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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0390320 | XP_003629796.1 | 81.955 | 133 | 22 | 1 | 2 | 134 | 58 | 188 | 1.31e-63 | 208 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0390320 | sp|Q9LT27|YCED1_ARATH | 68.966 | 116 | 31 | 2 | 14 | 129 | 75 | 185 | 1.38e-51 | 170 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0390320 | G7LJG7 | 81.955 | 133 | 22 | 1 | 2 | 134 | 58 | 188 | 6.27e-64 | 208 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0017120 | Msa0390320 | 0.804033 | 2.623221e-49 | -8.615850e-47 |
| Msa0017940 | Msa0390320 | 0.815513 | 8.895698e-52 | -8.615850e-47 |
| Msa0082820 | Msa0390320 | 0.809526 | 1.811179e-50 | -8.615850e-47 |
| Msa0127080 | Msa0390320 | 0.800432 | 1.445281e-48 | -8.615850e-47 |
| Msa0162030 | Msa0390320 | 0.825990 | 3.467959e-54 | -8.615850e-47 |
| Msa0162050 | Msa0390320 | 0.811740 | 6.017666e-51 | -8.615850e-47 |
| Msa0162070 | Msa0390320 | 0.816855 | 4.459763e-52 | -8.615850e-47 |
| Msa0183610 | Msa0390320 | 0.802522 | 5.390640e-49 | -8.615850e-47 |
| Msa0194570 | Msa0390320 | 0.804655 | 1.946466e-49 | -8.615850e-47 |
| Msa0390320 | Msa0476180 | 0.812902 | 3.355756e-51 | -8.615850e-47 |
| Msa0390320 | Msa0576420 | 0.801203 | 1.006023e-48 | -8.615850e-47 |
| Msa0390320 | Msa0581460 | 0.813959 | 1.965811e-51 | -8.615850e-47 |
| Msa0390320 | Msa0583930 | 0.818046 | 2.404421e-52 | -8.615850e-47 |
| Msa0390320 | Msa0583940 | 0.808372 | 3.199119e-50 | -8.615850e-47 |
| Msa0390320 | Msa0607300 | 0.814962 | 1.179141e-51 | -8.615850e-47 |
| Msa0390320 | Msa0707780 | 0.808501 | 3.002665e-50 | -8.615850e-47 |
| Msa0390320 | Msa0730180 | 0.813603 | 2.354421e-51 | -8.615850e-47 |
| Msa0390320 | Msa0770430 | 0.808499 | 3.006015e-50 | -8.615850e-47 |
| Msa0390320 | Msa0775090 | 0.819140 | 1.358025e-52 | -8.615850e-47 |
| Msa0390320 | Msa0790830 | 0.809125 | 2.208721e-50 | -8.615850e-47 |
| Msa0390320 | Msa0812450 | 0.810007 | 1.427379e-50 | -8.615850e-47 |
| Msa0390320 | Msa0975080 | 0.819495 | 1.127045e-52 | -8.615850e-47 |
| Msa0390320 | Msa1000470 | 0.815087 | 1.106277e-51 | -8.615850e-47 |
| Msa0390320 | Msa1032140 | 0.811537 | 6.663863e-51 | -8.615850e-47 |
| Msa0390320 | Msa1072080 | 0.821646 | 3.614134e-53 | -8.615850e-47 |
| Msa0390320 | Msa1214900 | 0.808333 | 3.261413e-50 | -8.615850e-47 |
| Msa0390320 | Msa1325980 | 0.827221 | 1.763294e-54 | -8.615850e-47 |
| Msa0390320 | Msa1326000 | 0.804835 | 1.784657e-49 | -8.615850e-47 |
| Msa0317260 | Msa0390320 | 0.826742 | 2.295275e-54 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0390320 | MtrunA17_Chr8g0379301 | 81.955 | 133 | 22 | 1 | 2 | 134 | 58 | 188 | 1.21e-67 | 208 |
| Msa0390320 | MtrunA17_Chr4g0045151 | 84.524 | 84 | 11 | 1 | 2 | 85 | 58 | 139 | 5.67e-38 | 127 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0390320 | AT3G19810.2 | 68.966 | 116 | 31 | 2 | 14 | 129 | 75 | 185 | 1.41e-52 | 170 |
| Msa0390320 | AT3G19810.1 | 68.966 | 116 | 31 | 2 | 14 | 129 | 75 | 185 | 1.41e-52 | 170 |
Find 28 sgRNAs with CRISPR-Local
