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 |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|---|---|
| Msa0356500 | TF | C2H2 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0356500 | MtrunA17_Chr4g0019551 | 37.037 | 108 | 35 | 2 | 4 | 78 | 8 | 115 | 2.31e-11 | 55.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 20 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTAGATTCTAATACATAATT+TGG | 0.101359 | 3_1:-35652988 | None:intergenic |
| GGATCTTGATATTGAGAATT+TGG | 0.146841 | 3_1:-35653190 | None:intergenic |
| TTGACGTAGCTGGTTTATTA+AGG | 0.320687 | 3_1:-35653279 | None:intergenic |
| TAGATTCTAATACATAATTT+GGG | 0.424854 | 3_1:-35652987 | None:intergenic |
| TCGCGTGGTGGTGATGCATT+TGG | 0.426429 | 3_1:-35653211 | None:intergenic |
| AGGTCGAAAGTTGAAACATT+GGG | 0.452691 | 3_1:-35653259 | None:intergenic |
| ATTCATTACTTTGACGTAGC+TGG | 0.471478 | 3_1:-35653289 | None:intergenic |
| ACGTGCGCCGCATTCGTCAC+AGG | 0.507537 | 3_1:-35652917 | None:intergenic |
| CTAATACATAATTTGGGTGA+TGG | 0.521786 | 3_1:-35652981 | None:intergenic |
| AAGGTCGAAAGTTGAAACAT+TGG | 0.524461 | 3_1:-35653260 | None:intergenic |
| AAGTTGAAACATTGGGAGGT+TGG | 0.534182 | 3_1:-35653252 | None:intergenic |
| AAATGCATCACCACCACGCG+AGG | 0.587449 | 3_1:+35653213 | Msa0356500:CDS |
| AAGTCGAACTGTCCCTCGCG+TGG | 0.618023 | 3_1:-35653226 | None:intergenic |
| TCACACATAAGTTGTTGAGA+TGG | 0.625728 | 3_1:-35652943 | None:intergenic |
| TCGAACTGTCCCTCGCGTGG+TGG | 0.637192 | 3_1:-35653223 | None:intergenic |
| CGCCTCCACAAGTACGACGA+CGG | 0.649572 | 3_1:+35653164 | Msa0356500:intron |
| GTATTAGAATCTAGTGCACA+AGG | 0.655323 | 3_1:+35652997 | Msa0356500:CDS |
| AATGCATCACCACCACGCGA+GGG | 0.657910 | 3_1:+35653214 | Msa0356500:CDS |
| ATGTCGACCTGTGACGAATG+CGG | 0.662431 | 3_1:+35652910 | Msa0356500:CDS |
| TCGAAAGTTGAAACATTGGG+AGG | 0.688596 | 3_1:-35653256 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAGATTCTAATACATAATTT+GGG | - | chr3_1:35652990-35653009 | None:intergenic | 15.0% |
| !! | CTAGATTCTAATACATAATT+TGG | - | chr3_1:35652991-35653010 | None:intergenic | 20.0% |
| !! | GATATTGATATTGCATATTT+CGG | - | chr3_1:35653072-35653091 | None:intergenic | 20.0% |
| !! | AACAACCAAATTATCATAAT+TGG | + | chr3_1:35653107-35653126 | Msa0356500:intron | 20.0% |
| CTAATACATAATTTGGGTGA+TGG | - | chr3_1:35652984-35653003 | None:intergenic | 30.0% | |
| AGTTGAGTCTGATTATTTGT+TGG | - | chr3_1:35653049-35653068 | None:intergenic | 30.0% | |
| GGATCTTGATATTGAGAATT+TGG | - | chr3_1:35653193-35653212 | None:intergenic | 30.0% | |
| TCACACATAAGTTGTTGAGA+TGG | - | chr3_1:35652946-35652965 | None:intergenic | 35.0% | |
| GTATTAGAATCTAGTGCACA+AGG | + | chr3_1:35652997-35653016 | Msa0356500:CDS | 35.0% | |
| GGTCGCCAATTATGATAATT+TGG | - | chr3_1:35653115-35653134 | None:intergenic | 35.0% | |
