | 25.0% |
| ! | AGAAAGCAAAATTTCCATTT+AGG | + | chr3_4:62705561-62705580 | Msa0512780:CDS | 25.0% |
| ! | GAAAGCAAAATTTCCATTTA+GGG | + | chr3_4:62705562-62705581 | Msa0512780:CDS | 25.0% |
| ! | ATTTCAAGGGTGATATATAT+AGG | - | chr3_4:62705793-62705812 | None:intergenic | 25.0% |
| !!! | TATGCTTTTTGTTAAACTCT+TGG | + | chr3_4:62706094-62706113 | Msa0512780:intron | 25.0% |
| !! | AAATTTTCTTCCACAAAACA+AGG | - | chr3_4:62706263-62706282 | None:intergenic | 25.0% |
| !!! | TTGTTTTGTGGAAGAAAATT+TGG | + | chr3_4:62706262-62706281 | Msa0512780:intron | 25.0% |
| GCATGAGACATATATTTCAA+GGG | - | chr3_4:62705806-62705825 | None:intergenic | 30.0% | |
| TGCATGAGACATATATTTCA+AGG | - | chr3_4:62705807-62705826 | None:intergenic | 30.0% | |
| GTATGAGAAATGCTACATAT+TGG | - | chr3_4:62705899-62705918 | None:intergenic | 30.0% | |
| GCAAAGCTAGATTTCAAAAT+TGG | + | chr3_4:62705964-62705983 | Msa0512780:CDS | 30.0% | |
| ! | GATGAAACGAAATTGTTGTT+TGG | + | chr3_4:62705993-62706012 | Msa0512780:CDS | 30.0% |
| !!! | ATTTCTTCATCCTTGTTTTG+TGG | + | chr3_4:62706250-62706269 | Msa0512780:intron | 30.0% |
| ATTATCGCATGCAAAAAGTT+AGG | - | chr3_4:62706319-62706338 | None:intergenic | 30.0% | |
| TTAATATAAACTTTGGCTGC+AGG | + | chr3_4:62706495-62706514 | Msa0512780:intron | 30.0% | |
| !!! | ATTTTGAAGTGATCGCTTTA+TGG | - | chr3_4:62706650-62706669 | None:intergenic | 30.0% |
| GCATGAGACATATATTTCAA+GGG | - | chr3_4:62705806-62705825 | None:intergenic | 30.0% | |
| TGCATGAGACATATATTTCA+AGG | - | chr3_4:62705807-62705826 | None:intergenic | 30.0% | |
| GTATGAGAAATGCTACATAT+TGG | - | chr3_4:62705899-62705918 | None:intergenic | 30.0% | |
| GCAAAGCTAGATTTCAAAAT+TGG | + | chr3_4:62705964-62705983 | Msa0512780:CDS | 30.0% | |
| ! | GATGAAACGAAATTGTTGTT+TGG | + | chr3_4:62705993-62706012 | Msa0512780:CDS | 30.0% |
| !!! | ATTTCTTCATCCTTGTTTTG+TGG | + | chr3_4:62706250-62706269 | Msa0512780:intron | 30.0% |
| ATTATCGCATGCAAAAAGTT+AGG | - | chr3_4:62706319-62706338 | None:intergenic | 30.0% | |
| TTAATATAAACTTTGGCTGC+AGG | + | chr3_4:62706495-62706514 | Msa0512780:intron | 30.0% | |
| !!! | ATTTTGAAGTGATCGCTTTA+TGG | - | chr3_4:62706650-62706669 | None:intergenic | 30.0% |
| ! | CTCAATGCATGATGTCTTTT+TGG | - | chr3_4:62705528-62705547 | None:intergenic | 35.0% |
| GAAGTGGAAATTACCCTAAA+TGG | - | chr3_4:62705578-62705597 | None:intergenic | 35.0% | |
| AGGGTAATTTCCACTTCTAA+AGG | + | chr3_4:62705581-62705600 | Msa0512780:intron | 35.0% | |
