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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0309560 | KEH37197.1 | 90.625 | 64 | 6 | 0 | 1 | 64 | 1 | 64 | 8.06e-34 | 120 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0145310 | Msa0309560 | 0.806609 | 7.571135e-50 | -8.615850e-47 |
| Msa0173990 | Msa0309560 | 0.803536 | 3.326567e-49 | -8.615850e-47 |
| Msa0281260 | Msa0309560 | 0.984829 | 1.034808e-161 | -8.615850e-47 |
| Msa0309550 | Msa0309560 | 0.820678 | 6.042704e-53 | -8.615850e-47 |
| Msa0309560 | Msa0379640 | 0.803207 | 3.892674e-49 | -8.615850e-47 |
| Msa0309560 | Msa0380740 | 0.809183 | 2.146169e-50 | -8.615850e-47 |
| Msa0309560 | Msa0466390 | 0.820428 | 6.896616e-53 | -8.615850e-47 |
| Msa0309560 | Msa0536220 | 0.825542 | 4.429289e-54 | -8.615850e-47 |
| Msa0309560 | Msa0806090 | 0.806271 | 8.918829e-50 | -8.615850e-47 |
| Msa0309560 | Msa1082500 | 0.810146 | 1.332263e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0309560 | MtrunA17_Chr2g0295501 | 92.157 | 51 | 4 | 0 | 1 | 51 | 1 | 51 | 1.33e-29 | 99.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 16 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGCATGCAAGACCGTGTTTC+TGG | 0.222496 | 2_4:-4126178 | Msa0309560:CDS |
| CTAAGGAAGATTGGCTTAGA+AGG | 0.290742 | 2_4:-4126244 | Msa0309560:CDS |
| TGCATGCTGACCCTTCTTGT+TGG | 0.297128 | 2_4:+4126193 | None:intergenic |
| GCATGCAAGACCGTGTTTCT+GGG | 0.399891 | 2_4:-4126177 | Msa0309560:CDS |
| TCATCAGACCTAAGGAAGAT+TGG | 0.412607 | 2_4:-4126253 | Msa0309560:CDS |
| ATCAAAGTCTTCTGTAGCTA+AGG | 0.443745 | 2_4:-4125978 | None:intergenic |
| CTTCTAAGCCAATCTTCCTT+AGG | 0.445559 | 2_4:+4126245 | None:intergenic |
| GTTTCTGGGGTTAGCAAGGA+TGG | 0.473183 | 2_4:-4126163 | Msa0309560:CDS |
| TAAGGAAGATTGGCTTAGAA+GGG | 0.540665 | 2_4:-4126243 | Msa0309560:CDS |
| CCGTGTTTCTGGGGTTAGCA+AGG | 0.548213 | 2_4:-4126167 | Msa0309560:CDS |
| CACCTCCTTCATCAGACCTA+AGG | 0.563117 | 2_4:-4126261 | Msa0309560:CDS |
| TCAAAGTCTTCTGTAGCTAA+GGG | 0.567714 | 2_4:-4125977 | None:intergenic |
| CATGCAAGACCGTGTTTCTG+GGG | 0.590602 | 2_4:-4126176 | Msa0309560:CDS |
| ATCTTCCTTAGGTCTGATGA+AGG | 0.601958 | 2_4:+4126256 | None:intergenic |
| CCTTGCTAACCCCAGAAACA+CGG | 0.645121 | 2_4:+4126167 | None:intergenic |
| TTCCTTAGGTCTGATGAAGG+AGG | 0.672818 | 2_4:+4126259 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GCTTTAATAGACAAGTTTTA+TGG | - | chr2_4:4126028-4126047 | Msa0309560:intron | 25.0% |
| ! | TACCATAACATGAAACTTTA+AGG | + | chr2_4:4126201-4126220 | None:intergenic | 25.0% |
| TGCCTTAAAGTTTCATGTTA+TGG | - | chr2_4:4126196-4126215 | Msa0309560:CDS | 30.0% | |
| ATATGTAGAAAAAAGCTCGA+AGG | - | chr2_4:4126226-4126245 | Msa0309560:CDS | 30.0% | |
| !! | TAAGGAAGATTGGCTTAGAA+GGG | - | chr2_4:4126002-4126021 | Msa0309560:CDS | 35.0% |
| !! | AGTTTTATGGTCCAACAAGA+AGG | - | chr2_4:4126041-4126060 | Msa0309560:intron | 35.0% |
