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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0786250 | sp|Q9S728|PDF1_ARATH | 66.071 | 112 | 34 | 1 | 3 | 110 | 194 | 305 | 3.47e-48 | 158 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0786250 | A0A396HYZ7 | 98.165 | 109 | 2 | 0 | 3 | 111 | 477 | 585 | 2.33e-73 | 237 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0018220 | Msa0786250 | 0.807523 | 4.848285e-50 | -8.615850e-47 |
| Msa0052460 | Msa0786250 | 0.806203 | 9.221165e-50 | -8.615850e-47 |
| Msa0097050 | Msa0786250 | 0.809273 | 2.052720e-50 | -8.615850e-47 |
| Msa0741950 | Msa0786250 | 0.812537 | 4.033058e-51 | -8.615850e-47 |
| Msa0786250 | Msa0823150 | 0.920316 | 1.493522e-87 | -8.615850e-47 |
| Msa0786250 | Msa0862150 | 0.930925 | 8.040203e-94 | -8.615850e-47 |
| Msa0786250 | Msa1147200 | 0.801128 | 1.041961e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0786250 | MtrunA17_Chr5g0443411 | 98.165 | 109 | 2 | 0 | 3 | 111 | 477 | 585 | 4.48e-77 | 237 |
| Msa0786250 | MtrunA17_Chr3g0096661 | 77.778 | 108 | 24 | 0 | 3 | 110 | 222 | 329 | 9.41e-61 | 188 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0786250 | AT2G42840.1 | 66.071 | 112 | 34 | 1 | 3 | 110 | 194 | 305 | 3.52e-49 | 158 |
Find 32 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTTAATTAGCATTTATATA+TGG | 0.304298 | 5_2:-71659798 | Msa0786250:three_prime_UTR |
| AGAGCATGATCTAATTAGTT+TGG | 0.318391 | 5_2:-71659954 | Msa0786250:exon |
| CAACTCATCTGGGGATTACT+AGG | 0.339213 | 5_2:-71660257 | Msa0786250:CDS |
| AGCATCACTCAGCTCAAATA+AGG | 0.347612 | 5_2:-71660033 | Msa0786250:CDS |
| GGAACCTTAGGCAATGCTTT+TGG | 0.354127 | 5_2:-71660227 | Msa0786250:CDS |
| AGCTTCTTATCTTAACTCCT+TGG | 0.380146 | 5_2:-71660105 | Msa0786250:CDS |
| ATACTCACCCACAACTCATC+TGG | 0.388415 | 5_2:-71660268 | Msa0786250:CDS |
| TGTGTTAATTTATCCTATGA+TGG | 0.395984 | 5_2:-71659844 | Msa0786250:three_prime_UTR |
| ATTAACTTTATTCAAAACTT+AGG | 0.399802 | 5_2:+71659773 | None:intergenic |
| GAAGTCTTAAATATAATATA+CGG | 0.416577 | 5_2:+71659903 | None:intergenic |
| CTGACTTGATCAGTTGTGTA+AGG | 0.425458 | 5_2:+71660068 | None:intergenic |
| CTAGGCTGGTGGGGAACCTT+AGG | 0.427247 | 5_2:-71660239 | Msa0786250:CDS |
| CTGAGACTTGCACCGAGTCC+TGG | 0.434073 | 5_2:+71660191 | None:intergenic |
| TACTCACCCACAACTCATCT+GGG | 0.467667 | 5_2:-71660267 | Msa0786250:CDS |
| CAGTGCACTGAATCCATCAT+AGG | 0.475865 | 5_2:+71659831 | None:intergenic |
| TTTGGTGTGCATAGTCTGCC+AGG | 0.478995 | 5_2:-71660209 | Msa0786250:CDS |
| CTGGGGATTACTAGGCTGGT+GGG | 0.511530 | 5_2:-71660249 | Msa0786250:CDS |
| TCATCTGGGGATTACTAGGC+TGG | 0.515340 | 5_2:-71660253 | Msa0786250:CDS |
| GAGCGCATCAGTTCTTGTGT+TGG | 0.536546 | 5_2:+71660151 | None:intergenic |
| GTGCATAGTCTGCCAGGACT+CGG | 0.540042 | 5_2:-71660203 | Msa0786250:CDS |
