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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0791940 | RHN79156.1 | 61.417 | 127 | 38 | 4 | 12 | 137 | 79 | 195 | 2.23e-35 | 131 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0791940 | A0A396JLM7 | 61.417 | 127 | 38 | 4 | 12 | 137 | 79 | 195 | 1.06e-35 | 131 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0031180 | Msa0791940 | 0.810837 | 9.449748e-51 | -8.615850e-47 |
| Msa0078480 | Msa0791940 | 0.805090 | 1.578973e-49 | -8.615850e-47 |
| Msa0610670 | Msa0791940 | 0.816531 | 5.272059e-52 | -8.615850e-47 |
| Msa0651270 | Msa0791940 | 0.825649 | 4.176675e-54 | -8.615850e-47 |
| Msa0682550 | Msa0791940 | 0.804621 | 1.978350e-49 | -8.615850e-47 |
| Msa0693380 | Msa0791940 | 0.809434 | 1.896187e-50 | -8.615850e-47 |
| Msa0791940 | Msa1082500 | 0.804066 | 2.582347e-49 | -8.615850e-47 |
| Msa0791940 | Msa1113010 | 0.806793 | 6.923499e-50 | -8.615850e-47 |
| Msa0791940 | Msa1335710 | 0.802923 | 4.456421e-49 | -8.615850e-47 |
| Msa0791940 | Msa1386460 | 0.968915 | 2.322745e-129 | -8.615850e-47 |
| Msa0791940 | Msa1424680 | 0.806810 | 6.865987e-50 | -8.615850e-47 |
| Msa0791940 | Msa1462930 | 0.801241 | 9.882116e-49 | -8.615850e-47 |
| Msa0213070 | Msa0791940 | 0.803107 | 4.081798e-49 | -8.615850e-47 |
| Msa0243250 | Msa0791940 | 0.804110 | 2.528378e-49 | -8.615850e-47 |
| Msa0484780 | Msa0791940 | 0.816380 | 5.697032e-52 | -8.615850e-47 |
| Msa0512870 | Msa0791940 | 0.818121 | 2.312686e-52 | -8.615850e-47 |
| Msa0579100 | Msa0791940 | 0.816102 | 6.573733e-52 | -8.615850e-47 |
| Msa0579130 | Msa0791940 | 0.805703 | 1.174663e-49 | -8.615850e-47 |
| Msa0579200 | Msa0791940 | 0.813072 | 3.080305e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0791940 | MtrunA17_Chr1g0174001 | 61.417 | 127 | 38 | 4 | 12 | 137 | 79 | 195 | 2.05e-39 | 131 |
| Msa0791940 | MtrunA17_Chr7g0214511 | 64.912 | 114 | 35 | 3 | 25 | 137 | 178 | 287 | 3.28e-38 | 130 |
| Msa0791940 | MtrunA17_Chr1g0169521 | 59.055 | 127 | 28 | 4 | 12 | 137 | 213 | 316 | 7.85e-32 | 114 |
| Msa0791940 | MtrunA17_Chr1g0169561 | 56.693 | 127 | 31 | 4 | 12 | 137 | 213 | 316 | 2.89e-29 | 108 |
| Msa0791940 | MtrunA17_Chr1g0180571 | 69.388 | 49 | 15 | 0 | 82 | 130 | 22 | 70 | 1.00e-14 | 66.2 |
| Msa0791940 | MtrunA17_Chr1g0180581 | 73.333 | 45 | 12 | 0 | 86 | 130 | 146 | 190 | 1.50e-14 | 67.4 |
| 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 |
|---|---|---|---|
| AACAAAACAGAGACACTAAT+TGG | 0.270564 | 5_3:-3019983 | None:intergenic |
| AACGAAAGTGAAACTGAATT+AGG | 0.272272 | 5_3:+3019898 | Msa0791940:CDS |
| CTCTTCAATATCGTTATTAG+AGG | 0.288961 | 5_3:-3019866 | None:intergenic |
| ACTGTTCAACTCACGTCTTA+TGG | 0.307520 | 5_3:+3019587 | Msa0791940:CDS |
| ATCACAATCATGACAGTAAA+AGG | 0.309703 | 5_3:+3019644 | Msa0791940:CDS |
| CTGTTCAACTCACGTCTTAT+GGG | 0.313666 | 5_3:+3019588 | Msa0791940:CDS |
| ATTGTGATTCACATCAAAAT+TGG | 0.331888 | 5_3:-3019629 | None:intergenic |
