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 |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0114980 | sp|Q9LQV2|RDR1_ARATH | 40.426 | 188 | 97 | 3 | 4 | 191 | 2 | 174 | 1.50e-40 | 149 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0114980 | A0A072VF31 | 67.539 | 191 | 47 | 2 | 1 | 191 | 1 | 176 | 1.54e-74 | 249 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0114910 | Msa0114980 | 0.889183 | 3.041672e-73 | -8.615850e-47 |
| Msa0114920 | Msa0114980 | 0.882757 | 7.972062e-71 | -8.615850e-47 |
| Msa0114930 | Msa0114980 | 0.876595 | 1.232365e-68 | -8.615850e-47 |
| Msa0114940 | Msa0114980 | 0.903007 | 5.411632e-79 | -8.615850e-47 |
| Msa0114950 | Msa0114980 | 0.954203 | 5.011130e-112 | -8.615850e-47 |
| Msa0114970 | Msa0114980 | 0.949034 | 2.871885e-107 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0114980 | MtrunA17_Chr1g0161491 | 67.539 | 191 | 47 | 2 | 1 | 191 | 15 | 190 | 1.43e-76 | 248 |
| Msa0114980 | MtrunA17_Chr1g0161471 | 65.285 | 193 | 51 | 2 | 1 | 191 | 1 | 179 | 2.62e-76 | 248 |
| Msa0114980 | MtrunA17_Chr1g0161511 | 62.887 | 194 | 54 | 4 | 1 | 191 | 1 | 179 | 6.84e-69 | 227 |
| Msa0114980 | MtrunA17_Chr1g0161521 | 62.887 | 194 | 54 | 4 | 1 | 191 | 1 | 179 | 1.20e-68 | 226 |
| Msa0114980 | MtrunA17_Chr1g0161451 | 33.871 | 186 | 108 | 3 | 5 | 190 | 3 | 173 | 3.86e-27 | 107 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0114980 | AT1G14790.1 | 40.426 | 188 | 97 | 3 | 4 | 191 | 2 | 174 | 1.52e-41 | 149 |
Find 26 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GACGATGTTAAATTGTATTT+TGG | 0.150856 | 1_3:+33480266 | Msa0114980:CDS |
| AGCTTTCATATGAGAATATT+TGG | 0.191630 | 1_3:+33480414 | Msa0114980:CDS |
| ATGGATGCTAGTGCAGATTT+TGG | 0.192772 | 1_3:+33480332 | Msa0114980:CDS |
| CTATTTAAAAGTTACGAAAA+TGG | 0.261211 | 1_3:+33480199 | Msa0114980:CDS |
| TGCAAAGTATCTATTGATTC+AGG | 0.268018 | 1_3:+33480469 | Msa0114980:CDS |
| TAGAAGAATGCCGTTGGCTT+TGG | 0.337561 | 1_3:-33480236 | None:intergenic |
| CTCTGTATTGTGGGGAAAGA+TGG | 0.454381 | 1_3:+33480313 | Msa0114980:CDS |
| TTGGGATTGGATTGAGAAAG+TGG | 0.455481 | 1_3:+33480351 | Msa0114980:CDS |
| ACATTTGTAGAGCAGTATAC+TGG | 0.461229 | 1_3:+33479990 | Msa0114980:CDS |
| GGAAAGATTCTCTGTATTGT+GGG | 0.467936 | 1_3:+33480304 | Msa0114980:CDS |
| TCTACAAATGTCTTTACATC+AGG | 0.480962 | 1_3:-33479978 | None:intergenic |
| AGTAAAACAATTAAGTTGCA+TGG | 0.485965 | 1_3:+33479933 | Msa0114980:CDS |
| AGGAAAGATTCTCTGTATTG+TGG | 0.507749 | 1_3:+33480303 | Msa0114980:CDS |
| AGATCATGCTACATATATGA+TGG | 0.530126 | 1_3:+33480139 | Msa0114980:CDS |
| GTTTGAACTTCTTATCGTCA+TGG | 0.543349 | 1_3:-33480388 | None:intergenic |
| GAGATTTGTTCAAATTCGAA+CGG | 0.545671 | 1_3:+33480088 | Msa0114980:CDS |
| TCAGGCACGGTGACATGATG+AGG | 0.567959 | 1_3:-33479960 | None:intergenic |
| AGATTGAACTGCATCAACCA+TGG | 0.634369 | 1_3:+33480438 | Msa0114980:CDS |
| CAGGCACGGTGACATGATGA+GGG | 0.635211 | 1_3:-33479959 | None:intergenic |
| AATCTGTAGAAGAATGCCGT+TGG | 0.636903 | 1_3:-33480242 | None:intergenic |
| AGATATTGATCCAAAGCCAA+CGG | 0.640968 | 1_3:+33480226 | Msa0114980:CDS |
| GAAAGATTCTCTGTATTGTG+GGG | 0.645886 | 1_3:+33480305 | Msa0114980:CDS |
| AAATGTCTTTACATCAGGCA+CGG | 0.659012 | 1_3:-33479973 | None:intergenic |
| TATATGATGGCCTTATGTAG+CGG | 0.659739 | 1_3:+33480152 | Msa0114980:CDS |
| ATATGTAGCATGATCTGTAG+TGG | 0.696738 | 1_3:-33480132 | None:intergenic |
| GTATACTGGTGAAGAAAGTG+TGG | 0.711055 | 1_3:+33480004 | Msa0114980:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CATTTTCGTAACTTTTAAAT+AGG | - | chr1_3:33480201-33480220 | None:intergenic | 20.0% |
