Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene33333.t1 | KEH28745.1 | 89.3 | 75 | 8 | 0 | 4 | 78 | 21 | 95 | 1.60E-29 | 138.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene33333.t1 | A0A072US92 | 89.3 | 75 | 8 | 0 | 4 | 78 | 21 | 95 | 1.1e-29 | 138.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene052519 | MS.gene33333 | 0.817987 | 2.48E-52 | -1.69E-46 |
| MS.gene058783 | MS.gene33333 | 0.81252 | 4.07E-51 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene33333.t1 | MTR_4g011650 | 89.333 | 75 | 8 | 0 | 4 | 78 | 21 | 95 | 9.56e-45 | 139 |
| MS.gene33333.t1 | MTR_4g011670 | 80.000 | 60 | 11 | 1 | 9 | 67 | 1 | 60 | 3.84e-28 | 96.3 |
| MS.gene33333.t1 | MTR_1g055185 | 48.077 | 52 | 27 | 0 | 17 | 68 | 101 | 152 | 5.99e-11 | 56.2 |
| MS.gene33333.t1 | MTR_1g033950 | 45.833 | 48 | 26 | 0 | 24 | 71 | 208 | 255 | 7.99e-11 | 55.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 20 sgRNAs with CRISPR-Local
Find 21 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTGATGCTGCTTGCTTTAC+AGG | 0.073277 | 4.4:-87857584 | MS.gene33333:CDS |
| TGCTTTACAGGTGGTATAAC+TGG | 0.286866 | 4.4:-87857572 | MS.gene33333:CDS |
| GAACATAATGATTTATTTGT+TGG | 0.330173 | 4.4:+87857627 | None:intergenic |
| CCAGTGTCGGCGGAAGCACT+TGG | 0.388532 | 4.4:-87857473 | MS.gene33333:CDS |
| CGGAAGCACTTGGGGTTAGA+TGG | 0.424659 | 4.4:-87857463 | MS.gene33333:CDS |
| CCAAGTGCTTCCGCCGACAC+TGG | 0.481678 | 4.4:+87857473 | None:intergenic |
| CGACACTGGATCAATTTCAA+TGG | 0.484539 | 4.4:+87857487 | None:intergenic |
| CAGTGTCGGCGGAAGCACTT+GGG | 0.485653 | 4.4:-87857472 | MS.gene33333:CDS |
| AAAATTGCACCACACCAGAT+TGG | 0.488889 | 4.4:+87857528 | None:intergenic |
| ATGGTTGCTTATAACCAATC+TGG | 0.492558 | 4.4:-87857542 | MS.gene33333:CDS |
| TACAGGTGGTATAACTGGAT+GGG | 0.534122 | 4.4:-87857567 | MS.gene33333:CDS |
| TGGTATAACTGGATGGGGAA+TGG | 0.534928 | 4.4:-87857561 | MS.gene33333:CDS |
| ATAATGATTTATTTGTTGGT+CGG | 0.535582 | 4.4:+87857631 | None:intergenic |
| TTACAGGTGGTATAACTGGA+TGG | 0.557506 | 4.4:-87857568 | MS.gene33333:CDS |
| ACAGGTGGTATAACTGGATG+GGG | 0.576765 | 4.4:-87857566 | MS.gene33333:CDS |
| GATGCTGCTTGCTTTACAGG+TGG | 0.593786 | 4.4:-87857581 | MS.gene33333:CDS |
| TGCTTATAACCAATCTGGTG+TGG | 0.621838 | 4.4:-87857537 | MS.gene33333:CDS |
| CATTGAAATTGATCCAGTGT+CGG | 0.635782 | 4.4:-87857486 | MS.gene33333:CDS |
| AGTGTCGGCGGAAGCACTTG+GGG | 0.638389 | 4.4:-87857471 | MS.gene33333:CDS |
| TGAAATTGATCCAGTGTCGG+CGG | 0.646558 | 4.4:-87857483 | MS.gene33333:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GAACATAATGATTTATTTGT+TGG | + | chr4.4:87857450-87857469 | None:intergenic | 20.0% |
| !!! | ATAATGATTTATTTGTTGGT+CGG | + | chr4.4:87857446-87857465 | None:intergenic | 20.0% |
| ! | ACAAAAAACAGTTCAGTAAT+TGG | + | chr4.4:87857472-87857491 | None:intergenic | 25.0% |
| ATGGTTGCTTATAACCAATC+TGG | - | chr4.4:87857532-87857551 | MS.gene33333:CDS | 35.0% | |
| CATTGAAATTGATCCAGTGT+CGG | - | chr4.4:87857588-87857607 | MS.gene33333:CDS | 35.0% | |
| AAAATTGCACCACACCAGAT+TGG | + | chr4.4:87857549-87857568 | None:intergenic | 40.0% | |
| CGACACTGGATCAATTTCAA+TGG | + | chr4.4:87857590-87857609 | None:intergenic | 40.0% | |
| TACAGGTGGTATAACTGGAT+GGG | - | chr4.4:87857507-87857526 | MS.gene33333:CDS | 40.0% | |
| TGCTTATAACCAATCTGGTG+TGG | - | chr4.4:87857537-87857556 | MS.gene33333:CDS | 40.0% | |
| TGCTTTACAGGTGGTATAAC+TGG | - | chr4.4:87857502-87857521 | MS.gene33333:CDS | 40.0% | |
| TTACAGGTGGTATAACTGGA+TGG | - | chr4.4:87857506-87857525 | MS.gene33333:CDS | 40.0% | |
| ACAGGTGGTATAACTGGATG+GGG | - | chr4.4:87857508-87857527 | MS.gene33333:CDS | 45.0% | |
| TGGTATAACTGGATGGGGAA+TGG | - | chr4.4:87857513-87857532 | MS.gene33333:CDS | 45.0% | |
| ! | GTTGATGCTGCTTGCTTTAC+AGG | - | chr4.4:87857490-87857509 | MS.gene33333:CDS | 45.0% |
| ! | TGAAATTGATCCAGTGTCGG+CGG | - | chr4.4:87857591-87857610 | MS.gene33333:CDS | 45.0% |
| ! | GATGCTGCTTGCTTTACAGG+TGG | - | chr4.4:87857493-87857512 | MS.gene33333:CDS | 50.0% |
| !! | CGGAAGCACTTGGGGTTAGA+TGG | - | chr4.4:87857611-87857630 | MS.gene33333:CDS | 55.0% |
| !! | AGTGTCGGCGGAAGCACTTG+GGG | - | chr4.4:87857603-87857622 | MS.gene33333:CDS | 60.0% |
| !! | CAGTGTCGGCGGAAGCACTT+GGG | - | chr4.4:87857602-87857621 | MS.gene33333:CDS | 60.0% |
| CCAAGTGCTTCCGCCGACAC+TGG | + | chr4.4:87857604-87857623 | None:intergenic | 65.0% | |
| !! | CCAGTGTCGGCGGAAGCACT+TGG | - | chr4.4:87857601-87857620 | MS.gene33333:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 87857430 | 87857666 | 87857430 | ID=MS.gene33333 |
| chr4.4 | mRNA | 87857430 | 87857666 | 87857430 | ID=MS.gene33333.t1;Parent=MS.gene33333 |
| chr4.4 | exon | 87857430 | 87857666 | 87857430 | ID=MS.gene33333.t1.exon1;Parent=MS.gene33333.t1 |
| chr4.4 | CDS | 87857430 | 87857666 | 87857430 | ID=cds.MS.gene33333.t1;Parent=MS.gene33333.t1 |
| Gene Sequence |
| Protein sequence |
