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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0733700 | AES92029.1 | 84.444 | 225 | 22 | 1 | 1 | 212 | 1 | 225 | 2.94e-136 | 391 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0733700 | G7JQ00 | 84.444 | 225 | 22 | 1 | 1 | 212 | 1 | 225 | 1.41e-136 | 391 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0733700 | TF | B3 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0733700 | MtrunA17_Chr5g0393501 | 32.212 | 208 | 125 | 3 | 20 | 211 | 34 | 241 | 1.95e-32 | 117 |
| Msa0733700 | MtrunA17_Chr4g0044671 | 28.571 | 196 | 127 | 1 | 16 | 198 | 13 | 208 | 1.44e-19 | 83.2 |
| Msa0733700 | MtrunA17_Chr4g0034781 | 28.061 | 196 | 128 | 1 | 16 | 198 | 7 | 202 | 2.16e-18 | 80.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 46 sgRNAs with CRISPR-Local
Find 63 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATAACTTTAGTGGTAAAATT+TGG | 0.131735 | 5_1:+47057325 | None:intergenic |
| TAACTTTAGTGGTAAAATTT+GGG | 0.245976 | 5_1:+47057326 | None:intergenic |
| AGGAATTTGCCGAAAGTATC+AGG | 0.335653 | 5_1:+47056638 | None:intergenic |
| AATCGTGATGTTTCACTCTA+AGG | 0.341127 | 5_1:+47056618 | None:intergenic |
| ATAGGAAGATATGCGTTTAA+AGG | 0.361554 | 5_1:-47057359 | None:intergenic |
| TAGGAACTACCTGATACTTT+CGG | 0.400617 | 5_1:-47056647 | Msa0733700:CDS |
| TCCGAACATCACATTTGGTA+TGG | 0.417548 | 5_1:+47056532 | None:intergenic |
| ATCTACTTCCACCAAGGTAC+TGG | 0.428620 | 5_1:+47056898 | None:intergenic |
| GAACGAACATATAACTTTAG+TGG | 0.431686 | 5_1:+47057315 | None:intergenic |
| CCGAACATCACATTTGGTAT+GGG | 0.451435 | 5_1:+47056533 | None:intergenic |
| GAGCAATGGCACTTGCTAGA+TGG | 0.455163 | 5_1:-47057038 | Msa0733700:CDS |
| TTGTGCTGCCAATGGTATTG+AGG | 0.463000 | 5_1:-47056492 | Msa0733700:CDS |
| AAATATTTAGCAACAAAGAA+TGG | 0.465634 | 5_1:+47057074 | None:intergenic |
| CCAAATGTGATGTTCGGAAA+AGG | 0.475440 | 5_1:-47056527 | Msa0733700:CDS |
| TGCCGCACTCATGGAATGAT+AGG | 0.476633 | 5_1:+47056827 | None:intergenic |
| CCCATACCAAATGTGATGTT+CGG | 0.477035 | 5_1:-47056533 | Msa0733700:CDS |
| GGCCGTTGTTGACAGATGGT+TGG | 0.487397 | 5_1:-47056971 | Msa0733700:CDS |
| ACACGATGTTGCCGCACTCA+TGG | 0.490628 | 5_1:+47056818 | None:intergenic |
| GTCATGCGTTTATCAACGCT+TGG | 0.500774 | 5_1:+47056409 | None:intergenic |
| TGTGCTGCCAATGGTATTGA+GGG | 0.501205 | 5_1:-47056491 | Msa0733700:CDS |
| CACGATTACGTCATGTTGTA+CGG | 0.501494 | 5_1:-47056602 | Msa0733700:CDS |
| TAAATATTTCTACGAGCTAC+CGG | 0.507354 | 5_1:-47057060 | Msa0733700:CDS |
| ATTATTGCTTTCCAGTACCT+TGG | 0.508515 | 5_1:-47056909 | Msa0733700:CDS |
| AACTTTAGTGGTAAAATTTG+GGG | 0.508761 | 5_1:+47057327 | None:intergenic |
| TGATAGGGTGGATAATCAGT+TGG | 0.521361 | 5_1:+47056843 | None:intergenic |
