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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0431500 | AES75326.1 | 87.500 | 80 | 10 | 0 | 1 | 80 | 1 | 80 | 3.16e-43 | 144 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0431500 | sp|Q9SFU0|SC24A_ARATH | 78.261 | 69 | 15 | 0 | 1 | 69 | 620 | 688 | 2.15e-32 | 120 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0431500 | G7KIB7 | 87.500 | 80 | 10 | 0 | 1 | 80 | 1 | 80 | 1.51e-43 | 144 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0112750 | Msa0431500 | 0.807813 | 4.208747e-50 | -8.615850e-47 |
| Msa0431500 | Msa0431690 | 0.809191 | 2.137461e-50 | -8.615850e-47 |
| Msa0431500 | Msa0456200 | 0.884777 | 1.435197e-71 | -8.615850e-47 |
| Msa0431500 | Msa0512900 | 0.810896 | 9.175058e-51 | -8.615850e-47 |
| Msa0431500 | Msa0627410 | 0.886717 | 2.682354e-72 | -8.615850e-47 |
| Msa0431500 | Msa0639460 | 0.813619 | 2.334836e-51 | -8.615850e-47 |
| Msa0431500 | Msa0741570 | 0.816248 | 6.100126e-52 | -8.615850e-47 |
| Msa0431500 | Msa0887990 | 0.876914 | 9.554175e-69 | -8.615850e-47 |
| Msa0431500 | Msa0965750 | 0.804712 | 1.894009e-49 | -8.615850e-47 |
| Msa0431500 | Msa1084240 | 0.811959 | 5.392270e-51 | -8.615850e-47 |
| Msa0431500 | Msa1178720 | 0.835965 | 1.234185e-56 | -8.615850e-47 |
| Msa0431500 | Msa1397610 | 0.834329 | 3.192021e-56 | -8.615850e-47 |
| Msa0431500 | Msa1438250 | 0.800083 | 1.701988e-48 | -8.615850e-47 |
| Msa0324150 | Msa0431500 | 0.864762 | 9.628745e-65 | -8.615850e-47 |
| Msa0326200 | Msa0431500 | 0.879727 | 9.837207e-70 | -8.615850e-47 |
| Msa0353190 | Msa0431500 | 0.907195 | 6.586677e-81 | -8.615850e-47 |
| Msa0353690 | Msa0431500 | 0.915568 | 5.040615e-85 | -8.615850e-47 |
| Msa0360900 | Msa0431500 | 0.859177 | 4.952780e-63 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0431500 | MtrunA17_Chr7g0271481 | 92.754 | 69 | 5 | 0 | 1 | 69 | 602 | 670 | 5.34e-40 | 139 |
| Msa0431500 | MtrunA17_Chr1g0210851 | 37.681 | 69 | 43 | 0 | 1 | 69 | 699 | 767 | 1.55e-11 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0431500 | AT3G07100.1 | 78.261 | 69 | 15 | 0 | 1 | 69 | 620 | 688 | 2.18e-33 | 120 |
Find 18 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGCTCATAAAATGGATCTTC+AGG | 0.293277 | 3_2:+83546892 | None:intergenic |
| AGAAATTGAGTCATGAATTA+AGG | 0.308061 | 3_2:-83546326 | Msa0431500:CDS |
| CATACACATTTACTGAGATT+TGG | 0.310882 | 3_2:+83546845 | None:intergenic |
| GCAGCCATCTGCTCATAAAA+TGG | 0.311495 | 3_2:+83546883 | None:intergenic |
| TCCTGTCTGTGTAGGAACTC+TGG | 0.429146 | 3_2:-83546409 | Msa0431500:intron |
