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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0463930 | XP_003601026.1 | 91.919 | 99 | 7 | 1 | 1 | 98 | 1 | 99 | 1.34e-58 | 185 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0463930 | G7J2Y4 | 91.919 | 99 | 7 | 1 | 1 | 98 | 1 | 99 | 6.42e-59 | 185 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0369700 | Msa0463930 | 0.831283 | 1.822616e-55 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0463930 | MtrunA17_Chr3g0114431 | 91.919 | 99 | 7 | 1 | 1 | 98 | 1 | 99 | 1.24e-62 | 185 |
| Msa0463930 | MtrunA17_Chr1g0192231 | 47.887 | 71 | 36 | 1 | 1 | 71 | 8 | 77 | 7.24e-18 | 71.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 21 sgRNAs with CRISPR-Local
Find 27 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCTTCTTGTAATCTTAAAA+AGG | 0.215195 | 3_3:+63497500 | None:intergenic |
| AGCCTTAGACTTGGCTTCAT+TGG | 0.294095 | 3_3:+63497788 | None:intergenic |
| GCAGGGGCACTTTGGGCATC+TGG | 0.336443 | 3_3:-63497851 | Msa0463930:intron |
| TTTGAATGCAGGGGCACTTT+GGG | 0.342763 | 3_3:-63497858 | Msa0463930:intron |
| GCACTTTGGGCATCTGGAAT+TGG | 0.353636 | 3_3:-63497845 | Msa0463930:CDS |
| AATAAGTAACTTACCAATAC+TGG | 0.372468 | 3_3:+63497939 | None:intergenic |
| ATTTGAATGCAGGGGCACTT+TGG | 0.379160 | 3_3:-63497859 | Msa0463930:intron |
| CTCCAATGAAGCCAAGTCTA+AGG | 0.379642 | 3_3:-63497790 | Msa0463930:CDS |
| CATCAAATTACAGTGGTAGA+TGG | 0.380839 | 3_3:-63497569 | Msa0463930:CDS |
| TCAACTAGCTCAGTCACATT+TGG | 0.391232 | 3_3:+63497539 | None:intergenic |
| ACATGGAAGCAATTCAATCA+TGG | 0.454347 | 3_3:-63497981 | Msa0463930:CDS |
| CTAACTCTAGCAGTGCTATC+GGG | 0.499815 | 3_3:-63497629 | Msa0463930:CDS |
| CATGGAAGCAATTCAATCAT+GGG | 0.500900 | 3_3:-63497980 | Msa0463930:CDS |
| GGTTTGAAGGATGCACGCAC+AGG | 0.521337 | 3_3:-63497654 | Msa0463930:intron |
| TGTGACTGAGCTAGTTGAAT+GGG | 0.549642 | 3_3:-63497534 | Msa0463930:CDS |
| GCTAACTCTAGCAGTGCTAT+CGG | 0.550971 | 3_3:-63497630 | Msa0463930:CDS |
| GCATGGATAAGCCTTAGACT+TGG | 0.586056 | 3_3:+63497779 | None:intergenic |
| ATGTGACTGAGCTAGTTGAA+TGG | 0.601867 | 3_3:-63497535 | Msa0463930:CDS |
| GTCTAAGGCTTATCCATGCT+AGG | 0.616942 | 3_3:-63497775 | Msa0463930:intron |
| CTAGTTGAATGGGAGCTCCA+CGG | 0.637372 | 3_3:-63497524 | Msa0463930:CDS |
| TGATGTTCATCAAATTACAG+TGG | 0.715163 | 3_3:-63497576 | Msa0463930:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTATGTGTAACATAATATAT+TGG | - | chr3_3:63497575-63497594 | Msa0463930:CDS | 15.0% |
| !! | GATATGAACTTATAACAAAA+TGG | - | chr3_3:63497597-63497616 | Msa0463930:CDS | 20.0% |
| ! | AATAAGTAACTTACCAATAC+TGG | + | chr3_3:63497557-63497576 | None:intergenic | 25.0% |
| ! | AACTAACTAAATTTGAATGC+AGG | - | chr3_3:63497624-63497643 | Msa0463930:CDS | 25.0% |
| ! | ACTAACTAAATTTGAATGCA+GGG | - | chr3_3:63497625-63497644 | Msa0463930:CDS | 25.0% |
