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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0686160 | XP_003606905.1 | 96.471 | 85 | 3 | 0 | 1 | 85 | 1 | 85 | 3.98e-50 | 163 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0686160 | G7JG62 | 96.471 | 85 | 3 | 0 | 1 | 85 | 1 | 85 | 1.90e-50 | 163 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0686160 | Msa1019260 | 0.810838 | 9.447374e-51 | -8.615850e-47 |
| Msa0686160 | Msa1104210 | 0.810752 | 9.859612e-51 | -8.615850e-47 |
| Msa0686160 | Msa1126510 | 0.821868 | 3.211377e-53 | -8.615850e-47 |
| Msa0686160 | Msa1166860 | 0.823013 | 1.740755e-53 | -8.615850e-47 |
| Msa0686160 | Msa1363330 | 0.812401 | 4.319179e-51 | -8.615850e-47 |
| Msa0686160 | Msa1379760 | 0.819674 | 1.025797e-52 | -8.615850e-47 |
| Msa0686160 | Msa1386600 | 0.811763 | 5.949627e-51 | -8.615850e-47 |
| Msa0128860 | Msa0686160 | 0.815793 | 7.704565e-52 | -8.615850e-47 |
| Msa0174730 | Msa0686160 | 0.814119 | 1.811679e-51 | -8.615850e-47 |
| Msa0187930 | Msa0686160 | 0.800590 | 1.341865e-48 | -8.615850e-47 |
| Msa0427150 | Msa0686160 | 0.802963 | 4.371581e-49 | -8.615850e-47 |
| Msa0268130 | Msa0686160 | 0.800130 | 1.665318e-48 | -8.615850e-47 |
| Msa0526540 | Msa0686160 | 0.811903 | 5.546559e-51 | -8.615850e-47 |
| Msa0576940 | Msa0686160 | 0.812233 | 4.699065e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0686160 | MtrunA17_Chr4g0034961 | 100.000 | 82 | 0 | 0 | 1 | 82 | 1 | 82 | 2.24e-53 | 161 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0686160 | AT4G39300.2 | 47.826 | 92 | 39 | 2 | 4 | 86 | 3 | 94 | 4.39e-21 | 80.1 |
| Msa0686160 | AT4G39300.1 | 50.000 | 88 | 35 | 2 | 4 | 82 | 3 | 90 | 1.48e-20 | 79.0 |
Find 19 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTTCAGTAATTGATATTCT+AGG | 0.299659 | 4_4:-50488679 | Msa0686160:intron |
| TCGCTTCCAATTCCACTTGC+TGG | 0.335202 | 4_4:-50488877 | Msa0686160:CDS |
| CATGCTCCAGCAAGTGGAAT+TGG | 0.351595 | 4_4:+50488871 | None:intergenic |
| CTCAAGCTCCTCGTGTTTCA+AGG | 0.362192 | 4_4:-50489059 | Msa0686160:intron |
| AGAACGATTCGCGAAGGAAG+TGG | 0.453105 | 4_4:+50489125 | None:intergenic |
| GAAAATAGAAGCGGAATGGA+AGG | 0.523377 | 4_4:+50489084 | None:intergenic |
| CTGTAAATCAGCGGCGAGAG+TGG | 0.541410 | 4_4:-50489151 | Msa0686160:CDS |
| TGAAAGCATGCTCCAGCAAG+TGG | 0.547575 | 4_4:+50488865 | None:intergenic |
| AGAAGAAAATAGAAGCGGAA+TGG | 0.553474 | 4_4:+50489080 | None:intergenic |
| TCAGTAACCTTCTTCAGCAA+TGG | 0.556004 | 4_4:-50489184 | Msa0686160:exon |
| GAAGAAGCCATTGCTGAAGA+AGG | 0.581759 | 4_4:+50489177 | None:intergenic |
| TGCTGGAGCATGCTTTCACA+AGG | 0.589542 | 4_4:-50488860 | Msa0686160:intron |
| TTCTTCGTTCTGTAAATCAG+CGG | 0.607845 | 4_4:-50489160 | Msa0686160:CDS |
| AGTGAGTCTAGCATCAGCAA+TGG | 0.614389 | 4_4:+50488907 | None:intergenic |
| AGGGTTCAGGCTAGCACTAG+CGG | 0.621346 | 4_4:-50489222 | None:intergenic |
| GCTTGAGAAGAAAATAGAAG+CGG | 0.634168 | 4_4:+50489075 | None:intergenic |
| TCAGCAATGGCAGTATGAAG+AGG | 0.642069 | 4_4:+50488920 | None:intergenic |
| GGTTCTAGAACGATTCGCGA+AGG | 0.656504 | 4_4:+50489119 | None:intergenic |
| CTACCCTACCTTGAAACACG+AGG | 0.678275 | 4_4:+50489051 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTAAAGATTATGTATTGTTA+TGG | - | chr4_4:50489163-50489182 | Msa0686160:CDS | 15.0% |
| !!! | AATTACTTGTTTGTTTTTGA+AGG | - | chr4_4:50488888-50488907 | Msa0686160:CDS | 20.0% |
| !!! | TTGTTTTTGAAGGATTTTAT+CGG | - | chr4_4:50488898-50488917 | Msa0686160:CDS | 20.0% |
