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 |
|---|
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1313630 | G7LHG7 | 100.000 | 66 | 0 | 0 | 10 | 75 | 1 | 66 | 1.27e-34 | 121 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1313630 | Msa1316360 | 0.800071 | 1.711404e-48 | -8.615850e-47 |
| Msa1313630 | Msa1336560 | 0.801929 | 7.140042e-49 | -8.615850e-47 |
| Msa1313630 | Msa1364210 | 0.801448 | 8.962115e-49 | -8.615850e-47 |
| Msa0385490 | Msa1313630 | 0.810775 | 9.744923e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1313630 | MtrunA17_Chr8g0342401 | 100.000 | 66 | 0 | 0 | 10 | 75 | 1 | 66 | 2.45e-38 | 121 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 25 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCATACGGCCTCTTATCTTT+TGG | 0.313823 | 8_4:-11712577 | None:intergenic |
| TGCAGTTGCTGCTGCTGTCA+TGG | 0.336516 | 8_4:-11712440 | None:intergenic |
| TTCAGTTGACAAGATTAAAC+AGG | 0.351273 | 8_4:-11712755 | None:intergenic |
| CTGCCATAGCTAATAAGATA+TGG | 0.371261 | 8_4:-11712303 | None:intergenic |
| ATAGTTCAATATCCACTATT+CGG | 0.383400 | 8_4:+11712545 | Msa1313630:three_prime_UTR |
| GCAGCAACTGCAGCTGTGAC+TGG | 0.421381 | 8_4:+11712451 | Msa1313630:CDS |
| TGGTTCAACTAACCGAATAG+TGG | 0.427185 | 8_4:-11712557 | None:intergenic |
| GCATTAAGAGCCATCCTTGT+TGG | 0.430519 | 8_4:+11712340 | Msa1313630:CDS |
| GTAACTTCATCTTAAACTAC+AGG | 0.483965 | 8_4:-11712678 | None:intergenic |
| GGCTGCAGGTGGCGTAAAGA+TGG | 0.485482 | 8_4:+11712402 | Msa1313630:CDS |
| TATCCATATCTTATTAGCTA+TGG | 0.487131 | 8_4:+11712300 | Msa1313630:CDS |
| TAAAATAGCAGGTGCAATGA+AGG | 0.502025 | 8_4:+11712381 | Msa1313630:CDS |
| GCGGCATTTGCTAAAATAGC+AGG | 0.502568 | 8_4:+11712370 | Msa1313630:CDS |
| ATGGCTCTTAATGCAACAGT+TGG | 0.524431 | 8_4:-11712331 | None:intergenic |
| CGCTATACCTCCAACAAGGA+TGG | 0.538560 | 8_4:-11712350 | None:intergenic |
| TAGTTGAACCAAAAGATAAG+AGG | 0.545869 | 8_4:+11712569 | Msa1313630:three_prime_UTR |
| TTTAATGAAAGCTTGCTACA+AGG | 0.546811 | 8_4:-11712644 | None:intergenic |
| GCAGGTGCAATGAAGGCTGC+AGG | 0.548803 | 8_4:+11712388 | Msa1313630:CDS |
| GCTGCAGGTGGCGTAAAGAT+GGG | 0.566187 | 8_4:+11712403 | Msa1313630:CDS |
| TTAAGAGCCATCCTTGTTGG+AGG | 0.572067 | 8_4:+11712343 | Msa1313630:CDS |
| GGTGCAATGAAGGCTGCAGG+TGG | 0.602647 | 8_4:+11712391 | Msa1313630:CDS |
| CATCCTTGTTGGAGGTATAG+CGG | 0.621027 | 8_4:+11712351 | Msa1313630:CDS |
| AGGTGGCGTAAAGATGGGTG+CGG | 0.628402 | 8_4:+11712408 | Msa1313630:CDS |
| TCAGTTGACAAGATTAAACA+GGG | 0.678696 | 8_4:-11712754 | None:intergenic |
| ATGCCGCTATACCTCCAACA+AGG | 0.707347 | 8_4:-11712354 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTGTTAATTTCATTTTTAAA+AGG | + | chr8_4:11712793-11712812 | Msa1313630:three_prime_UTR | 10.0% |
| ! | TATCCATATCTTATTAGCTA+TGG | + | chr8_4:11712300-11712319 | Msa1313630:CDS | 25.0% |
| !!! | TCGATAAGATAGTTATTTTG+TGG | - | chr8_4:11712512-11712531 | None:intergenic | 25.0% |
| ! | ATAGTTCAATATCCACTATT+CGG | + | chr8_4:11712545-11712564 | Msa1313630:three_prime_UTR | 25.0% |
| ! | TAAAAACTATAAGTCGCATA+CGG | - | chr8_4:11712595-11712614 | None:intergenic | 25.0% |
| TAGTCTGTTTGCATTCATTT+AGG | + | chr8_4:11712145-11712164 | Msa1313630:intron | 30.0% | |
| !! | TTTAGGTTGTTGATATTGCT+TGG | + | chr8_4:11712162-11712181 | Msa1313630:intron | 30.0% |
| TAGTTGAACCAAAAGATAAG+AGG | + | chr8_4:11712569-11712588 | Msa1313630:three_prime_UTR | 30.0% | |
| !! | TTTAATGAAAGCTTGCTACA+AGG | - | chr8_4:11712647-11712666 | None:intergenic | 30.0% |