| AGGTCGAAAGTTGAAACATT+GGG | - | chr3_1:35653262-35653281 | None:intergenic | 35.0% | |
| AAGGTCGAAAGTTGAAACAT+TGG | - | chr3_1:35653263-35653282 | None:intergenic | 35.0% | |
| ! | TTGACGTAGCTGGTTTATTA+AGG | - | chr3_1:35653282-35653301 | None:intergenic | 35.0% |
| GGTTGTTGATGTTGTGCATT+TGG | - | chr3_1:35653094-35653113 | None:intergenic | 40.0% | |
| AAGTTGAAACATTGGGAGGT+TGG | - | chr3_1:35653255-35653274 | None:intergenic | 40.0% | |
| TCGAAAGTTGAAACATTGGG+AGG | - | chr3_1:35653259-35653278 | None:intergenic | 40.0% | |
| ! | GGAGGTTGTTGTTGAGCATT+TGG | - | chr3_1:35653136-35653155 | None:intergenic | 45.0% |
| ATGTCGACCTGTGACGAATG+CGG | + | chr3_1:35652910-35652929 | Msa0356500:CDS | 50.0% | |
| AGTGCACAAGGTCAAACCCT+CGG | + | chr3_1:35653009-35653028 | Msa0356500:intron | 50.0% | |
| ! | ACTTGTGGAGGCGCAGCATT+TGG | - | chr3_1:35653157-35653176 | None:intergenic | 55.0% |
| ! | TCGCGTGGTGGTGATGCATT+TGG | - | chr3_1:35653214-35653233 | None:intergenic | 55.0% |
| AAATGCATCACCACCACGCG+AGG | + | chr3_1:35653213-35653232 | Msa0356500:CDS | 55.0% | |
| AATGCATCACCACCACGCGA+GGG | + | chr3_1:35653214-35653233 | Msa0356500:CDS | 55.0% | |
| GCACAAGGTCAAACCCTCGG+AGG | + | chr3_1:35653012-35653031 | Msa0356500:intron | 60.0% | |
| ! | TGTGGAGGCGCAGCATTTGG+AGG | - | chr3_1:35653154-35653173 | None:intergenic | 60.0% |
| CGCCTCCACAAGTACGACGA+CGG | + | chr3_1:35653164-35653183 | Msa0356500:intron | 60.0% | |
| CTCCGTCGTCGTACTTGTGG+AGG | - | chr3_1:35653169-35653188 | None:intergenic | 60.0% | |
| GGACTCCGTCGTCGTACTTG+TGG | - | chr3_1:35653172-35653191 | None:intergenic | 60.0% | |
| AAGTCGAACTGTCCCTCGCG+TGG | - | chr3_1:35653229-35653248 | None:intergenic | 60.0% | |
| ACGTGCGCCGCATTCGTCAC+AGG | - | chr3_1:35652920-35652939 | None:intergenic | 65.0% | |
| GGACGACGTAGTGCCTCCGA+GGG | - | chr3_1:35653028-35653047 | None:intergenic | 65.0% | |
| TGGACGACGTAGTGCCTCCG+AGG | - | chr3_1:35653029-35653048 | None:intergenic | 65.0% | |
| TCGAACTGTCCCTCGCGTGG+TGG | - | chr3_1:35653226-35653245 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 35652910 | 35653306 | 35652910 | ID=Msa0356500;Name=Msa0356500 |
| chr3_1 | mRNA | 35652910 | 35653306 | 35652910 | ID=Msa0356500-mRNA-1;Parent=Msa0356500;Name=Msa0356500-mRNA-1;_AED=0.19;_eAED=0.19;_QI=0|0|0|1|0|0|2|0|79 |
| chr3_1 | exon | 35652910 | 35653018 | 35652910 | ID=Msa0356500-mRNA-1:exon:6598;Parent=Msa0356500-mRNA-1 |
| chr3_1 | exon | 35653176 | 35653306 | 35653176 | ID=Msa0356500-mRNA-1:exon:6599;Parent=Msa0356500-mRNA-1 |
| chr3_1 | CDS | 35652910 | 35653018 | 35652910 | ID=Msa0356500-mRNA-1:cds;Parent=Msa0356500-mRNA-1 |
| chr3_1 | CDS | 35653176 | 35653306 | 35653176 | ID=Msa0356500-mRNA-1:cds;Parent=Msa0356500-mRNA-1 |
| Gene Sequence |
| Protein sequence |
