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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0998600 | XP_004512915.1 | 86.111 | 72 | 9 | 1 | 1 | 71 | 625 | 696 | 8.62e-33 | 129 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0998600 | A0A1S2Z0M8 | 86.111 | 72 | 9 | 1 | 1 | 71 | 625 | 696 | 4.12e-33 | 129 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0015120 | Msa0998600 | 0.806943 | 6.434140e-50 | -8.615850e-47 |
| Msa0064290 | Msa0998600 | 0.808737 | 2.672978e-50 | -8.615850e-47 |
| Msa0068680 | Msa0998600 | 0.800179 | 1.626946e-48 | -8.615850e-47 |
| Msa0667050 | Msa0998600 | 0.810678 | 1.023088e-50 | -8.615850e-47 |
| Msa0682550 | Msa0998600 | 0.806969 | 6.354723e-50 | -8.615850e-47 |
| Msa0760130 | Msa0998600 | 0.805347 | 1.394899e-49 | -8.615850e-47 |
| Msa0142950 | Msa0998600 | 0.803934 | 2.750899e-49 | -8.615850e-47 |
| Msa0170570 | Msa0998600 | 0.807919 | 3.994171e-50 | -8.615850e-47 |
| Msa0998600 | Msa1031930 | 0.811106 | 8.263952e-51 | -8.615850e-47 |
| Msa0998600 | Msa1082500 | 0.804202 | 2.419042e-49 | -8.615850e-47 |
| Msa0998600 | Msa1102770 | 0.814151 | 1.783171e-51 | -8.615850e-47 |
| Msa0998600 | Msa1151910 | 0.816736 | 4.741169e-52 | -8.615850e-47 |
| Msa0998600 | Msa1346370 | 0.804830 | 1.789551e-49 | -8.615850e-47 |
| Msa0998600 | Msa1359040 | 0.805011 | 1.639833e-49 | -8.615850e-47 |
| Msa0243100 | Msa0998600 | 0.805015 | 1.637099e-49 | -8.615850e-47 |
| Msa0282250 | Msa0998600 | 0.801426 | 9.055444e-49 | -8.615850e-47 |
| Msa0287650 | Msa0998600 | 0.821676 | 3.557796e-53 | -8.615850e-47 |
| Msa0288100 | Msa0998600 | 0.805029 | 1.625917e-49 | -8.615850e-47 |
| Msa0333920 | Msa0998600 | 0.808371 | 3.201077e-50 | -8.615850e-47 |
| Msa0334040 | Msa0998600 | 0.807022 | 6.190399e-50 | -8.615850e-47 |
| Msa0484780 | Msa0998600 | 0.811356 | 7.295018e-51 | -8.615850e-47 |
| Msa0495320 | Msa0998600 | 0.801501 | 8.739627e-49 | -8.615850e-47 |
| Msa0869100 | Msa0998600 | 0.801514 | 8.685891e-49 | -8.615850e-47 |
| Msa0898670 | Msa0998600 | 0.878230 | 3.322574e-69 | -8.615850e-47 |
| Msa0926370 | Msa0998600 | 0.801217 | 9.991613e-49 | -8.615850e-47 |
| Msa0933230 | Msa0998600 | 0.801972 | 6.994901e-49 | -8.615850e-47 |
| Msa0933310 | Msa0998600 | 0.809491 | 1.842970e-50 | -8.615850e-47 |
| Msa0969520 | Msa0998600 | 0.808798 | 2.594001e-50 | -8.615850e-47 |
| Msa0971090 | Msa0998600 | 0.810833 | 9.471448e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0998600 | MtrunA17_Chr6g0484301 | 93.443 | 61 | 4 | 0 | 1 | 61 | 623 | 683 | 4.13e-34 | 121 |
| Msa0998600 | MtrunA17_Chr1g0212431 | 49.296 | 71 | 36 | 0 | 1 | 71 | 664 | 734 | 3.13e-17 | 73.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0998600 | AT1G48840.1 | 56.522 | 69 | 30 | 0 | 2 | 70 | 621 | 689 | 8.56e-21 | 84.3 |
| Msa0998600 | AT3G18350.3 | 57.143 | 63 | 27 | 0 | 2 | 64 | 622 | 684 | 4.05e-19 | 79.7 |
| Msa0998600 | AT3G18350.1 | 57.143 | 63 | 27 | 0 | 2 | 64 | 622 | 684 | 4.05e-19 | 79.7 |
| Msa0998600 | AT3G18350.2 | 57.143 | 63 | 27 | 0 | 2 | 64 | 622 | 684 | 4.05e-19 | 79.7 |
| Msa0998600 | AT5G23390.1 | 55.556 | 54 | 24 | 0 | 18 | 71 | 676 | 729 | 1.13e-12 | 61.2 |
Find 21 sgRNAs with CRISPR-Local
Find 21 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAGATGGGAAAGGAGATTT+AGG | 0.206881 | 6_4:+79690971 | Msa0998600:CDS |
| TTATCTCTTTCAAGTTTAAC+AGG | 0.295578 | 6_4:-79691021 | None:intergenic |
| TCTATCAGCAGGATTGGTTT+TGG | 0.305817 | 6_4:+79690864 | Msa0998600:CDS |
| ACCTCCTAGGAAAGCTAGCC+CGG | 0.419218 | 6_4:+79690948 | Msa0998600:CDS |
| GAGATGGGAAAGGAGATTTA+GGG | 0.437744 | 6_4:+79690972 | Msa0998600:CDS |
