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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0502740 | PNX94290.1 | 96.078 | 51 | 2 | 0 | 1 | 51 | 313 | 363 | 1.22e-21 | 95.5 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0502740 | sp|Q9ZUN3|KEA4_ARATH | 82.353 | 51 | 9 | 0 | 1 | 51 | 299 | 349 | 1.87e-21 | 88.2 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0502740 | A0A2K3MTZ6 | 96.078 | 51 | 2 | 0 | 1 | 51 | 313 | 363 | 5.82e-22 | 95.5 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0498490 | Msa0502740 | 0.878380 | 2.942255e-69 | -8.615850e-47 |
| Msa0502720 | Msa0502740 | 0.872192 | 3.839926e-67 | -8.615850e-47 |
| Msa0502730 | Msa0502740 | 0.880229 | 6.520903e-70 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0502740 | MtrunA17_Chr8g0389231 | 96.078 | 51 | 2 | 0 | 1 | 51 | 295 | 345 | 3.02e-25 | 95.5 |
| Msa0502740 | MtrunA17_Chr1g0151641 | 82.000 | 50 | 9 | 0 | 1 | 50 | 336 | 385 | 1.69e-21 | 85.1 |
| Msa0502740 | MtrunA17_Chr6g0475301 | 81.633 | 49 | 9 | 0 | 2 | 50 | 290 | 338 | 7.25e-21 | 83.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0502740 | AT2G19600.1 | 82.353 | 51 | 9 | 0 | 1 | 51 | 299 | 349 | 1.90e-22 | 88.2 |
| Msa0502740 | AT5G51710.2 | 72.000 | 50 | 14 | 0 | 1 | 50 | 284 | 333 | 1.12e-17 | 74.3 |
| Msa0502740 | AT5G51710.1 | 72.000 | 50 | 14 | 0 | 1 | 50 | 284 | 333 | 1.12e-17 | 74.3 |
| Msa0502740 | AT5G11800.1 | 68.000 | 50 | 16 | 0 | 1 | 50 | 307 | 356 | 1.88e-16 | 70.9 |
Find 30 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTCATGTTCAGGTTATAAT+TGG | 0.164987 | 3_4:+45392302 | Msa0502740:CDS |
| ATAGGTCTTGAAATTCTTAA+TGG | 0.213697 | 3_4:+45392259 | Msa0502740:exon |
| CTTTGCACTGCTTCCTGTCT+TGG | 0.249824 | 3_4:+45392538 | Msa0502740:CDS |
| TGGAACATCAGGTGTTCTTC+AGG | 0.293025 | 3_4:+45392562 | Msa0502740:CDS |
| GTAAATCGTAAGTTAATTAT+AGG | 0.299821 | 3_4:+45392600 | Msa0502740:exon |
| TGTCAATGCCCTTCATGTTC+AGG | 0.345506 | 3_4:+45392292 | Msa0502740:CDS |
| TTTGCACTGCTTCCTGTCTT+GGG | 0.351885 | 3_4:+45392539 | Msa0502740:CDS |
| CCTGTCTTGGGTGGAACATC+AGG | 0.367509 | 3_4:+45392551 | Msa0502740:CDS |
| ATTAAGAATTTCAAGACCTA+TGG | 0.377135 | 3_4:-45392257 | None:intergenic |
| TTTATTCTTCTTTGGCCCAT+AGG | 0.390810 | 3_4:+45392241 | Msa0502740:five_prime_UTR |
| ATGGCTTCTCTATTGTGCTC+TGG | 0.411810 | 3_4:+45392023 | None:intergenic |
| TAGTACATACCTGCAGAATC+AGG | 0.419052 | 3_4:-45392328 | None:intergenic |
| TAAATCGTAAGTTAATTATA+GGG | 0.426377 | 3_4:+45392601 | Msa0502740:exon |
| TAGTTTAAAGCACTGCTGAC+TGG | 0.496035 | 3_4:+45392049 | Msa0502740:five_prime_UTR |
| ATTAACTTACGATTTACTCA+TGG | 0.498408 | 3_4:-45392594 | None:intergenic |
| TTCTTCTAATTGACTTGGTG+TGG | 0.500000 | 3_4:+45392143 | Msa0502740:five_prime_UTR |
