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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1333920 | XP_003610163.1 | 95.266 | 169 | 8 | 0 | 1 | 169 | 1 | 169 | 1.16e-105 | 320 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1333920 | sp|A6XNC6|UGFGT_MEDTR | 95.266 | 169 | 8 | 0 | 1 | 169 | 1 | 169 | 1.45e-108 | 320 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1333920 | G7JD22 | 95.266 | 169 | 8 | 0 | 1 | 169 | 1 | 169 | 5.54e-106 | 320 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0203160 | Msa1333920 | 0.803490 | 3.400427e-49 | -8.615850e-47 |
| Msa0219190 | Msa1333920 | 0.806289 | 8.843294e-50 | -8.615850e-47 |
| Msa0235890 | Msa1333920 | 0.806759 | 7.036664e-50 | -8.615850e-47 |
| Msa1333920 | Msa1337550 | 0.819217 | 1.304107e-52 | -8.615850e-47 |
| Msa1333920 | Msa1420060 | 0.828501 | 8.681643e-55 | -8.615850e-47 |
| Msa0413930 | Msa1333920 | 0.802576 | 5.253478e-49 | -8.615850e-47 |
| Msa1221410 | Msa1333920 | 0.873648 | 1.249210e-67 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1333920 | MtrunA17_Chr4g0072761 | 95.266 | 169 | 8 | 0 | 1 | 169 | 1 | 169 | 1.07e-109 | 320 |
| Msa1333920 | MtrunA17_Chr4g0072771 | 74.419 | 172 | 41 | 1 | 1 | 169 | 11 | 182 | 2.69e-87 | 263 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1333920 | AT5G17050.1 | 54.777 | 157 | 69 | 1 | 15 | 169 | 12 | 168 | 7.18e-57 | 185 |
| Msa1333920 | AT5G17030.1 | 49.359 | 156 | 76 | 2 | 15 | 169 | 12 | 165 | 2.26e-45 | 155 |
| Msa1333920 | AT1G30530.1 | 49.359 | 156 | 75 | 3 | 15 | 169 | 12 | 164 | 8.98e-45 | 154 |
| Msa1333920 | AT5G17040.1 | 43.976 | 166 | 88 | 3 | 15 | 179 | 5 | 166 | 1.60e-42 | 147 |
Find 32 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTATTACATGTGGCTGTTT+TGG | 0.204921 | 8_4:-54194302 | Msa1333920:CDS |
| ATGCCAAATGGGTTCCTCTT+TGG | 0.313159 | 8_4:-54193925 | Msa1333920:CDS |
| AACAATTTGTGTACCTTCCT+TGG | 0.350944 | 8_4:+54193838 | None:intergenic |
| CCAGAAGGTTACGTACCTTC+TGG | 0.361010 | 8_4:-54194103 | Msa1333920:CDS |
| AAGAATGAAAATGTAACTTT+AGG | 0.364733 | 8_4:+54194214 | None:intergenic |
| TGGGTTCCTCTTTGGACTGC+AGG | 0.370371 | 8_4:-54193917 | Msa1333920:CDS |
| ACATTATAATGCTTTATGTT+AGG | 0.373608 | 8_4:+54194139 | None:intergenic |
| CCAGAAGGTACGTAACCTTC+TGG | 0.404812 | 8_4:+54194103 | None:intergenic |
| GATGAAGCTGTGGCAGAGAC+AGG | 0.424404 | 8_4:-54194016 | Msa1333920:CDS |
| CAGAAGGTTACGTACCTTCT+GGG | 0.444962 | 8_4:-54194102 | Msa1333920:CDS |
| AAGCATTATAATGTTCATGA+TGG | 0.449928 | 8_4:-54194130 | Msa1333920:CDS |
| CTGAGGAAATGCATGCCAAA+TGG | 0.473273 | 8_4:-54193937 | Msa1333920:CDS |
| AGTCCAAAGAGGAACCCATT+TGG | 0.494298 | 8_4:+54193922 | None:intergenic |
| GGGTTCCTCTTTGGACTGCA+GGG | 0.506293 | 8_4:-54193916 | Msa1333920:CDS |
| GGAGCAGCATGTGTGCCAAA+TGG | 0.522528 | 8_4:+54194274 | None:intergenic |
