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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1175040 | XP_003627435.1 | 97.917 | 96 | 2 | 0 | 17 | 112 | 2 | 97 | 6.36e-63 | 196 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1175040 | Msa1234570 | 0.809264 | 2.061730e-50 | -8.615850e-47 |
| Msa1175040 | Msa1315420 | 0.850906 | 1.253726e-60 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1175040 | MtrunA17_Chr8g0345021 | 97.917 | 96 | 2 | 0 | 17 | 112 | 2 | 97 | 5.85e-67 | 196 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 13 sgRNAs with CRISPR-Local
Find 76 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGAATCCAGTTTCCAGTCTT+AGG | 0.287752 | 8_1:-6272455 | None:intergenic |
| CCAAATCTCTTCTTCATATC+AGG | 0.317489 | 8_1:+6271998 | Msa1175040:CDS |
| CCTGATATGAAGAAGAGATT+TGG | 0.380350 | 8_1:-6271998 | None:intergenic |
| ACTTCTCCAAAGTGATTCTC+TGG | 0.402735 | 8_1:-6272476 | None:intergenic |
| GAGATCCTAAGACTGGAAAC+TGG | 0.415942 | 8_1:+6272450 | Msa1175040:CDS |
| TGGACAGAAACTTATTTCTC+AGG | 0.423021 | 8_1:-6272514 | None:intergenic |
| TAATGTGAATGAATCAATAT+CGG | 0.457599 | 8_1:+6272394 | Msa1175040:CDS |
| AAAAGGAAATTCTAAAGTAA+AGG | 0.488821 | 8_1:-6272640 | None:intergenic |
| TGGATTCCAGAGAATCACTT+TGG | 0.493363 | 8_1:+6272470 | Msa1175040:CDS |
| TGGATGAGAGATCCTAAGAC+TGG | 0.524545 | 8_1:+6272443 | Msa1175040:CDS |
| GGCAGCATTAATGTTAGACA+TGG | 0.587063 | 8_1:-6271977 | None:intergenic |
| AAAGTACAAAACAAAGAGTG+AGG | 0.638678 | 8_1:-6271936 | None:intergenic |
| TGTGAATGAATCAATATCGG+TGG | 0.651937 | 8_1:+6272397 | Msa1175040:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATATTTTCCTTTATTTTTTT+TGG | + | chr8_1:6272228-6272247 | Msa1175040:intron | 10.0% |
| !! | AATATTTAATACAAAATAGA+AGG | - | chr8_1:6272283-6272302 | None:intergenic | 10.0% |
| !!! | ATATTTTCCTTTATTTTTTT+TGG | + | chr8_1:6272228-6272247 | Msa1175040:intron | 10.0% |
| !! | AATATTTAATACAAAATAGA+AGG | - | chr8_1:6272283-6272302 | None:intergenic | 10.0% |
| !!! | ATTTATCGTTGTTTTTTTAA+AGG | - | chr8_1:6272066-6272085 | None:intergenic | 15.0% |
| !! | AAAAGTAACAAATTAACAAA+AGG | - | chr8_1:6272129-6272148 | None:intergenic | 15.0% |
| !! | ATTTGTTTCAAAATTGAATT+TGG | - | chr8_1:6272210-6272229 | None:intergenic | 15.0% |
| !!! | ATTTATCGTTGTTTTTTTAA+AGG | - | chr8_1:6272066-6272085 | None:intergenic | 15.0% |
| !! | AAAAGTAACAAATTAACAAA+AGG | - | chr8_1:6272129-6272148 | None:intergenic | 15.0% |
| !! | ATTTGTTTCAAAATTGAATT+TGG | - | chr8_1:6272210-6272229 | None:intergenic | 15.0% |
| !!! | TTGTTTTGTACTTTTTACAA+CGG | + | chr8_1:6271945-6271964 | Msa1175040:CDS | 20.0% |
| !!! | TTTCTATTCTTTAGAAAGAA+AGG | + | chr8_1:6272146-6272165 | Msa1175040:intron | 20.0% |
| !! | ATGCAAACCAAAAAAAATAA+AGG | - | chr8_1:6272238-6272257 | None:intergenic | 20.0% |
| !! | TAATGTGAATGAATCAATAT+CGG | + | chr8_1:6272394-6272413 | Msa1175040:CDS | 20.0% |
| !!! | TCAATGTTTTTGTGATATTT+TGG | - | chr8_1:6272537-6272556 | None:intergenic | 20.0% |
| !!! | AAAAGGAAATTCTAAAGTAA+AGG | - | chr8_1:6272643-6272662 | None:intergenic | 20.0% |
