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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0258940 | XP_003596854.1 | 90.909 | 110 | 10 | 0 | 1 | 110 | 1 | 110 | 6.07e-49 | 161 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0258940 | sp|Q9SRN4|GIR2_ARATH | 41.593 | 113 | 43 | 4 | 1 | 108 | 1 | 95 | 7.78e-16 | 70.5 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0258940 | G7IHG7 | 90.909 | 110 | 10 | 0 | 1 | 110 | 1 | 110 | 2.90e-49 | 161 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0005050 | Msa0258940 | 0.802686 | 4.985930e-49 | -8.615850e-47 |
| Msa0053110 | Msa0258940 | 0.817611 | 3.015136e-52 | -8.615850e-47 |
| Msa0098440 | Msa0258940 | 0.809306 | 2.019558e-50 | -8.615850e-47 |
| Msa0176470 | Msa0258940 | 0.808868 | 2.507192e-50 | -8.615850e-47 |
| Msa0203030 | Msa0258940 | 0.805800 | 1.120565e-49 | -8.615850e-47 |
| Msa0219190 | Msa0258940 | 0.802643 | 5.089332e-49 | -8.615850e-47 |
| Msa0219310 | Msa0258940 | 0.955209 | 5.129466e-113 | -8.615850e-47 |
| Msa0258940 | Msa0382560 | 0.800348 | 1.503309e-48 | -8.615850e-47 |
| Msa0258940 | Msa0413930 | 0.830323 | 3.132734e-55 | -8.615850e-47 |
| Msa0258940 | Msa0575250 | 0.803954 | 2.724033e-49 | -8.615850e-47 |
| Msa0258940 | Msa0619980 | 0.803340 | 3.652642e-49 | -8.615850e-47 |
| Msa0258940 | Msa0747780 | 0.816381 | 5.694760e-52 | -8.615850e-47 |
| Msa0258940 | Msa0885060 | 0.810762 | 9.807919e-51 | -8.615850e-47 |
| Msa0258940 | Msa0886980 | 0.800183 | 1.624413e-48 | -8.615850e-47 |
| Msa0258940 | Msa0905550 | 0.816999 | 4.138431e-52 | -8.615850e-47 |
| Msa0258940 | Msa0937550 | 0.801761 | 7.729526e-49 | -8.615850e-47 |
| Msa0258940 | Msa0988480 | 0.800702 | 1.273452e-48 | -8.615850e-47 |
| Msa0258940 | Msa1033560 | 0.820709 | 5.942704e-53 | -8.615850e-47 |
| Msa0258940 | Msa1055500 | 0.827585 | 1.442425e-54 | -8.615850e-47 |
| Msa0258940 | Msa1073340 | 0.804335 | 2.270053e-49 | -8.615850e-47 |
| Msa0258940 | Msa1113850 | 0.807064 | 6.066683e-50 | -8.615850e-47 |
| Msa0258940 | Msa1145020 | 0.807148 | 5.823594e-50 | -8.615850e-47 |
| Msa0258940 | Msa1321000 | 0.809316 | 2.009742e-50 | -8.615850e-47 |
| Msa0258940 | Msa1379990 | 0.818266 | 2.143545e-52 | -8.615850e-47 |
| Msa0258940 | Msa1420060 | 0.821512 | 3.881531e-53 | -8.615850e-47 |
| Msa0258940 | Msa1435670 | 0.806144 | 9.484669e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0258940 | MtrunA17_Chr2g0321781 | 90.909 | 110 | 10 | 0 | 1 | 110 | 1 | 110 | 5.58e-53 | 161 |
| Msa0258940 | MtrunA17_Chr2g0321771 | 55.140 | 107 | 32 | 4 | 1 | 107 | 1 | 91 | 1.58e-27 | 96.7 |