| !! | ATAAAGTGTAACGAATGTTT+TGG | - | chr3_3:63497818-63497837 | Msa0463930:CDS | 25.0% |
| CTAACTAAATTTGAATGCAG+GGG | - | chr3_3:63497626-63497645 | Msa0463930:CDS | 30.0% | |
| !!! | TAACGAATGTTTTGGTTTGA+AGG | - | chr3_3:63497826-63497845 | Msa0463930:CDS | 30.0% |
| TGATGTTCATCAAATTACAG+TGG | - | chr3_3:63497917-63497936 | Msa0463930:intron | 30.0% | |
| AAAAACAAACTCGCCAGTAT+TGG | - | chr3_3:63497541-63497560 | Msa0463930:CDS | 35.0% | |
| CATCAAATTACAGTGGTAGA+TGG | - | chr3_3:63497924-63497943 | Msa0463930:intron | 35.0% | |
| ! | AGTGACGATTTTACCTAGCA+TGG | + | chr3_3:63497734-63497753 | None:intergenic | 40.0% |
| TCAACTAGCTCAGTCACATT+TGG | + | chr3_3:63497957-63497976 | None:intergenic | 40.0% | |
| ATGTGACTGAGCTAGTTGAA+TGG | - | chr3_3:63497958-63497977 | Msa0463930:CDS | 40.0% | |
| TGTGACTGAGCTAGTTGAAT+GGG | - | chr3_3:63497959-63497978 | Msa0463930:CDS | 40.0% | |
| !! | ATTTGAATGCAGGGGCACTT+TGG | - | chr3_3:63497634-63497653 | Msa0463930:CDS | 45.0% |
| !! | TTTGAATGCAGGGGCACTTT+GGG | - | chr3_3:63497635-63497654 | Msa0463930:CDS | 45.0% |
| CTCCAATGAAGCCAAGTCTA+AGG | - | chr3_3:63497703-63497722 | Msa0463930:intron | 45.0% | |
| AGCCTTAGACTTGGCTTCAT+TGG | + | chr3_3:63497708-63497727 | None:intergenic | 45.0% | |
| GCATGGATAAGCCTTAGACT+TGG | + | chr3_3:63497717-63497736 | None:intergenic | 45.0% | |
| ! | GTCTAAGGCTTATCCATGCT+AGG | - | chr3_3:63497718-63497737 | Msa0463930:intron | 45.0% |
| GCTAACTCTAGCAGTGCTAT+CGG | - | chr3_3:63497863-63497882 | Msa0463930:intron | 45.0% | |
| CTAACTCTAGCAGTGCTATC+GGG | - | chr3_3:63497864-63497883 | Msa0463930:intron | 45.0% | |
| ! | GCACTTTGGGCATCTGGAAT+TGG | - | chr3_3:63497648-63497667 | Msa0463930:CDS | 50.0% |
| CTAGTTGAATGGGAGCTCCA+CGG | - | chr3_3:63497969-63497988 | Msa0463930:CDS | 50.0% | |
| GGTTTGAAGGATGCACGCAC+AGG | - | chr3_3:63497839-63497858 | Msa0463930:CDS | 55.0% | |
| !! | GCAGGGGCACTTTGGGCATC+TGG | - | chr3_3:63497642-63497661 | Msa0463930:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 63497514 | 63498001 | 63497514 | ID=Msa0463930;Name=Msa0463930 |
| chr3_3 | mRNA | 63497514 | 63498001 | 63497514 | ID=Msa0463930-mRNA-1;Parent=Msa0463930;Name=Msa0463930-mRNA-1;_AED=0.15;_eAED=0.15;_QI=0|0|0|1|1|1|3|0|98 |
| chr3_3 | exon | 63497953 | 63498001 | 63497953 | ID=Msa0463930-mRNA-1:exon:13875;Parent=Msa0463930-mRNA-1 |
| chr3_3 | exon | 63497776 | 63497869 | 63497776 | ID=Msa0463930-mRNA-1:exon:13874;Parent=Msa0463930-mRNA-1 |
| chr3_3 | exon | 63497514 | 63497667 | 63497514 | ID=Msa0463930-mRNA-1:exon:13873;Parent=Msa0463930-mRNA-1 |
| chr3_3 | CDS | 63497953 | 63498001 | 63497953 | ID=Msa0463930-mRNA-1:cds;Parent=Msa0463930-mRNA-1 |
| chr3_3 | CDS | 63497776 | 63497869 | 63497776 | ID=Msa0463930-mRNA-1:cds;Parent=Msa0463930-mRNA-1 |
| chr3_3 | CDS | 63497514 | 63497667 | 63497514 | ID=Msa0463930-mRNA-1:cds;Parent=Msa0463930-mRNA-1 |
| Gene Sequence |
| Protein sequence |
