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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0307010 | XP_039687084.1 | 81.148 | 122 | 15 | 1 | 1 | 114 | 1 | 122 | 1.01e-62 | 197 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0307010 | G7INX6 | 81.148 | 122 | 15 | 1 | 1 | 114 | 1 | 122 | 4.84e-63 | 197 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0307010 | TF | B3 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0307010 | MtrunA17_Chr2g0281511 | 81.148 | 122 | 15 | 1 | 1 | 114 | 1 | 122 | 9.31e-67 | 197 |
| Msa0307010 | MtrunA17_Chr2g0309121 | 77.049 | 122 | 19 | 2 | 1 | 114 | 1 | 121 | 1.80e-60 | 181 |
| Msa0307010 | MtrunA17_Chr3g0081891 | 81.250 | 80 | 7 | 1 | 1 | 72 | 1 | 80 | 1.02e-38 | 124 |
| Msa0307010 | MtrunA17_Chr7g0276661 | 31.579 | 133 | 65 | 3 | 5 | 112 | 36 | 167 | 7.64e-19 | 77.0 |
| Msa0307010 | MtrunA17_Chr5g0430431 | 35.789 | 95 | 54 | 2 | 18 | 108 | 163 | 254 | 5.34e-16 | 71.2 |
| Msa0307010 | MtrunA17_Chr8g0372431 | 28.866 | 97 | 61 | 2 | 24 | 112 | 6 | 102 | 9.40e-11 | 54.3 |
| 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 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAATGTTACTGCTTCTATTT+TGG | 0.123735 | 2_3:+66451719 | Msa0307010:CDS |
| GAAGTCAATGGGACTGAATT+AGG | 0.177976 | 2_3:+66451660 | Msa0307010:CDS |
| AAAATGTCAATGTTCATTAT+TGG | 0.227491 | 2_3:+66451691 | Msa0307010:CDS |
| TACCGGTTTCTTCATCAAAA+AGG | 0.272684 | 2_3:-66451910 | None:intergenic |
| TGTATGCTACTGTCGTTAAC+TGG | 0.319167 | 2_3:+66452077 | Msa0307010:CDS |
| ATCACAATCATAAGATTTAC+CGG | 0.322905 | 2_3:-66451927 | None:intergenic |
| CGATCAATAATCCTCCTAAT+AGG | 0.349986 | 2_3:+66452053 | Msa0307010:CDS |
| TTTGGATGGAAACAATGTTT+TGG | 0.356448 | 2_3:+66451737 | Msa0307010:CDS |
| ACAGTAGCATACATCCTATT+AGG | 0.371456 | 2_3:-66452067 | None:intergenic |
| GTACGACTTTGTTCTTGAAA+AGG | 0.412286 | 2_3:+66452000 | Msa0307010:CDS |
| AAGTCAATGGGACTGAATTA+GGG | 0.440727 | 2_3:+66451661 | Msa0307010:CDS |
| TACGACTTTGTTCTTGAAAA+GGG | 0.450393 | 2_3:+66452001 | Msa0307010:CDS |
| GAGATTGAAGTTGAAGTCAA+TGG | 0.459103 | 2_3:+66451648 | Msa0307010:CDS |
| GCATGCATCATAAATACATA+GGG | 0.490509 | 2_3:+66451969 | Msa0307010:CDS |
| CTTGAAAAGGGCCTAAAAGT+TGG | 0.495134 | 2_3:+66452013 | Msa0307010:CDS |
| AGCATGCATCATAAATACAT+AGG | 0.495837 | 2_3:+66451968 | Msa0307010:CDS |
| AGATTGAAGTTGAAGTCAAT+GGG | 0.508813 | 2_3:+66451649 | Msa0307010:CDS |
| GTATGCTACTGTCGTTAACT+GGG | 0.553223 | 2_3:+66452078 | Msa0307010:CDS |
| GTAGCATACATCCTATTAGG+AGG | 0.620880 | 2_3:-66452064 | None:intergenic |
| CATGCATCATAAATACATAG+GGG | 0.668603 | 2_3:+66451970 | Msa0307010:CDS |
| ATGCATCATAAATACATAGG+GGG | 0.674005 | 2_3:+66451971 | Msa0307010:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAATGTCAATGTTCATTAT+TGG | + | chr2_3:66451691-66451710 | Msa0307010:CDS | 20.0% |
| !! | TAATGTTACTGCTTCTATTT+TGG | + | chr2_3:66451719-66451738 | Msa0307010:CDS | 25.0% |
| ! | ATCACAATCATAAGATTTAC+CGG | - | chr2_3:66451930-66451949 | None:intergenic | 25.0% |
| !! | AAATAACGTTACCAACTTTT+AGG | - | chr2_3:66452027-66452046 | None:intergenic | 25.0% |
