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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1006610 | PNX96818.1 | 59.821 | 112 | 44 | 1 | 1 | 111 | 7 | 118 | 4.82e-34 | 134 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1006610 | A0A2K3N194 | 59.821 | 112 | 44 | 1 | 1 | 111 | 7 | 118 | 2.30e-34 | 134 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1006330 | Msa1006610 | 0.834380 | 3.099967e-56 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1006610 | MtrunA17_Chr7g0215631 | 61.207 | 116 | 40 | 1 | 1 | 111 | 21 | 136 | 1.80e-37 | 133 |
| Msa1006610 | MtrunA17_Chr7g0217081 | 59.459 | 111 | 41 | 1 | 1 | 111 | 20 | 126 | 3.02e-37 | 133 |
| Msa1006610 | MtrunA17_Chr8g0357151 | 62.727 | 110 | 35 | 1 | 1 | 110 | 35 | 138 | 1.10e-36 | 131 |
| Msa1006610 | MtrunA17_Chr7g0215061 | 59.130 | 115 | 42 | 1 | 2 | 111 | 34 | 148 | 3.55e-36 | 130 |
| Msa1006610 | MtrunA17_Chr7g0217091 | 54.955 | 111 | 46 | 1 | 1 | 111 | 35 | 141 | 6.68e-35 | 117 |
| Msa1006610 | MtrunA17_Chr7g0218991 | 57.658 | 111 | 44 | 1 | 1 | 111 | 43 | 150 | 7.61e-35 | 126 |
| Msa1006610 | MtrunA17_Chr7g0215011 | 58.120 | 117 | 37 | 2 | 1 | 112 | 36 | 145 | 1.03e-34 | 125 |
| Msa1006610 | MtrunA17_Chr7g0215671 | 58.261 | 115 | 36 | 2 | 2 | 111 | 37 | 144 | 2.75e-34 | 124 |
| Msa1006610 | MtrunA17_Chr7g0215641 | 58.621 | 116 | 35 | 2 | 1 | 111 | 21 | 128 | 1.03e-33 | 123 |
| Msa1006610 | MtrunA17_Chr8g0357191 | 56.780 | 118 | 45 | 2 | 1 | 112 | 35 | 152 | 1.01e-31 | 117 |
| Msa1006610 | MtrunA17_Chr7g0215651 | 56.637 | 113 | 45 | 2 | 1 | 112 | 21 | 130 | 2.17e-31 | 116 |
| Msa1006610 | MtrunA17_Chr8g0357171 | 56.410 | 117 | 45 | 2 | 1 | 111 | 36 | 152 | 2.18e-31 | 116 |
| Msa1006610 | MtrunA17_Chr7g0217061 | 52.252 | 111 | 49 | 1 | 1 | 111 | 35 | 141 | 5.84e-28 | 106 |
| Msa1006610 | MtrunA17_Chr7g0215681 | 51.304 | 115 | 51 | 3 | 2 | 113 | 38 | 150 | 4.96e-25 | 98.2 |
| Msa1006610 | MtrunA17_Chr7g0217041 | 40.909 | 110 | 55 | 3 | 4 | 111 | 32 | 133 | 2.41e-18 | 79.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 26 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GATGGAGAGACCTCCTTCTT+TGG | 0.215987 | 7_1:+5390716 | Msa1006610:CDS |
| GAGAGAATACCAATTTGTTT+TGG | 0.235043 | 7_1:-5390656 | Msa1006580:intron |
| ATATCTATGATCGTTGTAAT+TGG | 0.300739 | 7_1:+5390468 | Msa1006610:CDS |
| GGGAATATCCCAAAACAAAT+TGG | 0.314379 | 7_1:+5390647 | Msa1006610:CDS |