| GGGTAATTTCCACTTCTAAA+GGG | + | chr3_4:62705582-62705601 | Msa0512780:intron | 35.0% | |
| TGTAGCTGCAAAGAAATAGA+AGG | + | chr3_4:62705613-62705632 | Msa0512780:intron | 35.0% | |
| AATTGAATGACTAGACACGT+GGG | - | chr3_4:62705756-62705775 | None:intergenic | 35.0% | |
| AAATTGAATGACTAGACACG+TGG | - | chr3_4:62705757-62705776 | None:intergenic | 35.0% | |
| AGGGTGATATATATAGGTGT+CGG | - | chr3_4:62705787-62705806 | None:intergenic | 35.0% | |
| TGCTACATATTGGAGAAGAA+AGG | - | chr3_4:62705889-62705908 | None:intergenic | 35.0% | |
| CGTGTATGGCAAAAAAAACA+TGG | + | chr3_4:62706341-62706360 | Msa0512780:intron | 35.0% | |
| ACATTGATCATTACACAGTG+TGG | - | chr3_4:62706413-62706432 | None:intergenic | 35.0% | |
| CAAGAAATGGAAGGAAAGAA+TGG | + | chr3_4:62706544-62706563 | Msa0512780:CDS | 35.0% | |
| TCCTTGAGAAGAGAAAGAAA+AGG | + | chr3_4:62706671-62706690 | Msa0512780:CDS | 35.0% | |
| ! | TCCTTTTCTTTCTCTTCTCA+AGG | - | chr3_4:62706675-62706694 | None:intergenic | 35.0% |
| ! | CTCAATGCATGATGTCTTTT+TGG | - | chr3_4:62705528-62705547 | None:intergenic | 35.0% |
| GAAGTGGAAATTACCCTAAA+TGG | - | chr3_4:62705578-62705597 | None:intergenic | 35.0% | |
| AGGGTAATTTCCACTTCTAA+AGG | + | chr3_4:62705581-62705600 | Msa0512780:intron | 35.0% | |
| GGGTAATTTCCACTTCTAAA+GGG | + | chr3_4:62705582-62705601 | Msa0512780:intron | 35.0% | |
| TGTAGCTGCAAAGAAATAGA+AGG | + | chr3_4:62705613-62705632 | Msa0512780:intron | 35.0% | |
| AATTGAATGACTAGACACGT+GGG | - | chr3_4:62705756-62705775 | None:intergenic | 35.0% | |
| AAATTGAATGACTAGACACG+TGG | - | chr3_4:62705757-62705776 | None:intergenic | 35.0% | |
| AGGGTGATATATATAGGTGT+CGG | - | chr3_4:62705787-62705806 | None:intergenic | 35.0% | |
| TGCTACATATTGGAGAAGAA+AGG | - | chr3_4:62705889-62705908 | None:intergenic | 35.0% | |
| CGTGTATGGCAAAAAAAACA+TGG | + | chr3_4:62706341-62706360 | Msa0512780:intron | 35.0% | |
| ACATTGATCATTACACAGTG+TGG | - | chr3_4:62706413-62706432 | None:intergenic | 35.0% | |
| CAAGAAATGGAAGGAAAGAA+TGG | + | chr3_4:62706544-62706563 | Msa0512780:CDS | 35.0% | |
| TCCTTGAGAAGAGAAAGAAA+AGG | + | chr3_4:62706671-62706690 | Msa0512780:CDS | 35.0% | |
| ! | TCCTTTTCTTTCTCTTCTCA+AGG | - | chr3_4:62706675-62706694 | None:intergenic | 35.0% |
| AAGACATCATGCATTGAGTG+TGG | + | chr3_4:62705530-62705549 | Msa0512780:CDS | 40.0% | |
| ! | ATTTGCTTGCCCTTTAGAAG+TGG | - | chr3_4:62705594-62705613 | None:intergenic | 40.0% |