Find 41 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTCAATTTCTTCTTCTTCC+TGG | 0.279746 | 3_2:+978349 | None:intergenic |
| TCATCACGCTTATGTGTAAT+AGG | 0.323398 | 3_2:-978304 | Msa0390320:intron |
| AAGGCACAGTGTCCTTTGAT+TGG | 0.380524 | 3_2:-978619 | Msa0390320:CDS |
| TTGCCATAGATTAATCCTTC+AGG | 0.391299 | 3_2:-978212 | Msa0390320:intron |
| AAGAAGAAATTGAGGCTTGA+TGG | 0.392126 | 3_2:-978341 | Msa0390320:CDS |
| GAAGAAATTGATAAAGATGA+AGG | 0.421786 | 3_2:-978575 | Msa0390320:CDS |
| CATGTATGCATCAAAATGTA+TGG | 0.428669 | 3_2:-978669 | Msa0390320:CDS |
| AGAAGAAATTGAGGCTTGAT+GGG | 0.452423 | 3_2:-978340 | Msa0390320:CDS |
| AGGCACAGTGTCCTTTGATT+GGG | 0.460660 | 3_2:-978618 | Msa0390320:CDS |
| ATCTGAACCGGAGTCCCATT+CGG | 0.465444 | 3_2:+978386 | None:intergenic |
| TGCACTACTTTGGAGAGGTT+AGG | 0.495564 | 3_2:-978491 | Msa0390320:CDS |
| ACATCAATAGAAATCTGAAC+CGG | 0.521267 | 3_2:+978374 | None:intergenic |
| CCCAAATGTTAAAATTTCTG+TGG | 0.541171 | 3_2:-978188 | Msa0390320:CDS |
| AAAGGACACTGTGCCTTCCT+CGG | 0.545029 | 3_2:+978625 | None:intergenic |
| TTCTTCATAGTCCCAATCAA+AGG | 0.549462 | 3_2:+978607 | None:intergenic |
| CCAGGAAGAAGAAGAAATTG+AGG | 0.557383 | 3_2:-978349 | Msa0390320:CDS |
| ACTTTGGAGAGGTTAGGTCT+AGG | 0.558661 | 3_2:-978485 | Msa0390320:CDS |
| AGATTTCTATTGATGTTACC+AGG | 0.564204 | 3_2:-978367 | Msa0390320:CDS |
| AAGAAATTGATAAAGATGAA+GGG | 0.573818 | 3_2:-978574 | Msa0390320:CDS |
| CGTGATTTATACACCGAGGA+AGG | 0.591548 | 3_2:-978638 | Msa0390320:CDS |
| GATGAAGGGTCACCGTGGGA+AGG | 0.602100 | 3_2:-978560 | Msa0390320:CDS |
| TATATAACCGCACCTTCCCA+CGG | 0.608059 | 3_2:+978548 | None:intergenic |
| GCGAACTACGAAAGCAGTGA+AGG | 0.615142 | 3_2:-978414 | Msa0390320:CDS |
| AGTATTGCACTACTTTGGAG+AGG | 0.618407 | 3_2:-978496 | Msa0390320:CDS |
| AGGGTCACCGTGGGAAGGTG+CGG | 0.618932 | 3_2:-978555 | Msa0390320:CDS |
| TAAAGATGAAGGGTCACCGT+GGG | 0.665303 | 3_2:-978564 | Msa0390320:CDS |
| ATAAAGATGAAGGGTCACCG+TGG | 0.749113 | 3_2:-978565 | Msa0390320:CDS |
| TGATCGTGATTTATACACCG+AGG | 0.771445 | 3_2:-978642 | Msa0390320:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAGAAATTGATAAAGATGAA+GGG | - | chr3_2:978205-978224 | Msa0390320:CDS | 20.0% |
| ! | GAAGAAATTGATAAAGATGA+AGG | - | chr3_2:978204-978223 | Msa0390320:CDS | 25.0% |
| ! | AACCGATGTTTCAAAAAATA+AGG | - | chr3_2:978326-978345 | Msa0390320:CDS | 25.0% |
| !!! | AGCCTTATTTTTTGAAACAT+CGG | + | chr3_2:978331-978350 | None:intergenic | 25.0% |
| ! | AAAAAATAAGGCTTCTGTTA+TGG | - | chr3_2:978338-978357 | Msa0390320:CDS | 25.0% |
| ! | AAAAATAAGGCTTCTGTTAT+GGG | - | chr3_2:978339-978358 | Msa0390320:CDS | 25.0% |
| !!! | CACAGAAATTTTAACATTTG+GGG | + | chr3_2:978593-978612 | None:intergenic | 25.0% |
| !!! | CCACAGAAATTTTAACATTT+GGG | + | chr3_2:978594-978613 | None:intergenic | 25.0% |
| !!! | ACCACAGAAATTTTAACATT+TGG | + | chr3_2:978595-978614 | None:intergenic | 25.0% |
| !! | TTTTGAGTATTGCACTACTT+TGG | - | chr3_2:978278-978297 | Msa0390320:intron | 30.0% |
| !!! | TTTTTGAAACATCGGTTGAA+AGG | + | chr3_2:978323-978342 | None:intergenic | 30.0% |
| ACATCAATAGAAATCTGAAC+CGG | + | chr3_2:978408-978427 | None:intergenic | 30.0% | |
