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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0830980 | AES77703.1 | 71.739 | 46 | 10 | 1 | 67 | 109 | 8 | 53 | 9.85e-11 | 64.3 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0830980 | G7JQU8 | 71.739 | 46 | 10 | 1 | 67 | 109 | 8 | 53 | 4.70e-11 | 64.3 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0712300 | Msa0830980 | 0.982290 | 1.033740e-154 | -8.615850e-47 |
| Msa0830980 | Msa1248300 | 0.801529 | 8.625970e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0830980 | MtrunA17_Chr7g0258451 | 90.625 | 32 | 3 | 0 | 76 | 107 | 531 | 562 | 6.53e-13 | 64.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 42 sgRNAs with CRISPR-Local
Find 70 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGCCTTTGGGTATTGCTTC+TGG | 0.183197 | 5_4:-4040320 | Msa0830980:CDS |
| TGAATGTTGCCGAGAGAGAT+AGG | 0.336678 | 5_4:+4040713 | None:intergenic |
| AGGAGAGATGTATTTGCCTT+TGG | 0.340701 | 5_4:-4040333 | Msa0830980:CDS |
| TTGCTTCTGGAATTGTTAAC+AGG | 0.376041 | 5_4:-4040307 | Msa0830980:CDS |
| GGAGAGGGAAGAAGAAGAAA+GGG | 0.378209 | 5_4:-4040070 | Msa0830980:CDS |
| GGAAGAATAGAAGCAAGATC+TGG | 0.379033 | 5_4:-4040098 | Msa0830980:CDS |
| GGAGAGATGTATTTGCCTTT+GGG | 0.380769 | 5_4:-4040332 | Msa0830980:CDS |
| ATCGTCTCTCTTGCTCTCAT+TGG | 0.384369 | 5_4:-4040656 | Msa0830980:CDS |
| GGCTCGTGATAATGTGGGTT+TGG | 0.413016 | 5_4:-4040131 | Msa0830980:CDS |
| AAGAGCAAAATCTGGCGAAA+TGG | 0.420785 | 5_4:-4040164 | Msa0830980:CDS |
| TAGAAGCAAGATCTGGGTAT+TGG | 0.442915 | 5_4:-4040091 | Msa0830980:CDS |
| TGGAGAGGGAAGAAGAAGAA+AGG | 0.449111 | 5_4:-4040071 | Msa0830980:CDS |
| CCCACAGGCTCGTGATAATG+TGG | 0.462403 | 5_4:-4040137 | Msa0830980:CDS |
| AGAGCAAAATCTGGCGAAAT+GGG | 0.466130 | 5_4:-4040163 | Msa0830980:CDS |
| TGAGAAGCATACCTTTCAAA+AGG | 0.470235 | 5_4:+4040277 | None:intergenic |
| TGTGGGTTTGGAGAGGGAAG+AGG | 0.470286 | 5_4:-4040119 | Msa0830980:CDS |
| AGAAGAAGAAAGGGGTAGAA+TGG | 0.475217 | 5_4:-4040061 | Msa0830980:CDS |
| GCCAAGGGAAGAGCAAAATC+TGG | 0.491444 | 5_4:-4040172 | Msa0830980:CDS |
| GAATGTTGCCGAGAGAGATA+GGG | 0.525707 | 5_4:+4040714 | None:intergenic |
| TGAGAGGCAAACGACGGAGG+AGG | 0.532318 | 5_4:+4040683 | None:intergenic |
| TTCATTACAGTGTCGGGCCA+AGG | 0.537815 | 5_4:-4040188 | Msa0830980:intron |
| GAAGAATAGAAGCAAGATCT+GGG | 0.541251 | 5_4:-4040097 | Msa0830980:CDS |
| TTCTGGAATTGTTAACAGGA+AGG | 0.547060 | 5_4:-4040303 | Msa0830980:CDS |
| GCGAAAACCCCTATCTCTCT+CGG | 0.548196 | 5_4:-4040722 | Msa0830980:CDS |
| CCACAGGCTCGTGATAATGT+GGG | 0.551761 | 5_4:-4040136 | Msa0830980:CDS |
| TGGCGAAATGGGTTTCCCAC+AGG | 0.558172 | 5_4:-4040152 | Msa0830980:CDS |
| TGATAATGTGGGTTTGGAGA+GGG | 0.569156 | 5_4:-4040125 | Msa0830980:CDS |
| GATTATGTTGAAGATTATGA+AGG | 0.571896 | 5_4:-4040353 | Msa0830980:intron |
