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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0324150 | AES75326.1 | 80.000 | 80 | 9 | 1 | 1 | 73 | 1 | 80 | 2.29e-34 | 122 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0324150 | sp|Q9SFU0|SC24A_ARATH | 69.565 | 69 | 14 | 1 | 1 | 62 | 620 | 688 | 1.22e-24 | 98.2 |
| 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 |
|---|---|---|---|---|
| Msa0324150 | Msa0326200 | 0.825116 | 5.585041e-54 | -8.615850e-47 |
| Msa0324150 | Msa0353190 | 0.815158 | 1.066813e-51 | -8.615850e-47 |
| Msa0324150 | Msa0353690 | 0.843270 | 1.553610e-58 | -8.615850e-47 |
| Msa0324150 | Msa0360900 | 0.866433 | 2.861269e-65 | -8.615850e-47 |
| Msa0324150 | Msa0431500 | 0.864762 | 9.628745e-65 | -8.615850e-47 |
| Msa0324150 | Msa0456200 | 0.808379 | 3.188615e-50 | -8.615850e-47 |
| Msa0324150 | Msa0627410 | 0.809805 | 1.577631e-50 | -8.615850e-47 |
| Msa0324150 | Msa0887990 | 0.911884 | 3.665350e-83 | -8.615850e-47 |
| Msa0324150 | Msa1084240 | 0.811269 | 7.618804e-51 | -8.615850e-47 |
| Msa0324150 | Msa1178720 | 0.803059 | 4.176546e-49 | -8.615850e-47 |
| Msa0324150 | Msa1397610 | 0.821859 | 3.226173e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0324150 | MtrunA17_Chr7g0271481 | 82.609 | 69 | 5 | 1 | 1 | 62 | 602 | 670 | 3.64e-31 | 113 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0324150 | AT3G07100.1 | 69.565 | 69 | 14 | 1 | 1 | 62 | 620 | 688 | 1.24e-25 | 98.2 |
Find 17 sgRNAs with CRISPR-Local
Find 35 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGCTCATAAAATGGATCTTC+AGG | 0.293277 | 2_4:+29427460 | None:intergenic |
| AGAAATTGAGTCATGAATTA+AGG | 0.308061 | 2_4:-29426894 | Msa0324150:CDS |
| CATACACATTTACTGAGATT+TGG | 0.310882 | 2_4:+29427413 | None:intergenic |
| GCAGCCATCTGCTCATAAAA+TGG | 0.311495 | 2_4:+29427451 | None:intergenic |
| TCCTGTCTGTGTAGGAACTC+TGG | 0.429146 | 2_4:-29426977 | Msa0324150:intron |
| TCTCCCCATGAGTAGCTGAT+TGG | 0.442822 | 2_4:+29426914 | None:intergenic |
| GAGAGACTGCATGGGAAGCA+TGG | 0.524555 | 2_4:-29426858 | Msa0324150:CDS |
| GCTTTCCAATCAGCTACTCA+TGG | 0.528786 | 2_4:-29426919 | Msa0324150:CDS |
| TACACTGACATAGCCTCCTT+AGG | 0.536987 | 2_4:-29427376 | Msa0324150:intron |
| CTTTCCAATCAGCTACTCAT+GGG | 0.542155 | 2_4:-29426918 | Msa0324150:CDS |
| GGAAAATAAAACACCTAAGG+AGG | 0.554451 | 2_4:+29427363 | None:intergenic |
| ACCTCACAAGAGAGACTGCA+TGG | 0.560035 | 2_4:-29426867 | Msa0324150:CDS |
| ACTCTGGCAAAGTACACTGC+TGG | 0.591069 | 2_4:-29426961 | Msa0324150:intron |
| CCCATGCAGTCTCTCTTGTG+AGG | 0.598716 | 2_4:+29426866 | None:intergenic |
| TTTGGGACAGATAAAGAACA+TGG | 0.635621 | 2_4:-29427493 | None:intergenic |
| TTTCCAATCAGCTACTCATG+GGG | 0.686768 | 2_4:-29426917 | Msa0324150:CDS |
| CCTCACAAGAGAGACTGCAT+GGG | 0.693489 | 2_4:-29426866 | Msa0324150:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAACAGGTTTAAAAATAGAA+TGG | + | chr2_4:29426999-29427018 | None:intergenic | 20.0% |
| ! | ACGAAATACATAGAAATTGA+AGG | + | chr2_4:29426972-29426991 | None:intergenic | 25.0% |
| ! | ATCAATTAATCAAGAGTAAC+AGG | + | chr2_4:29427015-29427034 | None:intergenic | 25.0% |
| ! | AGAAATTGAGTCATGAATTA+AGG | - | chr2_4:29427417-29427436 | Msa0324150:CDS | 25.0% |
| CATACACATTTACTGAGATT+TGG | + | chr2_4:29426901-29426920 | None:intergenic | 30.0% | |
| GAAGGAAAATAAAACACCTA+AGG | + | chr2_4:29426954-29426973 | None:intergenic | 30.0% | |
| ! | ATTTGATGATTCTTCAGTTG+TGG | - | chr2_4:29427037-29427056 | Msa0324150:intron | 30.0% |
