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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0327120 | MCH84716.1 | 50.935 | 214 | 53 | 7 | 1 | 169 | 185 | 391 | 4.24e-46 | 168 |
| 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 |
|---|---|---|---|---|
| Msa0289250 | Msa0327120 | 0.810889 | 9.209732e-51 | -8.615850e-47 |
| Msa0289260 | Msa0327120 | 0.968884 | 2.572284e-129 | -8.615850e-47 |
| Msa0289330 | Msa0327120 | 0.839186 | 1.841908e-57 | -8.615850e-47 |
| Msa0327120 | Msa1410100 | 0.800879 | 1.171631e-48 | -8.615850e-47 |
| Msa0327120 | Msa1410110 | 0.966430 | 6.548468e-126 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0327120 | MtrunA17_Chr1g0160961 | 49.065 | 214 | 57 | 7 | 1 | 169 | 1108 | 1314 | 1.01e-45 | 159 |
| Msa0327120 | MtrunA17_Chr5g0419891 | 48.598 | 214 | 58 | 7 | 1 | 169 | 984 | 1190 | 4.89e-45 | 157 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 32 sgRNAs with CRISPR-Local
Find 94 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGATTCTATCATCTCATTTC+AGG | 0.217727 | 2_4:-38616358 | Msa0327120:CDS |
| GTTGTCAATTCCTTGAAAAC+TGG | 0.305092 | 2_4:+38616021 | None:intergenic |
| TTGGACAGGACCTGGGGATA+TGG | 0.313019 | 2_4:-38616530 | Msa0327120:CDS |
| GGCAACTTCAAGCAAATTAG+TGG | 0.357784 | 2_4:+38616084 | None:intergenic |
| CATCTCATTTCAGGAGTAGA+TGG | 0.362782 | 2_4:-38616349 | Msa0327120:CDS |
| AAGACAACATGCACTTTACT+AGG | 0.368570 | 2_4:-38616379 | Msa0327120:CDS |
| AGGCCACTCTGATGCGCATT+TGG | 0.371819 | 2_4:-38616271 | Msa0327120:CDS |
| AACAAAGAAAAGTCCACATT+TGG | 0.394798 | 2_4:+38616063 | None:intergenic |
| TTCATATTGCTGCCACCTAC+AGG | 0.401617 | 2_4:+38616403 | None:intergenic |
| ACACTGCCTTGGACAGGACC+TGG | 0.477027 | 2_4:-38616538 | Msa0327120:CDS |
| GTCAATGATGCATGCTGAAT+AGG | 0.489388 | 2_4:+38615989 | None:intergenic |
| CACTGCCTTGGACAGGACCT+GGG | 0.509070 | 2_4:-38616537 | Msa0327120:CDS |
| GCATTTGGATACGATATATG+AGG | 0.530559 | 2_4:-38616256 | Msa0327120:CDS |
| GCAGCGGATTAACACTGCCT+TGG | 0.543231 | 2_4:-38616549 | Msa0327120:CDS |
| GAGTAGATGGTTGTCTGTAA+AGG | 0.545061 | 2_4:-38616336 | Msa0327120:CDS |
| CAAGCTGGTCCTCTAAAAGT+TGG | 0.547141 | 2_4:-38616121 | Msa0327120:CDS |
| GGATTAACACTGCCTTGGAC+AGG | 0.550002 | 2_4:-38616544 | Msa0327120:CDS |
| TTGCTTGAAGTTGCCAAATG+TGG | 0.554295 | 2_4:-38616076 | Msa0327120:CDS |
| GCAACTTCAAGCAAATTAGT+GGG | 0.566368 | 2_4:+38616085 | None:intergenic |
| GGCAGTGTTAATCCGCTGCA+TGG | 0.594322 | 2_4:+38616553 | None:intergenic |
