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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0205240 | ABN08062.1 | 95.620 | 137 | 6 | 0 | 10 | 146 | 201 | 337 | 7.92e-85 | 262 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0205240 | sp|A0A178VBJ0|APSR1_ARATH | 30.827 | 133 | 87 | 1 | 12 | 144 | 498 | 625 | 3.02e-13 | 68.9 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0205240 | A2Q362 | 95.620 | 137 | 6 | 0 | 10 | 146 | 201 | 337 | 3.78e-85 | 262 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0205240 | Msa0248430 | 0.823542 | 1.309550e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0205240 | MtrunA17_Chr2g0303521 | 95.620 | 137 | 6 | 0 | 10 | 146 | 499 | 635 | 9.27e-86 | 263 |
| Msa0205240 | MtrunA17_Chr7g0250681 | 30.769 | 143 | 90 | 3 | 11 | 144 | 697 | 839 | 4.78e-13 | 65.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0205240 | AT2G34670.2 | 40.136 | 147 | 84 | 2 | 3 | 145 | 533 | 679 | 2.05e-25 | 101 |
| Msa0205240 | AT3G51290.2 | 30.827 | 133 | 87 | 1 | 12 | 144 | 498 | 625 | 2.96e-14 | 69.3 |
| Msa0205240 | AT3G51290.3 | 30.827 | 133 | 87 | 1 | 12 | 144 | 498 | 625 | 3.07e-14 | 68.9 |
| Msa0205240 | AT3G51290.1 | 30.597 | 134 | 88 | 1 | 11 | 144 | 491 | 619 | 3.19e-14 | 68.9 |
| Msa0205240 | AT1G02110.1 | 31.206 | 141 | 86 | 2 | 11 | 144 | 563 | 699 | 3.23e-12 | 63.2 |
| Msa0205240 | AT3G60320.1 | 27.273 | 143 | 95 | 2 | 11 | 144 | 650 | 792 | 4.51e-11 | 60.1 |
Find 25 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTTTCCACTTGCTTCTTTA+AGG | 0.121977 | 2_1:+31892896 | None:intergenic |
| CTCGGCCTGTTGAGCAATTA+TGG | 0.187743 | 2_1:+31893088 | None:intergenic |
| AAGTGTGAAAGCAGATTATT+TGG | 0.231735 | 2_1:-31892877 | Msa0205240:CDS |
| TTTATGAAATAGCGGATGCC+TGG | 0.385105 | 2_1:+31892935 | None:intergenic |
| ACGTTCCATAATTGCTCAAC+AGG | 0.401754 | 2_1:-31893093 | Msa0205240:CDS |
| TTTCAGAATGTTATCTTCCT+CGG | 0.454291 | 2_1:+31893070 | None:intergenic |
| TTTGAAGATGAGGGTGATGA+AGG | 0.485921 | 2_1:-31892969 | Msa0205240:CDS |
| TGAATTAAACTTTGAAGATG+AGG | 0.488181 | 2_1:-31892979 | Msa0205240:CDS |
| GCAGAGGTGCTCGACGTCCC+TGG | 0.492508 | 2_1:-31893021 | Msa0205240:CDS |
| ACATCTCTTCGTGTCACTGA+TGG | 0.494531 | 2_1:-31892799 | Msa0205240:CDS |
| TTATGAAATAGCGGATGCCT+GGG | 0.495642 | 2_1:+31892936 | None:intergenic |
| TGCTTCCTCTCAAGCAATTG+AGG | 0.505979 | 2_1:-31892766 | Msa0205240:CDS |
| AATAGCCTCAATTGCTTGAG+AGG | 0.509454 | 2_1:+31892761 | None:intergenic |
| TTGAGCAATTATGGAACGTA+TGG | 0.520980 | 2_1:+31893097 | None:intergenic |
| GAATTAAACTTTGAAGATGA+GGG | 0.534603 | 2_1:-31892978 | Msa0205240:CDS |
| CATAATTGCTCAACAGGCCG+AGG | 0.562768 | 2_1:-31893087 | Msa0205240:CDS |
| ATCAGTGACACGAAGAGATG+TGG | 0.570760 | 2_1:+31892801 | None:intergenic |
| TCTGAGGTTATCAAGAGTCA+TGG | 0.581424 | 2_1:+31892833 | None:intergenic |
| AGAAGCCTTAAAGAAGCAAG+TGG | 0.583882 | 2_1:-31892901 | Msa0205240:CDS |
| GATGTGGAAGTCTAGTTCTG+AGG | 0.627153 | 2_1:+31892817 | None:intergenic |
| AACTTGAAAGAAAGTTGCAG+AGG | 0.637833 | 2_1:-31893037 | Msa0205240:CDS |
| TCCGCTATTTCATAAAATAG+CGG | 0.639131 | 2_1:-31892928 | Msa0205240:CDS |
| ATGAAGGTAATATAAGCCCC+AGG | 0.640592 | 2_1:-31892953 | Msa0205240:CDS |
| TATGAAATAGCGGATGCCTG+GGG | 0.656539 | 2_1:+31892937 | None:intergenic |
| TGGAACGTATGGATAACCGA+AGG | 0.681179 | 2_1:+31893108 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AGATAACATTCTGAAAAAGT+TGG | - | chr2_1:31892835-31892854 | Msa0205240:CDS | 25.0% |
