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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0124550 | XP_003590679.1 | 100.000 | 38 | 0 | 0 | 1 | 38 | 1 | 38 | 6.92e-13 | 83.6 |
| Msa0124550 | XP_003590679.1 | 91.741 | 448 | 29 | 1 | 37 | 476 | 226 | 673 | 0.0 | 761 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0005270 | Msa0124550 | 0.830052 | 3.648799e-55 | -8.615850e-47 |
| Msa0017320 | Msa0124550 | 0.841472 | 4.653592e-58 | -8.615850e-47 |
| Msa0026870 | Msa0124550 | 0.815020 | 1.145024e-51 | -8.615850e-47 |
| Msa0029850 | Msa0124550 | 0.855640 | 5.509364e-62 | -8.615850e-47 |
| Msa0032470 | Msa0124550 | 0.809440 | 1.889936e-50 | -8.615850e-47 |
| Msa0032880 | Msa0124550 | 0.800083 | 1.702194e-48 | -8.615850e-47 |
| Msa0037880 | Msa0124550 | 0.803021 | 4.252577e-49 | -8.615850e-47 |
| Msa0038020 | Msa0124550 | 0.831816 | 1.347067e-55 | -8.615850e-47 |
| Msa0042550 | Msa0124550 | 0.857687 | 1.376896e-62 | -8.615850e-47 |
| Msa0043730 | Msa0124550 | 0.835700 | 1.440424e-56 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0124550 | MtrunA17_Chr1g0185771 | 91.741 | 448 | 29 | 1 | 37 | 476 | 226 | 673 | 0.0 | 761 |
| Msa0124550 | MtrunA17_Chr1g0185771 | 100.000 | 38 | 0 | 0 | 1 | 38 | 1 | 38 | 6.37e-17 | 83.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0124550 | AT4G02880.2 | 57.329 | 307 | 118 | 2 | 165 | 471 | 263 | 556 | 2.72e-99 | 309 |
| Msa0124550 | AT4G02880.1 | 57.329 | 307 | 118 | 2 | 165 | 471 | 259 | 552 | 2.81e-99 | 309 |
| Msa0124550 | AT1G03290.5 | 58.131 | 289 | 116 | 1 | 182 | 470 | 253 | 536 | 7.60e-94 | 295 |
| Msa0124550 | AT1G03290.5 | 78.378 | 37 | 8 | 0 | 1 | 37 | 1 | 37 | 7.05e-12 | 68.2 |
| Msa0124550 | AT1G03290.3 | 58.131 | 289 | 116 | 1 | 182 | 470 | 283 | 566 | 1.05e-93 | 295 |
| Msa0124550 | AT1G03290.3 | 78.378 | 37 | 8 | 0 | 1 | 37 | 1 | 37 | 8.06e-12 | 67.8 |
| Msa0124550 | AT1G03290.2 | 58.131 | 289 | 116 | 1 | 182 | 470 | 283 | 566 | 1.05e-93 | 295 |
| Msa0124550 | AT1G03290.2 | 78.378 | 37 | 8 | 0 | 1 | 37 | 1 | 37 | 8.06e-12 | 67.8 |
| Msa0124550 | AT1G03290.4 | 58.131 | 289 | 116 | 1 | 182 | 470 | 283 | 566 | 1.05e-93 | 295 |
| Msa0124550 | AT1G03290.4 | 78.378 | 37 | 8 | 0 | 1 | 37 | 1 | 37 | 8.06e-12 | 67.8 |
Find 89 sgRNAs with CRISPR-Local
Find 303 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACTGTGGCATCTAATGT+GGG | 0.641802 | 1_3:+52414794 | Msa0124550:CDS |
| AAACAATCTGAATGAAGAGT+GGG | 0.568659 | 1_3:+52412392 | Msa0124550:CDS |
| AAACAGTGTCTCAAGTTCAG+GGG | 0.648434 | 1_3:+52412523 | Msa0124550:CDS |
| AAAGATGCAGAACTGGACTC+TGG | 0.555288 | 1_3:+52414950 | Msa0124550:CDS |