| ATACACATCGAGTTACTGTG+TGG | + | chr3_4:62705645-62705664 | Msa0512780:intron | 40.0% | |
| ! | GGTGATATATATAGGTGTCG+GGG | - | chr3_4:62705785-62705804 | None:intergenic | 40.0% |
| GGGTGATATATATAGGTGTC+GGG | - | chr3_4:62705786-62705805 | None:intergenic | 40.0% | |
| ACACCACAGATTTGACGAAA+AGG | + | chr3_4:62706184-62706203 | Msa0512780:CDS | 40.0% | |
| GCATGCGATAATTACGTGTA+TGG | + | chr3_4:62706327-62706346 | Msa0512780:intron | 40.0% | |
| TCATTACACAGTGTGGTCAA+GGG | - | chr3_4:62706406-62706425 | None:intergenic | 40.0% | |
| ATCATTACACAGTGTGGTCA+AGG | - | chr3_4:62706407-62706426 | None:intergenic | 40.0% | |
| ATGGTTGGCAAGTCAAGAAA+TGG | + | chr3_4:62706531-62706550 | Msa0512780:CDS | 40.0% | |
| TTGGCAAGTCAAGAAATGGA+AGG | + | chr3_4:62706535-62706554 | Msa0512780:CDS | 40.0% | |
| TGCATTGAAAGGGATAGTGT+TGG | - | chr3_4:62706589-62706608 | None:intergenic | 40.0% | |
| TGCACTAGGTTGCATTGAAA+GGG | - | chr3_4:62706599-62706618 | None:intergenic | 40.0% | |
| ATGCACTAGGTTGCATTGAA+AGG | - | chr3_4:62706600-62706619 | None:intergenic | 40.0% | |
| GCATGCATTTGTAATGCACT+AGG | - | chr3_4:62706613-62706632 | None:intergenic | 40.0% | |
| TTACAAATGCATGCCTCACA+TGG | + | chr3_4:62706619-62706638 | Msa0512780:CDS | 40.0% | |
| CTTTATGGAAAAGCCATGTG+AGG | - | chr3_4:62706635-62706654 | None:intergenic | 40.0% | |
| AAGACATCATGCATTGAGTG+TGG | + | chr3_4:62705530-62705549 | Msa0512780:CDS | 40.0% | |
| ! | ATTTGCTTGCCCTTTAGAAG+TGG | - | chr3_4:62705594-62705613 | None:intergenic | 40.0% |
| ATACACATCGAGTTACTGTG+TGG | + | chr3_4:62705645-62705664 | Msa0512780:intron | 40.0% | |
| ! | GGTGATATATATAGGTGTCG+GGG | - | chr3_4:62705785-62705804 | None:intergenic | 40.0% |
| GGGTGATATATATAGGTGTC+GGG | - | chr3_4:62705786-62705805 | None:intergenic | 40.0% | |
| ACACCACAGATTTGACGAAA+AGG | + | chr3_4:62706184-62706203 | Msa0512780:CDS | 40.0% | |
| GCATGCGATAATTACGTGTA+TGG | + | chr3_4:62706327-62706346 | Msa0512780:intron | 40.0% | |
| TCATTACACAGTGTGGTCAA+GGG | - | chr3_4:62706406-62706425 | None:intergenic | 40.0% | |
| ATCATTACACAGTGTGGTCA+AGG | - | chr3_4:62706407-62706426 | None:intergenic | 40.0% | |
| ATGGTTGGCAAGTCAAGAAA+TGG | + | chr3_4:62706531-62706550 | Msa0512780:CDS | 40.0% | |
| TTGGCAAGTCAAGAAATGGA+AGG | + | chr3_4:62706535-62706554 | Msa0512780:CDS | 40.0% | |
| TGCATTGAAAGGGATAGTGT+TGG | - | chr3_4:62706589-62706608 | None:intergenic | 40.0% | |
| TGCACTAGGTTGCATTGAAA+GGG | - | chr3_4:62706599-62706618 | None:intergenic | 40.0% | |