| TCATTACAGTGTCGGGCCAA+GGG | 0.574278 | 5_4:-4040187 | Msa0830980:intron |
| AAGAGAGACGATGCGGTGAG+AGG | 0.574533 | 5_4:+4040667 | None:intergenic |
| GAGAGGGAAGAAGAAGAAAG+GGG | 0.583757 | 5_4:-4040069 | Msa0830980:CDS |
| CCCACATTATCACGAGCCTG+TGG | 0.598288 | 5_4:+4040136 | None:intergenic |
| AATGTTGCCGAGAGAGATAG+GGG | 0.600552 | 5_4:+4040715 | None:intergenic |
| CAAGATCTGGGTATTGGAGA+GGG | 0.604886 | 5_4:-4040085 | Msa0830980:CDS |
| GTGATAATGTGGGTTTGGAG+AGG | 0.608427 | 5_4:-4040126 | Msa0830980:CDS |
| GCAAGATCTGGGTATTGGAG+AGG | 0.632518 | 5_4:-4040086 | Msa0830980:CDS |
| CGGTGAGAGGCAAACGACGG+AGG | 0.639021 | 5_4:+4040680 | None:intergenic |
| GATTCAGATTCAGACTCCGA+AGG | 0.644186 | 5_4:+4040488 | None:intergenic |
| CCACATTATCACGAGCCTGT+GGG | 0.673056 | 5_4:+4040137 | None:intergenic |
| ATGCGGTGAGAGGCAAACGA+CGG | 0.684988 | 5_4:+4040677 | None:intergenic |
| ATTCCAGAAGCAATACCCAA+AGG | 0.688016 | 5_4:+4040317 | None:intergenic |
| TGAGAGCAAGAGAGACGATG+CGG | 0.700987 | 5_4:+4040660 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TGATTGAATCAAAATGATTA+AGG | - | chr5_4:4040218-4040237 | Msa0830980:intron | 20.0% |
| !! | GATTGAATCAAAATGATTAA+GGG | - | chr5_4:4040219-4040238 | Msa0830980:intron | 20.0% |
| ! | ATCACAAACATAGGAATAAT+GGG | + | chr5_4:4040202-4040221 | None:intergenic | 25.0% |
| ! | AATCACAAACATAGGAATAA+TGG | + | chr5_4:4040203-4040222 | None:intergenic | 25.0% |
| ! | TTTGATTCAATCACAAACAT+AGG | + | chr5_4:4040211-4040230 | None:intergenic | 25.0% |
| ! | AATAAACAAATGACCCTTTA+TGG | + | chr5_4:4040261-4040280 | None:intergenic | 25.0% |
| ! | TATGAACATGATCTATCAAA+GGG | - | chr5_4:4040376-4040395 | Msa0830980:intron | 25.0% |
| !! | ATCATGGTGATTATATTTTC+TGG | - | chr5_4:4040429-4040448 | Msa0830980:intron | 25.0% |
| !! | TCATGGTGATTATATTTTCT+GGG | - | chr5_4:4040430-4040449 | Msa0830980:intron | 25.0% |
| ! | GATTATGTTGAAGATTATGA+AGG | - | chr5_4:4040461-4040480 | Msa0830980:intron | 25.0% |
| AACTTCTCTGTTATCCATAA+AGG | - | chr5_4:4040244-4040263 | Msa0830980:intron | 30.0% | |
| ACTTCTCTGTTATCCATAAA+GGG | - | chr5_4:4040245-4040264 | Msa0830980:intron | 30.0% | |
| AGAATTGAAGCAAAAAGAGA+AGG | + | chr5_4:4040305-4040324 | None:intergenic | 30.0% | |
| ! | TTTTGCTTCAATTCTTCCTT+CGG | - | chr5_4:4040310-4040329 | Msa0830980:CDS | 30.0% |
| GTATGAACATGATCTATCAA+AGG | - | chr5_4:4040375-4040394 | Msa0830980:intron | 30.0% | |
| ATGAACATGATCTATCAAAG+GGG | - | chr5_4:4040377-4040396 | Msa0830980:intron | 30.0% | |
| CTTTCAATTCATTACAGTGT+CGG | - | chr5_4:4040619-4040638 | Msa0830980:intron | 30.0% | |
| TTTCAATTCATTACAGTGTC+GGG | - | chr5_4:4040620-4040639 | Msa0830980:intron | 30.0% | |
| ! | CAAACATAGGAATAATGGGA+AGG | + | chr5_4:4040198-4040217 | None:intergenic | 35.0% |
