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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1387280 | KEH34139.1 | 62.205 | 127 | 28 | 3 | 1 | 113 | 1 | 121 | 3.12e-41 | 142 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1387280 | A0A072UWC0 | 62.205 | 127 | 28 | 3 | 1 | 113 | 1 | 121 | 1.49e-41 | 142 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1387280 | Msa1387340 | 0.921316 | 4.185314e-88 | -8.615850e-47 |
| Msa1387280 | Msa1387350 | 0.819678 | 1.023756e-52 | -8.615850e-47 |
| Msa0753720 | Msa1387280 | 0.800158 | 1.643078e-48 | -8.615850e-47 |
| Msa0768290 | Msa1387280 | 0.816305 | 5.923132e-52 | -8.615850e-47 |
| Msa0768370 | Msa1387280 | 0.820164 | 7.927482e-53 | -8.615850e-47 |
| Msa0784290 | Msa1387280 | 0.814232 | 1.711239e-51 | -8.615850e-47 |
| Msa0824590 | Msa1387280 | 0.805051 | 1.608778e-49 | -8.615850e-47 |
| Msa0251320 | Msa1387280 | 0.807814 | 4.204998e-50 | -8.615850e-47 |
| Msa1121490 | Msa1387280 | 0.812678 | 3.757608e-51 | -8.615850e-47 |
| Msa0844490 | Msa1387280 | 0.815520 | 8.864324e-52 | -8.615850e-47 |
| Msa0864070 | Msa1387280 | 0.827966 | 1.168400e-54 | -8.615850e-47 |
| Msa0899430 | Msa1387280 | 0.812587 | 3.933592e-51 | -8.615850e-47 |
| Msa0914760 | Msa1387280 | 0.806369 | 8.506090e-50 | -8.615850e-47 |
| Msa0952720 | Msa1387280 | 0.810117 | 1.351891e-50 | -8.615850e-47 |
| Msa0958550 | Msa1387280 | 0.801522 | 8.652115e-49 | -8.615850e-47 |
| Msa0966750 | Msa1387280 | 0.812276 | 4.598832e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1387280 | MtrunA17_Chr3g0103651 | 62.205 | 127 | 28 | 3 | 1 | 113 | 1 | 121 | 2.87e-45 | 142 |
| Msa1387280 | MtrunA17_Chr3g0103901 | 53.285 | 137 | 35 | 4 | 1 | 113 | 1 | 132 | 6.20e-37 | 122 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 36 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATTTCTGGTGTGATTACTA+TGG | 0.239266 | tig0020883:-73184 | None:intergenic |
| TTAAGCGACTCCCTCATTTC+TGG | 0.281072 | tig0020883:-73198 | None:intergenic |
| AACATGACCGGATGCGGAAT+TGG | 0.340972 | tig0020883:-73352 | None:intergenic |
| GGAGTTCGTGATCTCGTGTT+AGG | 0.342593 | tig0020883:+73114 | Msa1387280:CDS |
| GAGTTCGTGATCTCGTGTTA+GGG | 0.419998 | tig0020883:+73115 | Msa1387280:CDS |
| CAAGCCTCCAATTCCGCATC+CGG | 0.449798 | tig0020883:+73345 | Msa1387280:CDS |
| GGGAGTCGCTTAACCGTCAT+TGG | 0.467747 | tig0020883:+73208 | Msa1387280:CDS |
| TAGAGGTGGGGATGGAGTCA+AGG | 0.474938 | tig0020883:+73149 | Msa1387280:CDS |
| CGGATGGAGATGGAGTTGTC+AGG | 0.475179 | tig0020883:+73067 | Msa1387280:CDS |
| TTAGGGGACGTCGAGAATAG+AGG | 0.481029 | tig0020883:+73132 | Msa1387280:CDS |
| TTCTCTTCTTGAACCAATGA+CGG | 0.502542 | tig0020883:-73221 | None:intergenic |
| ATTTCTGGTGTGATTACTAT+GGG | 0.502978 | tig0020883:-73183 | None:intergenic |
| TCAAGAAGAGAATGGAAGGT+GGG | 0.505683 | tig0020883:+73232 | Msa1387280:CDS |