| !!! | AGAATTTCCTTTTGAATAAA+AGG | + | chr8_1:6272650-6272669 | Msa1175040:three_prime_UTR | 20.0% |
| !!! | GAATTTCCTTTTGAATAAAA+GGG | + | chr8_1:6272651-6272670 | Msa1175040:three_prime_UTR | 20.0% |
| !!! | AATTTCCTTTTGAATAAAAG+GGG | + | chr8_1:6272652-6272671 | Msa1175040:three_prime_UTR | 20.0% |
| !!! | TTGTTTTGTACTTTTTACAA+CGG | + | chr8_1:6271945-6271964 | Msa1175040:CDS | 20.0% |
| !!! | TTTCTATTCTTTAGAAAGAA+AGG | + | chr8_1:6272146-6272165 | Msa1175040:intron | 20.0% |
| !! | ATGCAAACCAAAAAAAATAA+AGG | - | chr8_1:6272238-6272257 | None:intergenic | 20.0% |
| !! | TAATGTGAATGAATCAATAT+CGG | + | chr8_1:6272394-6272413 | Msa1175040:CDS | 20.0% |
| !!! | TCAATGTTTTTGTGATATTT+TGG | - | chr8_1:6272537-6272556 | None:intergenic | 20.0% |
| !!! | AAAAGGAAATTCTAAAGTAA+AGG | - | chr8_1:6272643-6272662 | None:intergenic | 20.0% |
| !!! | AGAATTTCCTTTTGAATAAA+AGG | + | chr8_1:6272650-6272669 | Msa1175040:three_prime_UTR | 20.0% |
| !!! | GAATTTCCTTTTGAATAAAA+GGG | + | chr8_1:6272651-6272670 | Msa1175040:three_prime_UTR | 20.0% |
| !!! | AATTTCCTTTTGAATAAAAG+GGG | + | chr8_1:6272652-6272671 | Msa1175040:three_prime_UTR | 20.0% |
| !! | AAAGATTTTTCTCTCTTCAT+TGG | - | chr8_1:6272423-6272442 | None:intergenic | 25.0% |
| !! | ATGAAGAGAGAAAAATCTTT+TGG | + | chr8_1:6272423-6272442 | Msa1175040:CDS | 25.0% |
| !! | AAAGATTTTTCTCTCTTCAT+TGG | - | chr8_1:6272423-6272442 | None:intergenic | 25.0% |
| !! | ATGAAGAGAGAAAAATCTTT+TGG | + | chr8_1:6272423-6272442 | Msa1175040:CDS | 25.0% |
| AAAGTACAAAACAAAGAGTG+AGG | - | chr8_1:6271939-6271958 | None:intergenic | 30.0% | |
| AGGAAAAAAACACATGAAGA+AGG | - | chr8_1:6272263-6272282 | None:intergenic | 30.0% | |
| CAGTTGTAGCAAAAAGTTTA+AGG | + | chr8_1:6272333-6272352 | Msa1175040:CDS | 30.0% | |
| ! | CAAAAAGTTTAAGGTTGCAA+GGG | + | chr8_1:6272342-6272361 | Msa1175040:CDS | 30.0% |
| ! | TTTGACCCCTTTTATTCAAA+AGG | - | chr8_1:6272660-6272679 | None:intergenic | 30.0% |
| AAAGTACAAAACAAAGAGTG+AGG | - | chr8_1:6271939-6271958 | None:intergenic | 30.0% | |
| AGGAAAAAAACACATGAAGA+AGG | - | chr8_1:6272263-6272282 | None:intergenic | 30.0% | |
| CAGTTGTAGCAAAAAGTTTA+AGG | + | chr8_1:6272333-6272352 | Msa1175040:CDS | 30.0% | |
| ! | CAAAAAGTTTAAGGTTGCAA+GGG | + | chr8_1:6272342-6272361 | Msa1175040:CDS | 30.0% |
| ! | TTTGACCCCTTTTATTCAAA+AGG | - | chr8_1:6272660-6272679 | None:intergenic | 30.0% |
| !!! | CAAAGAGTGAGGTTTTTTAG+AGG | - | chr8_1:6271928-6271947 | None:intergenic | 35.0% |
| CCTGATATGAAGAAGAGATT+TGG | - | chr8_1:6272001-6272020 | None:intergenic | 35.0% | |
| CCAAATCTCTTCTTCATATC+AGG | + | chr8_1:6271998-6272017 | Msa1175040:CDS | 35.0% | |
| ! | GCAAAAAGTTTAAGGTTGCA+AGG | + | chr8_1:6272341-6272360 | Msa1175040:CDS | 35.0% |
| TGTGAATGAATCAATATCGG+TGG | + | chr8_1:6272397-6272416 | Msa1175040:CDS | 35.0% | |
| ! | TGGACAGAAACTTATTTCTC+AGG | - | chr8_1:6272517-6272536 | None:intergenic | 35.0% |
| !!! | CAAAGAGTGAGGTTTTTTAG+AGG | - | chr8_1:6271928-6271947 | None:intergenic | 35.0% |
| CCTGATATGAAGAAGAGATT+TGG | - | chr8_1:6272001-6272020 | None:intergenic | 35.0% | |