| ACAGGAATGATATTGTCATA+AGG | 0.528831 | 5_1:+47056578 | None:intergenic |
| AGTCGGCCGTTGTTGACAGA+TGG | 0.531450 | 5_1:-47056975 | Msa0733700:CDS |
| TCTAGCAAGTGCCATTGCTC+CGG | 0.534587 | 5_1:+47057041 | None:intergenic |
| ATTGCTTTCCAGTACCTTGG+TGG | 0.549152 | 5_1:-47056906 | Msa0733700:CDS |
| CGAACATCACATTTGGTATG+GGG | 0.552019 | 5_1:+47056534 | None:intergenic |
| GTCTCCGCCCTCAATACCAT+TGG | 0.581950 | 5_1:+47056484 | None:intergenic |
| CTGACTAACTTCTAGGATGT+CGG | 0.584798 | 5_1:-47057107 | Msa0733700:intron |
| TGGCACTTGCTAGATGGTGA+TGG | 0.587936 | 5_1:-47057032 | Msa0733700:CDS |
| TATCCAGATAGGAACTTCAA+AGG | 0.596572 | 5_1:+47056788 | None:intergenic |
| ATGTGATGTTCGGAAAAGGT+TGG | 0.606400 | 5_1:-47056523 | Msa0733700:CDS |
| GGCACTTGCTAGATGGTGAT+GGG | 0.608333 | 5_1:-47057031 | Msa0733700:CDS |
| TGTTCAACAAATCAGTTAGT+CGG | 0.609582 | 5_1:-47056992 | Msa0733700:CDS |
| TCTACGAGCTACCGGAGCAA+TGG | 0.612965 | 5_1:-47057052 | Msa0733700:CDS |
| ACTTTAGTGGTAAAATTTGG+GGG | 0.613670 | 5_1:+47057328 | None:intergenic |
| ACCCTATCATTCCATGAGTG+CGG | 0.636716 | 5_1:-47056829 | Msa0733700:CDS |
| GCCGCACTCATGGAATGATA+GGG | 0.643165 | 5_1:+47056828 | None:intergenic |
| TTTCAAGTACAAGTGTGTCG+TGG | 0.648578 | 5_1:-47056453 | Msa0733700:CDS |
| GCACTCATGGAATGATAGGG+TGG | 0.649652 | 5_1:+47056831 | None:intergenic |
| CTCCAACCATCTGTCAACAA+CGG | 0.679074 | 5_1:+47056969 | None:intergenic |
| TTTGAAATCTACTTCCACCA+AGG | 0.681040 | 5_1:+47056892 | None:intergenic |
| GCTGCCAATGGTATTGAGGG+CGG | 0.739556 | 5_1:-47056488 | Msa0733700:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTCTATTTAAATATGATGA+AGG | - | chr5_1:47056529-47056548 | Msa0733700:CDS | 15.0% |
| !! | TTCTATTTAAATATGATGAA+GGG | - | chr5_1:47056530-47056549 | Msa0733700:CDS | 15.0% |
| !! | GTTTATATATGCTATAATAA+AGG | - | chr5_1:47057063-47057082 | Msa0733700:CDS | 15.0% |
| !!! | CAGTTTTTTTTCTTTTTTTT+AGG | - | chr5_1:47057104-47057123 | Msa0733700:intron | 15.0% |
| !! | TAACTTTAGTGGTAAAATTT+GGG | + | chr5_1:47056447-47056466 | None:intergenic | 20.0% |
| !! | ATAACTTTAGTGGTAAAATT+TGG | + | chr5_1:47056448-47056467 | None:intergenic | 20.0% |
| !!! | ATGAAAATTAAATCCTCTTT+TGG | - | chr5_1:47056575-47056594 | Msa0733700:CDS | 20.0% |
| !! | AAATATTTAGCAACAAAGAA+TGG | + | chr5_1:47056699-47056718 | None:intergenic | 20.0% |
| !! | AAAAAACAATAAACAACCTT+CGG | + | chr5_1:47057024-47057043 | None:intergenic | 20.0% |
| ! | AACTTTAGTGGTAAAATTTG+GGG | + | chr5_1:47056446-47056465 | None:intergenic | 25.0% |
| !! | AAATTAAATCCTCTTTTGGT+TGG | - | chr5_1:47056579-47056598 | Msa0733700:CDS | 25.0% |
| ! | ATATTAAATCCAACCAAAAG+AGG | + | chr5_1:47056591-47056610 | None:intergenic | 25.0% |
| !! | TTTTGATGCTATTCATTTAG+AGG | - | chr5_1:47057041-47057060 | Msa0733700:CDS | 25.0% |
