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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0086840 | KEH43708.1 | 92.063 | 63 | 4 | 1 | 13 | 74 | 719 | 781 | 2.58e-29 | 119 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0086840 | A0A072VQJ3 | 92.063 | 63 | 4 | 1 | 13 | 74 | 719 | 781 | 1.23e-29 | 119 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0003630 | Msa0086840 | 0.806637 | 7.466361e-50 | -8.615850e-47 |
| Msa0005270 | Msa0086840 | 0.827119 | 1.865672e-54 | -8.615850e-47 |
| Msa0039220 | Msa0086840 | 0.933298 | 2.323985e-95 | -8.615850e-47 |
| Msa0052860 | Msa0086840 | 0.810567 | 1.080925e-50 | -8.615850e-47 |
| Msa0058310 | Msa0086840 | 0.801686 | 8.010343e-49 | -8.615850e-47 |
| Msa0059890 | Msa0086840 | 0.830115 | 3.521552e-55 | -8.615850e-47 |
| Msa0086840 | Msa0090030 | 0.814522 | 1.476326e-51 | -8.615850e-47 |
| Msa0086840 | Msa0097950 | 0.807310 | 5.381466e-50 | -8.615850e-47 |
| Msa0086840 | Msa0274350 | 0.802002 | 6.896914e-49 | -8.615850e-47 |
| Msa0086840 | Msa0307560 | 0.801583 | 8.406898e-49 | -8.615850e-47 |
| Msa0086840 | Msa0324240 | 0.809294 | 2.031177e-50 | -8.615850e-47 |
| Msa0086840 | Msa0381000 | 0.829741 | 4.345477e-55 | -8.615850e-47 |
| Msa0086840 | Msa0381080 | 0.818011 | 2.448165e-52 | -8.615850e-47 |
| Msa0086840 | Msa0410300 | 0.807035 | 6.151895e-50 | -8.615850e-47 |
| Msa0086840 | Msa0435220 | 0.803734 | 3.026356e-49 | -8.615850e-47 |
| Msa0086840 | Msa0461590 | 0.813095 | 3.044520e-51 | -8.615850e-47 |
| Msa0086840 | Msa0628290 | 0.827575 | 1.450060e-54 | -8.615850e-47 |
| Msa0086840 | Msa0675990 | 0.813195 | 2.893815e-51 | -8.615850e-47 |
| Msa0086840 | Msa0726080 | 0.801698 | 7.965240e-49 | -8.615850e-47 |
| Msa0086840 | Msa0796440 | 0.815105 | 1.096306e-51 | -8.615850e-47 |
| Msa0086840 | Msa0820250 | 0.821634 | 3.637503e-53 | -8.615850e-47 |
| Msa0086840 | Msa0846230 | 0.803459 | 3.451220e-49 | -8.615850e-47 |
| Msa0086840 | Msa0965020 | 0.807385 | 5.187970e-50 | -8.615850e-47 |
| Msa0086840 | Msa1032170 | 0.825615 | 4.255313e-54 | -8.615850e-47 |
| Msa0086840 | Msa1112390 | 0.808713 | 2.705843e-50 | -8.615850e-47 |
| Msa0086840 | Msa1128330 | 0.806729 | 7.140554e-50 | -8.615850e-47 |
| Msa0086840 | Msa1174850 | 0.810083 | 1.375144e-50 | -8.615850e-47 |
| Msa0086840 | Msa1340810 | 0.801439 | 8.999169e-49 | -8.615850e-47 |
| Msa0086840 | Msa1371240 | 0.812274 | 4.604607e-51 | -8.615850e-47 |
| Msa0086840 | Msa1466090 | 0.807522 | 4.852310e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0086840 | MtrunA17_Chr1g0203341 | 92.063 | 63 | 4 | 1 | 13 | 74 | 803 | 865 | 3.50e-33 | 119 |
| Msa0086840 | MtrunA17_Chr1g0203311 | 82.456 | 57 | 7 | 2 | 21 | 74 | 1 | 57 | 7.55e-25 | 87.4 |
| Msa0086840 | MtrunA17_Chr1g0203351 | 66.102 | 59 | 11 | 3 | 13 | 70 | 637 | 687 | 1.29e-13 | 63.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 22 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GACAGGGTTAAGGATTATTA+TGG | 0.244321 | 1_2:-67596664 | Msa0086840:CDS |
| TTAAGGATTATTATGGATCT+TGG | 0.355305 | 1_2:-67596657 | Msa0086840:CDS |
| AGGTATGGTTGACAGGGTTA+AGG | 0.362709 | 1_2:-67596674 | Msa0086840:CDS |
| TGTGGTGATTGATTCTCCTC+AGG | 0.432207 | 1_2:+67596625 | None:intergenic |
| CAGGAAAAGGTATGGTTGAC+AGG | 0.438569 | 1_2:-67596681 | Msa0086840:CDS |
| TAAAGATCATGTTGCAGAAG+TGG | 0.479475 | 1_2:-67596480 | Msa0086840:CDS |
| ATAATTAATGTGGCTAGTCC+AGG | 0.492026 | 1_2:-67596700 | Msa0086840:CDS |
| TTTGAAGAGAATAATTAATG+TGG | 0.538844 | 1_2:-67596710 | Msa0086840:CDS |