| AATTGGAACCCTGATTCTGC+AGG | 0.514037 | 3_4:+45392319 | Msa0502740:CDS |
| GCACTGCTTCCTGTCTTGGG+TGG | 0.523718 | 3_4:+45392542 | Msa0502740:CDS |
| GCTGACTGGTGGTATGTGAA+TGG | 0.533204 | 3_4:+45392063 | Msa0502740:five_prime_UTR |
| GGAACATCAGGTGTTCTTCA+GGG | 0.533805 | 3_4:+45392563 | Msa0502740:CDS |
| TTAAGAATTTCAAGACCTAT+GGG | 0.536814 | 3_4:-45392256 | None:intergenic |
| TCTTGAAATTCTTAATGGAA+AGG | 0.540979 | 3_4:+45392264 | Msa0502740:exon |
| CAATTATAACCTGAACATGA+AGG | 0.553145 | 3_4:-45392301 | None:intergenic |
| CCTGATGTTCCACCCAAGAC+AGG | 0.557834 | 3_4:-45392551 | None:intergenic |
| TAGACTTCTTCTAATTGACT+TGG | 0.563220 | 3_4:+45392138 | Msa0502740:five_prime_UTR |
| AATTATAACCTGAACATGAA+GGG | 0.577324 | 3_4:-45392300 | None:intergenic |
| AGTACATACCTGCAGAATCA+GGG | 0.614677 | 3_4:-45392327 | None:intergenic |
| CAAATTCAAAGAATTTGATG+AGG | 0.617780 | 3_4:-45392216 | None:intergenic |
| ATCGTAAGTTAATTATAGGG+CGG | 0.654980 | 3_4:+45392604 | Msa0502740:exon |
| TTTAAAGCACTGCTGACTGG+TGG | 0.685464 | 3_4:+45392052 | Msa0502740:five_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CTAACTAAACAAAAAAAAAA+AGG | - | chr3_4:45392121-45392140 | None:intergenic | 15.0% |
| !! | TAAATCGTAAGTTAATTATA+GGG | + | chr3_4:45392601-45392620 | Msa0502740:exon | 15.0% |
| !!! | AAGAGAAATTTTCAAAAACA+GGG | - | chr3_4:45392182-45392201 | None:intergenic | 20.0% |
| !!! | AAAGAGAAATTTTCAAAAAC+AGG | - | chr3_4:45392183-45392202 | None:intergenic | 20.0% |
| !!! | AATTTGCTTTTATTCTTCTT+TGG | + | chr3_4:45392233-45392252 | Msa0502740:five_prime_UTR | 20.0% |
| !! | GTAAATCGTAAGTTAATTAT+AGG | + | chr3_4:45392600-45392619 | Msa0502740:exon | 20.0% |
| ! | CAAATTCAAAGAATTTGATG+AGG | - | chr3_4:45392219-45392238 | None:intergenic | 25.0% |
| ! | TTAAGAATTTCAAGACCTAT+GGG | - | chr3_4:45392259-45392278 | None:intergenic | 25.0% |
| ! | ATTAAGAATTTCAAGACCTA+TGG | - | chr3_4:45392260-45392279 | None:intergenic | 25.0% |
| ! | ATAGGTCTTGAAATTCTTAA+TGG | + | chr3_4:45392259-45392278 | Msa0502740:exon | 25.0% |
| ! | TCTTGAAATTCTTAATGGAA+AGG | + | chr3_4:45392264-45392283 | Msa0502740:exon | 25.0% |
| ! | AATTATAACCTGAACATGAA+GGG | - | chr3_4:45392303-45392322 | None:intergenic | 25.0% |
| ! | AATCCATTATTCGATGTTAT+TGG | + | chr3_4:45392485-45392504 | Msa0502740:intron | 25.0% |
| ! | AAACCAATAACATCGAATAA+TGG | - | chr3_4:45392491-45392510 | None:intergenic | 25.0% |
| ! | ATTAACTTACGATTTACTCA+TGG | - | chr3_4:45392597-45392616 | None:intergenic | 25.0% |
| TAGACTTCTTCTAATTGACT+TGG | + | chr3_4:45392138-45392157 | Msa0502740:five_prime_UTR | 30.0% | |
| CAATTATAACCTGAACATGA+AGG | - | chr3_4:45392304-45392323 | None:intergenic | 30.0% | |