| TGGTCTTCTATCAGCAGGAT+TGG | 0.442451 | 6_4:+79690858 | Msa0998600:CDS |
| GGAAAGCTAGCCCGGAGAGA+TGG | 0.469553 | 6_4:+79690956 | Msa0998600:CDS |
| AATCTCCTTTCCCATCTCTC+CGG | 0.472573 | 6_4:-79690967 | None:intergenic |
| GAAAGCTAGCCCGGAGAGAT+GGG | 0.495678 | 6_4:+79690957 | Msa0998600:CDS |
| TCAAGTTTAACAGGAGCAGC+TGG | 0.495682 | 6_4:-79691012 | None:intergenic |
| AGAAGAACTAGGTATTTAGT+AGG | 0.496508 | 6_4:-79690895 | None:intergenic |
| TAAACTTGAAAGAGATAAAG+AGG | 0.498380 | 6_4:+79691026 | Msa0998600:CDS |
| ATCTCCTTTCCCATCTCTCC+GGG | 0.499030 | 6_4:-79690966 | None:intergenic |
| GCACTTGGTCTTCTATCAGC+AGG | 0.502073 | 6_4:+79690853 | Msa0998600:CDS |
| CTCTCCGGGCTAGCTTTCCT+AGG | 0.503547 | 6_4:-79690952 | None:intergenic |
| TTACAATGTATTCACCTCCT+AGG | 0.511457 | 6_4:+79690935 | Msa0998600:CDS |
| GGGAAAGGAGATTTAGGGAA+TGG | 0.584698 | 6_4:+79690977 | Msa0998600:CDS |
| TCAAGAACACTAGAAGAACT+AGG | 0.597331 | 6_4:-79690906 | None:intergenic |
| AAAGGAGATTTAGGGAATGG+TGG | 0.611191 | 6_4:+79690980 | Msa0998600:CDS |
| GCTACAGAGAAGATGGCACT+TGG | 0.618726 | 6_4:+79690838 | None:intergenic |
| CTAGCCCGGAGAGATGGGAA+AGG | 0.646632 | 6_4:+79690962 | Msa0998600:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTATCTCTTTCAAGTTTAAC+AGG | - | chr6_4:79691024-79691043 | None:intergenic | 25.0% |
| ! | TAAACTTGAAAGAGATAAAG+AGG | + | chr6_4:79691026-79691045 | Msa0998600:CDS | 25.0% |
| AGAAGAACTAGGTATTTAGT+AGG | - | chr6_4:79690898-79690917 | None:intergenic | 30.0% | |
| TCAAGAACACTAGAAGAACT+AGG | - | chr6_4:79690909-79690928 | None:intergenic | 35.0% | |
| TTACAATGTATTCACCTCCT+AGG | + | chr6_4:79690935-79690954 | Msa0998600:CDS | 35.0% | |
| !!! | TCTATCAGCAGGATTGGTTT+TGG | + | chr6_4:79690864-79690883 | Msa0998600:CDS | 40.0% |
| AGAGATGGGAAAGGAGATTT+AGG | + | chr6_4:79690971-79690990 | Msa0998600:CDS | 40.0% | |
| GAGATGGGAAAGGAGATTTA+GGG | + | chr6_4:79690972-79690991 | Msa0998600:CDS | 40.0% | |
| AAAGGAGATTTAGGGAATGG+TGG | + | chr6_4:79690980-79690999 | Msa0998600:CDS | 40.0% | |
| TGGTCTTCTATCAGCAGGAT+TGG | + | chr6_4:79690858-79690877 | Msa0998600:CDS | 45.0% | |
| AATCTCCTTTCCCATCTCTC+CGG | - | chr6_4:79690970-79690989 | None:intergenic | 45.0% | |
| GGGAAAGGAGATTTAGGGAA+TGG | + | chr6_4:79690977-79690996 | Msa0998600:CDS | 45.0% | |
| TCAAGTTTAACAGGAGCAGC+TGG | - | chr6_4:79691015-79691034 | None:intergenic | 45.0% | |
| ! | GCACTTGGTCTTCTATCAGC+AGG | + | chr6_4:79690853-79690872 | Msa0998600:CDS | 50.0% |
| ATCTCCTTTCCCATCTCTCC+GGG | - | chr6_4:79690969-79690988 | None:intergenic | 50.0% | |
| ACCTCCTAGGAAAGCTAGCC+CGG | + | chr6_4:79690948-79690967 | Msa0998600:CDS | 55.0% | |
| GAAAGCTAGCCCGGAGAGAT+GGG | + | chr6_4:79690957-79690976 | Msa0998600:CDS | 55.0% | |
| !! | TCCGGGCTAGCTTTCCTAGG+AGG | - | chr6_4:79690952-79690971 | None:intergenic | 60.0% |
| !! | CTCTCCGGGCTAGCTTTCCT+AGG | - | chr6_4:79690955-79690974 | None:intergenic | 60.0% |
| GGAAAGCTAGCCCGGAGAGA+TGG | + | chr6_4:79690956-79690975 | Msa0998600:CDS | 60.0% | |
| CTAGCCCGGAGAGATGGGAA+AGG | + | chr6_4:79690962-79690981 | Msa0998600:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_4 | gene | 79690850 | 79691065 | 79690850 | ID=Msa0998600;Name=Msa0998600 |
| chr6_4 | mRNA | 79690850 | 79691065 | 79690850 | ID=Msa0998600-mRNA-1;Parent=Msa0998600;Name=Msa0998600-mRNA-1;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|71 |
| chr6_4 | exon | 79690850 | 79691065 | 79690850 | ID=Msa0998600-mRNA-1:exon:15102;Parent=Msa0998600-mRNA-1 |
| chr6_4 | CDS | 79690850 | 79691065 | 79690850 | ID=Msa0998600-mRNA-1:cds;Parent=Msa0998600-mRNA-1 |
| Gene Sequence |
| Protein sequence |
