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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0588340 | XP_013442539.1 | 95.031 | 161 | 8 | 0 | 1 | 161 | 45 | 205 | 2.33e-109 | 320 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0588340 | A0A072TG65 | 95.031 | 161 | 8 | 0 | 1 | 161 | 45 | 205 | 1.11e-109 | 320 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0219190 | Msa0588340 | 0.813868 | 2.057900e-51 | -8.615850e-47 |
| Msa0298240 | Msa0588340 | 0.810268 | 1.253971e-50 | -8.615850e-47 |
| Msa0531630 | Msa0588340 | 0.825327 | 4.980012e-54 | -8.615850e-47 |
| Msa0588340 | Msa0594390 | 0.803642 | 3.162068e-49 | -8.615850e-47 |
| Msa0588340 | Msa0680150 | 0.810769 | 9.777273e-51 | -8.615850e-47 |
| Msa0588340 | Msa0905550 | 0.831564 | 1.554191e-55 | -8.615850e-47 |
| Msa0588340 | Msa0937550 | 0.841129 | 5.729232e-58 | -8.615850e-47 |
| Msa0588340 | Msa0974750 | 0.823558 | 1.298207e-53 | -8.615850e-47 |
| Msa0588340 | Msa1041530 | 0.827296 | 1.692040e-54 | -8.615850e-47 |
| Msa0588340 | Msa1042670 | 0.821094 | 4.846216e-53 | -8.615850e-47 |
| Msa0588340 | Msa1081570 | 0.816608 | 5.065372e-52 | -8.615850e-47 |
| Msa0588340 | Msa1123880 | 0.803170 | 3.961499e-49 | -8.615850e-47 |
| Msa0588340 | Msa1127140 | 0.816943 | 4.260542e-52 | -8.615850e-47 |
| Msa0588340 | Msa1129960 | 0.810588 | 1.069624e-50 | -8.615850e-47 |
| Msa0588340 | Msa1166400 | 0.808227 | 3.434842e-50 | -8.615850e-47 |
| Msa0588340 | Msa1420060 | 0.832296 | 1.025160e-55 | -8.615850e-47 |
| Msa0588340 | Msa1421550 | 0.802980 | 4.336582e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0588340 | MtrunA17_Chr4g0004611 | 95.031 | 161 | 8 | 0 | 1 | 161 | 45 | 205 | 2.14e-113 | 320 |
| Msa0588340 | MtrunA17_Chr2g0331751 | 49.398 | 166 | 66 | 5 | 2 | 158 | 47 | 203 | 2.10e-41 | 137 |
| Msa0588340 | MtrunA17_Chr8g0390541 | 38.202 | 89 | 47 | 2 | 65 | 145 | 103 | 191 | 2.25e-15 | 70.1 |
| Msa0588340 | MtrunA17_Chr6g0485651 | 39.130 | 69 | 41 | 1 | 69 | 136 | 100 | 168 | 6.34e-13 | 63.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0588340 | AT1G15260.1 | 43.902 | 82 | 46 | 0 | 77 | 158 | 97 | 178 | 1.90e-17 | 75.5 |
| Msa0588340 | AT3G16070.1 | 46.377 | 69 | 36 | 1 | 67 | 135 | 83 | 150 | 2.49e-15 | 69.3 |
Find 26 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTGCAGCATCTTCCATTGC+AGG | 0.247893 | 4_2:+10499965 | None:intergenic |
| GAATTCACAAAACATGAATA+AGG | 0.296971 | 4_2:-10499849 | Msa0588340:CDS |
| CCTTCATAAGCGCTTCTTTG+TGG | 0.338429 | 4_2:+10499908 | None:intergenic |