| TTGAAGCAAAAAGAGAAGGA+AGG | + | chr5_4:4040301-4040320 | None:intergenic | 35.0% | |
| ! | CACCATGATTTTTCTCTGTT+TGG | + | chr5_4:4040418-4040437 | None:intergenic | 35.0% |
| !! | TTGCTTCTGGAATTGTTAAC+AGG | - | chr5_4:4040507-4040526 | Msa0830980:CDS | 35.0% |
| !! | TTCTGGAATTGTTAACAGGA+AGG | - | chr5_4:4040511-4040530 | Msa0830980:CDS | 35.0% |
| ! | TGAGAAGCATACCTTTCAAA+AGG | + | chr5_4:4040540-4040559 | None:intergenic | 35.0% |
| GAAGAATAGAAGCAAGATCT+GGG | - | chr5_4:4040717-4040736 | Msa0830980:CDS | 35.0% | |
| ! | CATAGGAATAATGGGAAGGA+AGG | + | chr5_4:4040194-4040213 | None:intergenic | 40.0% |
| TCAAAGGGGTCAAAGAGAAA+AGG | - | chr5_4:4040391-4040410 | Msa0830980:intron | 40.0% | |
| CAAAGGGGTCAAAGAGAAAA+GGG | - | chr5_4:4040392-4040411 | Msa0830980:intron | 40.0% | |
| GGCCAAACAGAGAAAAATCA+TGG | - | chr5_4:4040413-4040432 | Msa0830980:intron | 40.0% | |
| AGGAGAGATGTATTTGCCTT+TGG | - | chr5_4:4040481-4040500 | Msa0830980:intron | 40.0% | |
| GGAGAGATGTATTTGCCTTT+GGG | - | chr5_4:4040482-4040501 | Msa0830980:intron | 40.0% | |
| ATTCCAGAAGCAATACCCAA+AGG | + | chr5_4:4040500-4040519 | None:intergenic | 40.0% | |
| ! | CAGGAAGGAAACCTTTTGAA+AGG | - | chr5_4:4040526-4040545 | Msa0830980:CDS | 40.0% |
| AAGAGCAAAATCTGGCGAAA+TGG | - | chr5_4:4040650-4040669 | Msa0830980:intron | 40.0% | |
| AGAGCAAAATCTGGCGAAAT+GGG | - | chr5_4:4040651-4040670 | Msa0830980:intron | 40.0% | |
| ! | TGATAATGTGGGTTTGGAGA+GGG | - | chr5_4:4040689-4040708 | Msa0830980:CDS | 40.0% |
| GGAAGAATAGAAGCAAGATC+TGG | - | chr5_4:4040716-4040735 | Msa0830980:CDS | 40.0% | |
| TAGAAGCAAGATCTGGGTAT+TGG | - | chr5_4:4040723-4040742 | Msa0830980:CDS | 40.0% | |
| AGAAGAAGAAAGGGGTAGAA+TGG | - | chr5_4:4040753-4040772 | Msa0830980:CDS | 40.0% | |
| AATGTTGCCGAGAGAGATAG+GGG | + | chr5_4:4040102-4040121 | None:intergenic | 45.0% | |
| GAATGTTGCCGAGAGAGATA+GGG | + | chr5_4:4040103-4040122 | None:intergenic | 45.0% | |
| TGAATGTTGCCGAGAGAGAT+AGG | + | chr5_4:4040104-4040123 | None:intergenic | 45.0% | |
| ATCGTCTCTCTTGCTCTCAT+TGG | - | chr5_4:4040158-4040177 | Msa0830980:CDS | 45.0% | |
| ! | GGAATAATGGGAAGGAAGGA+AGG | + | chr5_4:4040190-4040209 | None:intergenic | 45.0% |
| GATTCAGATTCAGACTCCGA+AGG | + | chr5_4:4040329-4040348 | None:intergenic | 45.0% | |
| ! | TTGCCTTTGGGTATTGCTTC+TGG | - | chr5_4:4040494-4040513 | Msa0830980:CDS | 45.0% |
| CAGTGTCTCTGCTCTTACAA+AGG | - | chr5_4:4040558-4040577 | Msa0830980:intron | 45.0% | |
| ! | GTGATAATGTGGGTTTGGAG+AGG | - | chr5_4:4040688-4040707 | Msa0830980:CDS | 45.0% |
| !! | CAAGATCTGGGTATTGGAGA+GGG | - | chr5_4:4040729-4040748 | Msa0830980:CDS | 45.0% |
| TGGAGAGGGAAGAAGAAGAA+AGG | - | chr5_4:4040743-4040762 | Msa0830980:CDS | 45.0% | |
| GGAGAGGGAAGAAGAAGAAA+GGG | - | chr5_4:4040744-4040763 | Msa0830980:CDS | 45.0% | |