| ATATCCCCAGGTCCTGTCCA+AGG | 0.597750 | 2_4:+38616532 | None:intergenic |
| GTAAAATCTAAAGCCGTGGA+TGG | 0.599176 | 2_4:-38616314 | Msa0327120:CDS |
| GATGCATGCTGAATAGGAGA+AGG | 0.600149 | 2_4:+38615995 | None:intergenic |
| TTTCACTATACCAAGCAAGC+TGG | 0.602071 | 2_4:-38616136 | Msa0327120:CDS |
| TCTATAGCAACCATATCCCC+AGG | 0.613424 | 2_4:+38616520 | None:intergenic |
| AAAGGTAAAATCTAAAGCCG+TGG | 0.614741 | 2_4:-38616318 | Msa0327120:CDS |
| GGTTGCTATAGAGCAAACAT+TGG | 0.621396 | 2_4:-38616509 | Msa0327120:CDS |
| AAAAGAACTAATGCCATCCA+CGG | 0.628505 | 2_4:+38616301 | None:intergenic |
| ACTGCCTTGGACAGGACCTG+GGG | 0.640697 | 2_4:-38616536 | Msa0327120:CDS |
| TACTTCAAAATAGAGAGACA+TGG | 0.684859 | 2_4:+38616476 | None:intergenic |
| AAACAACCTTCACCATGCAG+CGG | 0.695848 | 2_4:-38616565 | None:intergenic |
| TATCCAAATGCGCATCAGAG+TGG | 0.708943 | 2_4:+38616268 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTTTGTATACAAAGTTCA+AGG | + | chr2_4:38616086-38616105 | None:intergenic | 20.0% |
| !!! | ATTTTTGTATACAAAGTTCA+AGG | + | chr2_4:38616086-38616105 | None:intergenic | 20.0% |
| !!! | CATTAGTTCTTTTAGCATTA+AGG | - | chr2_4:38616245-38616264 | Msa0327120:intron | 25.0% |
| ! | AGAAGTCTTCAATAATAGAA+TGG | - | chr2_4:38616323-38616342 | Msa0327120:CDS | 25.0% |
| ! | GAAGTCTTCAATAATAGAAT+GGG | - | chr2_4:38616324-38616343 | Msa0327120:CDS | 25.0% |
| !!! | CATTAGTTCTTTTAGCATTA+AGG | - | chr2_4:38616245-38616264 | Msa0327120:intron | 25.0% |
| ! | AGAAGTCTTCAATAATAGAA+TGG | - | chr2_4:38616323-38616342 | Msa0327120:CDS | 25.0% |
| ! | GAAGTCTTCAATAATAGAAT+GGG | - | chr2_4:38616324-38616343 | Msa0327120:CDS | 25.0% |
| TACTTCAAAATAGAGAGACA+TGG | + | chr2_4:38616063-38616082 | None:intergenic | 30.0% | |
| AAAAATTTCTCCGTAACAAG+AGG | - | chr2_4:38616100-38616119 | Msa0327120:CDS | 30.0% | |
| !!! | CTTTTTTACTCCTCTTGTTA+CGG | + | chr2_4:38616113-38616132 | None:intergenic | 30.0% |
| AACAAAGAAAAGTCCACATT+TGG | + | chr2_4:38616476-38616495 | None:intergenic | 30.0% | |
| !!! | TGTGGACTTTTCTTTGTTTT+TGG | - | chr2_4:38616478-38616497 | Msa0327120:CDS | 30.0% |
| TACTTCAAAATAGAGAGACA+TGG | + | chr2_4:38616063-38616082 | None:intergenic | 30.0% | |
| AAAAATTTCTCCGTAACAAG+AGG | - | chr2_4:38616100-38616119 | Msa0327120:CDS | 30.0% | |
| !!! | CTTTTTTACTCCTCTTGTTA+CGG | + | chr2_4:38616113-38616132 | None:intergenic | 30.0% |
| AACAAAGAAAAGTCCACATT+TGG | + | chr2_4:38616476-38616495 | None:intergenic | 30.0% | |
| !!! | TGTGGACTTTTCTTTGTTTT+TGG | - | chr2_4:38616478-38616497 | Msa0327120:CDS | 30.0% |