| TTGTCCAGTAATATTCTTGA+TGG | 0.328366 | 7_1:+5390698 | Msa1006610:CDS |
| ATGGAGAGACCTCCTTCTTT+GGG | 0.347108 | 7_1:+5390717 | Msa1006610:CDS |
| CTCTCCATCAAGAATATTAC+TGG | 0.347417 | 7_1:-5390702 | Msa1006580:intron |
| AGCCTTGTTATAAGATCAAC+TGG | 0.418680 | 7_1:+5390617 | Msa1006610:CDS |
| AATGACATCTCAACTTCAAA+TGG | 0.421374 | 7_1:+5390391 | None:intergenic |
| GCAAATGCTATATTGAATAG+TGG | 0.491443 | 7_1:+5390416 | Msa1006610:CDS |
| ACTATAACTTGCAACAAGGC+TGG | 0.504993 | 7_1:+5390494 | Msa1006610:CDS |
| TGTCTAAGATTGCCCAAAGA+AGG | 0.516538 | 7_1:-5390729 | Msa1006580:intron |
| TAACAAGGCTTTCTAAATTG+CGG | 0.518296 | 7_1:-5390604 | Msa1006580:intron |
| TCCGTTTCTAAAATGTCCGT+AGG | 0.603989 | 7_1:-5390542 | Msa1006580:intron |
| GGATGGTGGTACACGTCGGA+AGG | 0.604568 | 7_1:+5390437 | Msa1006610:CDS |
| CCGTTTCTAAAATGTCCGTA+GGG | 0.619363 | 7_1:-5390541 | Msa1006580:intron |
| AGCAATCGACATATACCCTA+CGG | 0.622720 | 7_1:+5390526 | Msa1006610:CDS |
| TGGTGGTACACGTCGGAAGG+AGG | 0.629536 | 7_1:+5390440 | Msa1006610:CDS |
| CTAAGATTGCCCAAAGAAGG+AGG | 0.632859 | 7_1:-5390726 | Msa1006580:intron |
| ATGCTATATTGAATAGTGGA+TGG | 0.651288 | 7_1:+5390420 | Msa1006610:CDS |
| GTCCAGTTGATCTTATAACA+AGG | 0.664995 | 7_1:-5390619 | Msa1006580:intron |
| ATAAGATCAACTGGACTACG+TGG | 0.670068 | 7_1:+5390626 | Msa1006610:CDS |
| GTCTACTATAACTTGCAACA+AGG | 0.695103 | 7_1:+5390490 | Msa1006610:CDS |
| TAAGATCAACTGGACTACGT+GGG | 0.709456 | 7_1:+5390627 | Msa1006610:CDS |
| CTATATTGAATAGTGGATGG+TGG | 0.719111 | 7_1:+5390423 | Msa1006610:CDS |
| TAGTGGATGGTGGTACACGT+CGG | 0.721544 | 7_1:+5390433 | Msa1006610:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | ATATCTATGATCGTTGTAAT+TGG | + | chr7_1:5390468-5390487 | Msa1006610:CDS | 25.0% |
| !!! | AGAGAATACCAATTTGTTTT+GGG | - | chr7_1:5390658-5390677 | Msa1006580:intron | 25.0% |
| GCAAATGCTATATTGAATAG+TGG | + | chr7_1:5390416-5390435 | Msa1006610:CDS | 30.0% | |
| ! | ATGCTATATTGAATAGTGGA+TGG | + | chr7_1:5390420-5390439 | Msa1006610:CDS | 30.0% |
| TAACAAGGCTTTCTAAATTG+CGG | - | chr7_1:5390607-5390626 | Msa1006580:intron | 30.0% | |
| !! | GAGAGAATACCAATTTGTTT+TGG | - | chr7_1:5390659-5390678 | Msa1006580:intron | 30.0% |
| TTGTCCAGTAATATTCTTGA+TGG | + | chr7_1:5390698-5390717 | Msa1006610:CDS | 30.0% | |
| !! | CTATATTGAATAGTGGATGG+TGG | + | chr7_1:5390423-5390442 | Msa1006610:CDS | 35.0% |
