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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1110400 | GAU37470.1 | 79.000 | 100 | 17 | 2 | 5 | 101 | 16 | 114 | 1.02e-42 | 146 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1110400 | sp|Q8LG10|GAT15_ARATH | 48.889 | 90 | 34 | 4 | 15 | 101 | 37 | 117 | 3.07e-16 | 72.0 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1110400 | A0A2Z6NLR0 | 79.000 | 100 | 17 | 2 | 5 | 101 | 16 | 114 | 4.85e-43 | 146 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1110400 | TF | C2C2-GATA |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1110400 | MtrunA17_Chr4g0068031 | 79.612 | 103 | 15 | 2 | 5 | 101 | 16 | 118 | 7.04e-40 | 129 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1110400 | AT3G06740.1 | 48.889 | 90 | 34 | 4 | 15 | 101 | 37 | 117 | 3.12e-17 | 72.0 |
| Msa1110400 | AT5G49300.1 | 50.000 | 84 | 32 | 2 | 15 | 95 | 32 | 108 | 2.47e-16 | 69.7 |
| Msa1110400 | AT4G16141.1 | 52.778 | 72 | 23 | 2 | 16 | 76 | 34 | 105 | 8.42e-13 | 61.6 |
| Msa1110400 | AT3G16870.1 | 45.455 | 77 | 29 | 3 | 16 | 89 | 39 | 105 | 2.11e-11 | 57.8 |
Find 28 sgRNAs with CRISPR-Local
Find 62 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCAGAGATTATTGAATTTA+AGG | 0.060866 | 7_3:-55266484 | Msa1110400:CDS |
| AAGAAGAAGAGAGCAATATT+AGG | 0.216353 | 7_3:-55266599 | Msa1110400:CDS |
| AACAGAGCTAGTAAAGTTTA+TGG | 0.220023 | 7_3:+55266834 | None:intergenic |
| ACCACGACATTGAGGAGTTT+TGG | 0.295427 | 7_3:+55266762 | None:intergenic |
| TCTCTTCTTCTTCCTGCTCC+TGG | 0.356990 | 7_3:+55266610 | None:intergenic |
| GCGGCGGCGGAAGCAAAGTT+GGG | 0.384378 | 7_3:-55266523 | Msa1110400:CDS |
| AGAAGAAGAGAGCAATATTA+GGG | 0.387155 | 7_3:-55266598 | Msa1110400:CDS |
| GGCGGCGGCGGAAGCAAAGT+TGG | 0.395020 | 7_3:-55266524 | Msa1110400:CDS |
| AACGAAGAAGGAACAAGAAA+GGG | 0.398579 | 7_3:-55266560 | Msa1110400:CDS |
| ATGCTTGCGGGACCAGGAGC+AGG | 0.445349 | 7_3:-55266622 | Msa1110400:CDS |
| CAACGAAGAAGGAACAAGAA+AGG | 0.448446 | 7_3:-55266561 | Msa1110400:CDS |
| AGTCACTATGCAATGCTTGC+GGG | 0.464586 | 7_3:-55266634 | Msa1110400:CDS |
| AATAAGAGTAACGGCGGCGG+CGG | 0.473501 | 7_3:-55266536 | Msa1110400:CDS |
| AAGAAAACATGTGCCGGTTG+CGG | 0.487714 | 7_3:-55266790 | Msa1110400:CDS |
| TATGCAATGCTTGCGGGACC+AGG | 0.509461 | 7_3:-55266628 | Msa1110400:CDS |
| AGCAAAGGAAACAACGAAGA+AGG | 0.525059 | 7_3:-55266572 | Msa1110400:CDS |
