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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0026580 | XP_003589173.1 | 89.011 | 182 | 5 | 1 | 1 | 182 | 1 | 167 | 7.17e-104 | 322 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0026580 | Msa1174840 | 0.800046 | 1.731541e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0026580 | MtrunA17_Chr1g0153281 | 89.011 | 182 | 5 | 1 | 1 | 182 | 1 | 167 | 6.60e-108 | 322 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0026580 | AT1G45207.3 | 40.397 | 151 | 48 | 6 | 34 | 182 | 21 | 131 | 2.44e-13 | 68.2 |
| Msa0026580 | AT1G45207.2 | 84.211 | 38 | 6 | 0 | 34 | 71 | 21 | 58 | 9.12e-13 | 66.6 |
Find 45 sgRNAs with CRISPR-Local
Find 104 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAGTGAGATTTCGGAGTTTA+AGG | 0.138254 | 1_1:-50428796 | None:intergenic |
| TTGTTAACAATGCGTGATTT+AGG | 0.191934 | 1_1:+50428573 | Msa0026580:exon |
| TGTTAACAATGCGTGATTTA+GGG | 0.325485 | 1_1:+50428574 | Msa0026580:exon |
| TTACTTTCTCTTCACTCTCT+TGG | 0.327350 | 1_1:+50428488 | Msa0026580:five_prime_UTR |
| GAAGATGAACTTGCAGCATT+TGG | 0.328958 | 1_1:+50428923 | Msa0026580:CDS |
| TGCTTCTCTATTTCTTCATC+TGG | 0.337589 | 1_1:+50428515 | Msa0026580:five_prime_UTR |
| CATCGATTCGCATTTGCATT+TGG | 0.338837 | 1_1:-50428549 | None:intergenic |
| GAGTGAAGAGAAAGTAAATA+TGG | 0.338896 | 1_1:-50428482 | None:intergenic |
| GTGAAGTACCAGTGAGATTT+CGG | 0.355827 | 1_1:-50428805 | None:intergenic |
| GCCGCCGGTGACGGTGTTGC+CGG | 0.428820 | 1_1:-50428655 | None:intergenic |
| TTCGGATCCGGATCCGGATC+TGG | 0.432532 | 1_1:-50428990 | None:intergenic |
| GCGATCGACGCTGGCGGAAG+CGG | 0.441021 | 1_1:-50428739 | None:intergenic |
| AGAGTGAAGATGACGGAGTC+AGG | 0.453482 | 1_1:-50428690 | None:intergenic |
| TATCAACATCACAGTTCAAA+AGG | 0.454031 | 1_1:+50429211 | Msa0026580:intron |
| TGAAGACGGAAATCAACTTT+CGG | 0.459392 | 1_1:+50429253 | Msa0026580:CDS |
| ACCACCGGCAACACCGTCAC+CGG | 0.481138 | 1_1:+50428651 | Msa0026580:CDS |
| ATGAACTTGCAGCATTTGGC+AGG | 0.484576 | 1_1:+50428927 | Msa0026580:CDS |
| GGTGTTGCGTGTTCTTGAAC+CGG | 0.491640 | 1_1:-50428631 | None:intergenic |
| AAGCGGAGGAGAAGAGACTA+AGG | 0.501003 | 1_1:-50428722 | None:intergenic |
| AAGCTGGAGTGGTCCAGATC+CGG | 0.511012 | 1_1:+50428977 | Msa0026580:CDS |
| GAAGGAGCAGCGATCGACGC+TGG | 0.522577 | 1_1:-50428748 | None:intergenic |
| GAGTGGTCCAGATCCGGATC+CGG | 0.526471 | 1_1:+50428983 | Msa0026580:CDS |