| GAGAGGGAAGAAGAAGAAAG+GGG | - | chr5_4:4040745-4040764 | Msa0830980:CDS | 45.0% | |
| GCGAAAACCCCTATCTCTCT+CGG | - | chr5_4:4040092-4040111 | Msa0830980:CDS | 50.0% | |
| TGAGAGCAAGAGAGACGATG+CGG | + | chr5_4:4040157-4040176 | None:intergenic | 50.0% | |
| ! | TTCATTACAGTGTCGGGCCA+AGG | - | chr5_4:4040626-4040645 | Msa0830980:intron | 50.0% |
| ! | TCATTACAGTGTCGGGCCAA+GGG | - | chr5_4:4040627-4040646 | Msa0830980:intron | 50.0% |
| GCCAAGGGAAGAGCAAAATC+TGG | - | chr5_4:4040642-4040661 | Msa0830980:intron | 50.0% | |
| ! | GCCAGATTTTGCTCTTCCCT+TGG | + | chr5_4:4040646-4040665 | None:intergenic | 50.0% |
| CCACATTATCACGAGCCTGT+GGG | + | chr5_4:4040680-4040699 | None:intergenic | 50.0% | |
| ! | CCACAGGCTCGTGATAATGT+GGG | - | chr5_4:4040678-4040697 | Msa0830980:CDS | 50.0% |
| ! | GGCTCGTGATAATGTGGGTT+TGG | - | chr5_4:4040683-4040702 | Msa0830980:CDS | 50.0% |
| !! | GCAAGATCTGGGTATTGGAG+AGG | - | chr5_4:4040728-4040747 | Msa0830980:CDS | 50.0% |
| ATGCGGTGAGAGGCAAACGA+CGG | + | chr5_4:4040140-4040159 | None:intergenic | 55.0% | |
| AAGAGAGACGATGCGGTGAG+AGG | + | chr5_4:4040150-4040169 | None:intergenic | 55.0% | |
| ! | TGGCGAAATGGGTTTCCCAC+AGG | - | chr5_4:4040662-4040681 | Msa0830980:CDS | 55.0% |
| ! | CCCACAGGCTCGTGATAATG+TGG | - | chr5_4:4040677-4040696 | Msa0830980:CDS | 55.0% |
| CCCACATTATCACGAGCCTG+TGG | + | chr5_4:4040681-4040700 | None:intergenic | 55.0% | |
| TGTGGGTTTGGAGAGGGAAG+AGG | - | chr5_4:4040695-4040714 | Msa0830980:CDS | 55.0% | |
| TGAGAGGCAAACGACGGAGG+AGG | + | chr5_4:4040134-4040153 | None:intergenic | 60.0% | |
| CGGTGAGAGGCAAACGACGG+AGG | + | chr5_4:4040137-4040156 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_4 | gene | 4040053 | 4040783 | 4040053 | ID=Msa0830980;Name=Msa0830980 |
| chr5_4 | mRNA | 4040053 | 4040783 | 4040053 | ID=Msa0830980-mRNA-1;Parent=Msa0830980;Name=Msa0830980-mRNA-1;_AED=0.51;_eAED=0.59;_QI=0|0|0|0.5|1|1|4|0|138 |
| chr5_4 | exon | 4040653 | 4040783 | 4040653 | ID=Msa0830980-mRNA-1:exon:1625;Parent=Msa0830980-mRNA-1 |
| chr5_4 | exon | 4040484 | 4040547 | 4040484 | ID=Msa0830980-mRNA-1:exon:1624;Parent=Msa0830980-mRNA-1 |
| chr5_4 | exon | 4040289 | 4040362 | 4040289 | ID=Msa0830980-mRNA-1:exon:1623;Parent=Msa0830980-mRNA-1 |
| chr5_4 | exon | 4040053 | 4040200 | 4040053 | ID=Msa0830980-mRNA-1:exon:1622;Parent=Msa0830980-mRNA-1 |
| chr5_4 | CDS | 4040653 | 4040783 | 4040653 | ID=Msa0830980-mRNA-1:cds;Parent=Msa0830980-mRNA-1 |
| chr5_4 | CDS | 4040484 | 4040547 | 4040484 | ID=Msa0830980-mRNA-1:cds;Parent=Msa0830980-mRNA-1 |
| chr5_4 | CDS | 4040289 | 4040362 | 4040289 | ID=Msa0830980-mRNA-1:cds;Parent=Msa0830980-mRNA-1 |
| chr5_4 | CDS | 4040053 | 4040200 | 4040053 | ID=Msa0830980-mRNA-1:cds;Parent=Msa0830980-mRNA-1 |
| Gene Sequence |
| Protein sequence |