| GTAACTTCATCTTAAACTAC+AGG | - | chr8_4:11712681-11712700 | None:intergenic | 30.0% | |
| !! | GATCTTTGATTTTGTATGAG+TGG | + | chr8_4:11712726-11712745 | Msa1313630:three_prime_UTR | 30.0% |
| TCAGTTGACAAGATTAAACA+GGG | - | chr8_4:11712757-11712776 | None:intergenic | 30.0% | |
| TTCAGTTGACAAGATTAAAC+AGG | - | chr8_4:11712758-11712777 | None:intergenic | 30.0% | |
| !! | TTGGTTGATAGAAACCATGA+TGG | + | chr8_4:11712181-11712200 | Msa1313630:intron | 35.0% |
| ACACAAACATAGGATGATCA+TGG | - | chr8_4:11712222-11712241 | None:intergenic | 35.0% | |
| ACAAATCACGACACAAACAT+AGG | - | chr8_4:11712232-11712251 | None:intergenic | 35.0% | |
| ! | CAGTTTGATCTACATTTTGC+AGG | + | chr8_4:11712276-11712295 | Msa1313630:intron | 35.0% |
| CTGCCATAGCTAATAAGATA+TGG | - | chr8_4:11712306-11712325 | None:intergenic | 35.0% | |
| TAAAATAGCAGGTGCAATGA+AGG | + | chr8_4:11712381-11712400 | Msa1313630:CDS | 35.0% | |
| !! | TATTTTGTGGACTGTTGAGA+AGG | - | chr8_4:11712499-11712518 | None:intergenic | 35.0% |
| ! | GATAGAAACCATGATGGTGT+TGG | + | chr8_4:11712187-11712206 | Msa1313630:intron | 40.0% |
| ATGGCTCTTAATGCAACAGT+TGG | - | chr8_4:11712334-11712353 | None:intergenic | 40.0% | |
| TGGTTCAACTAACCGAATAG+TGG | - | chr8_4:11712560-11712579 | None:intergenic | 40.0% | |
| ATGCTACACCAACACCATCA+TGG | - | chr8_4:11712198-11712217 | None:intergenic | 45.0% | |
| GCATTAAGAGCCATCCTTGT+TGG | + | chr8_4:11712340-11712359 | Msa1313630:CDS | 45.0% | |
| TTAAGAGCCATCCTTGTTGG+AGG | + | chr8_4:11712343-11712362 | Msa1313630:CDS | 45.0% | |
| ! | CATCCTTGTTGGAGGTATAG+CGG | + | chr8_4:11712351-11712370 | Msa1313630:CDS | 45.0% |
| ! | GCGGCATTTGCTAAAATAGC+AGG | + | chr8_4:11712370-11712389 | Msa1313630:CDS | 45.0% |
| ! | GCATACGGCCTCTTATCTTT+TGG | - | chr8_4:11712580-11712599 | None:intergenic | 45.0% |
| CGCTATACCTCCAACAAGGA+TGG | - | chr8_4:11712353-11712372 | None:intergenic | 50.0% | |
| ATGCCGCTATACCTCCAACA+AGG | - | chr8_4:11712357-11712376 | None:intergenic | 50.0% | |
| GCTGCAGGTGGCGTAAAGAT+GGG | + | chr8_4:11712403-11712422 | Msa1313630:CDS | 55.0% | |
| AGGTGGCGTAAAGATGGGTG+CGG | + | chr8_4:11712408-11712427 | Msa1313630:CDS | 55.0% | |
| TGCAGTTGCTGCTGCTGTCA+TGG | - | chr8_4:11712443-11712462 | None:intergenic | 55.0% | |
| GCAGGTGCAATGAAGGCTGC+AGG | + | chr8_4:11712388-11712407 | Msa1313630:CDS | 60.0% | |
| GGTGCAATGAAGGCTGCAGG+TGG | + | chr8_4:11712391-11712410 | Msa1313630:CDS | 60.0% | |
| GGCTGCAGGTGGCGTAAAGA+TGG | + | chr8_4:11712402-11712421 | Msa1313630:CDS | 60.0% | |
| GCAGCAACTGCAGCTGTGAC+TGG | + | chr8_4:11712451-11712470 | Msa1313630:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_4 | gene | 11712130 | 11712833 | 11712130 | ID=Msa1313630;Name=Msa1313630 |
| chr8_4 | mRNA | 11712130 | 11712833 | 11712130 | ID=Msa1313630-mRNA-1;Parent=Msa1313630;Name=Msa1313630-mRNA-1;_AED=0.11;_eAED=0.11;_QI=0|0|0.5|0.5|1|1|2|314|75 |
| chr8_4 | exon | 11712130 | 11712135 | 11712130 | ID=Msa1313630-mRNA-1:exon:4408;Parent=Msa1313630-mRNA-1 |
| chr8_4 | exon | 11712298 | 11712833 | 11712298 | ID=Msa1313630-mRNA-1:exon:4409;Parent=Msa1313630-mRNA-1 |
| chr8_4 | CDS | 11712130 | 11712135 | 11712130 | ID=Msa1313630-mRNA-1:cds;Parent=Msa1313630-mRNA-1 |
| chr8_4 | CDS | 11712298 | 11712519 | 11712298 | ID=Msa1313630-mRNA-1:cds;Parent=Msa1313630-mRNA-1 |
| chr8_4 | three_prime_UTR | 11712520 | 11712833 | 11712520 | ID=Msa1313630-mRNA-1:three_prime_utr;Parent=Msa1313630-mRNA-1 |
| Gene Sequence |
| Protein sequence |