| AAGAGCATTGTGTTCAGCCT+TGG | 0.467976 | 1_3:-52414900 | None:intergenic |
| AATATAGCAGCGACCACCGG+AGG | 0.613783 | 1_3:+52413013 | Msa0124550:CDS |
| AATGATGGAGAAGGTAGTAC+AGG | 0.501842 | 1_3:+52413646 | Msa0124550:CDS |
| AATTCTGGCGACTGAGCTGA+AGG | 0.568587 | 1_3:+52413249 | Msa0124550:CDS |
| ACAAGAAGCAATGATGGAGA+AGG | 0.575425 | 1_3:+52413637 | Msa0124550:CDS |
| ACAATGCTCTTATTGATGAT+GGG | 0.607324 | 1_3:+52414912 | Msa0124550:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTGAATAGGTATGTATACCT+GGG | - | chr1_3:52410337-52410356 | None:intergenic | 30.0% | |
| ATTGAATAGGTATGTATACC+TGG | - | chr1_3:52410338-52410357 | None:intergenic | 30.0% | |
| GACTAAAAACATAGGAAACT+TGG | - | chr1_3:52410582-52410601 | None:intergenic | 30.0% | |
| TTCAAACGCTATAATTGCAT+GGG | - | chr1_3:52410604-52410623 | None:intergenic | 30.0% | |
| CCAGAAAACACTTTAATTGT+TGG | + | chr1_3:52410751-52410770 | Msa0124550:intron | 30.0% | |
| GACTATTACTTTCTTATTGG+GGG | + | chr1_3:52410808-52410827 | Msa0124550:intron | 30.0% | |
| TGGAATGGTTATATCAATCA+TGG | + | chr1_3:52410832-52410851 | Msa0124550:intron | 30.0% | |
| ATCAGAATGTGAACTATTCA+AGG | + | chr1_3:52411024-52411043 | Msa0124550:intron | 30.0% | |
| TACAGACAAAGAAAGAAACA+GGG | - | chr1_3:52411259-52411278 | None:intergenic | 30.0% | |
| AAAGTGAAAGTGAAGATGAA+GGG | + | chr1_3:52411556-52411575 | Msa0124550:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 52410291 | 52414982 | 52410291 | ID=Msa0124550;Name=Msa0124550 |
| chr1_3 | mRNA | 52410291 | 52414982 | 52410291 | ID=Msa0124550-mRNA-1;Parent=Msa0124550;Name=Msa0124550-mRNA-1;_AED=0.22;_eAED=0.22;_QI=0|0|0|0.75|1|1|8|0|476 |
| chr1_3 | exon | 52410291 | 52410338 | 52410291 | ID=Msa0124550-mRNA-1:exon:16062;Parent=Msa0124550-mRNA-1 |
| chr1_3 | exon | 52411282 | 52411347 | 52411282 | ID=Msa0124550-mRNA-1:exon:16063;Parent=Msa0124550-mRNA-1 |
| chr1_3 | exon | 52412219 | 52412698 | 52412219 | ID=Msa0124550-mRNA-1:exon:16064;Parent=Msa0124550-mRNA-1 |
| chr1_3 | exon | 52412932 | 52413105 | 52412932 | ID=Msa0124550-mRNA-1:exon:16065;Parent=Msa0124550-mRNA-1 |
| chr1_3 | exon | 52413220 | 52413336 | 52413220 | ID=Msa0124550-mRNA-1:exon:16066;Parent=Msa0124550-mRNA-1 |
| chr1_3 | exon | 52413530 | 52413709 | 52413530 | ID=Msa0124550-mRNA-1:exon:16067;Parent=Msa0124550-mRNA-1 |
| chr1_3 | exon | 52414200 | 52414246 | 52414200 | ID=Msa0124550-mRNA-1:exon:16068;Parent=Msa0124550-mRNA-1 |
| chr1_3 | exon | 52414664 | 52414982 | 52414664 | ID=Msa0124550-mRNA-1:exon:16069;Parent=Msa0124550-mRNA-1 |
| chr1_3 | CDS | 52410291 | 52410338 | 52410291 | ID=Msa0124550-mRNA-1:cds;Parent=Msa0124550-mRNA-1 |
| chr1_3 | CDS | 52411282 | 52411347 | 52411282 | ID=Msa0124550-mRNA-1:cds;Parent=Msa0124550-mRNA-1 |