| AGATTGAAGTTGAAGTCAAT+GGG | + | chr2_3:66451649-66451668 | Msa0307010:CDS | 30.0% | |
| ! | TTTGGATGGAAACAATGTTT+TGG | + | chr2_3:66451737-66451756 | Msa0307010:CDS | 30.0% |
| AGCATGCATCATAAATACAT+AGG | + | chr2_3:66451968-66451987 | Msa0307010:CDS | 30.0% | |
| GCATGCATCATAAATACATA+GGG | + | chr2_3:66451969-66451988 | Msa0307010:CDS | 30.0% | |
| CATGCATCATAAATACATAG+GGG | + | chr2_3:66451970-66451989 | Msa0307010:CDS | 30.0% | |
| ATGCATCATAAATACATAGG+GGG | + | chr2_3:66451971-66451990 | Msa0307010:CDS | 30.0% | |
| TACGACTTTGTTCTTGAAAA+GGG | + | chr2_3:66452001-66452020 | Msa0307010:CDS | 30.0% | |
| GAGATTGAAGTTGAAGTCAA+TGG | + | chr2_3:66451648-66451667 | Msa0307010:CDS | 35.0% | |
| AAGTCAATGGGACTGAATTA+GGG | + | chr2_3:66451661-66451680 | Msa0307010:CDS | 35.0% | |
| !! | GTTACTGCTTCTATTTTGGA+TGG | + | chr2_3:66451723-66451742 | Msa0307010:CDS | 35.0% |
| !!! | GGAAACAATGTTTTGGTTAG+TGG | + | chr2_3:66451744-66451763 | Msa0307010:intron | 35.0% |
| ! | CTCCTTTTTGATGAAGAAAC+CGG | + | chr2_3:66451908-66451927 | Msa0307010:CDS | 35.0% |
| !! | TACCGGTTTCTTCATCAAAA+AGG | - | chr2_3:66451913-66451932 | None:intergenic | 35.0% |
| GTACGACTTTGTTCTTGAAA+AGG | + | chr2_3:66452000-66452019 | Msa0307010:CDS | 35.0% | |
| CGATCAATAATCCTCCTAAT+AGG | + | chr2_3:66452053-66452072 | Msa0307010:CDS | 35.0% | |
| ACAGTAGCATACATCCTATT+AGG | - | chr2_3:66452070-66452089 | None:intergenic | 35.0% | |
| GAAGTCAATGGGACTGAATT+AGG | + | chr2_3:66451660-66451679 | Msa0307010:CDS | 40.0% | |
| CCATTCTCAACAACATGTCA+AGG | - | chr2_3:66451863-66451882 | None:intergenic | 40.0% | |
| CCTTGACATGTTGTTGAGAA+TGG | + | chr2_3:66451860-66451879 | Msa0307010:intron | 40.0% | |
| CATCATAAATACATAGGGGG+AGG | + | chr2_3:66451974-66451993 | Msa0307010:CDS | 40.0% | |
| ATAAATACATAGGGGGAGGA+TGG | + | chr2_3:66451978-66451997 | Msa0307010:CDS | 40.0% | |
| CTTGAAAAGGGCCTAAAAGT+TGG | + | chr2_3:66452013-66452032 | Msa0307010:CDS | 40.0% | |
| GTAGCATACATCCTATTAGG+AGG | - | chr2_3:66452067-66452086 | None:intergenic | 40.0% | |
| TGTATGCTACTGTCGTTAAC+TGG | + | chr2_3:66452077-66452096 | Msa0307010:CDS | 40.0% | |
| GTATGCTACTGTCGTTAACT+GGG | + | chr2_3:66452078-66452097 | Msa0307010:CDS | 40.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 66451637 | 66452102 | 66451637 | ID=Msa0307010;Name=Msa0307010 |
| chr2_3 | mRNA | 66451637 | 66452102 | 66451637 | ID=Msa0307010-mRNA-1;Parent=Msa0307010;Name=Msa0307010-mRNA-1;_AED=0.05;_eAED=0.05;_QI=5|0|0|1|0|0|2|0|114 |
| chr2_3 | exon | 66451637 | 66451758 | 66451637 | ID=Msa0307010-mRNA-1:exon:22052;Parent=Msa0307010-mRNA-1 |
| chr2_3 | exon | 66451878 | 66452102 | 66451878 | ID=Msa0307010-mRNA-1:exon:22053;Parent=Msa0307010-mRNA-1 |
| chr2_3 | five_prime_UTR | 66451637 | 66451641 | 66451637 | ID=Msa0307010-mRNA-1:five_prime_utr;Parent=Msa0307010-mRNA-1 |
| chr2_3 | CDS | 66451642 | 66451758 | 66451642 | ID=Msa0307010-mRNA-1:cds;Parent=Msa0307010-mRNA-1 |
| chr2_3 | CDS | 66451878 | 66452102 | 66451878 | ID=Msa0307010-mRNA-1:cds;Parent=Msa0307010-mRNA-1 |
| Gene Sequence |
| Protein sequence |