| ATGCACTAGGTTGCATTGAA+AGG | - | chr3_4:62706600-62706619 | None:intergenic | 40.0% | |
| GCATGCATTTGTAATGCACT+AGG | - | chr3_4:62706613-62706632 | None:intergenic | 40.0% | |
| TTACAAATGCATGCCTCACA+TGG | + | chr3_4:62706619-62706638 | Msa0512780:CDS | 40.0% | |
| CTTTATGGAAAAGCCATGTG+AGG | - | chr3_4:62706635-62706654 | None:intergenic | 40.0% | |
| CTTGTTGCAAATCCTCGCAA+TGG | + | chr3_4:62706161-62706180 | Msa0512780:CDS | 45.0% | |
| ! | GCTCCTTTTCGTCAAATCTG+TGG | - | chr3_4:62706190-62706209 | None:intergenic | 45.0% |
| TGCAGGCTAGAGCGATAATA+TGG | + | chr3_4:62706512-62706531 | Msa0512780:intron | 45.0% | |
| GGCTAGAGCGATAATATGGT+TGG | + | chr3_4:62706516-62706535 | Msa0512780:intron | 45.0% | |
| CTTGTTGCAAATCCTCGCAA+TGG | + | chr3_4:62706161-62706180 | Msa0512780:CDS | 45.0% | |
| ! | GCTCCTTTTCGTCAAATCTG+TGG | - | chr3_4:62706190-62706209 | None:intergenic | 45.0% |
| TGCAGGCTAGAGCGATAATA+TGG | + | chr3_4:62706512-62706531 | Msa0512780:intron | 45.0% | |
| GGCTAGAGCGATAATATGGT+TGG | + | chr3_4:62706516-62706535 | Msa0512780:intron | 45.0% | |
| AATCTGTGGTGTCCATTGCG+AGG | - | chr3_4:62706176-62706195 | None:intergenic | 50.0% | |
| AATCTGTGGTGTCCATTGCG+AGG | - | chr3_4:62706176-62706195 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 62705516 | 62706732 | 62705516 | ID=Msa0512780;Name=Msa0512780 |
| chr3_4 | mRNA | 62705516 | 62706732 | 62705516 | ID=Msa0512780-mRNA-1;Parent=Msa0512780;Name=Msa0512780-mRNA-1;_AED=0.17;_eAED=0.17;_QI=0|0|0|1|0.66|0.5|4|0|149 |
| chr3_4 | exon | 62705516 | 62705583 | 62705516 | ID=Msa0512780-mRNA-1:exon:15590;Parent=Msa0512780-mRNA-1 |
| chr3_4 | exon | 62705954 | 62706037 | 62705954 | ID=Msa0512780-mRNA-1:exon:15591;Parent=Msa0512780-mRNA-1 |
| chr3_4 | exon | 62706133 | 62706214 | 62706133 | ID=Msa0512780-mRNA-1:exon:15592;Parent=Msa0512780-mRNA-1 |
| chr3_4 | exon | 62706517 | 62706732 | 62706517 | ID=Msa0512780-mRNA-1:exon:15593;Parent=Msa0512780-mRNA-1 |
| chr3_4 | CDS | 62705516 | 62705583 | 62705516 | ID=Msa0512780-mRNA-1:cds;Parent=Msa0512780-mRNA-1 |
| chr3_4 | CDS | 62705954 | 62706037 | 62705954 | ID=Msa0512780-mRNA-1:cds;Parent=Msa0512780-mRNA-1 |
| chr3_4 | CDS | 62706133 | 62706214 | 62706133 | ID=Msa0512780-mRNA-1:cds;Parent=Msa0512780-mRNA-1 |
| chr3_4 | CDS | 62706517 | 62706732 | 62706517 | ID=Msa0512780-mRNA-1:cds;Parent=Msa0512780-mRNA-1 |
| Gene Sequence |
| Protein sequence |