| ! | ACTTGATGACATGAGTTTAT+GGG | - | chr2_4:29427075-29427094 | Msa0324150:intron | 30.0% |
| TAAACTGATACTCTAACTCA+TGG | - | chr2_4:29427118-29427137 | Msa0324150:intron | 30.0% | |
| TGCTCATAAAATGGATCTTC+AGG | + | chr2_4:29426854-29426873 | None:intergenic | 35.0% | |
| ! | AGATCCATTTTATGAGCAGA+TGG | - | chr2_4:29426856-29426875 | Msa0324150:CDS | 35.0% |
| GGAAAATAAAACACCTAAGG+AGG | + | chr2_4:29426951-29426970 | None:intergenic | 35.0% | |
| ! | GACTTGATGACATGAGTTTA+TGG | - | chr2_4:29427074-29427093 | Msa0324150:intron | 35.0% |
| GGATCTATTTGACTATGAAC+TGG | - | chr2_4:29427139-29427158 | Msa0324150:intron | 35.0% | |
| AATGCTGACAGAATTACATC+AGG | + | chr2_4:29427247-29427266 | None:intergenic | 35.0% | |
| TGTAATTCTGTCAGCATTTG+CGG | - | chr2_4:29427249-29427268 | Msa0324150:intron | 35.0% | |
| !!! | GTTTTTTTTCCTGTCTGTGT+AGG | - | chr2_4:29427326-29427345 | Msa0324150:intron | 35.0% |
| ACAGAATTACATCAGGACAC+GGG | + | chr2_4:29427240-29427259 | None:intergenic | 40.0% | |
| GACAGAATTACATCAGGACA+CGG | + | chr2_4:29427241-29427260 | None:intergenic | 40.0% | |
| CTTTCCAATCAGCTACTCAT+GGG | - | chr2_4:29427393-29427412 | Msa0324150:CDS | 40.0% | |
| TTTCCAATCAGCTACTCATG+GGG | - | chr2_4:29427394-29427413 | Msa0324150:CDS | 40.0% | |
| GCAGCCATCTGCTCATAAAA+TGG | + | chr2_4:29426863-29426882 | None:intergenic | 45.0% | |
| TACACTGACATAGCCTCCTT+AGG | - | chr2_4:29426935-29426954 | Msa0324150:intron | 45.0% | |
| CAGAATTACATCAGGACACG+GGG | + | chr2_4:29427239-29427258 | None:intergenic | 45.0% | |
| CATCAGCACGCAAGACTATA+TGG | + | chr2_4:29427283-29427302 | None:intergenic | 45.0% | |
| TGAGTAGCTGATTGGAAAGC+TGG | + | chr2_4:29427392-29427411 | None:intergenic | 45.0% | |
| GCTTTCCAATCAGCTACTCA+TGG | - | chr2_4:29427392-29427411 | Msa0324150:CDS | 45.0% | |
| TCCTGTCTGTGTAGGAACTC+TGG | - | chr2_4:29427334-29427353 | Msa0324150:intron | 50.0% | |
| ACTCTGGCAAAGTACACTGC+TGG | - | chr2_4:29427350-29427369 | Msa0324150:intron | 50.0% | |
| TCTCCCCATGAGTAGCTGAT+TGG | + | chr2_4:29427400-29427419 | None:intergenic | 50.0% | |
| ACCTCACAAGAGAGACTGCA+TGG | - | chr2_4:29427444-29427463 | Msa0324150:exon | 50.0% | |
| CCTCACAAGAGAGACTGCAT+GGG | - | chr2_4:29427445-29427464 | Msa0324150:exon | 50.0% | |
| GCCAGAGTTCCTACACAGAC+AGG | + | chr2_4:29427338-29427357 | None:intergenic | 55.0% | |
| CCCATGCAGTCTCTCTTGTG+AGG | + | chr2_4:29427448-29427467 | None:intergenic | 55.0% | |
| GAGAGACTGCATGGGAAGCA+TGG | - | chr2_4:29427453-29427472 | Msa0324150:exon | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 29426828 | 29427505 | 29426828 | ID=Msa0324150;Name=Msa0324150 |
| chr2_4 | mRNA | 29426828 | 29427505 | 29426828 | ID=Msa0324150-mRNA-1;Parent=Msa0324150;Name=Msa0324150-mRNA-1;_AED=0.17;_eAED=0.17;_QI=47|0|0|1|0|0|3|0|73 |
| chr2_4 | exon | 29427377 | 29427505 | 29427377 | ID=Msa0324150-mRNA-1:exon:9986;Parent=Msa0324150-mRNA-1 |
| chr2_4 | exon | 29426962 | 29426985 | 29426962 | ID=Msa0324150-mRNA-1:exon:9985;Parent=Msa0324150-mRNA-1 |
| chr2_4 | exon | 29426828 | 29426940 | 29426828 | ID=Msa0324150-mRNA-1:exon:9984;Parent=Msa0324150-mRNA-1 |
| chr2_4 | five_prime_UTR | 29427459 | 29427505 | 29427459 | ID=Msa0324150-mRNA-1:five_prime_utr;Parent=Msa0324150-mRNA-1 |
| chr2_4 | CDS | 29427377 | 29427458 | 29427377 | ID=Msa0324150-mRNA-1:cds;Parent=Msa0324150-mRNA-1 |
| chr2_4 | CDS | 29426962 | 29426985 | 29426962 | ID=Msa0324150-mRNA-1:cds;Parent=Msa0324150-mRNA-1 |
| chr2_4 | CDS | 29426828 | 29426940 | 29426828 | ID=Msa0324150-mRNA-1:cds;Parent=Msa0324150-mRNA-1 |
| Gene Sequence |
| Protein sequence |