| TCTCCCCATGAGTAGCTGAT+TGG | 0.442822 | 3_2:+83546346 | None:intergenic |
| TGAGTAGCTGATTGGAAAGC+TGG | 0.469035 | 3_2:+83546354 | None:intergenic |
| GAGAGACTGCATGGGAAGCA+TGG | 0.524555 | 3_2:-83546290 | Msa0431500:CDS |
| GCTTTCCAATCAGCTACTCA+TGG | 0.528786 | 3_2:-83546351 | Msa0431500:CDS |
| TACACTGACATAGCCTCCTT+AGG | 0.536987 | 3_2:-83546808 | Msa0431500:intron |
| CTTTCCAATCAGCTACTCAT+GGG | 0.542155 | 3_2:-83546350 | Msa0431500:CDS |
| GGAAAATAAAACACCTAAGG+AGG | 0.554451 | 3_2:+83546795 | None:intergenic |
| ACCTCACAAGAGAGACTGCA+TGG | 0.560035 | 3_2:-83546299 | Msa0431500:CDS |
| ACTCTGGCAAAGTACACTGC+TGG | 0.591069 | 3_2:-83546393 | Msa0431500:CDS |
| CCCATGCAGTCTCTCTTGTG+AGG | 0.598716 | 3_2:+83546298 | None:intergenic |
| TTTGGGACAGATAAAGAACA+TGG | 0.635621 | 3_2:-83546925 | None:intergenic |
| TTTCCAATCAGCTACTCATG+GGG | 0.686768 | 3_2:-83546349 | Msa0431500:CDS |
| CCTCACAAGAGAGACTGCAT+GGG | 0.693489 | 3_2:-83546298 | Msa0431500:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ACAAAATACATAGAAATTGA+AGG | + | chr3_2:83546404-83546423 | None:intergenic | 20.0% |
| !! | TAACAGGTTTAAAAATAGAA+TGG | + | chr3_2:83546431-83546450 | None:intergenic | 20.0% |
| ! | ATCAATTAATCAAGAGTAAC+AGG | + | chr3_2:83546447-83546466 | None:intergenic | 25.0% |
| ! | AGAAATTGAGTCATGAATTA+AGG | - | chr3_2:83546849-83546868 | Msa0431500:CDS | 25.0% |
| CATACACATTTACTGAGATT+TGG | + | chr3_2:83546333-83546352 | None:intergenic | 30.0% | |
| GAAGGAAAATAAAACACCTA+AGG | + | chr3_2:83546386-83546405 | None:intergenic | 30.0% | |
| ! | ATTTGATGATTCTTCAGTTG+TGG | - | chr3_2:83546469-83546488 | Msa0431500:intron | 30.0% |
| ! | ACTTGATGACATGAGTTTAT+GGG | - | chr3_2:83546507-83546526 | Msa0431500:intron | 30.0% |
| TAAACTGATACTCTAACTCA+TGG | - | chr3_2:83546550-83546569 | Msa0431500:intron | 30.0% | |
| GGATCTATTTGACTATAAAC+TGG | - | chr3_2:83546571-83546590 | Msa0431500:intron | 30.0% | |
| AATGCTGACAGAATTACATT+GGG | + | chr3_2:83546679-83546698 | None:intergenic | 30.0% | |
| AAATGCTGACAGAATTACAT+TGG | + | chr3_2:83546680-83546699 | None:intergenic | 30.0% | |
| TGCTCATAAAATGGATCTTC+AGG | + | chr3_2:83546286-83546305 | None:intergenic | 35.0% | |
| ! | AGATCCATTTTATGAGCAGA+TGG | - | chr3_2:83546288-83546307 | Msa0431500:CDS | 35.0% |
| GGAAAATAAAACACCTAAGG+AGG | + | chr3_2:83546383-83546402 | None:intergenic | 35.0% | |
| ! | GACTTGATGACATGAGTTTA+TGG | - | chr3_2:83546506-83546525 | Msa0431500:intron | 35.0% |
| TGTAATTCTGTCAGCATTTG+CGG | - | chr3_2:83546681-83546700 | Msa0431500:intron | 35.0% | |