| CAGTCACTATGCAATGCTTG+CGG | 0.572070 | 7_3:-55266635 | Msa1110400:CDS |
| AATCCAAAGAAAACATGTGC+CGG | 0.577183 | 7_3:-55266796 | Msa1110400:CDS |
| GGGAATAAGAGTAACGGCGG+CGG | 0.586228 | 7_3:-55266539 | Msa1110400:CDS |
| TTTGGACCACCACGACATTG+AGG | 0.595285 | 7_3:+55266754 | None:intergenic |
| TCAATGTCGTGGTGGTCCAA+AGG | 0.602676 | 7_3:-55266752 | Msa1110400:intron |
| CGGCGGCGGAAGCAAAGTTG+GGG | 0.613040 | 7_3:-55266522 | Msa1110400:CDS |
| TCCAAAACTCCTCAATGTCG+TGG | 0.628200 | 7_3:-55266763 | Msa1110400:CDS |
| ACGAAGAAGGAACAAGAAAG+GGG | 0.636309 | 7_3:-55266559 | Msa1110400:CDS |
| GCAATATTAGGGATAAGCAA+AGG | 0.637460 | 7_3:-55266587 | Msa1110400:CDS |
| AGAAAGGGGAATAAGAGTAA+CGG | 0.665248 | 7_3:-55266545 | Msa1110400:CDS |
| AAAACTCCTCAATGTCGTGG+TGG | 0.684546 | 7_3:-55266760 | Msa1110400:CDS |
| AAGGGGAATAAGAGTAACGG+CGG | 0.727683 | 7_3:-55266542 | Msa1110400:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATCAGAGATTATTGAATTTA+AGG | - | chr7_3:55266817-55266836 | Msa1110400:CDS | 20.0% |
| !! | ATCAGAGATTATTGAATTTA+AGG | - | chr7_3:55266817-55266836 | Msa1110400:CDS | 20.0% |
| ! | TGATTAGCATTAATTACCTT+TGG | + | chr7_3:55266568-55266587 | None:intergenic | 25.0% |
| ! | TGATTAGCATTAATTACCTT+TGG | + | chr7_3:55266568-55266587 | None:intergenic | 25.0% |
| AACAGAGCTAGTAAAGTTTA+TGG | + | chr7_3:55266470-55266489 | None:intergenic | 30.0% | |
| AAGAAGAAGAGAGCAATATT+AGG | - | chr7_3:55266702-55266721 | Msa1110400:intron | 30.0% | |
| AGAAGAAGAGAGCAATATTA+GGG | - | chr7_3:55266703-55266722 | Msa1110400:intron | 30.0% | |
| AACAGAGCTAGTAAAGTTTA+TGG | + | chr7_3:55266470-55266489 | None:intergenic | 30.0% | |
| AAGAAGAAGAGAGCAATATT+AGG | - | chr7_3:55266702-55266721 | Msa1110400:intron | 30.0% | |
| AGAAGAAGAGAGCAATATTA+GGG | - | chr7_3:55266703-55266722 | Msa1110400:intron | 30.0% | |
| AATCCAAAGAAAACATGTGC+CGG | - | chr7_3:55266505-55266524 | Msa1110400:CDS | 35.0% | |
| GCAATATTAGGGATAAGCAA+AGG | - | chr7_3:55266714-55266733 | Msa1110400:intron | 35.0% | |
| AACGAAGAAGGAACAAGAAA+GGG | - | chr7_3:55266741-55266760 | Msa1110400:intron | 35.0% | |
| AGAAAGGGGAATAAGAGTAA+CGG | - | chr7_3:55266756-55266775 | Msa1110400:CDS | 35.0% | |
| AATCCAAAGAAAACATGTGC+CGG | - | chr7_3:55266505-55266524 | Msa1110400:CDS | 35.0% | |
| GCAATATTAGGGATAAGCAA+AGG | - | chr7_3:55266714-55266733 | Msa1110400:intron | 35.0% | |