| TGAGGAAATGCATGCCAAAT+GGG | 0.530461 | 8_4:-54193936 | Msa1333920:CDS |
| ATGCTTAAAGTTCTCTTGCA+TGG | 0.530855 | 8_4:+54194045 | None:intergenic |
| AAATAAAGTATCATTTGTTG+TGG | 0.541251 | 8_4:+54194183 | None:intergenic |
| GAGCAGCATGTGTGCCAAAT+GGG | 0.544907 | 8_4:+54194275 | None:intergenic |
| AGCATTATAATGTTCATGAT+GGG | 0.553951 | 8_4:-54194129 | Msa1333920:CDS |
| CAGAGAAAAGACTGGCTCCA+AGG | 0.573763 | 8_4:-54193855 | Msa1333920:CDS |
| GATCTTATCAGAGAAAAGAC+TGG | 0.581356 | 8_4:-54193863 | Msa1333920:CDS |
| GAAAAGACTGGCTCCAAGGA+AGG | 0.586393 | 8_4:-54193851 | Msa1333920:CDS |
| GTTCATGATGGGTTACCAGA+AGG | 0.601738 | 8_4:-54194118 | Msa1333920:CDS |
| ATGAAGCTGTGGCAGAGACA+GGG | 0.623701 | 8_4:-54194015 | Msa1333920:CDS |
| TGAGGCCCTGCAGTCCAAAG+AGG | 0.631764 | 8_4:+54193911 | None:intergenic |
| GTTTGGTGCGGATCTTGCTG+AGG | 0.633911 | 8_4:-54193954 | Msa1333920:CDS |
| GGTTCACGTGGATTCCCAGA+AGG | 0.638759 | 8_4:+54194088 | None:intergenic |
| GCATGTTATTGATGAAGCTG+TGG | 0.657226 | 8_4:-54194026 | Msa1333920:CDS |
| TGGTAACAACTTATTACATG+TGG | 0.676074 | 8_4:-54194311 | Msa1333920:CDS |
| ACATGTGTAAGAAGAGAGTG+AGG | 0.678080 | 8_4:+54193893 | None:intergenic |
| AGTGAAAAGAATTGCTACAG+AGG | 0.681804 | 8_4:-54194239 | Msa1333920:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAGAATGAAAATGTAACTTT+AGG | + | chr8_4:54193940-54193959 | None:intergenic | 20.0% |
| !!! | AAATAAAGTATCATTTGTTG+TGG | + | chr8_4:54193971-54193990 | None:intergenic | 20.0% |
| !!! | CAAATGATACTTTATTTTCT+AGG | - | chr8_4:54193974-54193993 | Msa1333920:CDS | 20.0% |
| !! | ACATTATAATGCTTTATGTT+AGG | + | chr8_4:54194015-54194034 | None:intergenic | 20.0% |
| ! | AGCTTCAAAAATGAAATGAA+TGG | - | chr8_4:54193820-54193839 | Msa1333920:CDS | 25.0% |
| ! | AAGCATTATAATGTTCATGA+TGG | - | chr8_4:54194021-54194040 | Msa1333920:CDS | 25.0% |
| ! | AGCATTATAATGTTCATGAT+GGG | - | chr8_4:54194022-54194041 | Msa1333920:CDS | 25.0% |
| ! | GTCTTAATGAAGAGAAAAAT+TGG | + | chr8_4:54194087-54194106 | None:intergenic | 25.0% |
| TGGTAACAACTTATTACATG+TGG | - | chr8_4:54193840-54193859 | Msa1333920:CDS | 30.0% | |
| !!! | TGATTACTGACGCATTTTTT+TGG | - | chr8_4:54194175-54194194 | Msa1333920:CDS | 30.0% |
| ! | CTTATTACATGTGGCTGTTT+TGG | - | chr8_4:54193849-54193868 | Msa1333920:CDS | 35.0% |
| ! | CAATTCTTTTCACTAGGCTA+AGG | + | chr8_4:54193906-54193925 | None:intergenic | 35.0% |
| ! | CTGTAGCAATTCTTTTCACT+AGG | + | chr8_4:54193912-54193931 | None:intergenic | 35.0% |
| AGTGAAAAGAATTGCTACAG+AGG | - | chr8_4:54193912-54193931 | Msa1333920:CDS | 35.0% | |
| ! | AAGAGAAAAATTGGTTCACG+TGG | + | chr8_4:54194078-54194097 | None:intergenic | 35.0% |
| ATGCTTAAAGTTCTCTTGCA+TGG | + | chr8_4:54194109-54194128 | None:intergenic | 35.0% | |
| !!! | ACTGACGCATTTTTTTGGTT+TGG | - | chr8_4:54194180-54194199 | Msa1333920:CDS | 35.0% |