| ATCGACGCTGGCGGAAGCGG+AGG | 0.530992 | 1_1:-50428736 | None:intergenic |
| CTTAAACTCCGAAATCTCAC+TGG | 0.541173 | 1_1:+50428797 | Msa0026580:CDS |
| TGTATCGCAGCCGCCGGTGA+CGG | 0.541960 | 1_1:-50428664 | None:intergenic |
| TTGCAGCATTTGGCAGGTCA+CGG | 0.547364 | 1_1:+50428933 | Msa0026580:CDS |
| GAAGAGAAAGTAAATATGGC+GGG | 0.573275 | 1_1:-50428478 | None:intergenic |
| AGTGACATTGATTCTGAAGA+CGG | 0.574323 | 1_1:+50429239 | Msa0026580:CDS |
| GTCGTGAGCATCGGAAGCGA+AGG | 0.577090 | 1_1:-50428766 | None:intergenic |
| GGACCACTCCAGCTTTCACT+CGG | 0.578133 | 1_1:-50428969 | None:intergenic |
| GGAGTCGCGGTCGTGAGCAT+CGG | 0.579540 | 1_1:-50428775 | None:intergenic |
| TTCACGAACAACGACGCTCG+TGG | 0.590666 | 1_1:+50428598 | Msa0026580:CDS |
| TGAAGAGAAAGTAAATATGG+CGG | 0.592867 | 1_1:-50428479 | None:intergenic |
| GCTCCGAGTGAAAGCTGGAG+TGG | 0.598646 | 1_1:+50428966 | Msa0026580:CDS |
| AGGACTTGTATCGCAGCCGC+CGG | 0.601139 | 1_1:-50428670 | None:intergenic |
| ACCGGCAACACCGTCACCGG+CGG | 0.601674 | 1_1:+50428654 | Msa0026580:CDS |
| CGCTCGTGGAGGCGTAACAC+CGG | 0.602071 | 1_1:+50428612 | Msa0026580:CDS |
| TCTTTCTCTCAAGCACTCAA+AGG | 0.603927 | 1_1:+50429296 | Msa0026580:CDS |
| GGAGCAGCGATCGACGCTGG+CGG | 0.626239 | 1_1:-50428745 | None:intergenic |
| TCAAGAACACGCAACACCAC+CGG | 0.628130 | 1_1:+50428636 | Msa0026580:CDS |
| GCCGGTGACGGTGTTGCCGG+TGG | 0.640514 | 1_1:-50428652 | None:intergenic |
| AGATTCGAGAGTGAAGATGA+CGG | 0.670327 | 1_1:-50428697 | None:intergenic |
| TTTCGGAGTTTAAGGAGTCG+CGG | 0.692109 | 1_1:-50428788 | None:intergenic |
| ACGAACAACGACGCTCGTGG+AGG | 0.699696 | 1_1:+50428601 | Msa0026580:CDS |
| CAGCATTTGGCAGGTCACGG+TGG | 0.721166 | 1_1:+50428936 | Msa0026580:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTCTGTTATGATTTTGATT+CGG | - | chr1_1:50429011-50429030 | None:intergenic | 20.0% |
| !!! | TTTCTGTTATGATTTTGATT+CGG | - | chr1_1:50429011-50429030 | None:intergenic | 20.0% |
| ! | AAAAAGTGAGAAAAAGAAAG+TGG | - | chr1_1:50429144-50429163 | None:intergenic | 25.0% |
| ! | AAAAAGTGAGAAAAAGAAAG+TGG | - | chr1_1:50429144-50429163 | None:intergenic | 25.0% |
| TGAAGAGAAAGTAAATATGG+CGG | - | chr1_1:50428482-50428501 | None:intergenic | 30.0% | |
| GAGTGAAGAGAAAGTAAATA+TGG | - | chr1_1:50428485-50428504 | None:intergenic | 30.0% | |
| TTGTTAACAATGCGTGATTT+AGG | + | chr1_1:50428573-50428592 | Msa0026580:exon | 30.0% | |
| TGTTAACAATGCGTGATTTA+GGG | + | chr1_1:50428574-50428593 | Msa0026580:exon | 30.0% | |
