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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0437580 | AES92080.1 | 82.432 | 74 | 13 | 0 | 1 | 74 | 7 | 80 | 1.13e-36 | 129 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0437580 | G7JR13 | 82.432 | 74 | 13 | 0 | 1 | 74 | 7 | 80 | 5.39e-37 | 129 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0437580 | Msa0571700 | 0.803476 | 3.422941e-49 | -8.615850e-47 |
| Msa0437580 | Msa1171870 | 0.800869 | 1.177083e-48 | -8.615850e-47 |
| Msa0437580 | Msa1382410 | 0.800588 | 1.343419e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0437580 | MtrunA17_Chr4g0069381 | 82.432 | 74 | 13 | 0 | 1 | 74 | 7 | 80 | 1.04e-40 | 129 |
| Msa0437580 | MtrunA17_Chr6g0456701 | 51.111 | 90 | 32 | 2 | 1 | 78 | 169 | 258 | 2.33e-18 | 78.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 18 sgRNAs with CRISPR-Local
Find 22 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATACTGACACAACTGAAAA+TGG | 0.281796 | 3_3:-1455889 | None:intergenic |
| TCGTCTGTAGCCAATGTTAT+AGG | 0.345851 | 3_3:-1455816 | None:intergenic |
| TGCAGCTAGGCATTCTCCTC+AGG | 0.371262 | 3_3:+1455752 | Msa0437580:CDS |
| AGACGACCAACTTTGCGAAA+TGG | 0.434369 | 3_3:+1455833 | Msa0437580:CDS |
| CGTCTGTAGCCAATGTTATA+GGG | 0.434662 | 3_3:-1455815 | None:intergenic |
| GCCTATCCATTTCGCAAAGT+TGG | 0.442229 | 3_3:-1455839 | None:intergenic |
| GGCGTTGGACCCTATAACAT+TGG | 0.473989 | 3_3:+1455806 | Msa0437580:CDS |
| AAGTTCAGACGATATTGAGC+AGG | 0.505825 | 3_3:+1455950 | Msa0437580:CDS |
| AATATTCATGCAAACAGTAA+AGG | 0.510920 | 3_3:+1455915 | Msa0437580:CDS |
| AACAGTAAAGGACTTGATGT+TGG | 0.517272 | 3_3:+1455927 | Msa0437580:CDS |
| AAATGACGATAAAGTGGCGT+TGG | 0.541231 | 3_3:+1455791 | Msa0437580:CDS |
| ACCAACTTTGCGAAATGGAT+AGG | 0.592428 | 3_3:+1455838 | Msa0437580:CDS |
| GCAGCTAGGCATTCTCCTCA+GGG | 0.594115 | 3_3:+1455753 | Msa0437580:CDS |
| TGTGGAAAATGACGATAAAG+TGG | 0.601528 | 3_3:+1455785 | Msa0437580:CDS |
| GACACAACTGAAAATGGTAG+AGG | 0.604367 | 3_3:-1455883 | None:intergenic |
| ATGAGGTTAGTGCTGCAGCT+AGG | 0.605201 | 3_3:+1455739 | Msa0437580:intron |
| TTTGCGAAATGGATAGGCTA+CGG | 0.614160 | 3_3:+1455844 | Msa0437580:CDS |
| AGTTCAGACGATATTGAGCA+GGG | 0.655353 | 3_3:+1455951 | Msa0437580:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AATATTCATGCAAACAGTAA+AGG | + | chr3_3:1455915-1455934 | Msa0437580:CDS | 25.0% |
| AATACTGACACAACTGAAAA+TGG | - | chr3_3:1455892-1455911 | None:intergenic | 30.0% | |