| !!! | GTTTTTTTTCCTGTCTGTGT+AGG | - | chr3_2:83546758-83546777 | Msa0431500:intron | 35.0% |
| ACAGAATTACATTGGGACAC+GGG | + | chr3_2:83546672-83546691 | None:intergenic | 40.0% | |
| GACAGAATTACATTGGGACA+CGG | + | chr3_2:83546673-83546692 | None:intergenic | 40.0% | |
| CTTTCCAATCAGCTACTCAT+GGG | - | chr3_2:83546825-83546844 | Msa0431500:CDS | 40.0% | |
| TTTCCAATCAGCTACTCATG+GGG | - | chr3_2:83546826-83546845 | Msa0431500:CDS | 40.0% | |
| GCAGCCATCTGCTCATAAAA+TGG | + | chr3_2:83546295-83546314 | None:intergenic | 45.0% | |
| TACACTGACATAGCCTCCTT+AGG | - | chr3_2:83546367-83546386 | Msa0431500:CDS | 45.0% | |
| CAGAATTACATTGGGACACG+GGG | + | chr3_2:83546671-83546690 | None:intergenic | 45.0% | |
| CATCAGCACGCAAGACTATA+TGG | + | chr3_2:83546715-83546734 | None:intergenic | 45.0% | |
| TGAGTAGCTGATTGGAAAGC+TGG | + | chr3_2:83546824-83546843 | None:intergenic | 45.0% | |
| GCTTTCCAATCAGCTACTCA+TGG | - | chr3_2:83546824-83546843 | Msa0431500:CDS | 45.0% | |
| TCCTGTCTGTGTAGGAACTC+TGG | - | chr3_2:83546766-83546785 | Msa0431500:intron | 50.0% | |
| ACTCTGGCAAAGTACACTGC+TGG | - | chr3_2:83546782-83546801 | Msa0431500:intron | 50.0% | |
| TCTCCCCATGAGTAGCTGAT+TGG | + | chr3_2:83546832-83546851 | None:intergenic | 50.0% | |
| ACCTCACAAGAGAGACTGCA+TGG | - | chr3_2:83546876-83546895 | Msa0431500:exon | 50.0% | |
| CCTCACAAGAGAGACTGCAT+GGG | - | chr3_2:83546877-83546896 | Msa0431500:exon | 50.0% | |
| GCCAGAGTTCCTACACAGAC+AGG | + | chr3_2:83546770-83546789 | None:intergenic | 55.0% | |
| CCCATGCAGTCTCTCTTGTG+AGG | + | chr3_2:83546880-83546899 | None:intergenic | 55.0% | |
| GAGAGACTGCATGGGAAGCA+TGG | - | chr3_2:83546885-83546904 | Msa0431500:exon | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 83546260 | 83546937 | 83546260 | ID=Msa0431500;Name=Msa0431500 |
| chr3_2 | mRNA | 83546260 | 83546937 | 83546260 | ID=Msa0431500-mRNA-1;Parent=Msa0431500;Name=Msa0431500-mRNA-1;_AED=0.13;_eAED=0.13;_QI=47|0|0|1|1|1|2|0|80 |
| chr3_2 | exon | 83546809 | 83546937 | 83546809 | ID=Msa0431500-mRNA-1:exon:23408;Parent=Msa0431500-mRNA-1 |
| chr3_2 | exon | 83546260 | 83546417 | 83546260 | ID=Msa0431500-mRNA-1:exon:23407;Parent=Msa0431500-mRNA-1 |
| chr3_2 | five_prime_UTR | 83546891 | 83546937 | 83546891 | ID=Msa0431500-mRNA-1:five_prime_utr;Parent=Msa0431500-mRNA-1 |
| chr3_2 | CDS | 83546809 | 83546890 | 83546809 | ID=Msa0431500-mRNA-1:cds;Parent=Msa0431500-mRNA-1 |
| chr3_2 | CDS | 83546260 | 83546417 | 83546260 | ID=Msa0431500-mRNA-1:cds;Parent=Msa0431500-mRNA-1 |
| Gene Sequence |
| Protein sequence |