| !!! | TTATGATTTTGATTCGGATC+CGG | - | chr1_1:50429005-50429024 | None:intergenic | 30.0% |
| GGAAAAGCAGAAAAAACAAA+AGG | + | chr1_1:50429089-50429108 | Msa0026580:CDS | 30.0% | |
| TATCAACATCACAGTTCAAA+AGG | + | chr1_1:50429211-50429230 | Msa0026580:intron | 30.0% | |
| TGAAGAGAAAGTAAATATGG+CGG | - | chr1_1:50428482-50428501 | None:intergenic | 30.0% | |
| GAGTGAAGAGAAAGTAAATA+TGG | - | chr1_1:50428485-50428504 | None:intergenic | 30.0% | |
| TTGTTAACAATGCGTGATTT+AGG | + | chr1_1:50428573-50428592 | Msa0026580:exon | 30.0% | |
| TGTTAACAATGCGTGATTTA+GGG | + | chr1_1:50428574-50428593 | Msa0026580:exon | 30.0% | |
| !!! | TTATGATTTTGATTCGGATC+CGG | - | chr1_1:50429005-50429024 | None:intergenic | 30.0% |
| GGAAAAGCAGAAAAAACAAA+AGG | + | chr1_1:50429089-50429108 | Msa0026580:CDS | 30.0% | |
| TATCAACATCACAGTTCAAA+AGG | + | chr1_1:50429211-50429230 | Msa0026580:intron | 30.0% | |
| GAAGAGAAAGTAAATATGGC+GGG | - | chr1_1:50428481-50428500 | None:intergenic | 35.0% | |
| TTACTTTCTCTTCACTCTCT+TGG | + | chr1_1:50428488-50428507 | Msa0026580:five_prime_UTR | 35.0% | |
| ! | TGCTTCTCTATTTCTTCATC+TGG | + | chr1_1:50428515-50428534 | Msa0026580:five_prime_UTR | 35.0% |
| !! | AGTGACATTGATTCTGAAGA+CGG | + | chr1_1:50429239-50429258 | Msa0026580:CDS | 35.0% |
| TGAAGACGGAAATCAACTTT+CGG | + | chr1_1:50429253-50429272 | Msa0026580:CDS | 35.0% | |
| GAAGAGAAAGTAAATATGGC+GGG | - | chr1_1:50428481-50428500 | None:intergenic | 35.0% | |
| TTACTTTCTCTTCACTCTCT+TGG | + | chr1_1:50428488-50428507 | Msa0026580:five_prime_UTR | 35.0% | |
| ! | TGCTTCTCTATTTCTTCATC+TGG | + | chr1_1:50428515-50428534 | Msa0026580:five_prime_UTR | 35.0% |
| !! | AGTGACATTGATTCTGAAGA+CGG | + | chr1_1:50429239-50429258 | Msa0026580:CDS | 35.0% |
| TGAAGACGGAAATCAACTTT+CGG | + | chr1_1:50429253-50429272 | Msa0026580:CDS | 35.0% | |
| !! | CATCGATTCGCATTTGCATT+TGG | - | chr1_1:50428552-50428571 | None:intergenic | 40.0% |
| AGATTCGAGAGTGAAGATGA+CGG | - | chr1_1:50428700-50428719 | None:intergenic | 40.0% | |
| CAGTGAGATTTCGGAGTTTA+AGG | - | chr1_1:50428799-50428818 | None:intergenic | 40.0% | |
| CTTAAACTCCGAAATCTCAC+TGG | + | chr1_1:50428797-50428816 | Msa0026580:CDS | 40.0% | |
| ! | GTGAAGTACCAGTGAGATTT+CGG | - | chr1_1:50428808-50428827 | None:intergenic | 40.0% |
| GAAGATGAACTTGCAGCATT+TGG | + | chr1_1:50428923-50428942 | Msa0026580:CDS | 40.0% | |