| AAGACAACATGCACTTTACT+AGG | - | chr2_4:38616157-38616176 | Msa0327120:intron | 35.0% | |
| GGATTCTATCATCTCATTTC+AGG | - | chr2_4:38616178-38616197 | Msa0327120:intron | 35.0% | |
| ! | AAAGGTAAAATCTAAAGCCG+TGG | - | chr2_4:38616218-38616237 | Msa0327120:intron | 35.0% |
| AAAAGAACTAATGCCATCCA+CGG | + | chr2_4:38616238-38616257 | None:intergenic | 35.0% | |
| GCATTTGGATACGATATATG+AGG | - | chr2_4:38616280-38616299 | Msa0327120:CDS | 35.0% | |
| AAACTGAACCAAGGAAAAAG+TGG | + | chr2_4:38616375-38616394 | None:intergenic | 35.0% | |
| GAAATGTTGAAACTGAACCA+AGG | + | chr2_4:38616384-38616403 | None:intergenic | 35.0% | |
| ! | TCTACACTACCAACTTTTAG+AGG | + | chr2_4:38616427-38616446 | None:intergenic | 35.0% |
| GCAACTTCAAGCAAATTAGT+GGG | + | chr2_4:38616454-38616473 | None:intergenic | 35.0% | |
| ! | GAAAGAATGTCCAGTTTTCA+AGG | - | chr2_4:38616505-38616524 | Msa0327120:CDS | 35.0% |
| GTTGTCAATTCCTTGAAAAC+TGG | + | chr2_4:38616518-38616537 | None:intergenic | 35.0% | |
| AAGACAACATGCACTTTACT+AGG | - | chr2_4:38616157-38616176 | Msa0327120:intron | 35.0% | |
| GGATTCTATCATCTCATTTC+AGG | - | chr2_4:38616178-38616197 | Msa0327120:intron | 35.0% | |
| ! | AAAGGTAAAATCTAAAGCCG+TGG | - | chr2_4:38616218-38616237 | Msa0327120:intron | 35.0% |
| AAAAGAACTAATGCCATCCA+CGG | + | chr2_4:38616238-38616257 | None:intergenic | 35.0% | |
| GCATTTGGATACGATATATG+AGG | - | chr2_4:38616280-38616299 | Msa0327120:CDS | 35.0% | |
| AAACTGAACCAAGGAAAAAG+TGG | + | chr2_4:38616375-38616394 | None:intergenic | 35.0% | |
| GAAATGTTGAAACTGAACCA+AGG | + | chr2_4:38616384-38616403 | None:intergenic | 35.0% | |
| ! | TCTACACTACCAACTTTTAG+AGG | + | chr2_4:38616427-38616446 | None:intergenic | 35.0% |
| GCAACTTCAAGCAAATTAGT+GGG | + | chr2_4:38616454-38616473 | None:intergenic | 35.0% | |
| ! | GAAAGAATGTCCAGTTTTCA+AGG | - | chr2_4:38616505-38616524 | Msa0327120:CDS | 35.0% |
| GTTGTCAATTCCTTGAAAAC+TGG | + | chr2_4:38616518-38616537 | None:intergenic | 35.0% | |
| GGTTGCTATAGAGCAAACAT+TGG | - | chr2_4:38616027-38616046 | Msa0327120:CDS | 40.0% | |
| AGAGGAGTAAAAAAGCCTGT+AGG | - | chr2_4:38616118-38616137 | Msa0327120:CDS | 40.0% | |
| CATCTCATTTCAGGAGTAGA+TGG | - | chr2_4:38616187-38616206 | Msa0327120:intron | 40.0% | |
| GAGTAGATGGTTGTCTGTAA+AGG | - | chr2_4:38616200-38616219 | Msa0327120:intron | 40.0% | |
| ! | GTAAAATCTAAAGCCGTGGA+TGG | - | chr2_4:38616222-38616241 | Msa0327120:intron | 40.0% |
| TTTCACTATACCAAGCAAGC+TGG | - | chr2_4:38616400-38616419 | Msa0327120:CDS | 40.0% | |