| CGGATGCGGAATTGGAGGCT+TGG | 0.507109 | tig0020883:-73344 | None:intergenic |
| GGAGTTGGTGATATCGAGGA+TGG | 0.511833 | tig0020883:+73093 | Msa1387280:CDS |
| TCAAGTATGTCGGATGGAGA+TGG | 0.522110 | tig0020883:+73057 | None:intergenic |
| GGAGATGGAGTTGTCAGGGA+TGG | 0.527525 | tig0020883:+73072 | Msa1387280:CDS |
| GTCGAGAATAGAGGTGGGGA+TGG | 0.531827 | tig0020883:+73141 | Msa1387280:CDS |
| AGCACCAACATGACCGGATG+CGG | 0.541690 | tig0020883:-73358 | None:intergenic |
| TAGTAATCACACCAGAAATG+AGG | 0.542592 | tig0020883:+73187 | Msa1387280:CDS |
| ATGACCGGATGCGGAATTGG+AGG | 0.548162 | tig0020883:-73349 | None:intergenic |
| AATAGAAGCACCAACATGAC+CGG | 0.566507 | tig0020883:-73364 | None:intergenic |
| TTAAAGATGGCGGCTGAAGG+TGG | 0.571077 | tig0020883:-73258 | None:intergenic |
| AGTAATCACACCAGAAATGA+GGG | 0.573074 | tig0020883:+73188 | Msa1387280:CDS |
| TTCAAGAAGAGAATGGAAGG+TGG | 0.595538 | tig0020883:+73231 | Msa1387280:CDS |
| TGGTTCAAGAAGAGAATGGA+AGG | 0.596857 | tig0020883:+73228 | Msa1387280:CDS |
| GGAGTTGTCAGGGATGGAGT+TGG | 0.610996 | tig0020883:+73078 | Msa1387280:CDS |
| TCATTGGTTCAAGAAGAGAA+TGG | 0.613595 | tig0020883:+73224 | Msa1387280:CDS |
| AATTCCGCATCCGGTCATGT+TGG | 0.615116 | tig0020883:+73354 | Msa1387280:CDS |
| GGGGACGTCGAGAATAGAGG+TGG | 0.644629 | tig0020883:+73135 | Msa1387280:CDS |
| GGATGGAGATGGAGTTGTCA+GGG | 0.649124 | tig0020883:+73068 | Msa1387280:CDS |
| GGATGGAGTTGGTGATATCG+AGG | 0.651118 | tig0020883:+73089 | Msa1387280:CDS |
| AGGCTTGGAGAGCAGAACCT+CGG | 0.654121 | tig0020883:-73329 | None:intergenic |
| GGGACGTCGAGAATAGAGGT+GGG | 0.655686 | tig0020883:+73136 | Msa1387280:CDS |
| AGTTCGTGATCTCGTGTTAG+GGG | 0.674252 | tig0020883:+73116 | Msa1387280:CDS |
| GGACGTCGAGAATAGAGGTG+GGG | 0.676100 | tig0020883:+73137 | Msa1387280:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAGTCCATGTTTTTTAAAGA+TGG | - | tig0020883:73274-73293 | None:intergenic | 25.0% |
| !! | ATTTCTGGTGTGATTACTAT+GGG | - | tig0020883:73186-73205 | None:intergenic | 30.0% |
| !!! | TCCATGTTTTTTAAAGATGG+CGG | - | tig0020883:73271-73290 | None:intergenic | 30.0% |
| !! | CATTTCTGGTGTGATTACTA+TGG | - | tig0020883:73187-73206 | None:intergenic | 35.0% |
| TAGTAATCACACCAGAAATG+AGG | + | tig0020883:73187-73206 | Msa1387280:CDS | 35.0% | |
| AGTAATCACACCAGAAATGA+GGG | + | tig0020883:73188-73207 | Msa1387280:CDS | 35.0% | |
| TTCTCTTCTTGAACCAATGA+CGG | - | tig0020883:73224-73243 | None:intergenic | 35.0% | |
| !! | TCATTGGTTCAAGAAGAGAA+TGG | + | tig0020883:73224-73243 | Msa1387280:CDS | 35.0% |
| TGGTTCAAGAAGAGAATGGA+AGG | + | tig0020883:73228-73247 | Msa1387280:CDS | 40.0% | |
| TTCAAGAAGAGAATGGAAGG+TGG | + | tig0020883:73231-73250 | Msa1387280:CDS | 40.0% | |
| TCAAGAAGAGAATGGAAGGT+GGG | + | tig0020883:73232-73251 | Msa1387280:CDS | 40.0% | |
| !! | TTTTTAAAGATGGCGGCTGA+AGG | - | tig0020883:73264-73283 | None:intergenic | 40.0% |