| ! | AAACATGTGTATGATATATG+TGG | - | chr4_4:50489109-50489128 | Msa0686160:CDS | 25.0% |
| ! | TGTATGATATATGTGGTTTA+TGG | - | chr4_4:50489116-50489135 | Msa0686160:CDS | 25.0% |
| ! | GTTTCAGTAATTGATATTCT+AGG | - | chr4_4:50489188-50489207 | Msa0686160:five_prime_UTR | 25.0% |
| TTCTTCGTTCTGTAAATCAG+CGG | - | chr4_4:50488707-50488726 | Msa0686160:intron | 35.0% | |
| AGAAGAAAATAGAAGCGGAA+TGG | + | chr4_4:50488790-50488809 | None:intergenic | 35.0% | |
| GCTTGAGAAGAAAATAGAAG+CGG | + | chr4_4:50488795-50488814 | None:intergenic | 35.0% | |
| !! | GCATTTTTCAGCTGTAGTTA+TGG | - | chr4_4:50488845-50488864 | Msa0686160:intron | 35.0% |
| !! | TGAAGGATTTTATCGGTTGT+TGG | - | chr4_4:50488905-50488924 | Msa0686160:CDS | 35.0% |
| TCAGTAACCTTCTTCAGCAA+TGG | - | chr4_4:50488683-50488702 | Msa0686160:intron | 40.0% | |
| !! | AATGGAAGGTTTTTGAGCGA+AGG | + | chr4_4:50488772-50488791 | None:intergenic | 40.0% |
| GAAAATAGAAGCGGAATGGA+AGG | + | chr4_4:50488786-50488805 | None:intergenic | 40.0% | |
| GAAGAAGCCATTGCTGAAGA+AGG | + | chr4_4:50488693-50488712 | None:intergenic | 45.0% | |
| TCAGCAATGGCAGTATGAAG+AGG | + | chr4_4:50488950-50488969 | None:intergenic | 45.0% | |
| AGTGAGTCTAGCATCAGCAA+TGG | + | chr4_4:50488963-50488982 | None:intergenic | 45.0% | |
| AGAACGATTCGCGAAGGAAG+TGG | + | chr4_4:50488745-50488764 | None:intergenic | 50.0% | |
| !! | GGTTCTAGAACGATTCGCGA+AGG | + | chr4_4:50488751-50488770 | None:intergenic | 50.0% |
| CTCAAGCTCCTCGTGTTTCA+AGG | - | chr4_4:50488808-50488827 | Msa0686160:intron | 50.0% | |
| AGCTCCTCGTGTTTCAAGGT+AGG | - | chr4_4:50488812-50488831 | Msa0686160:intron | 50.0% | |
| GCTCCTCGTGTTTCAAGGTA+GGG | - | chr4_4:50488813-50488832 | Msa0686160:intron | 50.0% | |
| CTACCCTACCTTGAAACACG+AGG | + | chr4_4:50488819-50488838 | None:intergenic | 50.0% | |
| TCGCTTCCAATTCCACTTGC+TGG | - | chr4_4:50488990-50489009 | Msa0686160:intron | 50.0% | |
| CATGCTCCAGCAAGTGGAAT+TGG | + | chr4_4:50488999-50489018 | None:intergenic | 50.0% | |
| ! | TGAAAGCATGCTCCAGCAAG+TGG | + | chr4_4:50489005-50489024 | None:intergenic | 50.0% |
| TGCTGGAGCATGCTTTCACA+AGG | - | chr4_4:50489007-50489026 | Msa0686160:intron | 50.0% | |
| GGAGCATGCTTTCACAAGGT+AGG | - | chr4_4:50489011-50489030 | Msa0686160:intron | 50.0% | |
| CTGTAAATCAGCGGCGAGAG+TGG | - | chr4_4:50488716-50488735 | Msa0686160:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 50488654 | 50489235 | 50488654 | ID=Msa0686160;Name=Msa0686160 |
| chr4_4 | mRNA | 50488654 | 50489235 | 50488654 | ID=Msa0686160-mRNA-1;Parent=Msa0686160;Name=Msa0686160-mRNA-1;_AED=0.43;_eAED=0.43;_QI=48|0.5|0.66|0.66|1|1|3|0|95 |
| chr4_4 | exon | 50488654 | 50488694 | 50488654 | ID=Msa0686160-mRNA-1:exon:12941;Parent=Msa0686160-mRNA-1 |
| chr4_4 | exon | 50488861 | 50488979 | 50488861 | ID=Msa0686160-mRNA-1:exon:12940;Parent=Msa0686160-mRNA-1 |
| chr4_4 | exon | 50489060 | 50489235 | 50489060 | ID=Msa0686160-mRNA-1:exon:12939;Parent=Msa0686160-mRNA-1 |
| chr4_4 | five_prime_UTR | 50489188 | 50489235 | 50489188 | ID=Msa0686160-mRNA-1:five_prime_utr;Parent=Msa0686160-mRNA-1 |
| chr4_4 | CDS | 50489060 | 50489187 | 50489060 | ID=Msa0686160-mRNA-1:cds;Parent=Msa0686160-mRNA-1 |
| chr4_4 | CDS | 50488861 | 50488979 | 50488861 | ID=Msa0686160-mRNA-1:cds;Parent=Msa0686160-mRNA-1 |
| chr4_4 | CDS | 50488654 | 50488694 | 50488654 | ID=Msa0686160-mRNA-1:cds;Parent=Msa0686160-mRNA-1 |
| Gene Sequence |
| Protein sequence |