| !! | TGAATTAAACTTTGAAGATG+AGG | - | chr2_1:31892919-31892938 | Msa0205240:CDS | 25.0% |
| !! | GAATTAAACTTTGAAGATGA+GGG | - | chr2_1:31892920-31892939 | Msa0205240:CDS | 25.0% |
| TTTCAGAATGTTATCTTCCT+CGG | + | chr2_1:31892831-31892850 | None:intergenic | 30.0% | |
| ! | TTCAATTTTTCTCTGCATCT+CGG | + | chr2_1:31892903-31892922 | None:intergenic | 30.0% |
| ! | TCCGCTATTTCATAAAATAG+CGG | - | chr2_1:31892970-31892989 | Msa0205240:CDS | 30.0% |
| !! | TCCGCTATTTTATGAAATAG+CGG | + | chr2_1:31892974-31892993 | None:intergenic | 30.0% |
| AAGTGTGAAAGCAGATTATT+TGG | - | chr2_1:31893021-31893040 | Msa0205240:CDS | 30.0% | |
| ! | ATTTTATGATGTGGTGCATG+AGG | - | chr2_1:31892748-31892767 | Msa0205240:CDS | 35.0% |
| CCAATGCGATAAAAAACCTT+CGG | - | chr2_1:31892774-31892793 | Msa0205240:CDS | 35.0% | |
| TTGAGCAATTATGGAACGTA+TGG | + | chr2_1:31892804-31892823 | None:intergenic | 35.0% | |
| AACTTGAAAGAAAGTTGCAG+AGG | - | chr2_1:31892861-31892880 | Msa0205240:CDS | 35.0% | |
| ACTTTCCACTTGCTTCTTTA+AGG | + | chr2_1:31893005-31893024 | None:intergenic | 35.0% | |
| !!! | CCGAAGGTTTTTTATCGCAT+TGG | + | chr2_1:31892777-31892796 | None:intergenic | 40.0% |
| ACGTTCCATAATTGCTCAAC+AGG | - | chr2_1:31892805-31892824 | Msa0205240:CDS | 40.0% | |
| TTTGAAGATGAGGGTGATGA+AGG | - | chr2_1:31892929-31892948 | Msa0205240:CDS | 40.0% | |
| ATGAAGGTAATATAAGCCCC+AGG | - | chr2_1:31892945-31892964 | Msa0205240:CDS | 40.0% | |
| !! | TTATGAAATAGCGGATGCCT+GGG | + | chr2_1:31892965-31892984 | None:intergenic | 40.0% |
| !! | TTTATGAAATAGCGGATGCC+TGG | + | chr2_1:31892966-31892985 | None:intergenic | 40.0% |
| AGAAGCCTTAAAGAAGCAAG+TGG | - | chr2_1:31892997-31893016 | Msa0205240:CDS | 40.0% | |
| ! | TCTGAGGTTATCAAGAGTCA+TGG | + | chr2_1:31893068-31893087 | None:intergenic | 40.0% |
| AATAGCCTCAATTGCTTGAG+AGG | + | chr2_1:31893140-31893159 | None:intergenic | 40.0% | |
| TGGAACGTATGGATAACCGA+AGG | + | chr2_1:31892793-31892812 | None:intergenic | 45.0% | |
| !! | TATGAAATAGCGGATGCCTG+GGG | + | chr2_1:31892964-31892983 | None:intergenic | 45.0% |
| !! | GATGTGGAAGTCTAGTTCTG+AGG | + | chr2_1:31893084-31893103 | None:intergenic | 45.0% |
| ATCAGTGACACGAAGAGATG+TGG | + | chr2_1:31893100-31893119 | None:intergenic | 45.0% | |
| ! | ACATCTCTTCGTGTCACTGA+TGG | - | chr2_1:31893099-31893118 | Msa0205240:CDS | 45.0% |
| TGCTTCCTCTCAAGCAATTG+AGG | - | chr2_1:31893132-31893151 | Msa0205240:CDS | 45.0% | |
| CTCGGCCTGTTGAGCAATTA+TGG | + | chr2_1:31892813-31892832 | None:intergenic | 50.0% | |
| CATAATTGCTCAACAGGCCG+AGG | - | chr2_1:31892811-31892830 | Msa0205240:CDS | 50.0% | |
| ! | TTTTCTCTGCATCTCGGCCA+GGG | + | chr2_1:31892897-31892916 | None:intergenic | 50.0% |
| ! | TTTTTCTCTGCATCTCGGCC+AGG | + | chr2_1:31892898-31892917 | None:intergenic | 50.0% |
| !! | GCAGAGGTGCTCGACGTCCC+TGG | - | chr2_1:31892877-31892896 | Msa0205240:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 31892740 | 31893180 | 31892740 | ID=Msa0205240;Name=Msa0205240 |
| chr2_1 | mRNA | 31892740 | 31893180 | 31892740 | ID=Msa0205240-mRNA-1;Parent=Msa0205240;Name=Msa0205240-mRNA-1;_AED=0.48;_eAED=0.48;_QI=0|-1|0|1|-1|1|1|0|146 |
| chr2_1 | exon | 31892740 | 31893180 | 31892740 | ID=Msa0205240-mRNA-1:exon:11186;Parent=Msa0205240-mRNA-1 |
| chr2_1 | CDS | 31892740 | 31893180 | 31892740 | ID=Msa0205240-mRNA-1:cds;Parent=Msa0205240-mRNA-1 |
| Gene Sequence |
| Protein sequence |