| TCTTTCTCTCAAGCACTCAA+AGG | + | chr1_1:50429296-50429315 | Msa0026580:CDS | 40.0% | |
| !! | CATCGATTCGCATTTGCATT+TGG | - | chr1_1:50428552-50428571 | None:intergenic | 40.0% |
| AGATTCGAGAGTGAAGATGA+CGG | - | chr1_1:50428700-50428719 | None:intergenic | 40.0% | |
| CAGTGAGATTTCGGAGTTTA+AGG | - | chr1_1:50428799-50428818 | None:intergenic | 40.0% | |
| CTTAAACTCCGAAATCTCAC+TGG | + | chr1_1:50428797-50428816 | Msa0026580:CDS | 40.0% | |
| ! | GTGAAGTACCAGTGAGATTT+CGG | - | chr1_1:50428808-50428827 | None:intergenic | 40.0% |
| GAAGATGAACTTGCAGCATT+TGG | + | chr1_1:50428923-50428942 | Msa0026580:CDS | 40.0% | |
| TCTTTCTCTCAAGCACTCAA+AGG | + | chr1_1:50429296-50429315 | Msa0026580:CDS | 40.0% | |
| TTTCGGAGTTTAAGGAGTCG+CGG | - | chr1_1:50428791-50428810 | None:intergenic | 45.0% | |
| ATGAACTTGCAGCATTTGGC+AGG | + | chr1_1:50428927-50428946 | Msa0026580:CDS | 45.0% | |
| ! | ATTTTGCTCCGAGTGAAAGC+TGG | + | chr1_1:50428961-50428980 | Msa0026580:CDS | 45.0% |
| !!! | TTTTGATTCGGATCCGGATC+CGG | - | chr1_1:50428999-50429018 | None:intergenic | 45.0% |
| ! | CTTCGCGAAACTCTTTTCTC+TGG | + | chr1_1:50429068-50429087 | Msa0026580:CDS | 45.0% |
| TTTCGGAGTTTAAGGAGTCG+CGG | - | chr1_1:50428791-50428810 | None:intergenic | 45.0% | |
| ATGAACTTGCAGCATTTGGC+AGG | + | chr1_1:50428927-50428946 | Msa0026580:CDS | 45.0% | |
| ! | ATTTTGCTCCGAGTGAAAGC+TGG | + | chr1_1:50428961-50428980 | Msa0026580:CDS | 45.0% |
| !!! | TTTTGATTCGGATCCGGATC+CGG | - | chr1_1:50428999-50429018 | None:intergenic | 45.0% |
| ! | CTTCGCGAAACTCTTTTCTC+TGG | + | chr1_1:50429068-50429087 | Msa0026580:CDS | 45.0% |
| ! | GGTGTTGCGTGTTCTTGAAC+CGG | - | chr1_1:50428634-50428653 | None:intergenic | 50.0% |
| TCAAGAACACGCAACACCAC+CGG | + | chr1_1:50428636-50428655 | Msa0026580:CDS | 50.0% | |
| !! | AGAGTGAAGATGACGGAGTC+AGG | - | chr1_1:50428693-50428712 | None:intergenic | 50.0% |
| AAGCGGAGGAGAAGAGACTA+AGG | - | chr1_1:50428725-50428744 | None:intergenic | 50.0% | |
| TTGCAGCATTTGGCAGGTCA+CGG | + | chr1_1:50428933-50428952 | Msa0026580:CDS | 50.0% | |
| ! | GGTGTTGCGTGTTCTTGAAC+CGG | - | chr1_1:50428634-50428653 | None:intergenic | 50.0% |
| TCAAGAACACGCAACACCAC+CGG | + | chr1_1:50428636-50428655 | Msa0026580:CDS | 50.0% | |
| !! | AGAGTGAAGATGACGGAGTC+AGG | - | chr1_1:50428693-50428712 | None:intergenic | 50.0% |
| AAGCGGAGGAGAAGAGACTA+AGG | - | chr1_1:50428725-50428744 | None:intergenic | 50.0% | |
| TTGCAGCATTTGGCAGGTCA+CGG | + | chr1_1:50428933-50428952 | Msa0026580:CDS | 50.0% | |