| GTAATCCCCAGATGAGTTGT+GGG | 0.542041 | 5_2:+71660261 | None:intergenic |
| TCTGGGGATTACTAGGCTGG+TGG | 0.546406 | 5_2:-71660250 | Msa0786250:CDS |
| AGTAATCCCCAGATGAGTTG+TGG | 0.557092 | 5_2:+71660260 | None:intergenic |
| CTCGGAGCACTTTACAGAGA+AGG | 0.562112 | 5_2:-71660131 | Msa0786250:CDS |
| AACACAAGAACTGATGCGCT+CGG | 0.597150 | 5_2:-71660149 | Msa0786250:CDS |
| TGGGGATTACTAGGCTGGTG+GGG | 0.602911 | 5_2:-71660248 | Msa0786250:CDS |
| TGACTTGATCAGTTGTGTAA+GGG | 0.610270 | 5_2:+71660069 | None:intergenic |
| CACACCAAAAGCATTGCCTA+AGG | 0.612626 | 5_2:+71660223 | None:intergenic |
| CTTGTGTTGGAAAGTGCTTG+TGG | 0.615132 | 5_2:+71660164 | None:intergenic |
| AACTAATTAGATCATGCTCT+AGG | 0.616122 | 5_2:+71659957 | None:intergenic |
| AGGGAACTTGTTGTTCACCA+AGG | 0.661827 | 5_2:+71660088 | None:intergenic |
| ACTCACCCACAACTCATCTG+GGG | 0.705013 | 5_2:-71660266 | Msa0786250:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GAAGTCTTAAATATAATATA+CGG | + | chr5_2:71660214-71660233 | None:intergenic | 15.0% |
| !! | TGTTAATTAGCATTTATATA+TGG | - | chr5_2:71660316-71660335 | Msa0786250:intron | 15.0% |
| !! | ATTAACTTTATTCAAAACTT+AGG | + | chr5_2:71660344-71660363 | None:intergenic | 15.0% |
| ! | TGTGTTAATTTATCCTATGA+TGG | - | chr5_2:71660270-71660289 | Msa0786250:CDS | 25.0% |
| !! | AAGTTAATATTTTGCTGCTA+TGG | - | chr5_2:71660356-71660375 | Msa0786250:intron | 25.0% |
| TGCAGATTTGAGGAAAAAAA+AGG | + | chr5_2:71659817-71659836 | None:intergenic | 30.0% | |
| AACTAATTAGATCATGCTCT+AGG | + | chr5_2:71660160-71660179 | None:intergenic | 30.0% | |
| AGAGCATGATCTAATTAGTT+TGG | - | chr5_2:71660160-71660179 | Msa0786250:CDS | 30.0% | |
| !!! | TAGTAAGAGTGTTTTGCATT+AGG | - | chr5_2:71660234-71660253 | Msa0786250:CDS | 30.0% |
| AGCTTCTTATCTTAACTCCT+TGG | - | chr5_2:71660009-71660028 | Msa0786250:CDS | 35.0% | |
| TGACTTGATCAGTTGTGTAA+GGG | + | chr5_2:71660048-71660067 | None:intergenic | 35.0% | |
| ! | AGGCTTAATTTTTCCCTCAT+TGG | + | chr5_2:71660140-71660159 | None:intergenic | 35.0% |
| ! | CTGACTTGATCAGTTGTGTA+AGG | + | chr5_2:71660049-71660068 | None:intergenic | 40.0% |
| AGCATCACTCAGCTCAAATA+AGG | - | chr5_2:71660081-71660100 | Msa0786250:CDS | 40.0% | |
| ! | ACAAGCACATCTTTTCCAGA+TGG | - | chr5_2:71660114-71660133 | Msa0786250:CDS | 40.0% |
| TTCCTCAAATCTGCAGCTAC+TGG | - | chr5_2:71659822-71659841 | Msa0786250:three_prime_UTR | 45.0% | |
| TTCCAGTAGCTGCAGATTTG+AGG | + | chr5_2:71659827-71659846 | None:intergenic | 45.0% | |
| ATACTCACCCACAACTCATC+TGG | - | chr5_2:71659846-71659865 | Msa0786250:three_prime_UTR | 45.0% | |
| TACTCACCCACAACTCATCT+GGG | - | chr5_2:71659847-71659866 | Msa0786250:three_prime_UTR | 45.0% | |
| GTAATCCCCAGATGAGTTGT+GGG | + | chr5_2:71659856-71659875 | None:intergenic | 45.0% | |
| AGTAATCCCCAGATGAGTTG+TGG | + | chr5_2:71659857-71659876 | None:intergenic | 45.0% | |