| GGCAACTTCAAGCAAATTAG+TGG | + | chr2_4:38616455-38616474 | None:intergenic | 40.0% | |
| TTGCTTGAAGTTGCCAAATG+TGG | - | chr2_4:38616460-38616479 | Msa0327120:CDS | 40.0% | |
| GTCAATGATGCATGCTGAAT+AGG | + | chr2_4:38616550-38616569 | None:intergenic | 40.0% | |
| GGTTGCTATAGAGCAAACAT+TGG | - | chr2_4:38616027-38616046 | Msa0327120:CDS | 40.0% | |
| AGAGGAGTAAAAAAGCCTGT+AGG | - | chr2_4:38616118-38616137 | Msa0327120:CDS | 40.0% | |
| CATCTCATTTCAGGAGTAGA+TGG | - | chr2_4:38616187-38616206 | Msa0327120:intron | 40.0% | |
| GAGTAGATGGTTGTCTGTAA+AGG | - | chr2_4:38616200-38616219 | Msa0327120:intron | 40.0% | |
| ! | GTAAAATCTAAAGCCGTGGA+TGG | - | chr2_4:38616222-38616241 | Msa0327120:intron | 40.0% |
| TTTCACTATACCAAGCAAGC+TGG | - | chr2_4:38616400-38616419 | Msa0327120:CDS | 40.0% | |
| GGCAACTTCAAGCAAATTAG+TGG | + | chr2_4:38616455-38616474 | None:intergenic | 40.0% | |
| TTGCTTGAAGTTGCCAAATG+TGG | - | chr2_4:38616460-38616479 | Msa0327120:CDS | 40.0% | |
| GTCAATGATGCATGCTGAAT+AGG | + | chr2_4:38616550-38616569 | None:intergenic | 40.0% | |
| TCTATAGCAACCATATCCCC+AGG | + | chr2_4:38616019-38616038 | None:intergenic | 45.0% | |
| GGAGTAAAAAAGCCTGTAGG+TGG | - | chr2_4:38616121-38616140 | Msa0327120:CDS | 45.0% | |
| TTCATATTGCTGCCACCTAC+AGG | + | chr2_4:38616136-38616155 | None:intergenic | 45.0% | |
| TATCCAAATGCGCATCAGAG+TGG | + | chr2_4:38616271-38616290 | None:intergenic | 45.0% | |
| !! | AGGAAAAAGTGGACTGGAAG+TGG | + | chr2_4:38616364-38616383 | None:intergenic | 45.0% |
| !!! | CTTCCAGTCCACTTTTTCCT+TGG | - | chr2_4:38616364-38616383 | Msa0327120:CDS | 45.0% |
| GAACCAAGGAAAAAGTGGAC+TGG | + | chr2_4:38616370-38616389 | None:intergenic | 45.0% | |
| !! | TTTTAGAGGACCAGCTTGCT+TGG | + | chr2_4:38616413-38616432 | None:intergenic | 45.0% |
| ! | CAAGCTGGTCCTCTAAAAGT+TGG | - | chr2_4:38616415-38616434 | Msa0327120:CDS | 45.0% |
| GATGCATGCTGAATAGGAGA+AGG | + | chr2_4:38616544-38616563 | None:intergenic | 45.0% | |
| TCTATAGCAACCATATCCCC+AGG | + | chr2_4:38616019-38616038 | None:intergenic | 45.0% | |
| GGAGTAAAAAAGCCTGTAGG+TGG | - | chr2_4:38616121-38616140 | Msa0327120:CDS | 45.0% | |
| TTCATATTGCTGCCACCTAC+AGG | + | chr2_4:38616136-38616155 | None:intergenic | 45.0% | |
| TATCCAAATGCGCATCAGAG+TGG | + | chr2_4:38616271-38616290 | None:intergenic | 45.0% | |
| !! | AGGAAAAAGTGGACTGGAAG+TGG | + | chr2_4:38616364-38616383 | None:intergenic | 45.0% |
| !!! | CTTCCAGTCCACTTTTTCCT+TGG | - | chr2_4:38616364-38616383 | Msa0327120:CDS | 45.0% |