| TGTGGAAAATGACGATAAAG+TGG | + | chr3_3:1455785-1455804 | Msa0437580:CDS | 35.0% | |
| AACAGTAAAGGACTTGATGT+TGG | + | chr3_3:1455927-1455946 | Msa0437580:CDS | 35.0% | |
| CATTCTCCTCAGGGAAAAAA+GGG | + | chr3_3:1455762-1455781 | Msa0437580:CDS | 40.0% | |
| AAATGACGATAAAGTGGCGT+TGG | + | chr3_3:1455791-1455810 | Msa0437580:CDS | 40.0% | |
| CGTCTGTAGCCAATGTTATA+GGG | - | chr3_3:1455818-1455837 | None:intergenic | 40.0% | |
| TCGTCTGTAGCCAATGTTAT+AGG | - | chr3_3:1455819-1455838 | None:intergenic | 40.0% | |
| ACCAACTTTGCGAAATGGAT+AGG | + | chr3_3:1455838-1455857 | Msa0437580:CDS | 40.0% | |
| TTTGCGAAATGGATAGGCTA+CGG | + | chr3_3:1455844-1455863 | Msa0437580:CDS | 40.0% | |
| GACACAACTGAAAATGGTAG+AGG | - | chr3_3:1455886-1455905 | None:intergenic | 40.0% | |
| AAGTTCAGACGATATTGAGC+AGG | + | chr3_3:1455950-1455969 | Msa0437580:CDS | 40.0% | |
| AGTTCAGACGATATTGAGCA+GGG | + | chr3_3:1455951-1455970 | Msa0437580:CDS | 40.0% | |
| GCATTCTCCTCAGGGAAAAA+AGG | + | chr3_3:1455761-1455780 | Msa0437580:CDS | 45.0% | |
| AGACGACCAACTTTGCGAAA+TGG | + | chr3_3:1455833-1455852 | Msa0437580:CDS | 45.0% | |
| GCCTATCCATTTCGCAAAGT+TGG | - | chr3_3:1455842-1455861 | None:intergenic | 45.0% | |
| ATGAGGTTAGTGCTGCAGCT+AGG | + | chr3_3:1455739-1455758 | Msa0437580:intron | 50.0% | |
| TCCTCAGGGAAAAAAGGGTG+TGG | + | chr3_3:1455767-1455786 | Msa0437580:CDS | 50.0% | |
| !!! | TCCACACCCTTTTTTCCCTG+AGG | - | chr3_3:1455771-1455790 | None:intergenic | 50.0% |
| ! | GGCGTTGGACCCTATAACAT+TGG | + | chr3_3:1455806-1455825 | Msa0437580:CDS | 50.0% |
| TGCAGCTAGGCATTCTCCTC+AGG | + | chr3_3:1455752-1455771 | Msa0437580:CDS | 55.0% | |
| GCAGCTAGGCATTCTCCTCA+GGG | + | chr3_3:1455753-1455772 | Msa0437580:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 1455739 | 1456022 | 1455739 | ID=Msa0437580;Name=Msa0437580 |
| chr3_3 | mRNA | 1455739 | 1456022 | 1455739 | ID=Msa0437580-mRNA-1;Parent=Msa0437580;Name=Msa0437580-mRNA-1;_AED=0.12;_eAED=0.14;_QI=0|0|0|1|1|1|2|0|92 |
| chr3_3 | exon | 1455739 | 1455743 | 1455739 | ID=Msa0437580-mRNA-1:exon:132;Parent=Msa0437580-mRNA-1 |
| chr3_3 | exon | 1455749 | 1456022 | 1455749 | ID=Msa0437580-mRNA-1:exon:133;Parent=Msa0437580-mRNA-1 |
| chr3_3 | CDS | 1455739 | 1455743 | 1455739 | ID=Msa0437580-mRNA-1:cds;Parent=Msa0437580-mRNA-1 |
| chr3_3 | CDS | 1455749 | 1456022 | 1455749 | ID=Msa0437580-mRNA-1:cds;Parent=Msa0437580-mRNA-1 |
| Gene Sequence |
| Protein sequence |