| Msa0258940 | MtrunA17_Chr1g0177991 | 55.769 | 52 | 22 | 1 | 60 | 110 | 57 | 108 | 1.22e-15 | 67.0 |
| Msa0258940 | MtrunA17_Chr7g0267071 | 63.158 | 38 | 14 | 0 | 73 | 110 | 57 | 94 | 2.82e-14 | 63.2 |
| Msa0258940 | MtrunA17_Chr4g0025941 | 58.537 | 41 | 17 | 0 | 70 | 110 | 54 | 94 | 3.22e-12 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0258940 | AT3G11600.1 | 41.593 | 113 | 43 | 4 | 1 | 108 | 1 | 95 | 7.91e-17 | 70.5 |
| Msa0258940 | AT5G06270.1 | 58.000 | 50 | 21 | 0 | 59 | 108 | 52 | 101 | 4.66e-15 | 66.2 |
| Msa0258940 | AT5G06270.2 | 58.000 | 50 | 21 | 0 | 59 | 108 | 52 | 101 | 4.66e-15 | 66.2 |
Find 23 sgRNAs with CRISPR-Local
Find 25 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATAACATACATGTAACATTT+AGG | 0.333558 | 2_2:+55616924 | None:intergenic |
| TCATCAGTTGATCGCTTGCC+GGG | 0.363679 | 2_2:-55617095 | Msa0258940:CDS |
| ATCATCAGTTGATCGCTTGC+CGG | 0.374132 | 2_2:-55617096 | Msa0258940:CDS |
| AGTTGATCGCTTGCCGGGGT+TGG | 0.458397 | 2_2:-55617090 | Msa0258940:CDS |
| GATGATGATTTCGATTCCTC+TGG | 0.472844 | 2_2:+55617113 | None:intergenic |
| ACAAAGGAGATGGTTCTTGT+TGG | 0.493804 | 2_2:-55616951 | Msa0258940:CDS |
| GTATTACACTTGGGACACTT+TGG | 0.514234 | 2_2:+55616885 | None:intergenic |
| AAGATGATTGCTCATGATCA+AGG | 0.518003 | 2_2:-55617026 | Msa0258940:CDS |
| GATTTCGATTCCTCTGGTGA+TGG | 0.559583 | 2_2:+55617119 | None:intergenic |
| CAAAAGAAAGAGTCGAGGGT+TGG | 0.561959 | 2_2:-55617153 | Msa0258940:CDS |
| AGAGTCGAGGGTTGGAATTG+AGG | 0.565433 | 2_2:-55617145 | Msa0258940:CDS |
| GAACATGGTGACACCAACCC+CGG | 0.606282 | 2_2:+55617077 | None:intergenic |
| TCATGATCAAGGAGCCTCGA+CGG | 0.609175 | 2_2:-55617015 | Msa0258940:CDS |
| CATCAGTTGATCGCTTGCCG+GGG | 0.609861 | 2_2:-55617094 | Msa0258940:CDS |
| AAACGCAGTTACAAAGGAGA+TGG | 0.616098 | 2_2:-55616961 | Msa0258940:CDS |
| AATAACAGTAGTATTACACT+TGG | 0.622685 | 2_2:+55616875 | None:intergenic |
| GTATGCAAACGCAGTTACAA+AGG | 0.622761 | 2_2:-55616967 | Msa0258940:CDS |
| TGAGCAAAAGAAAGAGTCGA+GGG | 0.626972 | 2_2:-55617157 | Msa0258940:CDS |
| ATGAGCAAAAGAAAGAGTCG+AGG | 0.641115 | 2_2:-55617158 | Msa0258940:CDS |
| TGAATATGATACTGAAGATG+AGG | 0.660765 | 2_2:+55617052 | None:intergenic |
| ATTGAGGCATCCATCACCAG+AGG | 0.697008 | 2_2:-55617129 | Msa0258940:CDS |
| ATAACAGTAGTATTACACTT+GGG | 0.700958 | 2_2:+55616876 | None:intergenic |
| ACTGAAGATGAGGATGAACA+TGG | 0.728056 | 2_2:+55617062 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATAACATACATGTAACATTT+AGG | + | chr2_2:55617085-55617104 | None:intergenic | 20.0% |
| ! | ATAACAGTAGTATTACACTT+GGG | + | chr2_2:55617133-55617152 | None:intergenic | 25.0% |