| TTCACGAACAACGACGCTCG+TGG | + | chr1_1:50428598-50428617 | Msa0026580:CDS | 55.0% | |
| GGACCACTCCAGCTTTCACT+CGG | - | chr1_1:50428972-50428991 | None:intergenic | 55.0% | |
| AAGCTGGAGTGGTCCAGATC+CGG | + | chr1_1:50428977-50428996 | Msa0026580:CDS | 55.0% | |
| TTCACGAACAACGACGCTCG+TGG | + | chr1_1:50428598-50428617 | Msa0026580:CDS | 55.0% | |
| GGACCACTCCAGCTTTCACT+CGG | - | chr1_1:50428972-50428991 | None:intergenic | 55.0% | |
| AAGCTGGAGTGGTCCAGATC+CGG | + | chr1_1:50428977-50428996 | Msa0026580:CDS | 55.0% | |
| ACGAACAACGACGCTCGTGG+AGG | + | chr1_1:50428601-50428620 | Msa0026580:CDS | 60.0% | |
| AGGACTTGTATCGCAGCCGC+CGG | - | chr1_1:50428673-50428692 | None:intergenic | 60.0% | |
| !! | GTCGTGAGCATCGGAAGCGA+AGG | - | chr1_1:50428769-50428788 | None:intergenic | 60.0% |
| CAGCATTTGGCAGGTCACGG+TGG | + | chr1_1:50428936-50428955 | Msa0026580:CDS | 60.0% | |
| GCTCCGAGTGAAAGCTGGAG+TGG | + | chr1_1:50428966-50428985 | Msa0026580:CDS | 60.0% | |
| GAGTGGTCCAGATCCGGATC+CGG | + | chr1_1:50428983-50429002 | Msa0026580:CDS | 60.0% | |
| TTCGGATCCGGATCCGGATC+TGG | - | chr1_1:50428993-50429012 | None:intergenic | 60.0% | |
| ACGAACAACGACGCTCGTGG+AGG | + | chr1_1:50428601-50428620 | Msa0026580:CDS | 60.0% | |
| AGGACTTGTATCGCAGCCGC+CGG | - | chr1_1:50428673-50428692 | None:intergenic | 60.0% | |
| !! | GTCGTGAGCATCGGAAGCGA+AGG | - | chr1_1:50428769-50428788 | None:intergenic | 60.0% |
| CAGCATTTGGCAGGTCACGG+TGG | + | chr1_1:50428936-50428955 | Msa0026580:CDS | 60.0% | |
| GCTCCGAGTGAAAGCTGGAG+TGG | + | chr1_1:50428966-50428985 | Msa0026580:CDS | 60.0% | |
| GAGTGGTCCAGATCCGGATC+CGG | + | chr1_1:50428983-50429002 | Msa0026580:CDS | 60.0% | |
| TTCGGATCCGGATCCGGATC+TGG | - | chr1_1:50428993-50429012 | None:intergenic | 60.0% | |
| ! | CGCTCGTGGAGGCGTAACAC+CGG | + | chr1_1:50428612-50428631 | Msa0026580:CDS | 65.0% |
| ACCACCGGCAACACCGTCAC+CGG | + | chr1_1:50428651-50428670 | Msa0026580:CDS | 65.0% | |
| TGTATCGCAGCCGCCGGTGA+CGG | - | chr1_1:50428667-50428686 | None:intergenic | 65.0% | |
| GAAGGAGCAGCGATCGACGC+TGG | - | chr1_1:50428751-50428770 | None:intergenic | 65.0% | |
| GGAGTCGCGGTCGTGAGCAT+CGG | - | chr1_1:50428778-50428797 | None:intergenic | 65.0% | |
| ! | CGCTCGTGGAGGCGTAACAC+CGG | + | chr1_1:50428612-50428631 | Msa0026580:CDS | 65.0% |
| ACCACCGGCAACACCGTCAC+CGG | + | chr1_1:50428651-50428670 | Msa0026580:CDS | 65.0% | |