| CCAAATCTCTTCTTCATATC+AGG | + | chr8_1:6271998-6272017 | Msa1175040:CDS | 35.0% | |
| ! | GCAAAAAGTTTAAGGTTGCA+AGG | + | chr8_1:6272341-6272360 | Msa1175040:CDS | 35.0% |
| TGTGAATGAATCAATATCGG+TGG | + | chr8_1:6272397-6272416 | Msa1175040:CDS | 35.0% | |
| ! | TGGACAGAAACTTATTTCTC+AGG | - | chr8_1:6272517-6272536 | None:intergenic | 35.0% |
| GGCAGCATTAATGTTAGACA+TGG | - | chr8_1:6271980-6271999 | None:intergenic | 40.0% | |
| TCTATTGATGTGTAGAGAGC+TGG | - | chr8_1:6272039-6272058 | None:intergenic | 40.0% | |
| GCAAGGGACAAAAACAAACA+TGG | + | chr8_1:6272358-6272377 | Msa1175040:CDS | 40.0% | |
| AGGGACAAAAACAAACATGG+AGG | + | chr8_1:6272361-6272380 | Msa1175040:CDS | 40.0% | |
| GACAAAAACAAACATGGAGG+TGG | + | chr8_1:6272364-6272383 | Msa1175040:CDS | 40.0% | |
| TGGATTCCAGAGAATCACTT+TGG | + | chr8_1:6272470-6272489 | Msa1175040:CDS | 40.0% | |
| ACTTCTCCAAAGTGATTCTC+TGG | - | chr8_1:6272479-6272498 | None:intergenic | 40.0% | |
| GGCAGCATTAATGTTAGACA+TGG | - | chr8_1:6271980-6271999 | None:intergenic | 40.0% | |
| TCTATTGATGTGTAGAGAGC+TGG | - | chr8_1:6272039-6272058 | None:intergenic | 40.0% | |
| GCAAGGGACAAAAACAAACA+TGG | + | chr8_1:6272358-6272377 | Msa1175040:CDS | 40.0% | |
| AGGGACAAAAACAAACATGG+AGG | + | chr8_1:6272361-6272380 | Msa1175040:CDS | 40.0% | |
| GACAAAAACAAACATGGAGG+TGG | + | chr8_1:6272364-6272383 | Msa1175040:CDS | 40.0% | |
| TGGATTCCAGAGAATCACTT+TGG | + | chr8_1:6272470-6272489 | Msa1175040:CDS | 40.0% | |
| ACTTCTCCAAAGTGATTCTC+TGG | - | chr8_1:6272479-6272498 | None:intergenic | 40.0% | |
| TGGATGAGAGATCCTAAGAC+TGG | + | chr8_1:6272443-6272462 | Msa1175040:CDS | 45.0% | |
| GAGATCCTAAGACTGGAAAC+TGG | + | chr8_1:6272450-6272469 | Msa1175040:CDS | 45.0% | |
| GGAATCCAGTTTCCAGTCTT+AGG | - | chr8_1:6272458-6272477 | None:intergenic | 45.0% | |
| TGGATGAGAGATCCTAAGAC+TGG | + | chr8_1:6272443-6272462 | Msa1175040:CDS | 45.0% | |
| GAGATCCTAAGACTGGAAAC+TGG | + | chr8_1:6272450-6272469 | Msa1175040:CDS | 45.0% | |
| GGAATCCAGTTTCCAGTCTT+AGG | - | chr8_1:6272458-6272477 | None:intergenic | 45.0% | |
| !! | GTATTAAATATTTATATATA+TGG | + | chr8_1:6272291-6272310 | Msa1175040:intron | 5.0% |
| !! | GTATTAAATATTTATATATA+TGG | + | chr8_1:6272291-6272310 | Msa1175040:intron | 5.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 6271919 | 6272704 | 6271919 | ID=Msa1175040;Name=Msa1175040 |
| chr8_1 | mRNA | 6271919 | 6272704 | 6271919 | ID=Msa1175040-mRNA-1;Parent=Msa1175040;Name=Msa1175040-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|1|1|1|1|1|2|148|112 |
| chr8_1 | exon | 6271919 | 6272019 | 6271919 | ID=Msa1175040-mRNA-1:exon:2144;Parent=Msa1175040-mRNA-1 |
| chr8_1 | exon | 6272319 | 6272704 | 6272319 | ID=Msa1175040-mRNA-1:exon:2145;Parent=Msa1175040-mRNA-1 |
| chr8_1 | CDS | 6271919 | 6272019 | 6271919 | ID=Msa1175040-mRNA-1:cds;Parent=Msa1175040-mRNA-1 |
| chr8_1 | CDS | 6272319 | 6272556 | 6272319 | ID=Msa1175040-mRNA-1:cds;Parent=Msa1175040-mRNA-1 |
| chr8_1 | three_prime_UTR | 6272557 | 6272704 | 6272557 | ID=Msa1175040-mRNA-1:three_prime_utr;Parent=Msa1175040-mRNA-1 |
| Gene Sequence |
| Protein sequence |