| CAACTCATCTGGGGATTACT+AGG | - | chr5_2:71659857-71659876 | Msa0786250:three_prime_UTR | 45.0% | |
| ! | GGAACCTTAGGCAATGCTTT+TGG | - | chr5_2:71659887-71659906 | Msa0786250:three_prime_UTR | 45.0% |
| !! | CACACCAAAAGCATTGCCTA+AGG | + | chr5_2:71659894-71659913 | None:intergenic | 45.0% |
| !! | CTTGTGTTGGAAAGTGCTTG+TGG | + | chr5_2:71659953-71659972 | None:intergenic | 45.0% |
| AACACAAGAACTGATGCGCT+CGG | - | chr5_2:71659965-71659984 | Msa0786250:exon | 45.0% | |
| !! | AGGGAACTTGTTGTTCACCA+AGG | + | chr5_2:71660029-71660048 | None:intergenic | 45.0% |
| ! | TCTTTTCCAGATGGCCAATG+AGG | - | chr5_2:71660123-71660142 | Msa0786250:CDS | 45.0% |
| ! | CTTTTCCAGATGGCCAATGA+GGG | - | chr5_2:71660124-71660143 | Msa0786250:CDS | 45.0% |
| ! | TTTTTCCCTCATTGGCCATC+TGG | + | chr5_2:71660132-71660151 | None:intergenic | 45.0% |
| CAGTGCACTGAATCCATCAT+AGG | + | chr5_2:71660286-71660305 | None:intergenic | 45.0% | |
| ACTCACCCACAACTCATCTG+GGG | - | chr5_2:71659848-71659867 | Msa0786250:three_prime_UTR | 50.0% | |
| TCATCTGGGGATTACTAGGC+TGG | - | chr5_2:71659861-71659880 | Msa0786250:three_prime_UTR | 50.0% | |
| ! | TTTGGTGTGCATAGTCTGCC+AGG | - | chr5_2:71659905-71659924 | Msa0786250:three_prime_UTR | 50.0% |
| GAGCGCATCAGTTCTTGTGT+TGG | + | chr5_2:71659966-71659985 | None:intergenic | 50.0% | |
| ! | CTCGGAGCACTTTACAGAGA+AGG | - | chr5_2:71659983-71660002 | Msa0786250:CDS | 50.0% |
| TCTGGGGATTACTAGGCTGG+TGG | - | chr5_2:71659864-71659883 | Msa0786250:three_prime_UTR | 55.0% | |
| CTGGGGATTACTAGGCTGGT+GGG | - | chr5_2:71659865-71659884 | Msa0786250:three_prime_UTR | 55.0% | |
| TGGGGATTACTAGGCTGGTG+GGG | - | chr5_2:71659866-71659885 | Msa0786250:three_prime_UTR | 55.0% | |
| GTGCATAGTCTGCCAGGACT+CGG | - | chr5_2:71659911-71659930 | Msa0786250:three_prime_UTR | 55.0% | |
| CTAGGCTGGTGGGGAACCTT+AGG | - | chr5_2:71659875-71659894 | Msa0786250:three_prime_UTR | 60.0% | |
| CTGAGACTTGCACCGAGTCC+TGG | + | chr5_2:71659926-71659945 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_2 | gene | 71659755 | 71660381 | 71659755 | ID=Msa0786250;Name=Msa0786250 |
| chr5_2 | mRNA | 71659755 | 71660381 | 71659755 | ID=Msa0786250-mRNA-1;Parent=Msa0786250;Name=Msa0786250-mRNA-1;_AED=0.17;_eAED=0.17;_QI=0|0|0.5|0.5|1|1|2|213|111 |
| chr5_2 | exon | 71659755 | 71660298 | 71659755 | ID=Msa0786250-mRNA-1:exon:21671;Parent=Msa0786250-mRNA-1 |
| chr5_2 | exon | 71660377 | 71660381 | 71660377 | ID=Msa0786250-mRNA-1:exon:21670;Parent=Msa0786250-mRNA-1 |
| chr5_2 | CDS | 71660377 | 71660381 | 71660377 | ID=Msa0786250-mRNA-1:cds;Parent=Msa0786250-mRNA-1 |
| chr5_2 | CDS | 71659968 | 71660298 | 71659968 | ID=Msa0786250-mRNA-1:cds;Parent=Msa0786250-mRNA-1 |
| chr5_2 | three_prime_UTR | 71659755 | 71659967 | 71659755 | ID=Msa0786250-mRNA-1:three_prime_utr;Parent=Msa0786250-mRNA-1 |
| Gene Sequence |
| Protein sequence |
