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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380011531.01.T01 | ACJ86007.1 | 77.011 | 87 | 15 | 3 | 1 | 85 | 1 | 84 | 2.58E-34 | 123 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0080048982.01 | MsG0380011531.01 | 0.838054 | 3.611372e-57 | 4.780888e-54 |
| MsG0180000091.01 | MsG0380011531.01 | 0.830635 | 2.627574e-55 | 2.784415e-52 |
| MsG0180000114.01 | MsG0380011531.01 | 0.841069 | 5.941814e-58 | 8.629721e-55 |
| MsG0180000271.01 | MsG0380011531.01 | 0.824735 | 6.870077e-54 | 6.138091e-51 |
| MsG0180000787.01 | MsG0380011531.01 | 0.807008 | 6.233255e-50 | 3.433232e-47 |
| MsG0180000982.01 | MsG0380011531.01 | 0.800528 | 1.381313e-48 | 6.446415e-46 |
| MsG0180001663.01 | MsG0380011531.01 | 0.830533 | 2.783256e-55 | 2.940393e-52 |
| MsG0180002709.01 | MsG0380011531.01 | 0.804051 | 2.600322e-49 | 1.327504e-46 |
| MsG0180002955.01 | MsG0380011531.01 | 0.819225 | 1.298800e-52 | 9.935329e-50 |
| MsG0180003357.01 | MsG0380011531.01 | 0.801161 | 1.026118e-48 | 4.866333e-46 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380011531.01.T01 | MTR_3g006190 | 77.011 | 87 | 15 | 3 | 1 | 85 | 1 | 84 | 1.27e-37 | 124 |
| MsG0380011531.01.T01 | MTR_4g030060 | 45.122 | 82 | 40 | 3 | 6 | 85 | 1 | 79 | 1.01e-13 | 62.4 |
| MsG0380011531.01.T01 | MTR_4g030060 | 43.902 | 82 | 41 | 3 | 6 | 85 | 1 | 79 | 1.37e-13 | 62.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380011531.01.T01 | AT1G33490 | 56.322 | 87 | 33 | 3 | 1 | 85 | 1 | 84 | 2.85e-22 | 84.0 |
| MsG0380011531.01.T01 | AT1G33490 | 56.322 | 87 | 33 | 3 | 1 | 85 | 1 | 84 | 6.94e-22 | 84.0 |
| MsG0380011531.01.T01 | AT4G10140 | 50.000 | 86 | 40 | 2 | 1 | 85 | 1 | 84 | 7.53e-20 | 79.0 |
| MsG0380011531.01.T01 | AT1G33490 | 80.000 | 35 | 7 | 0 | 51 | 85 | 8 | 42 | 2.76e-13 | 60.8 |
Find 16 sgRNAs with CRISPR-Local
Find 94 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAGTTCGTGAGCATCATAGT+TGG | 0.557950 | 3:+1008678 | None:intergenic |
| ATGCAATAGCCATTCCGCAG+AGG | 0.697698 | 3:+1008724 | None:intergenic |
| CACTGTATTCCTCTGCGGAA+TGG | 0.522128 | 3:-1008733 | MsG0380011531.01.T01:CDS |
| CTCTTGTTTCCATTCTTCAC+AGG | 0.437303 | 3:-1010465 | MsG0380011531.01.T01:CDS |
| CTGTGAAGAATGGAAACAAG+AGG | 0.624294 | 3:+1010466 | None:intergenic |
| CTTTGAACGAAGATGGCGAA+TGG | 0.546126 | 3:-1010532 | None:intergenic |
| GAAGATGGCGAATGGGAAGA+TGG | 0.532129 | 3:-1010524 | None:intergenic |
| GCATATTACCTCAACTCTAT+TGG | 0.377682 | 3:+1008645 | None:intergenic |
| GGAAGATGGCTATTACCAAT+TGG | 0.470067 | 3:-1010510 | MsG0380011531.01.T01:CDS |
| GGAATGGCTATTGCATTGCT+TGG | 0.517080 | 3:-1008717 | MsG0380011531.01.T01:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAAAGAGTTGTAACTGTGTA+CGG | - | Chr3:1010245-1010264 | MsG0380011531.01.T01:intron | 30.0% | |
| AACTATACCGTCATTTATGT+AGG | - | Chr3:1009728-1009747 | MsG0380011531.01.T01:intron | 30.0% | |
| ACTTTGATTATGAGGTATAG+GGG | - | Chr3:1008901-1008920 | MsG0380011531.01.T01:intron | 30.0% | |
| AGTGATTTATGTTTGGACTT+TGG | + | Chr3:1009254-1009273 | None:intergenic | 30.0% | |
| ATAAATGACGGTATAGTTCA+AGG | + | Chr3:1009726-1009745 | None:intergenic | 30.0% | |
| GAATCATACAATGTCATAAC+TGG | + | Chr3:1010119-1010138 | None:intergenic | 30.0% | |
| GACTTTGATTATGAGGTATA+GGG | - | Chr3:1008900-1008919 | MsG0380011531.01.T01:intron | 30.0% | |
| GGTTATATGTGATCTGTTTA+TGG | - | Chr3:1008826-1008845 | MsG0380011531.01.T01:intron | 30.0% | |
| TAAGTGAAAGAAAGTAAGTG+CGG | - | Chr3:1010316-1010335 | MsG0380011531.01.T01:intron | 30.0% | |
| TCAAATAAGTCAATCCAAAC+AGG | + | Chr3:1009856-1009875 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr3 | gene | 1008650 | 1010542 | 1008650 | ID=MsG0380011531.01;Name=MsG0380011531.01 |
| Chr3 | mRNA | 1008650 | 1010542 | 1008650 | ID=MsG0380011531.01.T01;Parent=MsG0380011531.01;Name=MsG0380011531.01.T01;_AED=0.49;_eAED=0.57;_QI=0|0|0|1|0|0|2|0|86 |
| Chr3 | exon | 1010411 | 1010542 | 1010411 | ID=MsG0380011531.01.T01:exon:677;Parent=MsG0380011531.01.T01 |
| Chr3 | exon | 1008650 | 1008778 | 1008650 | ID=MsG0380011531.01.T01:exon:676;Parent=MsG0380011531.01.T01 |
| Chr3 | CDS | 1010411 | 1010542 | 1010411 | ID=MsG0380011531.01.T01:cds;Parent=MsG0380011531.01.T01 |
| Chr3 | CDS | 1008650 | 1008778 | 1008650 | ID=MsG0380011531.01.T01:cds;Parent=MsG0380011531.01.T01 |
| Gene Sequence |
>MsG0380011531.01.T01 ATGGCGAATGGGAAGATGGCTATTACCAATTGGTTCCAGAAGAAAATCAGTGATCCTCTTGTTTCCATTCTTCACAGGTACTCTTCAATTTCTTCACTTTTTTCAGCTGTGATCCACTATTTGTTTGTTATTGCTAATGTTTTGCAAATAGGTGTCACTGTATTCCTCTGCGGAATGGCTATTGCATTGCTTGGATCATATTGTCATGCTCCAACTATGATGCTCACGAACTTTATGGCGACGCCAATAGAGTTGAGGTAA |
| Protein sequence |
>MsG0380011531.01.T01 MANGKMAITNWFQKKISDPLVSILHRYSSISSLFSAVIHYLFVIANVLQIGVTVFLCGMAIALLGSYCHAPTMMLTNFMATPIELR* |