| !!! | TCTGTATATTTTAATCTCAC+AGG | + | chr5_1:47057213-47057232 | None:intergenic | 25.0% |
| ACTTTAGTGGTAAAATTTGG+GGG | + | chr5_1:47056445-47056464 | None:intergenic | 30.0% | |
| GAACGAACATATAACTTTAG+TGG | + | chr5_1:47056458-47056477 | None:intergenic | 30.0% | |
| TCATGCACATAATACGTTTA+CGG | + | chr5_1:47056559-47056578 | None:intergenic | 30.0% | |
| ! | TAATACACTGACTAACTTCT+AGG | - | chr5_1:47056656-47056675 | Msa0733700:intron | 30.0% |
| ! | TAAATATTTCTACGAGCTAC+CGG | - | chr5_1:47056710-47056729 | Msa0733700:intron | 30.0% |
| TGTTCAACAAATCAGTTAGT+CGG | - | chr5_1:47056778-47056797 | Msa0733700:intron | 30.0% | |
| ACAGGAATGATATTGTCATA+AGG | + | chr5_1:47057195-47057214 | None:intergenic | 30.0% | |
| CACAGTGCATGTAAAAAATC+AGG | - | chr5_1:47056480-47056499 | Msa0733700:CDS | 35.0% | |
| ATTATTGCTTTCCAGTACCT+TGG | - | chr5_1:47056861-47056880 | Msa0733700:CDS | 35.0% | |
| ! | TTTGAAATCTACTTCCACCA+AGG | + | chr5_1:47056881-47056900 | None:intergenic | 35.0% |
| TATCCAGATAGGAACTTCAA+AGG | + | chr5_1:47056985-47057004 | None:intergenic | 35.0% | |
| TTGAAGTTCCTATCTGGATA+TGG | - | chr5_1:47056985-47057004 | Msa0733700:CDS | 35.0% | |
| TAGGAACTACCTGATACTTT+CGG | - | chr5_1:47057123-47057142 | Msa0733700:intron | 35.0% | |
| AATCGTGATGTTTCACTCTA+AGG | + | chr5_1:47057155-47057174 | None:intergenic | 35.0% | |
| !! | CTGACTAACTTCTAGGATGT+CGG | - | chr5_1:47056663-47056682 | Msa0733700:intron | 40.0% |
| TGATAGGGTGGATAATCAGT+TGG | + | chr5_1:47056930-47056949 | None:intergenic | 40.0% | |
| !! | GTACCTTTGAAGTTCCTATC+TGG | - | chr5_1:47056979-47056998 | Msa0733700:CDS | 40.0% |
| !! | AGGAATTTGCCGAAAGTATC+AGG | + | chr5_1:47057135-47057154 | None:intergenic | 40.0% |
| CACGATTACGTCATGTTGTA+CGG | - | chr5_1:47057168-47057187 | Msa0733700:intron | 40.0% | |
| CGAACATCACATTTGGTATG+GGG | + | chr5_1:47057239-47057258 | None:intergenic | 40.0% | |
| CCGAACATCACATTTGGTAT+GGG | + | chr5_1:47057240-47057259 | None:intergenic | 40.0% | |
| CCCATACCAAATGTGATGTT+CGG | - | chr5_1:47057237-47057256 | Msa0733700:intron | 40.0% | |
| TCCGAACATCACATTTGGTA+TGG | + | chr5_1:47057241-47057260 | None:intergenic | 40.0% | |
| ! | CCTTTTCCGAACATCACATT+TGG | + | chr5_1:47057246-47057265 | None:intergenic | 40.0% |
| CCAAATGTGATGTTCGGAAA+AGG | - | chr5_1:47057243-47057262 | Msa0733700:intron | 40.0% | |
| ATGTGATGTTCGGAAAAGGT+TGG | - | chr5_1:47057247-47057266 | Msa0733700:intron | 40.0% | |
| ! | TTTCAAGTACAAGTGTGTCG+TGG | - | chr5_1:47057317-47057336 | Msa0733700:CDS | 40.0% |
| CTCCAACCATCTGTCAACAA+CGG | + | chr5_1:47056804-47056823 | None:intergenic | 45.0% | |
| ATTGCTTTCCAGTACCTTGG+TGG | - | chr5_1:47056864-47056883 | Msa0733700:CDS | 45.0% | |