| GATCTTATCAGAGAAAAGAC+TGG | - | chr8_4:54194288-54194307 | Msa1333920:CDS | 35.0% | |
| AACAATTTGTGTACCTTCCT+TGG | + | chr8_4:54194316-54194335 | None:intergenic | 35.0% | |
| GCATGTTATTGATGAAGCTG+TGG | - | chr8_4:54194125-54194144 | Msa1333920:CDS | 40.0% | |
| !!! | CGCATTTTTTTGGTTTGGTG+CGG | - | chr8_4:54194185-54194204 | Msa1333920:CDS | 40.0% |
| TGAGGAAATGCATGCCAAAT+GGG | - | chr8_4:54194215-54194234 | Msa1333920:CDS | 40.0% | |
| ACATGTGTAAGAAGAGAGTG+AGG | + | chr8_4:54194261-54194280 | None:intergenic | 40.0% | |
| !!! | GCTGTTTTGGCATTCCCATT+TGG | - | chr8_4:54193862-54193881 | Msa1333920:CDS | 45.0% |
| ! | CTTTTCACTAGGCTAAGGAG+TGG | + | chr8_4:54193901-54193920 | None:intergenic | 45.0% |
| !! | GTTCATGATGGGTTACCAGA+AGG | - | chr8_4:54194033-54194052 | Msa1333920:CDS | 45.0% |
| CAGAAGGTTACGTACCTTCT+GGG | - | chr8_4:54194049-54194068 | Msa1333920:CDS | 45.0% | |
| CTGAGGAAATGCATGCCAAA+TGG | - | chr8_4:54194214-54194233 | Msa1333920:CDS | 45.0% | |
| ! | ATGCCAAATGGGTTCCTCTT+TGG | - | chr8_4:54194226-54194245 | Msa1333920:CDS | 45.0% |
| AGTCCAAAGAGGAACCCATT+TGG | + | chr8_4:54194232-54194251 | None:intergenic | 45.0% | |
| GAGCAGCATGTGTGCCAAAT+GGG | + | chr8_4:54193879-54193898 | None:intergenic | 50.0% | |
| ! | CCAGAAGGTACGTAACCTTC+TGG | + | chr8_4:54194051-54194070 | None:intergenic | 50.0% |
| CCAGAAGGTTACGTACCTTC+TGG | - | chr8_4:54194048-54194067 | Msa1333920:CDS | 50.0% | |
| ATGAAGCTGTGGCAGAGACA+GGG | - | chr8_4:54194136-54194155 | Msa1333920:CDS | 50.0% | |
| ! | CAGAGAAAAGACTGGCTCCA+AGG | - | chr8_4:54194296-54194315 | Msa1333920:CDS | 50.0% |
| ! | GAAAAGACTGGCTCCAAGGA+AGG | - | chr8_4:54194300-54194319 | Msa1333920:CDS | 50.0% |
| GGAGCAGCATGTGTGCCAAA+TGG | + | chr8_4:54193880-54193899 | None:intergenic | 55.0% | |
| GGTTCACGTGGATTCCCAGA+AGG | + | chr8_4:54194066-54194085 | None:intergenic | 55.0% | |
| GATGAAGCTGTGGCAGAGAC+AGG | - | chr8_4:54194135-54194154 | Msa1333920:CDS | 55.0% | |
| !! | GTTTGGTGCGGATCTTGCTG+AGG | - | chr8_4:54194197-54194216 | Msa1333920:CDS | 55.0% |
| TGGGTTCCTCTTTGGACTGC+AGG | - | chr8_4:54194234-54194253 | Msa1333920:CDS | 55.0% | |
| GGGTTCCTCTTTGGACTGCA+GGG | - | chr8_4:54194235-54194254 | Msa1333920:CDS | 55.0% | |
| TGAGGCCCTGCAGTCCAAAG+AGG | + | chr8_4:54194243-54194262 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_4 | gene | 54193814 | 54194359 | 54193814 | ID=Msa1333920;Name=Msa1333920 |
| chr8_4 | mRNA | 54193814 | 54194359 | 54193814 | ID=Msa1333920-mRNA-1;Parent=Msa1333920;Name=Msa1333920-mRNA-1;_AED=0.41;_eAED=0.41;_QI=0|-1|0|1|-1|1|1|0|181 |
| chr8_4 | exon | 54193814 | 54194359 | 54193814 | ID=Msa1333920-mRNA-1:exon:16862;Parent=Msa1333920-mRNA-1 |
| chr8_4 | CDS | 54193814 | 54194359 | 54193814 | ID=Msa1333920-mRNA-1:cds;Parent=Msa1333920-mRNA-1 |
| Gene Sequence |
| Protein sequence |
