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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0369700 | XP_003601026.1 | 90.909 | 99 | 8 | 1 | 1 | 98 | 1 | 99 | 4.22e-57 | 181 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0369700 | G7J2Y4 | 90.909 | 99 | 8 | 1 | 1 | 98 | 1 | 99 | 2.02e-57 | 181 |
| 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 |
| Msa0369700 | Msa0970100 | 0.828494 | 8.716128e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0369700 | MtrunA17_Chr3g0114431 | 90.909 | 99 | 8 | 1 | 1 | 98 | 1 | 99 | 3.88e-61 | 181 |
| Msa0369700 | MtrunA17_Chr1g0192231 | 47.887 | 71 | 36 | 1 | 1 | 71 | 8 | 77 | 5.76e-18 | 72.0 |
| 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 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGCCTTAGACTTGGCTTCAT+TGG | 0.294095 | 3_1:+67020968 | None:intergenic |
| GCAGGGGCACTTTGGGCATC+TGG | 0.336443 | 3_1:-67021031 | Msa0369700:intron |
| TTTGAATGCAGGGGCACTTT+GGG | 0.342763 | 3_1:-67021038 | Msa0369700:intron |
| AATAAGTAATTTACCAATAC+TGG | 0.346646 | 3_1:+67021119 | None:intergenic |
| GCACTTTGGGCATCTGGAAT+TGG | 0.353636 | 3_1:-67021025 | Msa0369700:CDS |
| ATTTGAATGCAGGGGCACTT+TGG | 0.379160 | 3_1:-67021039 | Msa0369700:intron |
| CTCCAATGAAGCCAAGTCTA+AGG | 0.379642 | 3_1:-67020970 | Msa0369700:CDS |
| CCTCAAATTACAGTGGTAGA+TGG | 0.389594 | 3_1:-67020745 | Msa0369700:CDS |
| TCAACTAGCTCAGTCACATT+TGG | 0.391232 | 3_1:+67020715 | None:intergenic |
| ACATGGAAGCAATTCAATCA+TGG | 0.454347 | 3_1:-67021161 | Msa0369700:CDS |
| CCATCTACCACTGTAATTTG+AGG | 0.472002 | 3_1:+67020745 | None:intergenic |
| CTAACTCTAGCAGTGCTATC+GGG | 0.499815 | 3_1:-67020805 | Msa0369700:CDS |
| CATGGAAGCAATTCAATCAT+GGG | 0.500900 | 3_1:-67021160 | Msa0369700:CDS |
| GGTTTGAAGGATGCACGCAC+AGG | 0.521337 | 3_1:-67020830 | Msa0369700:intron |
| TGTGACTGAGCTAGTTGAAT+GGG | 0.549642 | 3_1:-67020710 | Msa0369700:CDS |
| GCTAACTCTAGCAGTGCTAT+CGG | 0.550971 | 3_1:-67020806 | Msa0369700:CDS |
| GCATGGATAAGCCTTAGACT+TGG | 0.586056 | 3_1:+67020959 | None:intergenic |
| ATGTGACTGAGCTAGTTGAA+TGG | 0.601867 | 3_1:-67020711 | Msa0369700:CDS |
| GTCTAAGGCTTATCCATGCT+AGG | 0.616942 | 3_1:-67020955 | Msa0369700:intron |
| CTAGTTGAATGGGAGCTCCA+CGG | 0.637372 | 3_1:-67020700 | Msa0369700:CDS |
| TGATGTTCCTCAAATTACAG+TGG | 0.696862 | 3_1:-67020752 | Msa0369700:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTATGTGTAACATAATATAT+TGG | - | chr3_1:67020751-67020770 | Msa0369700:CDS | 15.0% |
| !! | AATAAGTAATTTACCAATAC+TGG | + | chr3_1:67020733-67020752 | None:intergenic | 20.0% |
| !! | GATATGAACTTATAACAAAA+TGG | - | chr3_1:67020773-67020792 | Msa0369700:CDS | 20.0% |
| ! | AACTAACTAAATTTGAATGC+AGG | - | chr3_1:67020800-67020819 | Msa0369700:CDS | 25.0% |
| ! | ACTAACTAAATTTGAATGCA+GGG | - | chr3_1:67020801-67020820 | Msa0369700:CDS | 25.0% |
| !! | ATAAAGTGTAACGAATGTTT+TGG | - | chr3_1:67020998-67021017 | Msa0369700:CDS | 25.0% |