| ACGAAAGTGAAACTGAATTA+GGG | 0.428521 | 5_3:+3019899 | Msa0791940:CDS |
| GGATGATAATGAAAAGGTTA+AGG | 0.455317 | 5_3:+3019690 | Msa0791940:CDS |
| TATCATGGATGATAATGAAA+AGG | 0.496794 | 5_3:+3019684 | Msa0791940:CDS |
| TAACGATATTGAAGAGAAGA+AGG | 0.505437 | 5_3:+3019873 | Msa0791940:CDS |
| TCATCTTCAAAACCATCACT+TGG | 0.554445 | 5_3:-3019958 | None:intergenic |
| CCACGATGAAATGAAGAAGT+TGG | 0.576183 | 5_3:+3019777 | Msa0791940:CDS |
| TTGAATGAGCTTCCAAGTGA+TGG | 0.583061 | 5_3:+3019946 | Msa0791940:CDS |
| TGTTCAACTCACGTCTTATG+GGG | 0.605561 | 5_3:+3019589 | Msa0791940:CDS |
| AAATGAAGAAGTTGGTGTTG+AGG | 0.616470 | 5_3:+3019785 | Msa0791940:CDS |
| TCACGTCTTATGGGGTTACG+AGG | 0.646478 | 5_3:+3019597 | Msa0791940:CDS |
| CCAACTTCTTCATTTCATCG+TGG | 0.676716 | 5_3:-3019777 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | GAAATTTTCTAGTAATATCA+TGG | + | chr5_3:3019669-3019688 | Msa0791940:CDS | 20.0% |
| ! | ATTGTGATTCACATCAAAAT+TGG | - | chr5_3:3019632-3019651 | None:intergenic | 25.0% |
| !! | TATCATGGATGATAATGAAA+AGG | + | chr5_3:3019684-3019703 | Msa0791940:CDS | 25.0% |
| ! | GTTTGAAAAATCTTGTCTTT+AGG | - | chr5_3:3019820-3019839 | None:intergenic | 25.0% |
| ATCACAATCATGACAGTAAA+AGG | + | chr5_3:3019644-3019663 | Msa0791940:CDS | 30.0% | |
| ! | GGATGATAATGAAAAGGTTA+AGG | + | chr5_3:3019690-3019709 | Msa0791940:CDS | 30.0% |
| CTCTTCAATATCGTTATTAG+AGG | - | chr5_3:3019869-3019888 | None:intergenic | 30.0% | |
| TAACGATATTGAAGAGAAGA+AGG | + | chr5_3:3019873-3019892 | Msa0791940:CDS | 30.0% | |
| AACGAAAGTGAAACTGAATT+AGG | + | chr5_3:3019898-3019917 | Msa0791940:CDS | 30.0% | |
| ACGAAAGTGAAACTGAATTA+GGG | + | chr5_3:3019899-3019918 | Msa0791940:CDS | 30.0% | |
| !! | AAATGAAGAAGTTGGTGTTG+AGG | + | chr5_3:3019785-3019804 | Msa0791940:CDS | 35.0% |
| TCATCTTCAAAACCATCACT+TGG | - | chr5_3:3019961-3019980 | None:intergenic | 35.0% | |
| ACTGTTCAACTCACGTCTTA+TGG | + | chr5_3:3019587-3019606 | Msa0791940:CDS | 40.0% | |
| CTGTTCAACTCACGTCTTAT+GGG | + | chr5_3:3019588-3019607 | Msa0791940:CDS | 40.0% | |
| TGTTCAACTCACGTCTTATG+GGG | + | chr5_3:3019589-3019608 | Msa0791940:CDS | 40.0% | |
| CCAACTTCTTCATTTCATCG+TGG | - | chr5_3:3019780-3019799 | None:intergenic | 40.0% | |
| CCACGATGAAATGAAGAAGT+TGG | + | chr5_3:3019777-3019796 | Msa0791940:CDS | 40.0% | |
| TTGAATGAGCTTCCAAGTGA+TGG | + | chr5_3:3019946-3019965 | Msa0791940:CDS | 40.0% | |
| TCACGTCTTATGGGGTTACG+AGG | + | chr5_3:3019597-3019616 | Msa0791940:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 3019577 | 3019990 | 3019577 | ID=Msa0791940;Name=Msa0791940 |
| chr5_3 | mRNA | 3019577 | 3019990 | 3019577 | ID=Msa0791940-mRNA-1;Parent=Msa0791940;Name=Msa0791940-mRNA-1;_AED=0.21;_eAED=0.23;_QI=0|-1|0|1|-1|1|1|0|137 |
| chr5_3 | exon | 3019577 | 3019990 | 3019577 | ID=Msa0791940-mRNA-1:exon:1262;Parent=Msa0791940-mRNA-1 |
| chr5_3 | CDS | 3019577 | 3019990 | 3019577 | ID=Msa0791940-mRNA-1:cds;Parent=Msa0791940-mRNA-1 |
| Gene Sequence |
| Protein sequence |