| ! | GTCTACTATAACTTGCAACA+AGG | + | chr7_1:5390490-5390509 | Msa1006610:CDS | 35.0% |
| !! | AGCCTTGTTATAAGATCAAC+TGG | + | chr7_1:5390617-5390636 | Msa1006610:CDS | 35.0% |
| GTCCAGTTGATCTTATAACA+AGG | - | chr7_1:5390622-5390641 | Msa1006580:intron | 35.0% | |
| GGGAATATCCCAAAACAAAT+TGG | + | chr7_1:5390647-5390666 | Msa1006610:CDS | 35.0% | |
| CTCTCCATCAAGAATATTAC+TGG | - | chr7_1:5390705-5390724 | Msa1006580:intron | 35.0% | |
| ! | ACTATAACTTGCAACAAGGC+TGG | + | chr7_1:5390494-5390513 | Msa1006610:CDS | 40.0% |
| AGCAATCGACATATACCCTA+CGG | + | chr7_1:5390526-5390545 | Msa1006610:CDS | 40.0% | |
| !! | CCGTTTCTAAAATGTCCGTA+GGG | - | chr7_1:5390544-5390563 | Msa1006580:intron | 40.0% |
| !! | CCCTACGGACATTTTAGAAA+CGG | + | chr7_1:5390541-5390560 | Msa1006610:CDS | 40.0% |
| !! | TCCGTTTCTAAAATGTCCGT+AGG | - | chr7_1:5390545-5390564 | Msa1006580:intron | 40.0% |
| !! | GGACATTTTAGAAACGGAGT+GGG | + | chr7_1:5390547-5390566 | Msa1006610:CDS | 40.0% |
| !! | GACATTTTAGAAACGGAGTG+GGG | + | chr7_1:5390548-5390567 | Msa1006610:CDS | 40.0% |
| !! | ACATTTTAGAAACGGAGTGG+GGG | + | chr7_1:5390549-5390568 | Msa1006610:CDS | 40.0% |
| ATAAGATCAACTGGACTACG+TGG | + | chr7_1:5390626-5390645 | Msa1006610:CDS | 40.0% | |
| TAAGATCAACTGGACTACGT+GGG | + | chr7_1:5390627-5390646 | Msa1006610:CDS | 40.0% | |
| !! | CGGACATTTTAGAAACGGAG+TGG | + | chr7_1:5390546-5390565 | Msa1006610:CDS | 45.0% |
| ATGGAGAGACCTCCTTCTTT+GGG | + | chr7_1:5390717-5390736 | Msa1006610:CDS | 45.0% | |
| CTAAGATTGCCCAAAGAAGG+AGG | - | chr7_1:5390729-5390748 | Msa1006580:intron | 45.0% | |
| ! | TAGTGGATGGTGGTACACGT+CGG | + | chr7_1:5390433-5390452 | Msa1006610:CDS | 50.0% |
| GATGGAGAGACCTCCTTCTT+TGG | + | chr7_1:5390716-5390735 | Msa1006610:CDS | 50.0% | |
| ! | GGATGGTGGTACACGTCGGA+AGG | + | chr7_1:5390437-5390456 | Msa1006610:CDS | 60.0% |
| TGGTGGTACACGTCGGAAGG+AGG | + | chr7_1:5390440-5390459 | Msa1006610:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_1 | gene | 5390392 | 5390748 | 5390392 | ID=Msa1006610;Name=Msa1006610 |
| chr7_1 | mRNA | 5390392 | 5390748 | 5390392 | ID=Msa1006610-mRNA-1;Parent=Msa1006610;Name=Msa1006610-mRNA-1;_AED=0.49;_eAED=0.51;_QI=0|-1|0|1|-1|1|1|0|118 |
| chr7_1 | exon | 5390392 | 5390748 | 5390392 | ID=Msa1006610-mRNA-1:exon:1768;Parent=Msa1006610-mRNA-1 |
| chr7_1 | CDS | 5390392 | 5390748 | 5390392 | ID=Msa1006610-mRNA-1:cds;Parent=Msa1006610-mRNA-1 |
| Gene Sequence |
| Protein sequence |