| chr1_3 | CDS | 52412219 | 52412698 | 52412219 | ID=Msa0124550-mRNA-1:cds;Parent=Msa0124550-mRNA-1 |
| chr1_3 | CDS | 52412932 | 52413105 | 52412932 | ID=Msa0124550-mRNA-1:cds;Parent=Msa0124550-mRNA-1 |
| chr1_3 | CDS | 52413220 | 52413336 | 52413220 | ID=Msa0124550-mRNA-1:cds;Parent=Msa0124550-mRNA-1 |
| chr1_3 | CDS | 52413530 | 52413709 | 52413530 | ID=Msa0124550-mRNA-1:cds;Parent=Msa0124550-mRNA-1 |
| chr1_3 | CDS | 52414200 | 52414246 | 52414200 | ID=Msa0124550-mRNA-1:cds;Parent=Msa0124550-mRNA-1 |
| chr1_3 | CDS | 52414664 | 52414982 | 52414664 | ID=Msa0124550-mRNA-1:cds;Parent=Msa0124550-mRNA-1 |
| Gene Sequence |
>Msa0124550 ATGGGTTTCAATTCTGTCTATAGATCTTTGCTCGATATTTTTCCCCAGGTTGATTCTAGGTTGTTGAGGGCAGTGGCTATTGAACACTCGAAGGATGCTGATATGGCCGCTGAAGAGACATCAAATGGATTTTGGCACGAAGCTAGTGAAAATTTTGATCAGGGACGACTTGTGGATGTCATTGTTGAAAATTTGGCATCTTCAGGTGTATATCACGTGTTGGAGATGGAACAGATAAATGTTGCAGAGGAGGCTGCTTCCATGACTAACAATGGCAATGGAACTTCAAACAATCTGAATGAAGAGTGGGTAGATTTTGTTCCTACGGCTGAAGATTATGATGCTACTATCTGCGATACAAGACACGTATTGGAAAAATCTGAAACTGCCTTGGTCGAGTCAGAAGACTCTGAAGTTCAAACAGTGTCTCAAGTTCAGGGGCTTACACTAAATGCTAAAGATATTCAGACAGAATTTAATACTACACTAAATGCTGTAGATGAGATTGATGAGAATACGACTCTAGGCCAATATAATCCAGCCTGCAGTATTGATATGCTTGAGGAGACCATCGATGAAGCAAAAACAAATAAGAAAACCTTGTTTTCATCAATGGAATCTCTTATCAACTTGATGAGAGAGGTGGAACATCAGGAGAAACTTGCAGAGCAGGCCAATATAGCAGCGACCACCGGAGGGTTTGATATTCTAGATAGGGTAGATGAGTATCAAGCCATGTTGGTGCACGCTAAAGAAGCAAATGACATGCATGCTGGGGAAATTTATGGCGAAAAGGCAATTCTGGCGACTGAGCTGAAGGAACTTCAATCACGTCTGTCCAGCTTGTCTGGTGAAAGGGATGAGTCTCTTGCAATTCTTGATGAGATGCGCCAAAGTCTTGAATCTCGATTAGCTGCAGCAGAAATGTTGAGGAAAGCGGCAGAGCTTGAAAAGCTTGAAAAAGAGGAATCGGCAAGGGCTGCACTTCTAGAACAAGAAGCAATGATGGAGAAGGTAGTACAGGAATCACGGAGACTACAGCAGGAAGCTGAAGAGAATTCAAAGTTACGTGAGTTCCTGATGGATCGTGGGCAGGTTGTTGATACGTTGCAAGGAGAAATTTCTGTTATCTGTCAGGATATTAGACTTCTGAAAGAGAAATTTGATGCAAATCTTCCTTTGAGCAAATCATTCACAGCAAGTCAGACAAGTTGCATCTTAGCTTCTTCTGGTTCATCCCACAAAACTGTGGCATCTAATGTGGGTTCTGAGCATAGTGATTCTTCTGAAGTACTCAAGATCACCCAGGCAGCCCCAATTGTTTTCAATGGTGGGGAAGAGGAGAGCTCCAAGGCTGAACACAATGCTCTTATTGATGATGGGTGGGAAATTTTTGACAAAGATGCAGAACTGGACTCTGGAGTTTTCTAA |
| Protein sequence |
>Msa0124550 MGFNSVYRSLLDIFPQVDSRLLRAVAIEHSKDADMAAEETSNGFWHEASENFDQGRLVDVIVENLASSGVYHVLEMEQINVAEEAASMTNNGNGTSNNLNEEWVDFVPTAEDYDATICDTRHVLEKSETALVESEDSEVQTVSQVQGLTLNAKDIQTEFNTTLNAVDEIDENTTLGQYNPACSIDMLEETIDEAKTNKKTLFSSMESLINLMREVEHQEKLAEQANIAATTGGFDILDRVDEYQAMLVHAKEANDMHAGEIYGEKAILATELKELQSRLSSLSGERDESLAILDEMRQSLESRLAAAEMLRKAAELEKLEKEESARAALLEQEAMMEKVVQESRRLQQEAEENSKLREFLMDRGQVVDTLQGEISVICQDIRLLKEKFDANLPLSKSFTASQTSCILASSGSSHKTVASNVGSEHSDSSEVLKITQAAPIVFNGGEEESSKAEHNALIDDGWEIFDKDAELDSGVF* |