| ! | CTTCATGTTCAGGTTATAAT+TGG | + | chr3_4:45392302-45392321 | Msa0502740:CDS | 30.0% |
| !! | TTCTTCTAATTGACTTGGTG+TGG | + | chr3_4:45392143-45392162 | Msa0502740:five_prime_UTR | 35.0% |
| TTTATTCTTCTTTGGCCCAT+AGG | + | chr3_4:45392241-45392260 | Msa0502740:five_prime_UTR | 35.0% | |
| !!! | CGATGTTATTGGTTTTTGTC+AGG | + | chr3_4:45392496-45392515 | Msa0502740:intron | 35.0% |
| !! | TAGTTTAAAGCACTGCTGAC+TGG | + | chr3_4:45392049-45392068 | Msa0502740:five_prime_UTR | 40.0% |
| AGTACATACCTGCAGAATCA+GGG | - | chr3_4:45392330-45392349 | None:intergenic | 40.0% | |
| TAGTACATACCTGCAGAATC+AGG | - | chr3_4:45392331-45392350 | None:intergenic | 40.0% | |
| !! | TTTAAAGCACTGCTGACTGG+TGG | + | chr3_4:45392052-45392071 | Msa0502740:five_prime_UTR | 45.0% |
| TGTCAATGCCCTTCATGTTC+AGG | + | chr3_4:45392292-45392311 | Msa0502740:CDS | 45.0% | |
| AATTGGAACCCTGATTCTGC+AGG | + | chr3_4:45392319-45392338 | Msa0502740:CDS | 45.0% | |
| CTGCAGTTGTGTAGAAAGAG+TGG | + | chr3_4:45392401-45392420 | Msa0502740:intron | 45.0% | |
| TTTGCACTGCTTCCTGTCTT+GGG | + | chr3_4:45392539-45392558 | Msa0502740:CDS | 45.0% | |
| TGGAACATCAGGTGTTCTTC+AGG | + | chr3_4:45392562-45392581 | Msa0502740:CDS | 45.0% | |
| GGAACATCAGGTGTTCTTCA+GGG | + | chr3_4:45392563-45392582 | Msa0502740:CDS | 45.0% | |
| GCTGACTGGTGGTATGTGAA+TGG | + | chr3_4:45392063-45392082 | Msa0502740:five_prime_UTR | 50.0% | |
| CTTTGCACTGCTTCCTGTCT+TGG | + | chr3_4:45392538-45392557 | Msa0502740:CDS | 50.0% | |
| CCTGATGTTCCACCCAAGAC+AGG | - | chr3_4:45392554-45392573 | None:intergenic | 55.0% | |
| CCTGTCTTGGGTGGAACATC+AGG | + | chr3_4:45392551-45392570 | Msa0502740:CDS | 55.0% | |
| GCACTGCTTCCTGTCTTGGG+TGG | + | chr3_4:45392542-45392561 | Msa0502740:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 45392026 | 45392626 | 45392026 | ID=Msa0502740;Name=Msa0502740 |
| chr3_4 | mRNA | 45392026 | 45392626 | 45392026 | ID=Msa0502740-mRNA-1;Parent=Msa0502740;Name=Msa0502740-mRNA-1;_AED=0.00;_eAED=0.00;_QI=252|1|1|1|1|1|2|16|51 |
| chr3_4 | exon | 45392026 | 45392340 | 45392026 | ID=Msa0502740-mRNA-1:exon:9631;Parent=Msa0502740-mRNA-1 |
| chr3_4 | exon | 45392518 | 45392626 | 45392518 | ID=Msa0502740-mRNA-1:exon:9632;Parent=Msa0502740-mRNA-1 |
| chr3_4 | five_prime_UTR | 45392026 | 45392277 | 45392026 | ID=Msa0502740-mRNA-1:five_prime_utr;Parent=Msa0502740-mRNA-1 |
| chr3_4 | CDS | 45392278 | 45392340 | 45392278 | ID=Msa0502740-mRNA-1:cds;Parent=Msa0502740-mRNA-1 |
| chr3_4 | CDS | 45392518 | 45392610 | 45392518 | ID=Msa0502740-mRNA-1:cds;Parent=Msa0502740-mRNA-1 |
| chr3_4 | three_prime_UTR | 45392611 | 45392626 | 45392611 | ID=Msa0502740-mRNA-1:three_prime_utr;Parent=Msa0502740-mRNA-1 |
| Gene Sequence |
| Protein sequence |