| ! | GCCGCCATCTTTAAAAAACA+TGG | + | tig0020883:73267-73286 | Msa1387280:CDS | 40.0% |
| !!! | GCTCTAGATTGTTTTAACCG+AGG | + | tig0020883:73312-73331 | Msa1387280:CDS | 40.0% |
| !! | AATAGAAGCACCAACATGAC+CGG | - | tig0020883:73367-73386 | None:intergenic | 40.0% |
| GAGTTCGTGATCTCGTGTTA+GGG | + | tig0020883:73115-73134 | Msa1387280:CDS | 45.0% | |
| AGTTCGTGATCTCGTGTTAG+GGG | + | tig0020883:73116-73135 | Msa1387280:CDS | 45.0% | |
| TTAAGCGACTCCCTCATTTC+TGG | - | tig0020883:73201-73220 | None:intergenic | 45.0% | |
| GGATGGAGATGGAGTTGTCA+GGG | + | tig0020883:73068-73087 | Msa1387280:CDS | 50.0% | |
| !! | GGATGGAGTTGGTGATATCG+AGG | + | tig0020883:73089-73108 | Msa1387280:CDS | 50.0% |
| !! | GGAGTTGGTGATATCGAGGA+TGG | + | tig0020883:73093-73112 | Msa1387280:CDS | 50.0% |
| GGAGTTCGTGATCTCGTGTT+AGG | + | tig0020883:73114-73133 | Msa1387280:CDS | 50.0% | |
| TTAGGGGACGTCGAGAATAG+AGG | + | tig0020883:73132-73151 | Msa1387280:CDS | 50.0% | |
| ! | TTAAAGATGGCGGCTGAAGG+TGG | - | tig0020883:73261-73280 | None:intergenic | 50.0% |
| AACATGACCGGATGCGGAAT+TGG | - | tig0020883:73355-73374 | None:intergenic | 50.0% | |
| AATTCCGCATCCGGTCATGT+TGG | + | tig0020883:73354-73373 | Msa1387280:CDS | 50.0% | |
| CGGATGGAGATGGAGTTGTC+AGG | + | tig0020883:73067-73086 | Msa1387280:CDS | 55.0% | |
| GGAGATGGAGTTGTCAGGGA+TGG | + | tig0020883:73072-73091 | Msa1387280:CDS | 55.0% | |
| GGAGTTGTCAGGGATGGAGT+TGG | + | tig0020883:73078-73097 | Msa1387280:CDS | 55.0% | |
| GGGACGTCGAGAATAGAGGT+GGG | + | tig0020883:73136-73155 | Msa1387280:CDS | 55.0% | |
| GGACGTCGAGAATAGAGGTG+GGG | + | tig0020883:73137-73156 | Msa1387280:CDS | 55.0% | |
| GTCGAGAATAGAGGTGGGGA+TGG | + | tig0020883:73141-73160 | Msa1387280:CDS | 55.0% | |
| TAGAGGTGGGGATGGAGTCA+AGG | + | tig0020883:73149-73168 | Msa1387280:CDS | 55.0% | |
| GGGAGTCGCTTAACCGTCAT+TGG | + | tig0020883:73208-73227 | Msa1387280:CDS | 55.0% | |
| AGGCTTGGAGAGCAGAACCT+CGG | - | tig0020883:73332-73351 | None:intergenic | 55.0% | |
| CAAGCCTCCAATTCCGCATC+CGG | + | tig0020883:73345-73364 | Msa1387280:CDS | 55.0% | |
| ATGACCGGATGCGGAATTGG+AGG | - | tig0020883:73352-73371 | None:intergenic | 55.0% | |
| AGCACCAACATGACCGGATG+CGG | - | tig0020883:73361-73380 | None:intergenic | 55.0% | |
| GGGGACGTCGAGAATAGAGG+TGG | + | tig0020883:73135-73154 | Msa1387280:CDS | 60.0% | |
| CGGATGCGGAATTGGAGGCT+TGG | - | tig0020883:73347-73366 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0020883 | gene | 73063 | 73404 | 73063 | ID=Msa1387280;Name=Msa1387280 |
| tig0020883 | mRNA | 73063 | 73404 | 73063 | ID=Msa1387280-mRNA-1;Parent=Msa1387280;Name=Msa1387280-mRNA-1;_AED=0.00;_eAED=0.06;_QI=0|-1|0|1|-1|1|1|0|113 |
| tig0020883 | exon | 73063 | 73404 | 73063 | ID=Msa1387280-mRNA-1:exon:10520;Parent=Msa1387280-mRNA-1 |
| tig0020883 | CDS | 73063 | 73404 | 73063 | ID=Msa1387280-mRNA-1:cds;Parent=Msa1387280-mRNA-1 |
| Gene Sequence |
| Protein sequence |