| ATCTACTTCCACCAAGGTAC+TGG | + | chr5_1:47056875-47056894 | None:intergenic | 45.0% | |
| ACCCTATCATTCCATGAGTG+CGG | - | chr5_1:47056941-47056960 | Msa0733700:CDS | 45.0% | |
| TCGTCGATCCATATCCAGAT+AGG | + | chr5_1:47056996-47057015 | None:intergenic | 45.0% | |
| ! | ACGAGTTTTTGTGCTGCCAA+TGG | - | chr5_1:47057270-47057289 | Msa0733700:intron | 45.0% |
| TTGTGCTGCCAATGGTATTG+AGG | - | chr5_1:47057278-47057297 | Msa0733700:intron | 45.0% | |
| ! | TGTGCTGCCAATGGTATTGA+GGG | - | chr5_1:47057279-47057298 | Msa0733700:intron | 45.0% |
| ! | TCTAGCAAGTGCCATTGCTC+CGG | + | chr5_1:47056732-47056751 | None:intergenic | 50.0% |
| ! | GAGCAATGGCACTTGCTAGA+TGG | - | chr5_1:47056732-47056751 | Msa0733700:intron | 50.0% |
| ! | TGGCACTTGCTAGATGGTGA+TGG | - | chr5_1:47056738-47056757 | Msa0733700:intron | 50.0% |
| ! | GGCACTTGCTAGATGGTGAT+GGG | - | chr5_1:47056739-47056758 | Msa0733700:intron | 50.0% |
| GCACTCATGGAATGATAGGG+TGG | + | chr5_1:47056942-47056961 | None:intergenic | 50.0% | |
| GCCGCACTCATGGAATGATA+GGG | + | chr5_1:47056945-47056964 | None:intergenic | 50.0% | |
| TGCCGCACTCATGGAATGAT+AGG | + | chr5_1:47056946-47056965 | None:intergenic | 50.0% | |
| TGGATCGACGAAATCACCGA+AGG | - | chr5_1:47057005-47057024 | Msa0733700:CDS | 50.0% | |
| TCTACGAGCTACCGGAGCAA+TGG | - | chr5_1:47056718-47056737 | Msa0733700:intron | 55.0% | |
| AGTCGGCCGTTGTTGACAGA+TGG | - | chr5_1:47056795-47056814 | Msa0733700:intron | 55.0% | |
| GGCCGTTGTTGACAGATGGT+TGG | - | chr5_1:47056799-47056818 | Msa0733700:intron | 55.0% | |
| ACACGATGTTGCCGCACTCA+TGG | + | chr5_1:47056955-47056974 | None:intergenic | 55.0% | |
| ! | GCTGCCAATGGTATTGAGGG+CGG | - | chr5_1:47057282-47057301 | Msa0733700:intron | 55.0% |
| GTCTCCGCCCTCAATACCAT+TGG | + | chr5_1:47057289-47057308 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_1 | gene | 47056421 | 47057371 | 47056421 | ID=Msa0733700;Name=Msa0733700 |
| chr5_1 | mRNA | 47056421 | 47057371 | 47056421 | ID=Msa0733700-mRNA-1;Parent=Msa0733700;Name=Msa0733700-mRNA-1;_AED=0.10;_eAED=0.10;_QI=0|0|0|1|1|1|3|0|212 |
| chr5_1 | exon | 47057291 | 47057371 | 47057291 | ID=Msa0733700-mRNA-1:exon:13461;Parent=Msa0733700-mRNA-1 |
| chr5_1 | exon | 47056803 | 47057114 | 47056803 | ID=Msa0733700-mRNA-1:exon:13460;Parent=Msa0733700-mRNA-1 |
| chr5_1 | exon | 47056421 | 47056666 | 47056421 | ID=Msa0733700-mRNA-1:exon:13459;Parent=Msa0733700-mRNA-1 |
| chr5_1 | CDS | 47057291 | 47057371 | 47057291 | ID=Msa0733700-mRNA-1:cds;Parent=Msa0733700-mRNA-1 |
| chr5_1 | CDS | 47056803 | 47057114 | 47056803 | ID=Msa0733700-mRNA-1:cds;Parent=Msa0733700-mRNA-1 |
| chr5_1 | CDS | 47056421 | 47056666 | 47056421 | ID=Msa0733700-mRNA-1:cds;Parent=Msa0733700-mRNA-1 |
| Gene Sequence |
| Protein sequence |