| AACGAAGAAGGAACAAGAAA+GGG | - | chr7_3:55266741-55266760 | Msa1110400:intron | 35.0% | |
| AGAAAGGGGAATAAGAGTAA+CGG | - | chr7_3:55266756-55266775 | Msa1110400:CDS | 35.0% | |
| AGCAAAGGAAACAACGAAGA+AGG | - | chr7_3:55266729-55266748 | Msa1110400:intron | 40.0% | |
| CAACGAAGAAGGAACAAGAA+AGG | - | chr7_3:55266740-55266759 | Msa1110400:intron | 40.0% | |
| ACGAAGAAGGAACAAGAAAG+GGG | - | chr7_3:55266742-55266761 | Msa1110400:intron | 40.0% | |
| AGCAAAGGAAACAACGAAGA+AGG | - | chr7_3:55266729-55266748 | Msa1110400:intron | 40.0% | |
| CAACGAAGAAGGAACAAGAA+AGG | - | chr7_3:55266740-55266759 | Msa1110400:intron | 40.0% | |
| ACGAAGAAGGAACAAGAAAG+GGG | - | chr7_3:55266742-55266761 | Msa1110400:intron | 40.0% | |
| ! | CAACCGGCACATGTTTTCTT+TGG | + | chr7_3:55266511-55266530 | None:intergenic | 45.0% |
| !! | AAGAAAACATGTGCCGGTTG+CGG | - | chr7_3:55266511-55266530 | Msa1110400:CDS | 45.0% |
| TCCAAAACTCCTCAATGTCG+TGG | - | chr7_3:55266538-55266557 | Msa1110400:CDS | 45.0% | |
| ! | ACCACGACATTGAGGAGTTT+TGG | + | chr7_3:55266542-55266561 | None:intergenic | 45.0% |
| AAAACTCCTCAATGTCGTGG+TGG | - | chr7_3:55266541-55266560 | Msa1110400:CDS | 45.0% | |
| CAGTCACTATGCAATGCTTG+CGG | - | chr7_3:55266666-55266685 | Msa1110400:intron | 45.0% | |
| AGTCACTATGCAATGCTTGC+GGG | - | chr7_3:55266667-55266686 | Msa1110400:intron | 45.0% | |
| AAGGGGAATAAGAGTAACGG+CGG | - | chr7_3:55266759-55266778 | Msa1110400:CDS | 45.0% | |
| ! | CAACCGGCACATGTTTTCTT+TGG | + | chr7_3:55266511-55266530 | None:intergenic | 45.0% |
| !! | AAGAAAACATGTGCCGGTTG+CGG | - | chr7_3:55266511-55266530 | Msa1110400:CDS | 45.0% |
| TCCAAAACTCCTCAATGTCG+TGG | - | chr7_3:55266538-55266557 | Msa1110400:CDS | 45.0% | |
| ! | ACCACGACATTGAGGAGTTT+TGG | + | chr7_3:55266542-55266561 | None:intergenic | 45.0% |
| AAAACTCCTCAATGTCGTGG+TGG | - | chr7_3:55266541-55266560 | Msa1110400:CDS | 45.0% | |
| CAGTCACTATGCAATGCTTG+CGG | - | chr7_3:55266666-55266685 | Msa1110400:intron | 45.0% | |
| AGTCACTATGCAATGCTTGC+GGG | - | chr7_3:55266667-55266686 | Msa1110400:intron | 45.0% | |
| AAGGGGAATAAGAGTAACGG+CGG | - | chr7_3:55266759-55266778 | Msa1110400:CDS | 45.0% | |
| !!! | AGTTTTGGACGTTCCGCAAC+CGG | + | chr7_3:55266527-55266546 | None:intergenic | 50.0% |
| TTTGGACCACCACGACATTG+AGG | + | chr7_3:55266550-55266569 | None:intergenic | 50.0% | |
| TCAATGTCGTGGTGGTCCAA+AGG | - | chr7_3:55266549-55266568 | Msa1110400:CDS | 50.0% | |