| ! | GTTTTATGGTCCAACAAGAA+GGG | - | chr2_4:4126042-4126061 | Msa0309560:intron | 35.0% |
| ATCGAATGTAAGTTACCCTA+AGG | - | chr2_4:4126126-4126145 | Msa0309560:intron | 35.0% | |
| TCGAATGTAAGTTACCCTAA+GGG | - | chr2_4:4126127-4126146 | Msa0309560:intron | 35.0% | |
| ATCTTCCTTAGGTCTGATGA+AGG | + | chr2_4:4125992-4126011 | None:intergenic | 40.0% | |
| TCATCAGACCTAAGGAAGAT+TGG | - | chr2_4:4125992-4126011 | Msa0309560:CDS | 40.0% | |
| CTTCTAAGCCAATCTTCCTT+AGG | + | chr2_4:4126003-4126022 | None:intergenic | 40.0% | |
| !! | CTAAGGAAGATTGGCTTAGA+AGG | - | chr2_4:4126001-4126020 | Msa0309560:CDS | 40.0% |
| CGAATGTAAGTTACCCTAAG+GGG | - | chr2_4:4126128-4126147 | Msa0309560:intron | 40.0% | |
| TTCCTTAGGTCTGATGAAGG+AGG | + | chr2_4:4125989-4126008 | None:intergenic | 45.0% | |
| !! | AACGATTTTGGGTCCCCTTA+GGG | + | chr2_4:4126144-4126163 | None:intergenic | 45.0% |
| TAAGGGGACCCAAAATCGTT+GGG | - | chr2_4:4126144-4126163 | Msa0309560:CDS | 45.0% | |
| ! | GAGTCTACCCCAACGATTTT+GGG | + | chr2_4:4126155-4126174 | None:intergenic | 45.0% |
| ! | AGAGTCTACCCCAACGATTT+TGG | + | chr2_4:4126156-4126175 | None:intergenic | 45.0% |
| CACCTCCTTCATCAGACCTA+AGG | - | chr2_4:4125984-4126003 | Msa0309560:CDS | 50.0% | |
| TGCATGCTGACCCTTCTTGT+TGG | + | chr2_4:4126055-4126074 | None:intergenic | 50.0% | |
| AGCATGCAAGACCGTGTTTC+TGG | - | chr2_4:4126067-4126086 | Msa0309560:intron | 50.0% | |
| GCATGCAAGACCGTGTTTCT+GGG | - | chr2_4:4126068-4126087 | Msa0309560:intron | 50.0% | |
| ! | CATGCAAGACCGTGTTTCTG+GGG | - | chr2_4:4126069-4126088 | Msa0309560:intron | 50.0% |
| CCTTGCTAACCCCAGAAACA+CGG | + | chr2_4:4126081-4126100 | None:intergenic | 50.0% | |
| !! | GTTTCTGGGGTTAGCAAGGA+TGG | - | chr2_4:4126082-4126101 | Msa0309560:intron | 50.0% |
| !! | CAACGATTTTGGGTCCCCTT+AGG | + | chr2_4:4126145-4126164 | None:intergenic | 50.0% |
| CTAAGGGGACCCAAAATCGT+TGG | - | chr2_4:4126143-4126162 | Msa0309560:CDS | 50.0% | |
| AAGGGGACCCAAAATCGTTG+GGG | - | chr2_4:4126145-4126164 | Msa0309560:CDS | 50.0% | |
| !! | CCGTGTTTCTGGGGTTAGCA+AGG | - | chr2_4:4126078-4126097 | Msa0309560:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 4125980 | 4126287 | 4125980 | ID=Msa0309560;Name=Msa0309560 |
| chr2_4 | mRNA | 4125980 | 4126287 | 4125980 | ID=Msa0309560-mRNA-1;Parent=Msa0309560;Name=Msa0309560-mRNA-1;_AED=0.18;_eAED=0.18;_QI=0|0|0|1|1|1|2|0|68 |
| chr2_4 | exon | 4126135 | 4126287 | 4126135 | ID=Msa0309560-mRNA-1:exon:1435;Parent=Msa0309560-mRNA-1 |
| chr2_4 | exon | 4125980 | 4126033 | 4125980 | ID=Msa0309560-mRNA-1:exon:1434;Parent=Msa0309560-mRNA-1 |
| chr2_4 | CDS | 4126135 | 4126287 | 4126135 | ID=Msa0309560-mRNA-1:cds;Parent=Msa0309560-mRNA-1 |
| chr2_4 | CDS | 4125980 | 4126033 | 4125980 | ID=Msa0309560-mRNA-1:cds;Parent=Msa0309560-mRNA-1 |
| Gene Sequence |
| Protein sequence |