| CATAGAACTCATTGTAGAAT+TGG | 0.339353 | 4_2:+10500041 | None:intergenic |
| AGCACAGAAGATGAAGAAAT+TGG | 0.353260 | 4_2:-10499813 | Msa0588340:CDS |
| GCTTCTTTGTGGACTTTGTT+TGG | 0.353338 | 4_2:+10499919 | None:intergenic |
| GATGAAGAAATTGGATATGA+TGG | 0.381301 | 4_2:-10499804 | Msa0588340:CDS |
| ACGATCACAACTGAGGAAAA+AGG | 0.381662 | 4_2:-10499879 | Msa0588340:CDS |
| CTCAGCACAATGAAGATGTT+TGG | 0.428580 | 4_2:-10500001 | Msa0588340:CDS |
| AACTGGACCAAGTCTTTCCT+TGG | 0.434890 | 4_2:+10499625 | None:intergenic |
| CTATTCTCGCCTTAAAAGTC+CGG | 0.438812 | 4_2:-10499732 | Msa0588340:CDS |
| AAATTGGATATGATGGAATC+AGG | 0.453910 | 4_2:-10499797 | Msa0588340:CDS |
| CAGAGGGCTGTGGAAGAGTA+AGG | 0.468237 | 4_2:+10499663 | None:intergenic |
| TTGAAGCTGGCAGAGGGCTG+TGG | 0.468785 | 4_2:+10499653 | None:intergenic |
| TCCACAATATCGAGATAAAC+CGG | 0.473028 | 4_2:+10499713 | None:intergenic |
| AATTCACAAAACATGAATAA+GGG | 0.481457 | 4_2:-10499848 | Msa0588340:CDS |
| TCCGGTTTATCTCGATATTG+TGG | 0.515605 | 4_2:-10499714 | Msa0588340:CDS |
| AGGTGATCTTGAACATGTGC+TGG | 0.526544 | 4_2:-10499777 | Msa0588340:CDS |
| TTTATCTCGATATTGTGGAC+AGG | 0.543825 | 4_2:-10499709 | Msa0588340:CDS |
| ACAATGAAGATGTTTGGTAA+AGG | 0.547940 | 4_2:-10499995 | Msa0588340:CDS |
| AAAAGATCCAAGGAAAGACT+TGG | 0.563595 | 4_2:-10499632 | Msa0588340:CDS |
| TGCCAGCTTCAAAAGATCCA+AGG | 0.579056 | 4_2:-10499642 | Msa0588340:CDS |
| CCACAAAGAAGCGCTTATGA+AGG | 0.580919 | 4_2:-10499908 | Msa0588340:CDS |
| ATGGAAGATGCTGCAAGAAG+TGG | 0.590039 | 4_2:-10499959 | Msa0588340:CDS |
| TAAAGGAAAAGAGCCTGCAA+TGG | 0.618557 | 4_2:-10499978 | Msa0588340:CDS |
| GTAGCGTACGATCACAACTG+AGG | 0.731543 | 4_2:-10499886 | Msa0588340:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATTCACAAAACATGAATAA+GGG | - | chr4_2:10499829-10499848 | Msa0588340:CDS | 20.0% |
| ! | GAATTCACAAAACATGAATA+AGG | - | chr4_2:10499828-10499847 | Msa0588340:CDS | 25.0% |
| !! | TATCTTTTATGTAACTGAAC+TGG | + | chr4_2:10500072-10500091 | None:intergenic | 25.0% |
| CATAGAACTCATTGTAGAAT+TGG | + | chr4_2:10499639-10499658 | None:intergenic | 30.0% | |
| ACAATGAAGATGTTTGGTAA+AGG | - | chr4_2:10499682-10499701 | Msa0588340:CDS | 30.0% | |
| GATGAAGAAATTGGATATGA+TGG | - | chr4_2:10499873-10499892 | Msa0588340:CDS | 30.0% | |
| ! | AAATTGGATATGATGGAATC+AGG | - | chr4_2:10499880-10499899 | Msa0588340:CDS | 30.0% |
| AGCACAGAAGATGAAGAAAT+TGG | - | chr4_2:10499864-10499883 | Msa0588340:CDS | 35.0% | |
| TCCACAATATCGAGATAAAC+CGG | + | chr4_2:10499967-10499986 | None:intergenic | 35.0% | |