| TGTATCGCAGCCGCCGGTGA+CGG | - | chr1_1:50428667-50428686 | None:intergenic | 65.0% | |
| GAAGGAGCAGCGATCGACGC+TGG | - | chr1_1:50428751-50428770 | None:intergenic | 65.0% | |
| GGAGTCGCGGTCGTGAGCAT+CGG | - | chr1_1:50428778-50428797 | None:intergenic | 65.0% | |
| ACCGGCAACACCGTCACCGG+CGG | + | chr1_1:50428654-50428673 | Msa0026580:CDS | 70.0% | |
| ATCGACGCTGGCGGAAGCGG+AGG | - | chr1_1:50428739-50428758 | None:intergenic | 70.0% | |
| GCGATCGACGCTGGCGGAAG+CGG | - | chr1_1:50428742-50428761 | None:intergenic | 70.0% | |
| GGAGCAGCGATCGACGCTGG+CGG | - | chr1_1:50428748-50428767 | None:intergenic | 70.0% | |
| ACCGGCAACACCGTCACCGG+CGG | + | chr1_1:50428654-50428673 | Msa0026580:CDS | 70.0% | |
| ATCGACGCTGGCGGAAGCGG+AGG | - | chr1_1:50428739-50428758 | None:intergenic | 70.0% | |
| GCGATCGACGCTGGCGGAAG+CGG | - | chr1_1:50428742-50428761 | None:intergenic | 70.0% | |
| GGAGCAGCGATCGACGCTGG+CGG | - | chr1_1:50428748-50428767 | None:intergenic | 70.0% | |
| !! | GCCGGTGACGGTGTTGCCGG+TGG | - | chr1_1:50428655-50428674 | None:intergenic | 75.0% |
| !! | GCCGCCGGTGACGGTGTTGC+CGG | - | chr1_1:50428658-50428677 | None:intergenic | 75.0% |
| !! | GCCGGTGACGGTGTTGCCGG+TGG | - | chr1_1:50428655-50428674 | None:intergenic | 75.0% |
| !! | GCCGCCGGTGACGGTGTTGC+CGG | - | chr1_1:50428658-50428677 | None:intergenic | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 50428442 | 50429364 | 50428442 | ID=Msa0026580;Name=Msa0026580 |
| chr1_1 | mRNA | 50428442 | 50429364 | 50428442 | ID=Msa0026580-mRNA-1;Parent=Msa0026580;Name=Msa0026580-mRNA-1;_AED=0.07;_eAED=0.13;_QI=140|0.5|0.33|1|1|1|3|0|197 |
| chr1_1 | exon | 50428442 | 50428818 | 50428442 | ID=Msa0026580-mRNA-1:exon:14650;Parent=Msa0026580-mRNA-1 |
| chr1_1 | exon | 50428894 | 50429110 | 50428894 | ID=Msa0026580-mRNA-1:exon:14651;Parent=Msa0026580-mRNA-1 |
| chr1_1 | exon | 50429225 | 50429364 | 50429225 | ID=Msa0026580-mRNA-1:exon:14652;Parent=Msa0026580-mRNA-1 |
| chr1_1 | five_prime_UTR | 50428442 | 50428581 | 50428442 | ID=Msa0026580-mRNA-1:five_prime_utr;Parent=Msa0026580-mRNA-1 |
| chr1_1 | CDS | 50428582 | 50428818 | 50428582 | ID=Msa0026580-mRNA-1:cds;Parent=Msa0026580-mRNA-1 |
| chr1_1 | CDS | 50428894 | 50429110 | 50428894 | ID=Msa0026580-mRNA-1:cds;Parent=Msa0026580-mRNA-1 |
| chr1_1 | CDS | 50429225 | 50429364 | 50429225 | ID=Msa0026580-mRNA-1:cds;Parent=Msa0026580-mRNA-1 |
| Gene Sequence |
| Protein sequence |
