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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1112660 | CAA56253.1 | 99.115 | 113 | 1 | 0 | 1 | 113 | 1 | 113 | 5.28e-76 | 230 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1112660 | sp|Q41066|IBB2_PEA | 61.947 | 113 | 34 | 4 | 1 | 113 | 1 | 104 | 1.29e-39 | 130 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1112660 | Q40329 | 99.115 | 113 | 1 | 0 | 1 | 113 | 1 | 113 | 2.52e-76 | 230 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1112660 | Msa1112690 | 0.806424 | 8.281014e-50 | -8.615850e-47 |
| Msa1112660 | Msa1155560 | 0.878824 | 2.054190e-69 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1112660 | MtrunA17_Chr7g0247571 | 82.301 | 113 | 19 | 1 | 1 | 113 | 39 | 150 | 1.51e-63 | 190 |
| Msa1112660 | MtrunA17_Chr7g0247471 | 82.301 | 113 | 17 | 1 | 1 | 113 | 1 | 110 | 4.89e-54 | 164 |
| Msa1112660 | MtrunA17_Chr7g0247461 | 67.227 | 119 | 30 | 5 | 1 | 113 | 17 | 132 | 1.20e-45 | 144 |
| Msa1112660 | MtrunA17_Chr7g0247481 | 72.000 | 100 | 26 | 2 | 11 | 109 | 1 | 99 | 2.13e-44 | 139 |
| Msa1112660 | MtrunA17_Chr7g0247511 | 60.000 | 115 | 42 | 3 | 1 | 113 | 1 | 113 | 1.10e-40 | 130 |
| Msa1112660 | MtrunA17_Chr7g0247531 | 58.654 | 104 | 40 | 2 | 12 | 113 | 1 | 103 | 6.43e-36 | 118 |
| Msa1112660 | MtrunA17_Chr7g0247521 | 52.727 | 110 | 43 | 3 | 5 | 113 | 1 | 102 | 2.11e-29 | 102 |
| Msa1112660 | MtrunA17_Chr7g0247451 | 55.769 | 104 | 40 | 1 | 10 | 113 | 3 | 100 | 1.01e-27 | 97.8 |
| Msa1112660 | MtrunA17_Chr7g0247541 | 45.794 | 107 | 47 | 5 | 4 | 108 | 3 | 100 | 6.39e-20 | 77.8 |
| Msa1112660 | MtrunA17_Chr7g0247581 | 45.378 | 119 | 54 | 6 | 2 | 113 | 18 | 132 | 2.28e-17 | 72.4 |
| Msa1112660 | MtrunA17_Chr7g0247491 | 41.935 | 93 | 41 | 2 | 12 | 103 | 1 | 81 | 3.04e-11 | 55.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 18 sgRNAs with CRISPR-Local
Find 19 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAACATAGTTAATTACATTT+TGG | 0.209853 | 7_3:+58623647 | None:intergenic |
| CAGTGTCGTTGTACTGATAT+TGG | 0.334872 | 7_3:-58623761 | Msa1112660:CDS |
| GATGATGAAGTTAGCTTTGT+TGG | 0.358712 | 7_3:-58623945 | Msa1112660:CDS |
| ATCAGTCAACTGCTCTTCAA+TGG | 0.481561 | 7_3:-58623863 | Msa1112660:CDS |
| TCTGGGCTTCACTTCAACAG+TGG | 0.510225 | 7_3:-58623915 | Msa1112660:CDS |
| GAAGAGCAGTTGACTGATGA+AGG | 0.538069 | 7_3:+58623868 | None:intergenic |
| ATTACAGCATGCTGTTGTTG+TGG | 0.545734 | 7_3:+58623814 | None:intergenic |
| CTGTTGAAGTGAAGCCCAGA+AGG | 0.562746 | 7_3:+58623918 | None:intergenic |
| GGAGGGATTGATCTTGTGCA+AGG | 0.602655 | 7_3:+58623785 | None:intergenic |
| GGAGTTGATGATGAACAAGA+AGG | 0.605203 | 7_3:-58623972 | Msa1112660:CDS |
| TCAGTACAACGGCACTGTGG+AGG | 0.619150 | 7_3:+58623689 | None:intergenic |