| CTAACTAAATTTGAATGCAG+GGG | - | chr3_1:67020802-67020821 | Msa0369700:CDS | 30.0% | |
| !!! | TAACGAATGTTTTGGTTTGA+AGG | - | chr3_1:67021006-67021025 | Msa0369700:CDS | 30.0% |
| AAAAACAAACTCGCCAGTAT+TGG | - | chr3_1:67020717-67020736 | Msa0369700:CDS | 35.0% | |
| TGATGTTCCTCAAATTACAG+TGG | - | chr3_1:67021097-67021116 | Msa0369700:intron | 35.0% | |
| ! | AGTGACGATTTTACCTAGCA+TGG | + | chr3_1:67020910-67020929 | None:intergenic | 40.0% |
| CCATCTACCACTGTAATTTG+AGG | + | chr3_1:67021107-67021126 | None:intergenic | 40.0% | |
| CCTCAAATTACAGTGGTAGA+TGG | - | chr3_1:67021104-67021123 | Msa0369700:intron | 40.0% | |
| TCAACTAGCTCAGTCACATT+TGG | + | chr3_1:67021137-67021156 | None:intergenic | 40.0% | |
| ATGTGACTGAGCTAGTTGAA+TGG | - | chr3_1:67021138-67021157 | Msa0369700:CDS | 40.0% | |
| TGTGACTGAGCTAGTTGAAT+GGG | - | chr3_1:67021139-67021158 | Msa0369700:CDS | 40.0% | |
| !! | ATTTGAATGCAGGGGCACTT+TGG | - | chr3_1:67020810-67020829 | Msa0369700:CDS | 45.0% |
| !! | TTTGAATGCAGGGGCACTTT+GGG | - | chr3_1:67020811-67020830 | Msa0369700:CDS | 45.0% |
| CTCCAATGAAGCCAAGTCTA+AGG | - | chr3_1:67020879-67020898 | Msa0369700:intron | 45.0% | |
| AGCCTTAGACTTGGCTTCAT+TGG | + | chr3_1:67020884-67020903 | None:intergenic | 45.0% | |
| GCATGGATAAGCCTTAGACT+TGG | + | chr3_1:67020893-67020912 | None:intergenic | 45.0% | |
| ! | GTCTAAGGCTTATCCATGCT+AGG | - | chr3_1:67020894-67020913 | Msa0369700:intron | 45.0% |
| GCTAACTCTAGCAGTGCTAT+CGG | - | chr3_1:67021043-67021062 | Msa0369700:intron | 45.0% | |
| CTAACTCTAGCAGTGCTATC+GGG | - | chr3_1:67021044-67021063 | Msa0369700:intron | 45.0% | |
| ! | GCACTTTGGGCATCTGGAAT+TGG | - | chr3_1:67020824-67020843 | Msa0369700:CDS | 50.0% |
| CTAGTTGAATGGGAGCTCCA+CGG | - | chr3_1:67021149-67021168 | Msa0369700:CDS | 50.0% | |
| GGTTTGAAGGATGCACGCAC+AGG | - | chr3_1:67021019-67021038 | Msa0369700:CDS | 55.0% | |
| !! | GCAGGGGCACTTTGGGCATC+TGG | - | chr3_1:67020818-67020837 | Msa0369700:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 67020690 | 67021181 | 67020690 | ID=Msa0369700;Name=Msa0369700 |
| chr3_1 | mRNA | 67020690 | 67021181 | 67020690 | ID=Msa0369700-mRNA-1;Parent=Msa0369700;Name=Msa0369700-mRNA-1;_AED=0.02;_eAED=0.02;_QI=0|0|0|1|1|1|3|0|98 |
| chr3_1 | exon | 67021133 | 67021181 | 67021133 | ID=Msa0369700-mRNA-1:exon:13714;Parent=Msa0369700-mRNA-1 |
| chr3_1 | exon | 67020956 | 67021049 | 67020956 | ID=Msa0369700-mRNA-1:exon:13713;Parent=Msa0369700-mRNA-1 |
| chr3_1 | exon | 67020690 | 67020843 | 67020690 | ID=Msa0369700-mRNA-1:exon:13712;Parent=Msa0369700-mRNA-1 |
| chr3_1 | CDS | 67021133 | 67021181 | 67021133 | ID=Msa0369700-mRNA-1:cds;Parent=Msa0369700-mRNA-1 |
| chr3_1 | CDS | 67020956 | 67021049 | 67020956 | ID=Msa0369700-mRNA-1:cds;Parent=Msa0369700-mRNA-1 |
| chr3_1 | CDS | 67020690 | 67020843 | 67020690 | ID=Msa0369700-mRNA-1:cds;Parent=Msa0369700-mRNA-1 |
| Gene Sequence |
| Protein sequence |