| !! | CTATTTAAAAGTTACGAAAA+TGG | + | chr1_3:33480199-33480218 | Msa0114980:CDS | 20.0% |
| !! | AGTAAAACAATTAAGTTGCA+TGG | + | chr1_3:33479933-33479952 | Msa0114980:CDS | 25.0% |
| !! | GACGATGTTAAATTGTATTT+TGG | + | chr1_3:33480266-33480285 | Msa0114980:CDS | 25.0% |
| ! | AGCTTTCATATGAGAATATT+TGG | + | chr1_3:33480414-33480433 | Msa0114980:CDS | 25.0% |
| TCTACAAATGTCTTTACATC+AGG | - | chr1_3:33479981-33480000 | None:intergenic | 30.0% | |
| GTGTGGTTGCTATAAAAATA+AGG | + | chr1_3:33480021-33480040 | Msa0114980:CDS | 30.0% | |
| ! | GAGATTTGTTCAAATTCGAA+CGG | + | chr1_3:33480088-33480107 | Msa0114980:CDS | 30.0% |
| AGATCATGCTACATATATGA+TGG | + | chr1_3:33480139-33480158 | Msa0114980:CDS | 30.0% | |
| !!! | CAATTTTTTTCCGCTACATA+AGG | - | chr1_3:33480165-33480184 | None:intergenic | 30.0% |
| !!! | TACTTTGCAGTTTTAAACCA+TGG | - | chr1_3:33480458-33480477 | None:intergenic | 30.0% |
| !! | TGCAAAGTATCTATTGATTC+AGG | + | chr1_3:33480469-33480488 | Msa0114980:CDS | 30.0% |
| AAATGTCTTTACATCAGGCA+CGG | - | chr1_3:33479976-33479995 | None:intergenic | 35.0% | |
| ACATTTGTAGAGCAGTATAC+TGG | + | chr1_3:33479990-33480009 | Msa0114980:CDS | 35.0% | |
| ATATGTAGCATGATCTGTAG+TGG | - | chr1_3:33480135-33480154 | None:intergenic | 35.0% | |
| !! | TATATGATGGCCTTATGTAG+CGG | + | chr1_3:33480152-33480171 | Msa0114980:CDS | 35.0% |
| AGATATTGATCCAAAGCCAA+CGG | + | chr1_3:33480226-33480245 | Msa0114980:CDS | 35.0% | |
| AGGAAAGATTCTCTGTATTG+TGG | + | chr1_3:33480303-33480322 | Msa0114980:CDS | 35.0% | |
| GGAAAGATTCTCTGTATTGT+GGG | + | chr1_3:33480304-33480323 | Msa0114980:CDS | 35.0% | |
| GAAAGATTCTCTGTATTGTG+GGG | + | chr1_3:33480305-33480324 | Msa0114980:CDS | 35.0% | |
| GTTTGAACTTCTTATCGTCA+TGG | - | chr1_3:33480391-33480410 | None:intergenic | 35.0% | |
| GTATACTGGTGAAGAAAGTG+TGG | + | chr1_3:33480004-33480023 | Msa0114980:CDS | 40.0% | |
| GCGGAAAAAAATTGCAGTTC+TGG | + | chr1_3:33480171-33480190 | Msa0114980:CDS | 40.0% | |
| AATCTGTAGAAGAATGCCGT+TGG | - | chr1_3:33480245-33480264 | None:intergenic | 40.0% | |
| !! | TTTTGGCTGTCAGATCTCAA+AGG | + | chr1_3:33480283-33480302 | Msa0114980:CDS | 40.0% |
| ! | ATGGATGCTAGTGCAGATTT+TGG | + | chr1_3:33480332-33480351 | Msa0114980:CDS | 40.0% |
| ! | TGGATGCTAGTGCAGATTTT+GGG | + | chr1_3:33480333-33480352 | Msa0114980:CDS | 40.0% |
| TTGGGATTGGATTGAGAAAG+TGG | + | chr1_3:33480351-33480370 | Msa0114980:CDS | 40.0% | |
| AGATTGAACTGCATCAACCA+TGG | + | chr1_3:33480438-33480457 | Msa0114980:CDS | 40.0% | |
| !! | TAGAAGAATGCCGTTGGCTT+TGG | - | chr1_3:33480239-33480258 | None:intergenic | 45.0% |
| CTCTGTATTGTGGGGAAAGA+TGG | + | chr1_3:33480313-33480332 | Msa0114980:CDS | 45.0% | |
| !!! | GCTAGTGCAGATTTTGGGAT+TGG | + | chr1_3:33480338-33480357 | Msa0114980:CDS | 45.0% |
| CAGGCACGGTGACATGATGA+GGG | - | chr1_3:33479962-33479981 | None:intergenic | 55.0% | |
| TCAGGCACGGTGACATGATG+AGG | - | chr1_3:33479963-33479982 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 33479924 | 33480520 | 33479924 | ID=Msa0114980;Name=Msa0114980 |
| chr1_3 | mRNA | 33479924 | 33480520 | 33479924 | ID=Msa0114980-mRNA-1;Parent=Msa0114980;Name=Msa0114980-mRNA-1;_AED=0.13;_eAED=0.13;_QI=0|-1|0|1|-1|1|1|0|198 |
| chr1_3 | exon | 33479924 | 33480520 | 33479924 | ID=Msa0114980-mRNA-1:exon:10476;Parent=Msa0114980-mRNA-1 |
| chr1_3 | CDS | 33479924 | 33480520 | 33479924 | ID=Msa0114980-mRNA-1:cds;Parent=Msa0114980-mRNA-1 |
| Gene Sequence |
| Protein sequence |