| TTTATCTCGATATTGTGGAC+AGG | - | chr4_2:10499968-10499987 | Msa0588340:CDS | 35.0% | |
| AAAAGATCCAAGGAAAGACT+TGG | - | chr4_2:10500045-10500064 | Msa0588340:CDS | 35.0% | |
| CTCAGCACAATGAAGATGTT+TGG | - | chr4_2:10499676-10499695 | Msa0588340:CDS | 40.0% | |
| TAAAGGAAAAGAGCCTGCAA+TGG | - | chr4_2:10499699-10499718 | Msa0588340:CDS | 40.0% | |
| GCTTCTTTGTGGACTTTGTT+TGG | + | chr4_2:10499761-10499780 | None:intergenic | 40.0% | |
| ACGATCACAACTGAGGAAAA+AGG | - | chr4_2:10499798-10499817 | Msa0588340:CDS | 40.0% | |
| ATCACAACTGAGGAAAAAGG+AGG | - | chr4_2:10499801-10499820 | Msa0588340:CDS | 40.0% | |
| CTATTCTCGCCTTAAAAGTC+CGG | - | chr4_2:10499945-10499964 | Msa0588340:CDS | 40.0% | |
| ! | CGAGATAAACCGGACTTTTA+AGG | + | chr4_2:10499957-10499976 | None:intergenic | 40.0% |
| TCCGGTTTATCTCGATATTG+TGG | - | chr4_2:10499963-10499982 | Msa0588340:CDS | 40.0% | |
| !!! | TTCCTTGGATCTTTTGAAGC+TGG | + | chr4_2:10500040-10500059 | None:intergenic | 40.0% |
| ATGGAAGATGCTGCAAGAAG+TGG | - | chr4_2:10499718-10499737 | Msa0588340:CDS | 45.0% | |
| CCTTCATAAGCGCTTCTTTG+TGG | + | chr4_2:10499772-10499791 | None:intergenic | 45.0% | |
| !! | CCACAAAGAAGCGCTTATGA+AGG | - | chr4_2:10499769-10499788 | Msa0588340:CDS | 45.0% |
| AGGTGATCTTGAACATGTGC+TGG | - | chr4_2:10499900-10499919 | Msa0588340:CDS | 45.0% | |
| !!! | GATCTTTTGAAGCTGGCAGA+GGG | + | chr4_2:10500033-10500052 | None:intergenic | 45.0% |
| TGCCAGCTTCAAAAGATCCA+AGG | - | chr4_2:10500035-10500054 | Msa0588340:CDS | 45.0% | |
| AACTGGACCAAGTCTTTCCT+TGG | + | chr4_2:10500055-10500074 | None:intergenic | 45.0% | |
| CTTGCAGCATCTTCCATTGC+AGG | + | chr4_2:10499715-10499734 | None:intergenic | 50.0% | |
| GTAGCGTACGATCACAACTG+AGG | - | chr4_2:10499791-10499810 | Msa0588340:CDS | 50.0% | |
| !!! | GGATCTTTTGAAGCTGGCAG+AGG | + | chr4_2:10500034-10500053 | None:intergenic | 50.0% |
| CAGAGGGCTGTGGAAGAGTA+AGG | + | chr4_2:10500017-10500036 | None:intergenic | 55.0% | |
| TTGAAGCTGGCAGAGGGCTG+TGG | + | chr4_2:10500027-10500046 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 10499607 | 10500092 | 10499607 | ID=Msa0588340;Name=Msa0588340 |
| chr4_2 | mRNA | 10499607 | 10500092 | 10499607 | ID=Msa0588340-mRNA-1;Parent=Msa0588340;Name=Msa0588340-mRNA-1;_AED=0.31;_eAED=0.31;_QI=0|-1|0|1|-1|1|1|0|161 |
| chr4_2 | exon | 10499607 | 10500092 | 10499607 | ID=Msa0588340-mRNA-1:exon:3021;Parent=Msa0588340-mRNA-1 |
| chr4_2 | CDS | 10499607 | 10500092 | 10499607 | ID=Msa0588340-mRNA-1:cds;Parent=Msa0588340-mRNA-1 |
| Gene Sequence |
| Protein sequence |