| GAACCAAGGAAAAAGTGGAC+TGG | + | chr2_4:38616370-38616389 | None:intergenic | 45.0% | |
| !! | TTTTAGAGGACCAGCTTGCT+TGG | + | chr2_4:38616413-38616432 | None:intergenic | 45.0% |
| ! | CAAGCTGGTCCTCTAAAAGT+TGG | - | chr2_4:38616415-38616434 | Msa0327120:CDS | 45.0% |
| GATGCATGCTGAATAGGAGA+AGG | + | chr2_4:38616544-38616563 | None:intergenic | 45.0% | |
| GGATTAACACTGCCTTGGAC+AGG | - | chr2_4:38615992-38616011 | Msa0327120:CDS | 50.0% | |
| GGATTAACACTGCCTTGGAC+AGG | - | chr2_4:38615992-38616011 | Msa0327120:CDS | 50.0% | |
| !! | GCAGCGGATTAACACTGCCT+TGG | - | chr2_4:38615987-38616006 | Msa0327120:CDS | 55.0% |
| ATATCCCCAGGTCCTGTCCA+AGG | + | chr2_4:38616007-38616026 | None:intergenic | 55.0% | |
| TTGGACAGGACCTGGGGATA+TGG | - | chr2_4:38616006-38616025 | Msa0327120:CDS | 55.0% | |
| AGGCCACTCTGATGCGCATT+TGG | - | chr2_4:38616265-38616284 | Msa0327120:CDS | 55.0% | |
| !! | GCAGCGGATTAACACTGCCT+TGG | - | chr2_4:38615987-38616006 | Msa0327120:CDS | 55.0% |
| ATATCCCCAGGTCCTGTCCA+AGG | + | chr2_4:38616007-38616026 | None:intergenic | 55.0% | |
| TTGGACAGGACCTGGGGATA+TGG | - | chr2_4:38616006-38616025 | Msa0327120:CDS | 55.0% | |
| AGGCCACTCTGATGCGCATT+TGG | - | chr2_4:38616265-38616284 | Msa0327120:CDS | 55.0% | |
| ACACTGCCTTGGACAGGACC+TGG | - | chr2_4:38615998-38616017 | Msa0327120:CDS | 60.0% | |
| CACTGCCTTGGACAGGACCT+GGG | - | chr2_4:38615999-38616018 | Msa0327120:CDS | 60.0% | |
| ACTGCCTTGGACAGGACCTG+GGG | - | chr2_4:38616000-38616019 | Msa0327120:CDS | 60.0% | |
| ACACTGCCTTGGACAGGACC+TGG | - | chr2_4:38615998-38616017 | Msa0327120:CDS | 60.0% | |
| CACTGCCTTGGACAGGACCT+GGG | - | chr2_4:38615999-38616018 | Msa0327120:CDS | 60.0% | |
| ACTGCCTTGGACAGGACCTG+GGG | - | chr2_4:38616000-38616019 | Msa0327120:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 38615985 | 38616573 | 38615985 | ID=Msa0327120;Name=Msa0327120 |
| chr2_4 | mRNA | 38615985 | 38616573 | 38615985 | ID=Msa0327120-mRNA-1;Parent=Msa0327120;Name=Msa0327120-mRNA-1;_AED=0.45;_eAED=0.50;_QI=0|0|0|1|1|1|2|0|169 |
| chr2_4 | exon | 38616246 | 38616573 | 38616246 | ID=Msa0327120-mRNA-1:exon:11609;Parent=Msa0327120-mRNA-1 |
| chr2_4 | exon | 38615985 | 38616166 | 38615985 | ID=Msa0327120-mRNA-1:exon:11608;Parent=Msa0327120-mRNA-1 |
| chr2_4 | CDS | 38616246 | 38616573 | 38616246 | ID=Msa0327120-mRNA-1:cds;Parent=Msa0327120-mRNA-1 |
| chr2_4 | CDS | 38615985 | 38616166 | 38615985 | ID=Msa0327120-mRNA-1:cds;Parent=Msa0327120-mRNA-1 |
| Gene Sequence |
| Protein sequence |