| ! | AATAACAGTAGTATTACACT+TGG | + | chr2_2:55617134-55617153 | None:intergenic | 25.0% |
| TGAATATGATACTGAAGATG+AGG | + | chr2_2:55616957-55616976 | None:intergenic | 30.0% | |
| ! | TATTCTTGATCTTTTCAGAG+AGG | - | chr2_2:55617150-55617169 | Msa0258940:CDS | 30.0% |
| AAGATGATTGCTCATGATCA+AGG | - | chr2_2:55616980-55616999 | Msa0258940:CDS | 35.0% | |
| ATGAGCAAAAGAAAGAGTCG+AGG | - | chr2_2:55616848-55616867 | Msa0258940:CDS | 40.0% | |
| TGAGCAAAAGAAAGAGTCGA+GGG | - | chr2_2:55616849-55616868 | Msa0258940:CDS | 40.0% | |
| GATGATGATTTCGATTCCTC+TGG | + | chr2_2:55616896-55616915 | None:intergenic | 40.0% | |
| ACTGAAGATGAGGATGAACA+TGG | + | chr2_2:55616947-55616966 | None:intergenic | 40.0% | |
| GTATGCAAACGCAGTTACAA+AGG | - | chr2_2:55617039-55617058 | Msa0258940:CDS | 40.0% | |
| AAACGCAGTTACAAAGGAGA+TGG | - | chr2_2:55617045-55617064 | Msa0258940:CDS | 40.0% | |
| ACAAAGGAGATGGTTCTTGT+TGG | - | chr2_2:55617055-55617074 | Msa0258940:CDS | 40.0% | |
| GTATTACACTTGGGACACTT+TGG | + | chr2_2:55617124-55617143 | None:intergenic | 40.0% | |
| CAAAAGAAAGAGTCGAGGGT+TGG | - | chr2_2:55616853-55616872 | Msa0258940:CDS | 45.0% | |
| GATTTCGATTCCTCTGGTGA+TGG | + | chr2_2:55616890-55616909 | None:intergenic | 45.0% | |
| ATCATCAGTTGATCGCTTGC+CGG | - | chr2_2:55616910-55616929 | Msa0258940:CDS | 45.0% | |
| ! | ATCTTCTTTTGTCTCCGTCG+AGG | + | chr2_2:55617008-55617027 | None:intergenic | 45.0% |
| AGAGTCGAGGGTTGGAATTG+AGG | - | chr2_2:55616861-55616880 | Msa0258940:CDS | 50.0% | |
| ! | ATTGAGGCATCCATCACCAG+AGG | - | chr2_2:55616877-55616896 | Msa0258940:CDS | 50.0% |
| TCATCAGTTGATCGCTTGCC+GGG | - | chr2_2:55616911-55616930 | Msa0258940:CDS | 50.0% | |
| TCATGATCAAGGAGCCTCGA+CGG | - | chr2_2:55616991-55617010 | Msa0258940:CDS | 50.0% | |
| CATCAGTTGATCGCTTGCCG+GGG | - | chr2_2:55616912-55616931 | Msa0258940:CDS | 55.0% | |
| GAACATGGTGACACCAACCC+CGG | + | chr2_2:55616932-55616951 | None:intergenic | 55.0% | |
| AGTTGATCGCTTGCCGGGGT+TGG | - | chr2_2:55616916-55616935 | Msa0258940:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 55616848 | 55617180 | 55616848 | ID=Msa0258940;Name=Msa0258940 |
| chr2_2 | mRNA | 55616848 | 55617180 | 55616848 | ID=Msa0258940-mRNA-1;Parent=Msa0258940;Name=Msa0258940-mRNA-1;_AED=0.35;_eAED=0.35;_QI=0|-1|0|1|-1|1|1|0|110 |
| chr2_2 | exon | 55616848 | 55617180 | 55616848 | ID=Msa0258940-mRNA-1:exon:16821;Parent=Msa0258940-mRNA-1 |
| chr2_2 | CDS | 55616848 | 55617180 | 55616848 | ID=Msa0258940-mRNA-1:cds;Parent=Msa0258940-mRNA-1 |
| Gene Sequence |
| Protein sequence |