| GAGGGATTGATCTTGTGCAA+GGG | 0.625473 | 7_3:+58623786 | None:intergenic |
| TCAGTACAACGACACTGAGG+AGG | 0.627030 | 7_3:+58623767 | None:intergenic |
| CAGTACAACGACACTGAGGA+GGG | 0.637399 | 7_3:+58623768 | None:intergenic |
| GAGGAATAGATCTTGTGCAA+AGG | 0.648501 | 7_3:+58623708 | None:intergenic |
| AGTTTGTGATATCAGTACAA+CGG | 0.716192 | 7_3:+58623678 | None:intergenic |
| ATATCAGTACAACGGCACTG+TGG | 0.782672 | 7_3:+58623686 | None:intergenic |
| ATATCAGTACAACGACACTG+AGG | 0.802196 | 7_3:+58623764 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AGTTTGTGATATCAGTACAA+CGG | + | chr7_3:58623954-58623973 | None:intergenic | 30.0% | |
| !! | GATGATGAAGTTAGCTTTGT+TGG | - | chr7_3:58623684-58623703 | Msa1112660:CDS | 35.0% |
| !! | GGAGTTGATGATGAACAAGA+AGG | - | chr7_3:58623657-58623676 | Msa1112660:CDS | 40.0% |
| !!! | AGCTTTGTTGGTTTTCCTTC+TGG | - | chr7_3:58623696-58623715 | Msa1112660:CDS | 40.0% |
| !!! | GCTTTGTTGGTTTTCCTTCT+GGG | - | chr7_3:58623697-58623716 | Msa1112660:CDS | 40.0% |
| ATCAGTCAACTGCTCTTCAA+TGG | - | chr7_3:58623766-58623785 | Msa1112660:CDS | 40.0% | |
| ATTACAGCATGCTGTTGTTG+TGG | + | chr7_3:58623818-58623837 | None:intergenic | 40.0% | |
| ATATCAGTACAACGACACTG+AGG | + | chr7_3:58623868-58623887 | None:intergenic | 40.0% | |
| ! | CAGTGTCGTTGTACTGATAT+TGG | - | chr7_3:58623868-58623887 | Msa1112660:CDS | 40.0% |
| GAGGAATAGATCTTGTGCAA+AGG | + | chr7_3:58623924-58623943 | None:intergenic | 40.0% | |
| GAAGAGCAGTTGACTGATGA+AGG | + | chr7_3:58623764-58623783 | None:intergenic | 45.0% | |
| GAGGGATTGATCTTGTGCAA+GGG | + | chr7_3:58623846-58623865 | None:intergenic | 45.0% | |
| ATATCAGTACAACGGCACTG+TGG | + | chr7_3:58623946-58623965 | None:intergenic | 45.0% | |
| CTGTTGAAGTGAAGCCCAGA+AGG | + | chr7_3:58623714-58623733 | None:intergenic | 50.0% | |
| TCTGGGCTTCACTTCAACAG+TGG | - | chr7_3:58623714-58623733 | Msa1112660:CDS | 50.0% | |
| GGAGGGATTGATCTTGTGCA+AGG | + | chr7_3:58623847-58623866 | None:intergenic | 50.0% | |
| CAGTACAACGACACTGAGGA+GGG | + | chr7_3:58623864-58623883 | None:intergenic | 50.0% | |
| TCAGTACAACGACACTGAGG+AGG | + | chr7_3:58623865-58623884 | None:intergenic | 50.0% | |
| TCAGTACAACGGCACTGTGG+AGG | + | chr7_3:58623943-58623962 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 58623655 | 58623996 | 58623655 | ID=Msa1112660;Name=Msa1112660 |
| chr7_3 | mRNA | 58623655 | 58623996 | 58623655 | ID=Msa1112660-mRNA-1;Parent=Msa1112660;Name=Msa1112660-mRNA-1;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|113 |
| chr7_3 | exon | 58623655 | 58623996 | 58623655 | ID=Msa1112660-mRNA-1:exon:12917;Parent=Msa1112660-mRNA-1 |
| chr7_3 | CDS | 58623655 | 58623996 | 58623655 | ID=Msa1112660-mRNA-1:cds;Parent=Msa1112660-mRNA-1 |
| Gene Sequence |
| Protein sequence |