| GTTGGCAAAGGTGTGGATGA+AGG | 0.542986 | 1_2:-67596452 | Msa0086840:CDS |
| AATGTGGCTAGTCCAGGAAA+AGG | 0.543824 | 1_2:-67596694 | Msa0086840:CDS |
| GGCTAGTCCAGGAAAAGGTA+TGG | 0.587117 | 1_2:-67596689 | Msa0086840:CDS |
| TGAGGAGAATCAATCACCAC+AGG | 0.595498 | 1_2:-67596623 | Msa0086840:CDS |
| GCAAAGGTGTGGATGAAGGA+AGG | 0.607651 | 1_2:-67596448 | Msa0086840:CDS |
| GTTGCAGAAGTGGAACAAGT+TGG | 0.612425 | 1_2:-67596470 | Msa0086840:CDS |
| ATCTTGGTTTGCTAAACCTG+AGG | 0.638772 | 1_2:-67596641 | Msa0086840:CDS |
| GAAGTGGAACAAGTTGGCAA+AGG | 0.645524 | 1_2:-67596464 | Msa0086840:CDS |
| GGAACAAGTTGGCAAAGGTG+TGG | 0.655366 | 1_2:-67596459 | Msa0086840:CDS |
| AGGAAAAGGTATGGTTGACA+GGG | 0.656335 | 1_2:-67596680 | Msa0086840:CDS |
| GAGGAGAATCAATCACCACA+GGG | 0.732593 | 1_2:-67596622 | Msa0086840:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTGAAGAGAATAATTAATG+TGG | - | chr1_2:67596456-67596475 | Msa0086840:CDS | 20.0% |
| !! | GTTATTATACTTATAGATGT+AGG | - | chr1_2:67596642-67596661 | Msa0086840:CDS | 20.0% |
| ! | TTAAGGATTATTATGGATCT+TGG | - | chr1_2:67596509-67596528 | Msa0086840:CDS | 25.0% |
| ! | ATAATTAATGTGGCTAGTCC+AGG | - | chr1_2:67596466-67596485 | Msa0086840:CDS | 35.0% |
| GACAGGGTTAAGGATTATTA+TGG | - | chr1_2:67596502-67596521 | Msa0086840:CDS | 35.0% | |
| AGAGAAAAAGAATTACCCTG+TGG | + | chr1_2:67596562-67596581 | None:intergenic | 35.0% | |
| TAAAGATCATGTTGCAGAAG+TGG | - | chr1_2:67596686-67596705 | Msa0086840:CDS | 35.0% | |
| ! | AGGAAAAGGTATGGTTGACA+GGG | - | chr1_2:67596486-67596505 | Msa0086840:CDS | 40.0% |
| !! | ATCTTGGTTTGCTAAACCTG+AGG | - | chr1_2:67596525-67596544 | Msa0086840:intron | 40.0% |
| ! | AATGTGGCTAGTCCAGGAAA+AGG | - | chr1_2:67596472-67596491 | Msa0086840:CDS | 45.0% |
| ! | CTGTCAACCATACCTTTTCC+TGG | + | chr1_2:67596487-67596506 | None:intergenic | 45.0% |
| ! | CAGGAAAAGGTATGGTTGAC+AGG | - | chr1_2:67596485-67596504 | Msa0086840:CDS | 45.0% |
| AGGTATGGTTGACAGGGTTA+AGG | - | chr1_2:67596492-67596511 | Msa0086840:CDS | 45.0% | |
| ! | TGTGGTGATTGATTCTCCTC+AGG | + | chr1_2:67596544-67596563 | None:intergenic | 45.0% |
| TGAGGAGAATCAATCACCAC+AGG | - | chr1_2:67596543-67596562 | Msa0086840:intron | 45.0% | |
| GAGGAGAATCAATCACCACA+GGG | - | chr1_2:67596544-67596563 | Msa0086840:intron | 45.0% | |
| GTTGCAGAAGTGGAACAAGT+TGG | - | chr1_2:67596696-67596715 | Msa0086840:CDS | 45.0% | |
| ! | GAAGTGGAACAAGTTGGCAA+AGG | - | chr1_2:67596702-67596721 | Msa0086840:CDS | 45.0% |
| ! | GGCTAGTCCAGGAAAAGGTA+TGG | - | chr1_2:67596477-67596496 | Msa0086840:CDS | 50.0% |
| ! | GGAACAAGTTGGCAAAGGTG+TGG | - | chr1_2:67596707-67596726 | Msa0086840:CDS | 50.0% |
| ! | GTTGGCAAAGGTGTGGATGA+AGG | - | chr1_2:67596714-67596733 | Msa0086840:CDS | 50.0% |
| ! | GCAAAGGTGTGGATGAAGGA+AGG | - | chr1_2:67596718-67596737 | Msa0086840:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 67596436 | 67596752 | 67596436 | ID=Msa0086840;Name=Msa0086840 |
| chr1_2 | mRNA | 67596436 | 67596752 | 67596436 | ID=Msa0086840-mRNA-1;Parent=Msa0086840;Name=Msa0086840-mRNA-1;_AED=0.50;_eAED=0.58;_QI=0|0|0|1|1|1|2|0|74 |
| chr1_2 | exon | 67596623 | 67596752 | 67596623 | ID=Msa0086840-mRNA-1:exon:23010;Parent=Msa0086840-mRNA-1 |
| chr1_2 | exon | 67596436 | 67596530 | 67596436 | ID=Msa0086840-mRNA-1:exon:23009;Parent=Msa0086840-mRNA-1 |
| chr1_2 | CDS | 67596623 | 67596752 | 67596623 | ID=Msa0086840-mRNA-1:cds;Parent=Msa0086840-mRNA-1 |
| chr1_2 | CDS | 67596436 | 67596530 | 67596436 | ID=Msa0086840-mRNA-1:cds;Parent=Msa0086840-mRNA-1 |
| Gene Sequence |
| Protein sequence |