| TCTCTTCTTCTTCCTGCTCC+TGG | + | chr7_3:55266694-55266713 | None:intergenic | 50.0% | |
| !!! | AGTTTTGGACGTTCCGCAAC+CGG | + | chr7_3:55266527-55266546 | None:intergenic | 50.0% |
| TTTGGACCACCACGACATTG+AGG | + | chr7_3:55266550-55266569 | None:intergenic | 50.0% | |
| TCAATGTCGTGGTGGTCCAA+AGG | - | chr7_3:55266549-55266568 | Msa1110400:CDS | 50.0% | |
| TCTCTTCTTCTTCCTGCTCC+TGG | + | chr7_3:55266694-55266713 | None:intergenic | 50.0% | |
| TATGCAATGCTTGCGGGACC+AGG | - | chr7_3:55266673-55266692 | Msa1110400:intron | 55.0% | |
| GGGAATAAGAGTAACGGCGG+CGG | - | chr7_3:55266762-55266781 | Msa1110400:CDS | 55.0% | |
| AATAAGAGTAACGGCGGCGG+CGG | - | chr7_3:55266765-55266784 | Msa1110400:CDS | 55.0% | |
| TATGCAATGCTTGCGGGACC+AGG | - | chr7_3:55266673-55266692 | Msa1110400:intron | 55.0% | |
| GGGAATAAGAGTAACGGCGG+CGG | - | chr7_3:55266762-55266781 | Msa1110400:CDS | 55.0% | |
| AATAAGAGTAACGGCGGCGG+CGG | - | chr7_3:55266765-55266784 | Msa1110400:CDS | 55.0% | |
| ATGCTTGCGGGACCAGGAGC+AGG | - | chr7_3:55266679-55266698 | Msa1110400:intron | 65.0% | |
| GCGGCGGCGGAAGCAAAGTT+GGG | - | chr7_3:55266778-55266797 | Msa1110400:CDS | 65.0% | |
| CGGCGGCGGAAGCAAAGTTG+GGG | - | chr7_3:55266779-55266798 | Msa1110400:CDS | 65.0% | |
| ATGCTTGCGGGACCAGGAGC+AGG | - | chr7_3:55266679-55266698 | Msa1110400:intron | 65.0% | |
| GCGGCGGCGGAAGCAAAGTT+GGG | - | chr7_3:55266778-55266797 | Msa1110400:CDS | 65.0% | |
| CGGCGGCGGAAGCAAAGTTG+GGG | - | chr7_3:55266779-55266798 | Msa1110400:CDS | 65.0% | |
| GGCGGCGGCGGAAGCAAAGT+TGG | - | chr7_3:55266777-55266796 | Msa1110400:CDS | 70.0% | |
| GGCGGCGGCGGAAGCAAAGT+TGG | - | chr7_3:55266777-55266796 | Msa1110400:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 55266460 | 55266863 | 55266460 | ID=Msa1110400;Name=Msa1110400 |
| chr7_3 | mRNA | 55266460 | 55266863 | 55266460 | ID=Msa1110400-mRNA-1;Parent=Msa1110400;Name=Msa1110400-mRNA-1;_AED=0.12;_eAED=0.12;_QI=0|0|0|1|1|1|2|0|101 |
| chr7_3 | exon | 55266753 | 55266863 | 55266753 | ID=Msa1110400-mRNA-1:exon:11621;Parent=Msa1110400-mRNA-1 |
| chr7_3 | exon | 55266460 | 55266654 | 55266460 | ID=Msa1110400-mRNA-1:exon:11620;Parent=Msa1110400-mRNA-1 |
| chr7_3 | CDS | 55266753 | 55266863 | 55266753 | ID=Msa1110400-mRNA-1:cds;Parent=Msa1110400-mRNA-1 |
| chr7_3 | CDS | 55266460 | 55266654 | 55266460 | ID=Msa1110400-mRNA-1:cds;Parent=Msa1110400-mRNA-1 |
| Gene Sequence |
| Protein sequence |