| AGATTTCTATTGATGTTACC+AGG | - | chr3_2:978412-978431 | Msa0390320:CDS | 30.0% | |
| CCCAAATGTTAAAATTTCTG+TGG | - | chr3_2:978591-978610 | Msa0390320:CDS | 30.0% | |
| TTCTTCATAGTCCCAATCAA+AGG | + | chr3_2:978175-978194 | None:intergenic | 35.0% | |
| AAGAAGAAATTGAGGCTTGA+TGG | - | chr3_2:978438-978457 | Msa0390320:CDS | 35.0% | |
| AGAAGAAATTGAGGCTTGAT+GGG | - | chr3_2:978439-978458 | Msa0390320:CDS | 35.0% | |
| TCATCACGCTTATGTGTAAT+AGG | - | chr3_2:978475-978494 | Msa0390320:CDS | 35.0% | |
| TTGCCATAGATTAATCCTTC+AGG | - | chr3_2:978567-978586 | Msa0390320:CDS | 35.0% | |
| TGATCGTGATTTATACACCG+AGG | - | chr3_2:978137-978156 | Msa0390320:CDS | 40.0% | |
| ! | AGTATTGCACTACTTTGGAG+AGG | - | chr3_2:978283-978302 | Msa0390320:intron | 40.0% |
| ! | CAGTGAAGGATTTTCCGAAT+GGG | - | chr3_2:978379-978398 | Msa0390320:CDS | 40.0% |
| CCTCAATTTCTTCTTCTTCC+TGG | + | chr3_2:978433-978452 | None:intergenic | 40.0% | |
| CCAGGAAGAAGAAGAAATTG+AGG | - | chr3_2:978430-978449 | Msa0390320:CDS | 40.0% | |
| !! | TTTTAACATTTGGGGCCTGA+AGG | + | chr3_2:978585-978604 | None:intergenic | 40.0% |
| CGTGATTTATACACCGAGGA+AGG | - | chr3_2:978141-978160 | Msa0390320:CDS | 45.0% | |
| AAGGCACAGTGTCCTTTGAT+TGG | - | chr3_2:978160-978179 | Msa0390320:CDS | 45.0% | |
| AGGCACAGTGTCCTTTGATT+GGG | - | chr3_2:978161-978180 | Msa0390320:CDS | 45.0% | |
| ATAAAGATGAAGGGTCACCG+TGG | - | chr3_2:978214-978233 | Msa0390320:intron | 45.0% | |
| TAAAGATGAAGGGTCACCGT+GGG | - | chr3_2:978215-978234 | Msa0390320:intron | 45.0% | |
| TATATAACCGCACCTTCCCA+CGG | + | chr3_2:978234-978253 | None:intergenic | 45.0% | |
| ! | TGCACTACTTTGGAGAGGTT+AGG | - | chr3_2:978288-978307 | Msa0390320:intron | 45.0% |
| ! | ACTTTGGAGAGGTTAGGTCT+AGG | - | chr3_2:978294-978313 | Msa0390320:intron | 45.0% |
| ! | GCAGTGAAGGATTTTCCGAA+TGG | - | chr3_2:978378-978397 | Msa0390320:CDS | 45.0% |
| GGGCCTGAAGGATTAATCTA+TGG | + | chr3_2:978573-978592 | None:intergenic | 45.0% | |
| AAAGGACACTGTGCCTTCCT+CGG | + | chr3_2:978157-978176 | None:intergenic | 50.0% | |
| GCGAACTACGAAAGCAGTGA+AGG | - | chr3_2:978365-978384 | Msa0390320:CDS | 50.0% | |
| ! | GGATTTTCCGAATGGGACTC+CGG | - | chr3_2:978386-978405 | Msa0390320:CDS | 50.0% |
| ATCTGAACCGGAGTCCCATT+CGG | + | chr3_2:978396-978415 | None:intergenic | 50.0% | |
| GATGAAGGGTCACCGTGGGA+AGG | - | chr3_2:978219-978238 | Msa0390320:intron | 60.0% | |
| AGGGTCACCGTGGGAAGGTG+CGG | - | chr3_2:978224-978243 | Msa0390320:intron | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 978111 | 978690 | 978111 | ID=Msa0390320;Name=Msa0390320 |
| chr3_2 | mRNA | 978111 | 978690 | 978111 | ID=Msa0390320-mRNA-1;Parent=Msa0390320;Name=Msa0390320-mRNA-1;_AED=0.55;_eAED=0.60;_QI=0|0|0|0.5|1|1|2|0|166 |
| chr3_2 | exon | 978305 | 978690 | 978305 | ID=Msa0390320-mRNA-1:exon:350;Parent=Msa0390320-mRNA-1 |
| chr3_2 | exon | 978111 | 978225 | 978111 | ID=Msa0390320-mRNA-1:exon:349;Parent=Msa0390320-mRNA-1 |
| chr3_2 | CDS | 978305 | 978690 | 978305 | ID=Msa0390320-mRNA-1:cds;Parent=Msa0390320-mRNA-1 |
| chr3_2 | CDS | 978111 | 978225 | 978111 | ID=Msa0390320-mRNA-1:cds;Parent=Msa0390320-mRNA-1 |
| Gene Sequence |
| Protein sequence |
